Carlos-Francisco Méndez-Cruz / automatic-extraction-growth-conditions

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Estefani Gaytan Nunez
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1 +
2 +python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run1 --version _v11 > ../outputs/Run1_v11.txt
3 +python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run2 --version _v11 --S1 > ../outputs/Run2_v11.txt
4 +python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run3 --version _v11 --S2 > ../outputs/Run3_v11.txt
5 +python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run4 --version _v11 --S1 --S2 > ../outputs/Run4_v11.txt
6 +python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run5 --version _v11 --S3 > ../outputs/Run5_v11.txt
7 +python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run6 --version _v11 --S1 --S3 > ../outputs/Run6_v11.txt
8 +python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run7 --version _v11 --S2 --S3 > ../outputs/Run7_v11.txt
9 +python3 training_validation_v11.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run8 --version _v11 --S1 --S2 --S3 > ../outputs/Run8_v11.txt
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2 -python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run1 --version _v9 > ../outputs/Run1_v1.txt
3 -python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run2 --version _v9 --S1 > ../outputs/Run2_v1.txt
4 -python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run3 --version _v9 --S2 > ../outputs/Run3_v1.txt
5 -python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run4 --version _v9 --S1 --S2 > ../outputs/Run4_v1.txt
6 -python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run5 --version _v9 --S3 > ../outputs/Run5_v1.txt
7 -python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run6 --version _v9 --S1 --S3 > ../outputs/Run6_v1.txt
8 -python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run7 --version _v9 --S2 --S3 > ../outputs/Run7_v1.txt
9 -python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run8 --version _v9 --S1 --S2 --S3 > ../outputs/Run8_v1.txt
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1 -python3 training_validation_v10.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run1 --version _v2 > ../outputs/Run1_v2.txt
2 -python3 training_validation_v10.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run2 --version _v2 --S1 > ../outputs/Run2_v2.txt
3 -python3 training_validation_v10.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run3 --version _v2 --S2 > ../outputs/Run3_v2.txt
4 -python3 training_validation_v10.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run4 --version _v2 --S1 --S2 > ../outputs/Run4_v2.txt
5 -python3 training_validation_v10.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run5 --version _v2 --S3 > ../outputs/Run5_v2.txt
6 -python3 training_validation_v10.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run6 --version _v2 --S1 --S3 > ../outputs/Run6_v2.txt
7 -python3 training_validation_v10.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run7 --version _v2 --S2 --S3 > ../outputs/Run7_v2.txt
8 -python3 training_validation_v10.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70_v4.txt --testFile test-data-set-30_v4.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --Gridname Run8 --version _v2 --S1 --S2 --S3 > ../outputs/Run8_v2.txt
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1 +# -*- coding: UTF-8 -*-
2 +
3 +import os
4 +from itertools import chain
5 +from optparse import OptionParser
6 +from time import time
7 +from collections import Counter
8 +import re
9 +
10 +import nltk
11 +import sklearn
12 +import scipy.stats
13 +import sys
14 +
15 +from sklearn.externals import joblib
16 +from sklearn.metrics import make_scorer
17 +from sklearn.cross_validation import cross_val_score
18 +from sklearn.grid_search import RandomizedSearchCV
19 +
20 +import sklearn_crfsuite
21 +from sklearn_crfsuite import scorers
22 +from sklearn_crfsuite import metrics
23 +
24 +from pandas import DataFrame as DF
25 +from nltk.corpus import stopwords
26 +
27 +
28 +# Objective
29 +# Training and evaluation of CRFs with sklearn-crfsuite.
30 +#
31 +# Input parameters
32 +# --inputPath=PATH Path of training and test data set
33 +# --trainingFile File with training data set
34 +# --testFile File with test data set
35 +# --outputPath=PATH Output path to place output files
36 +# --nameGrid Number of run
37 +# --version Version Report
38 +
39 +# Output
40 +# 1) Best model
41 +# 2) Report
42 +
43 +# Examples
44 +# python training_validation_v10.py
45 +# --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
46 +# --trainingFile training-data-set-70.txt
47 +# --testFile test-data-set-30.txt
48 +# --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/
49 +# --version _v1
50 +# python3 training_validation_v9.py --inputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets --trainingFile training-data-set-70.txt --testFile test-data-set-30.txt --outputPath /home/egaytan/automatic-extraction-growth-conditions/CRF/ --nameGrid Run1 --version _v1 --S1 --S2 --S3
51 +
52 +##################################################################
53 +# FEATURES #
54 +##################################################################
55 +
56 +#================== COMPLETE WORD FEATURES ======================#
57 +
58 +def isGreek(word):
59 + ## Complete word are greek letters
60 + alphabet = ['Α','Β','Γ','Δ','Ε','Ζ','Η','Θ','Ι','Κ','Λ','Μ','Ν','Ξ','Ο','Π','Ρ','Σ','Τ','Υ','Φ','Χ','Ψ','Ω',
61 + 'α','β','γ','δ','ε','ζ','η','θ','ι','κ','λ','μ','ν','ξ','ο','π','ρ','ς','σ','τ','υ','φ','χ','ψ','ω']
62 + if word in alphabet:
63 + return True
64 + else:
65 + return False
66 +
67 +#================ INNER OF THE WORD FEATURES ====================#
68 +
69 +def hNumber(word):
70 + ## Al leats has one greek letter
71 + for l in word:
72 + if l.isdigit():
73 + return True
74 + return False
75 +
76 +def symb(word):
77 + n=0
78 + ## At least a not alphanumeric character
79 + for l in word:
80 + if l.isdigit(): n = n+1
81 + if l.isalpha(): n = n+1
82 + #Exclude Greek letters
83 + if isGreek(l): n = n+1
84 +
85 + if n<len(word): return True
86 + else: return False
87 +
88 +def hUpper(word):
89 + ## At least an upper letter
90 + for l in word:
91 + if l.isupper(): return True
92 + return False
93 +
94 +def hLower(word):
95 + ## At least a lower letter
96 + for l in word:
97 + if l.islower(): return True
98 + return False
99 +
100 +def hGreek(word):
101 + ## At least a greek letter
102 + for l in word:
103 + if isGreek(l): return True
104 + return False
105 +
106 +#============================FEATURES===========================#
107 +
108 +def word2features(sent, i, S1, S2, S3):
109 + ## Getting word features
110 +
111 + ## Saving CoreNLP annotations
112 + listElem = sent[i].split('|')
113 + word = listElem[0]
114 + lemma = listElem[1]
115 + postag = listElem[2]
116 + #ner = listElem[4]
117 +
118 + #=========================== G =============================#
119 + ## NAME LEVEL G
120 + ## FUTURE TYPE General features
121 +
122 + features = {
123 + ## basal features
124 + 'lemma': lemma,
125 + 'postag': postag
126 + }
127 +
128 + ## more tha one word in sentence
129 + if i > 0:
130 + ## Anterior word
131 + listElem = sent[i - 1].split('|')
132 +
133 + ## Saving CoreNLP annotations
134 + lemma0 = listElem[1]
135 + postag0 = listElem[2]
136 + features.update({
137 + #LemaG anterior
138 + '-1:lemma': lemma0,
139 + #Postag anterior
140 + '-1:postag': postag0,
141 + })
142 +
143 + ## is not the last word
144 + if i < len(sent) - 1:
145 + ## Posterior word
146 + listElem = sent[i + 1].split('|')
147 + ## Saving CoreNLP annotations
148 + lemma2 = listElem[1]
149 + postag2 = listElem[2]
150 +
151 + features.update({
152 + #LemaG posterior
153 + '+1:lemma': lemma2,
154 + #Postag posterior
155 + '+1:postag': postag2,
156 + })
157 +
158 + #=========================== S1 =============================#
159 + ## NAME LEVEL S1
160 + ## FEATURE TYPE Inner word features
161 +
162 + if S1:
163 + #Add features
164 + features['hUpper']= hUpper(word)
165 + features['hLower']= hUpper(word)
166 + features['hGreek']= hGreek(word)
167 + features['symb']= symb(word)
168 + '''
169 + #word firstChar
170 + features['word[:1]']= word[:1]
171 + #word secondChar
172 + if len(word)>1:
173 + features['word[:2]']= word[:2]
174 + '''
175 + #lemma and postag firstChar
176 + features['lemma[:1]']= lemma[:1]
177 + features['postag[:1]']= postag[:1]
178 + #lemma and postag secondChar
179 + if len(lemma)>1:
180 + features['lemma[:2]']= lemma[:2]
181 + if len(postag)>1:
182 + features['postag[:2]']= postag[:2]
183 + #=========================== S2 =============================#
184 + ## NAME LEVEL S2
185 + ## FEATURE TYPE Complete word features
186 +
187 + if S2:
188 + #Add features
189 + features['word']= word
190 + features['isUpper']= word.isupper()
191 + features['isLower']= word.islower()
192 + features['isGreek']= isGreek(word)
193 + features['isNumber']= word.isdigit()
194 + ## more tha one word in sentence
195 + if i > 0:
196 + ## Anterior word
197 + listElem = sent[i - 1].split('|')
198 + ## Saving CoreNLP annotations
199 + word0 = listElem[0]
200 + features['-1:word']= word0
201 +
202 + ## is not the last word
203 + if i < len(sent)-1:
204 + listElem = sent[i + 1].split('|')
205 + ## Saving CoreNLP annotations
206 + word2 = listElem[0]
207 + ## Posterior word
208 + features['+1:word']= word2
209 +
210 + #=========================== S3 =============================#
211 + ## NAME LEVEL S3
212 + ## FEATURE TYPE Extended context features
213 + if S3:
214 + ## more tha two words in sentence
215 + if i > 1:
216 + ## two anterior lemma and postag
217 + listElem = sent[i - 2].split('|')
218 + ## Saving CoreNLP annotations
219 + lemma01 = listElem[1]
220 + postag01 = listElem[2]
221 + features['-2:lemma']= lemma01
222 + features['-2:postag']= postag01
223 +
224 + ## is not the penultimate word
225 + if i < len(sent) - 2:
226 + listElem = sent[i + 2].split('|')
227 + ## Saving CoreNLP annotations
228 + lemma02 = listElem[1]
229 + postag02 = listElem[2]
230 + ## two posterior lemma and postag
231 + features['+2:lemma']= lemma02
232 + features['+2:postag']= postag02
233 +
234 + return features
235 +
236 +def sent2features(sent, S1, S2, S3):
237 + ## Itering in sentence for each word and saving its features
238 + return [word2features(sent, i, S1, S2, S3) for i in range(len(sent))]
239 +
240 +def sent2labels(sent):
241 + ## 3rd position by word is the label
242 + return [elem.split('|')[3] for elem in sent]
243 +
244 +def sent2tokens(sent):
245 + return [token for token, postag, label in sent]
246 +
247 +def print_transitions(trans_features, f):
248 + for (label_from, label_to), weight in trans_features:
249 + f.write("{:6} -> {:7} {:0.6f}\n".format(label_from, label_to, weight))
250 +
251 +def print_state_features(state_features, f):
252 + for (attr, label), weight in state_features:
253 + f.write("{:0.6f} {:8} {}\n".format(weight, label, attr.encode("utf-8")))
254 +
255 +
256 +__author__ = 'egaytan'
257 +
258 +##################################################################
259 +# MAIN PROGRAM #
260 +##################################################################
261 +
262 +if __name__ == "__main__":
263 + ## Defining parameters
264 + parser = OptionParser()
265 + parser.add_option("--inputPath", dest="inputPath", help="Path of training data set", metavar="PATH")
266 + parser.add_option("--outputPath", dest="outputPath", help="Output path to place output files", metavar="PATH")
267 + parser.add_option("--trainingFile", dest="trainingFile", help="File with training data set", metavar="FILE")
268 + parser.add_option("--testFile", dest="testFile", help="File with test data set", metavar="FILE")
269 + parser.add_option("--Gridname", dest="Gridname", help="Report number run", metavar="FILE")
270 + parser.add_option("--version", dest="version", help="Report file", metavar="FILE")
271 + parser.add_option("--S1", dest="S1", help="Future Type", action="store_true", default=False)
272 + parser.add_option("--S2", dest="S2", help="Future Type", action="store_true", default=False)
273 + parser.add_option("--S3", dest="S3", help="Future Type", action="store_true", default=False)
274 + parser.add_option("--excludeStopWords", dest="excludeStopWords",help="Exclude stop words", action="store_true", default=False)
275 + parser.add_option("--excludeSymbols", dest="excludeSymbols", help="Exclude punctuation marks", action="store_true", default=False)
276 +
277 +
278 + (options, args) = parser.parse_args()
279 + if len(args) > 0:
280 + parser.error("Any parameter given.")
281 + sys.exit(1)
282 +
283 + print('-------------------------------- PARAMETERS --------------------------------')
284 + print("Path of training data set: " + options.inputPath)
285 + print("File with training data set: " + str(options.trainingFile))
286 + print("Path of test data set: " + options.inputPath)
287 + print("File with test data set: " + str(options.testFile))
288 + print("Exclude stop words: " + str(options.excludeStopWords))
289 + print("Levels: " + str(options.S1) + " " + str(options.S2))
290 + print("Report file: " + str(options.version))
291 +
292 +
293 + symbols = ['.', ',', ':', ';', '?', '!', '\'', '"', '<', '>', '(', ')', '-', '_', '/', '\\', '¿', '¡', '+', '{',
294 + '}', '[', ']', '*', '%', '$', '#', '&', '°', '`', '...']
295 + print("Exclude symbols: " + str(options.excludeSymbols))
296 +
297 + print('-------------------------------- PROCESSING --------------------------------')
298 + print('Reading corpus...')
299 + t0 = time()
300 +
301 + sentencesTrainingData = []
302 + sentencesTestData = []
303 +
304 + stopwords = [word for word in stopwords.words('english')]
305 +
306 + with open(os.path.join(options.inputPath, options.trainingFile), "r") as iFile:
307 + for line in iFile.readlines():
308 + listLine = []
309 + line = line.strip('\n')
310 + for token in line.split():
311 + if options.excludeStopWords:
312 + listToken = token.split('|')
313 + lemma = listToken[1]
314 + if lemma in stopwords:
315 + continue
316 + if options.excludeSymbols:
317 + listToken = token.split('|')
318 + lemma = listToken[1]
319 + if lemma in symbols:
320 + continue
321 + listLine.append(token)
322 + sentencesTrainingData.append(listLine)
323 + print(" Sentences training data: " + str(len(sentencesTrainingData)))
324 +
325 + with open(os.path.join(options.inputPath, options.testFile), "r") as iFile:
326 + for line in iFile.readlines():
327 + listLine = []
328 + line = line.strip('\n')
329 + for token in line.split():
330 + if options.excludeStopWords:
331 + listToken = token.split('|')
332 + lemma = listToken[1]
333 + if lemma in stopwords:
334 + continue
335 + if options.excludeSymbols:
336 + listToken = token.split('|')
337 + lemma = listToken[1]
338 + if lemma in symbols:
339 + continue
340 + listLine.append(token)
341 + sentencesTestData.append(listLine)
342 + print(" Sentences test data: " + str(len(sentencesTestData)))
343 +
344 + print("Reading corpus done in: %fs" % (time() - t0))
345 +
346 + print('-------------------------------- FEATURES --------------------------------')
347 +
348 + Dtraning = sent2features(sentencesTrainingData[0], options.S1, options.S2, options.S3)[2]
349 + Dtest = sent2features(sentencesTestData[0], options.S1, options.S2, options.S3)[2]
350 + print('--------------------------Features Training ---------------------------')
351 + print(DF(list(Dtraning.items())))
352 + print('--------------------------- FeaturesTest -----------------------------')
353 + print(DF(list(Dtest.items())))
354 +
355 + t0 = time()
356 +
357 + X_train = [sent2features(s, options.S1, options.S2, options.S3) for s in sentencesTrainingData]
358 + y_train = [sent2labels(s) for s in sentencesTrainingData]
359 +
360 + X_test = [sent2features(s, options.S1, options.S2, options.S3) for s in sentencesTestData]
361 + # print X_test
362 + y_test = [sent2labels(s) for s in sentencesTestData]
363 +
364 + # Fixed parameters
365 + # crf = sklearn_crfsuite.CRF(
366 + # algorithm='lbfgs',
367 + # c1=0.1,
368 + # c2=0.1,
369 + # max_iterations=100,
370 + # all_pgossible_transitions=True
371 + # )
372 +
373 + # Hyperparameter Optimization
374 + crf = sklearn_crfsuite.CRF(
375 + algorithm='lbfgs',
376 + max_iterations=100,
377 + all_possible_transitions=True
378 + )
379 + params_space = {
380 + 'c1': scipy.stats.expon(scale=0.5),
381 + 'c2': scipy.stats.expon(scale=0.05),
382 + }
383 +
384 + # Original: labels = list(crf.classes_)
385 + # Original: labels.remove('O')
386 + labels = list(['Gtype', 'Gversion', 'Med', 'Phase', 'Strain', 'Substrain', 'Supp', 'Technique', 'Temp', 'OD', 'Anti', 'Agit', 'Air', 'Vess', 'pH'])
387 +
388 + # use the same metric for evaluation
389 + f1_scorer = make_scorer(metrics.flat_f1_score,
390 + average='weighted', labels=labels)
391 +
392 + # search
393 + rs = RandomizedSearchCV(crf, params_space,
394 + cv=10,
395 + verbose=3,
396 + n_jobs=-1,
397 + n_iter=20,
398 + # n_iter=50,
399 + scoring=f1_scorer)
400 + rs.fit(X_train, y_train)
401 +
402 + # Fixed parameters
403 + # crf.fit(X_train, y_train)
404 +
405 + # Best hiperparameters
406 + # crf = rs.best_estimator_
407 +
408 + nameReport = str(options.Gridname) + str(options.version) + '.txt'
409 + with open(os.path.join(options.outputPath, "reports", "report_" + nameReport), mode="w") as oFile:
410 + oFile.write("********** TRAINING AND TESTING REPORT **********\n")
411 + oFile.write("Training file: " + options.trainingFile + '\n')
412 + oFile.write('\n')
413 + oFile.write('best params:' + str(rs.best_params_) + '\n')
414 + oFile.write('best CV score:' + str(rs.best_score_) + '\n')
415 + oFile.write('model size: {:0.2f}M\n'.format(rs.best_estimator_.size_ / 1000000))
416 +
417 + print("Training done in: %fs" % (time() - t0))
418 + t0 = time()
419 +
420 + # Update best crf
421 + crf = rs.best_estimator_
422 +
423 + # Saving model
424 + print(" Saving training model...")
425 + t1 = time()
426 + nameModel = 'model_S1_' + str(options.S1) + '_S2_' + str(options.S2) + str(options.version) + '_S3_' + str(options.S3) + '.mod'
427 + joblib.dump(crf, os.path.join(options.outputPath, "models", nameModel))
428 + print(" Saving training model done in: %fs" % (time() - t1))
429 +
430 + # Evaluation against test data
431 + y_pred = crf.predict(X_test)
432 + print("*********************************")
433 + print("Prediction done in: %fs" % (time() - t0))
434 +
435 + # labels = list(crf.classes_)
436 + # labels.remove('O')
437 +
438 + with open(os.path.join(options.outputPath, "reports", "report_" + nameReport), mode="a") as oFile:
439 + oFile.write('\n')
440 + oFile.write("Flat F1: " + str(metrics.flat_f1_score(y_test, y_pred, average='weighted', labels=labels)))
441 + oFile.write('\n')
442 + # labels = list(crf.classes_)
443 + sorted_labels = sorted(
444 + labels,
445 + key=lambda name: (name[1:], name[0])
446 + )
447 + oFile.write(metrics.flat_classification_report(
448 + y_test, y_pred, labels=sorted_labels, digits=3
449 + ))
450 + oFile.write('\n')
451 +
452 + oFile.write("\nTop likely transitions:\n")
453 + print_transitions(Counter(crf.transition_features_).most_common(50), oFile)
454 + oFile.write('\n')
455 +
456 + oFile.write("\nTop unlikely transitions:\n")
457 + print_transitions(Counter(crf.transition_features_).most_common()[-50:], oFile)
458 + oFile.write('\n')
459 +
460 + oFile.write("\nTop positive:\n")
461 + print_state_features(Counter(crf.state_features_).most_common(200), oFile)
462 + oFile.write('\n')
463 +
464 + oFile.write("\nTop negative:\n")
465 + print_state_features(Counter(crf.state_features_).most_common()[-200:], oFile)
466 + oFile.write('\n')
467 +
1 + affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
2 + affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
3 + affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
4 + affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
5 + affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
6 + affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
7 + affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
8 + affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
9 + Anaerobic|anaerobic|JJ|Air cultures|culture|NNS|O
10 + All|all|DT|O strains|strain|NNS|O used|use|VBN|O in|in|IN|O this|this|DT|O study|study|NN|O were|be|VBD|O E.|e.|FW|O coli|coli|FW|O K-12|k-12|NN|O MG1655|mg1655|NN|O and|and|CC|O its|its|PRP$|O derivatives|derivative|NNS|O .|.|.|O The|the|DT|O deletion|deletion|NN|O mutants|mutant|NNS|O -LRB-|-lrb-|-LRB-|O Δfnr|δfnr|NN|O and|and|CC|O ΔarcA|δarca|NN|O -RRB-|-rrb-|-RRB-|O were|be|VBD|O constructed|construct|VBN|O by|by|IN|O a|a|DT|O λ|λ|NN|O red|red|JJ|O and|and|CC|O FLP-mediated|flp-mediated|JJ|O site-specific|site-specific|JJ|O recombination|recombination|NN|O method|method|NN|O .|.|.|O Glycerol|glycerol|NN|O stocks|stock|NNS|O of|of|IN|O E.|e.|FW|O coli|coli|FW|O strains|strain|NNS|O were|be|VBD|O inoculated|inoculate|VBN|O into|into|IN|O M9|m9|NN|O minimal|minimal|JJ|O medium|medium|NN|O containing|contain|VBG|O 0.2|0.2|CD|O %|%|NN|O -LRB-|-lrb-|-LRB-|O w/v|w/v|NN|O -RRB-|-rrb-|-RRB-|O carbon|carbon|NN|O source|source|NN|O -LRB-|-lrb-|-LRB-|O glucose|glucose|NN|O -RRB-|-rrb-|-RRB-|O and|and|CC|O 0.1|0.1|CD|O %|%|NN|O -LRB-|-lrb-|-LRB-|O w/v|w/v|NN|O -RRB-|-rrb-|-RRB-|O nitrogen|nitrogen|NN|O source|source|NN|O -LRB-|-lrb-|-LRB-|O NH4Cl|nh4cl|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O and|and|CC|O cultured|culture|VBN|O overnight|overnight|JJ|O at|at|IN|O 37|37|CD|O °C|°c|NN|O with|with|IN|O constant|constant|JJ|O agitation|agitation|NN|O .|.|.|O The|the|DT|O cultures|culture|NNS|O were|be|VBD|O diluted|dilute|VBN|O 1:100|1:100|CD|O into|into|IN|O fresh|fresh|JJ|O minimal|minimal|JJ|Med medium|medium|NN|Med and|and|CC|O then|then|RB|O cultured|culture|VBN|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp to|to|TO|O an|a|DT|O appropriate|appropriate|JJ|O cell|cell|NN|O density|density|NN|O with|with|IN|O constant|constant|JJ|O agitation|agitation|NN|O .|.|.|O For|for|IN|O the|the|DT|O anaerobic|anaerobic|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O minimal|minimal|JJ|O medium|medium|NN|O were|be|VBD|O flushed|flush|VBN|O with|with|IN|O nitrogen|nitrogen|NN|O and|and|CC|O then|then|RB|O continuously|continuously|RB|O monitored|monitor|VBN|O using|use|VBG|O a|a|DT|O polarographic-dissolved|polarographic-dissolved|JJ|O oxygen|oxygen|NN|O probe|probe|NN|O -LRB-|-lrb-|-LRB-|O Cole-Parmer|Cole-Parmer|NNP|O Instruments|Instruments|NNP|O -RRB-|-rrb-|-RRB-|O to|to|TO|O ensure|ensure|VB|O anaerobicity|anaerobicity|NN|O .|.|.|O For|for|IN|O nitrate|nitrate|JJ|O respiration|respiration|NN|O 20|20|CD|Supp mmol|mmol|NN|Supp potassium|potassium|NN|Supp nitrate|nitrate|JJ|Supp was|be|VBD|O added|add|VBN|O .|.|.|O
11 + antibody|antibody|NN|O :|:|:|O 9E10|9e10|CD|Anti Myc|myc|NN|Anti tag|tag|NN|Anti antibody|antibody|NN|O
12 + antibody|antibody|NN|O :|:|:|O Pre-cleared|pre-cleared|JJ|Anti FNR|fnr|NN|Anti antibody|antibody|NN|Anti
13 + antibody|antibody|NN|O :|:|:|O Pre-cleared|pre-cleared|JJ|Anti H-NS|h-ns|NN|Anti polyclonal|polyclonal|JJ|Anti antibody|antibody|NN|Anti
14 + ArgR|argr|NN|O _|_|CD|O Arginine|arginine|NN|Supp _|_|NN|O 2|2|CD|O
15 + ArgR|argr|NN|O _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|NN|O 2|2|CD|O
16 + At|at|IN|O OD450|od450|NN|OD =|=|JJ|OD 0.3|0.3|CD|OD ,|,|,|O cultures|culture|NNS|O induced|induce|VBN|O with|with|IN|O 1|1|CD|Supp mM|mm|NN|Supp IPTG|iptg|NN|Supp .|.|.|O Cells|cell|NNS|O harvested|harvest|VBD|O 10|10|CD|O min|min|NN|O after|after|IN|O induction|induction|NN|O
17 + carbon|carbon|NN|O source|source|NN|O :|:|:|O fructose|fructose|NN|Supp
18 + carbon|carbon|NN|O source|source|NN|O :|:|:|O glucose|glucose|NN|Supp
19 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 25|25|CD|Air %|%|NN|Air O2|o2|CD|Air ,|,|,|Air 70|70|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.35|0.35|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
20 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 70|70|CD|Air %|%|NN|Air N2|n2|NN|Air ,|,|,|Air 25|25|CD|Air %|%|NN|Air O2|o2|CD|Air ,|,|,|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air or|or|CC|O anaerobically|anaerobically|RB|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O N2|n2|NN|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O .|.|.|O
21 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 70|70|CD|Air %|%|NN|Air N2|n2|NN|Air ,|,|,|Air 25|25|CD|Air %|%|NN|Air O2|o2|CD|Air ,|,|,|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air or|or|CC|O anaerobically|anaerobically|RB|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O N2|n2|NN|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O in|in|IN|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 10|10|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp .|.|.|O
22 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O 65|65|CD|O ml|ml|NN|O LB|lb|NN|O medium|medium|NN|O at|at|IN|O 30|30|CD|O °C|°c|NN|O to|to|TO|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD about|about|IN|OD 0.3|0.3|CD|OD .|.|.|O Subsequently|subsequently|RB|O 30|30|CD|O ml|ml|NN|O of|of|IN|O culture|culture|NN|O were|be|VBD|O transformed|transform|VBN|O to|to|TO|O a|a|DT|O pre|pre|JJ|O warmed|warm|VBN|O flask|flask|NN|Vess at|at|IN|O 43|43|CD|Temp °C|°c|NN|Temp -LRB-|-lrb-|-LRB-|Temp see|see|VB|Temp heat|heat|NN|Temp sample|sample|NN|Temp -RRB-|-rrb-|-RRB-|Temp and|and|CC|O the|the|DT|O remainder|remainder|NN|O kept|keep|VBD|O at|at|IN|O 30|30|CD|Temp °C|°c|NN|Temp .|.|.|O
23 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O LB|LB|NNP|Med media|media|NNS|Med with|with|IN|O 1mM|1mm|NN|Supp IPTG|iptg|NN|Supp at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp with|with|IN|O shaking|shake|VBG|O for|for|IN|O 2|2|CD|Supp hours|hour|NNS|Supp
24 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-rpoB|anti-rpob|JJ|Anti -LRB-|-lrb-|-LRB-|O Santa|Santa|NNP|O Cruz|Cruz|NNP|O Biotech|Biotech|NNP|O ,|,|,|O sc-56766|sc-56766|NN|O -RRB-|-rrb-|-RRB-|O
25 + chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O
26 + chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O
27 + chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O
28 + chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O
29 + Cra|Cra|NNP|O glucose|glucose|NN|Supp 2|2|CD|O
30 + culture|culture|NN|O condition|condition|NN|O :|:|:|O Aerobic|Aerobic|NNP|Air cultures|culture|NNS|O
31 + Ecoli|ecolus|NNS|O _|_|VBP|O dFNR|dfnr|NN|Gtype _|_|CD|O rep1|rep1|NN|O _|_|CD|O anaerobic|anaerobic|JJ|Air
32 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Fur-8-myc|fur-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|O mM|mm|NN|O of|of|IN|O FeCl2|fecl2|NN|O were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|Supp mM|mm|NN|Supp of|of|IN|Supp DPD|dpd|NN|Supp were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|Supp .|.|.|O For|for|IN|O the|the|DT|O rifampicin-treated|rifampicin-treated|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O rifampicin|rifampicin|NN|Supp dissolved|dissolve|VBN|Supp in|in|IN|Supp methanol|methanol|NN|Supp was|be|VBD|O added|add|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O concentration|concentration|NN|O of|of|IN|O 150|150|CD|Supp mg/mL|mg/ml|NN|Supp at|at|IN|O mid-log|mid-log|JJ|O phase|phase|NN|O and|and|CC|O stirred|stir|VBD|O for|for|IN|O 20|20|CD|Supp min|min|NN|Supp .|.|.|O
33 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Fur-8-myc|fur-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|Supp mM|mm|NN|Supp of|of|IN|Supp FeCl2|fecl2|NN|Supp were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|O mM|mm|NN|O of|of|IN|O DPD|dpd|NN|O were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|Supp .|.|.|O For|for|IN|O the|the|DT|O rifampicin-treated|rifampicin-treated|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O rifampicin|rifampicin|NN|O dissolved|dissolve|VBN|O in|in|IN|O methanol|methanol|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O concentration|concentration|NN|O of|of|IN|O 150|150|CD|O mg/mL|mg/ml|NN|O at|at|IN|O mid-log|mid-log|JJ|O phase|phase|NN|O and|and|CC|O stirred|stir|VBD|O for|for|IN|O 20|20|CD|O min|min|NN|O .|.|.|O
34 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|WT|NNP|O ,|,|,|O and|and|CC|O Δcra|Δcra|NNP|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp ,|,|,|O fructose|fructose|NN|O and|and|CC|O acetate|acetate|NN|O .|.|.|O
35 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Δfur|δfur|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|Supp mM|mm|NN|Supp of|of|IN|Supp FeCl2|fecl2|NN|Supp were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|O mM|mm|NN|O of|of|IN|O DPD|dpd|NN|O were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|O .|.|.|O
36 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O ,|,|,|O ΔoxyR|δoxyr|NN|O ,|,|,|O ΔsoxR|δsoxr|NN|O ,|,|,|O and|and|CC|O ΔsoxS|δsoxs|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|O phase|phase|NN|O aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O Then|then|RB|O cells|cell|NNS|O were|be|VBD|O treated|treat|VBN|O with|with|IN|O 250|250|CD|O uM|um|NN|O of|of|IN|O paraquat|paraquat|NN|O at|at|IN|O mid-log|mid-log|JJ|O pahse|pahse|NN|O for|for|IN|O 20|20|CD|O min|min|NN|O with|with|IN|O agitation|agitation|NN|O .|.|.|O
37 + E.|E.|NNP|O coli|coli|NN|O strains|strain|NNS|O harboring|harbor|VBG|O PurR-8myc|purr-8myc|NN|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O minimal|minimal|JJ|O M9|m9|NN|O medium|medium|NN|O supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|O -LRB-|-lrb-|-LRB-|O 2|2|CD|O g/L|g/l|NN|O -RRB-|-rrb-|-RRB-|O then|then|RB|O inoculated|inoculate|VBN|O into|into|IN|O 100mL|100ml|NN|O of|of|IN|O fresh|fresh|JJ|O M9|m9|NN|Med minimal|minimal|JJ|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 100ug/L|100ug/l|NN|Supp adenine|adenine|NN|Supp .|.|.|O
38 + Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp and|and|CC|O nitrate|nitrate|VBP|Supp .|.|.|O
39 + FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O A|a|NN|O
40 + FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O Affinity|affinity|NN|O Purified|purify|VBN|O -|-|:|O B|b|NN|O
41 + FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O C|c|NN|O
42 + Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|Anaerobic|NNP|Air A|A|NNP|O
43 + Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|anaerobic|JJ|Air C|c|NN|O
44 + Fur|Fur|NNP|O with|with|IN|O DPD|dpd|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
45 + genotype|genotype|NN|O :|:|:|O delta|delta|NN|O -|-|:|O crp|crp|NN|Gtype Knock-out|knock-out|JJ|Gtype strain|strain|NN|Gtype
46 + genotype|genotype|NN|O :|:|:|O Lrp-8myc|lrp-8myc|JJ|Gtype
47 + genotype|genotype|NN|O :|:|:|O ompR|ompr|NN|Gtype deletion|deletion|NN|Gtype mutant|mutant|JJ|Gtype
48 + genotype|genotype|NN|O :|:|:|O PurR-8myc|purr-8myc|NN|Gtype
49 + genotype/variation|genotype/variation|NN|O :|:|:|O delta-gadW|delta-gadw|NN|Gtype
50 + genotype/variation|genotype/variation|NN|O :|:|:|O delta-oxyR|delta-oxyr|NN|Gtype
51 + genotype/variation|genotype/variation|NN|O :|:|:|O lacking|lack|VBG|Gtype the|the|DT|Gtype small|small|JJ|Gtype RNA|rna|NN|Gtype RyhB|ryhb|NN|Gtype
52 + genotype/variation|genotype/variation|NN|O :|:|:|O lacking|lack|VBG|Gtype the|the|DT|Gtype transcription|transcription|NN|Gtype factor|factor|NN|Gtype Fur|Fur|NNP|Gtype and|and|CC|Gtype the|the|DT|Gtype small|small|JJ|Gtype RNA|rna|NN|Gtype RyhB|ryhb|NN|Gtype
53 + genotype/variation|genotype/variation|NN|O :|:|:|O soxR-8myc|soxr-8myc|NN|Gtype -|-|:|O tagged|tag|VBN|O
54 + genotype/variation|genotype/variation|NN|O :|:|:|O Wild-type|wild-type|JJ|Gtype
55 + genotype/variation|genotype/variation|NN|O :|:|:|O Δfur|δfur|NN|Gtype
56 + genotype/variation|genotype/variation|NN|O :|:|:|O harboring|harbor|VBG|O Fnr-8myc|fnr-8myc|JJ|Gtype
57 + genoype|genoype|NN|O :|:|:|O Wild-Type|wild-type|JJ|Gtype
58 + growth|growth|NN|O condition|condition|NN|O :|:|:|O Anaerobic|anaerobic|JJ|Air
59 + growth|growth|NN|O condition|condition|NN|O :|:|:|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
60 + growth|growth|NN|O condition|condition|NN|O :|:|:|O 4|4|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
61 + growth|growth|NN|O condition|condition|NN|O :|:|:|O glucose|glucose|NN|Supp
62 + ∆|∆|CD|Gtype fur|fur|NN|Gtype Anaerobic|anaerobic|JJ|Air A|a|DT|O
63 + NsrR|nsrr|NN|Gtype _|_|CD|Gtype Flagtag|flagtag|NN|Gtype _|_|CD|O rep2|rep2|NN|O
64 + Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O B|b|NN|O -|-|:|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
65 + Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O B|b|NN|O -|-|:|O 4|4|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
66 + Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 10|10|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
67 + Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 20|20|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
68 + WT|wt|JJ|Gtype acetate|acetate|NN|Supp 2|2|CD|O
69 + WT|wt|JJ|Gtype fructose|fructose|NN|Supp 1|1|CD|O
70 + WT|wt|JJ|Gtype fructose|fructose|NN|Supp 2|2|CD|O
71 + WT|wt|JJ|Gtype glucose|glucose|NN|Supp 1|1|CD|O
72 + WT|wt|JJ|Gtype PQ|pq|NN|Supp 1|1|CD|O
73 + WT|wt|JJ|Gtype with|with|IN|O Fe|Fe|NNP|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
74 + Δcra|δcra|NN|Gtype acetate|acetate|NN|Supp 1|1|CD|O
75 + ΔgadX|δgadx|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
76 + ΔompR|δompr|NN|Gtype NaCl|nacl|NN|Supp 2|2|CD|O
77 + ΔoxyR|δoxyr|NN|Gtype PQ|pq|NN|Supp 1|1|CD|O
78 + ΔsoxS|δsoxs|NN|Gtype PQ|pq|NN|Supp 1|1|CD|O
79 + ΔsoxS|δsoxs|NN|Gtype PQ|pq|NN|Supp 2|2|CD|O
80 + HNS|hns|SYM|O -|-|:|O Aerobic|aerobic|JJ|Air A|a|DT|O
81 + HNS|hns|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air B|b|NN|O
82 + Lrp|Lrp|NNP|O _|_|SYM|O NH4Cl|nh4cl|NN|Supp _|_|NN|O 1|1|CD|O
83 + Lrp|Lrp|NNP|O _|_|SYM|O NH4Cl|nh4cl|NN|Supp _|_|NN|O 2|2|CD|O
84 + Lrp|lrp|NN|O _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O 3|3|CD|O
85 + medium|medium|NN|O :|:|:|O LB|LB|NNP|Med
86 + medium|medium|NN|O :|:|:|O M63|m63|NN|Med
87 + LB|lb|NN|Med 0.4|0.4|CD|O B1|b1|NN|O TEX|tex|NN|O neg|neg|NN|O L1|l1|NN|O GA|ga|NN|O
88 + LB|lb|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS1|hs1|NN|O
89 + LB|lb|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS2|hs2|NN|O
90 + LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS2|hs2|NN|O
91 + LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS2|hs2|NN|O
92 + M63|m63|NN|Med 0.4|0.4|CD|O B1|b1|NN|O TEX|tex|NN|O neg|neg|NN|O L1|l1|NN|O GA|ga|NN|O
93 + M63|m63|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS2|hs2|NN|O
94 + NtrC|ntrc|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique
95 + OmpR|ompr|NN|O NaCl|nacl|NN|Supp 2|2|CD|O
96 + OmpR|ompr|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique
97 + OxyR|oxyr|NN|O PQ|pq|NN|Supp 2|2|CD|O
98 + pT7|pt7|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique _|_|NN|O 2|2|CD|O
99 + PurR|purr|NN|O _|_|SYM|O Adenine|Adenine|NNP|Supp _|_|SYM|O 1|1|CD|O
100 + PurR|purr|NN|O _|_|CD|O glucose|glucose|NN|Supp _|_|NN|O 1|1|CD|O
101 + RpoB|rpob|NN|O ∆|∆|CD|Gtype cra|cra|NN|Gtype 1|1|CD|O
102 + RpoB|rpob|NN|O ∆|∆|CD|Gtype crp|crp|NN|Gtype 1|1|CD|O
103 + RpoB|rpob|NN|O ∆|∆|CD|Gtype crp|crp|NN|Gtype 2|2|CD|O
104 + RpoB|rpob|NN|O with|with|IN|O DPD|dpd|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
105 + RpoB|rpob|NN|O with|with|IN|O Fe|Fe|NNP|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
106 + RpoB|rpob|NN|O with|with|IN|O Fe|Fe|NNP|Supp and|and|CC|O rifampicin|rifampicin|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
107 + SeqA|seqa|NN|O new|new|JJ|O deltaSeqA|deltaseqa|NN|Gtype
108 + Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|NN|Phase cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 3500|3500|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O Cell|cell|NN|O pellets|pellet|NNS|O -LRB-|-lrb-|-LRB-|O from|from|IN|O initial|initial|JJ|O 250|250|CD|O mL|ml|NN|O of|of|IN|O culture|culture|NN|O -RRB-|-rrb-|-RRB-|O were|be|VBD|O thawed|thaw|VBN|O and|and|CC|O resuspended|resuspend|VBN|O in|in|IN|O 250|250|CD|O μL|μl|NN|O of|of|IN|O IP|IP|NNP|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 100|100|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 300|300|CD|O mM|mm|NN|O NaCl|nacl|NN|O ,|,|,|O 1|1|CD|O %|%|NN|O TritonX-100|tritonx-100|NN|O -RRB-|-rrb-|-RRB-|O and|and|CC|O sonicated|sonicate|VBN|O using|use|VBG|O a|a|DT|O microtip|microtip|NN|O sonicator|sonicator|NN|O set|set|VBN|O at|at|IN|O 10|10|CD|O %|%|NN|O output|output|NN|O for|for|IN|O 20|20|CD|O second|second|JJ|O intervals|interval|NNS|O with|with|IN|O periods|period|NNS|O of|of|IN|O cooling|cool|VBG|O in|in|IN|O between|between|IN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O then|then|RB|O treated|treat|VBN|O for|for|IN|O one|one|CD|O hour|hour|NN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O RNase|rnase|NN|O A|a|NN|O -LRB-|-lrb-|-LRB-|O 2|2|CD|O ng/ml|ng/ml|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O micrococcal|micrococcal|JJ|O nuclease|nuclease|NN|O -LRB-|-lrb-|-LRB-|O 50|50|CD|O units|unit|NNS|O -RRB-|-rrb-|-RRB-|O ,|,|,|O 20|20|CD|O μM|μm|NN|O CaCl2|cacl2|NN|O ,1.2|,1.2|CD|O mM|mm|NN|O KCl|kcl|NN|O ,|,|,|O 0.3|0.3|CD|O mM|mm|NN|O NaCl|nacl|NN|O ,|,|,|O 6|6|CD|O mM|mm|NN|O sucrose|sucrose|NN|O ,|,|,|O and|and|CC|O 10|10|CD|O μM|μm|NN|O DTT|dtt|NN|O .|.|.|O EDTA|edta|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 10|10|CD|O mM|mm|NN|O to|to|TO|O stop|stop|VB|O the|the|DT|O micrococcal|micrococcal|JJ|O nuclease|nuclease|NN|O and|and|CC|O the|the|DT|O samples|sample|NNS|O were|be|VBD|O spun|spin|VBN|O down|down|RP|O to|to|TO|O remove|remove|VB|O cell|cell|NN|O debris|debris|NN|O .|.|.|O The|the|DT|O lysate|lysate|NN|O was|be|VBD|O then|then|RB|O precleared|preclear|VBN|O through|through|IN|O incubation|incubation|NN|O with|with|IN|O a|a|DT|O 50/50|50/50|CD|O slurry|slurry|NN|O of|of|IN|O sepharose|sepharose|NN|O protein|protein|NN|O A|a|NN|O beads|bead|NNS|O in|in|IN|O IP|IP|NNP|O buffer|buffer|NN|O for|for|IN|O 2-3|2-3|CD|O hours|hour|NNS|O at|at|IN|O 4|4|CD|O °C|°c|NN|O .|.|.|O The|the|DT|O beads|bead|NNS|O were|be|VBD|O removed|remove|VBN|O by|by|IN|O centrifugation|centrifugation|NN|O and|and|CC|O antibody|antibody|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O pre-cleared|pre-cleared|JJ|O lysate|lysate|NN|O for|for|IN|O an|a|DT|O overnight|overnight|JJ|O incubation|incubation|NN|O .|.|.|O The|the|DT|O next|next|JJ|O day|day|NN|O ,|,|,|O 30|30|CD|O μl|μl|NN|O of|of|IN|O a|a|DT|O 50/50|50/50|CD|O slurry|slurry|NN|O of|of|IN|O sepharose|sepharose|NN|O protein|protein|NN|O A|a|NN|O beads|bead|NNS|O in|in|IN|O IP|IP|NNP|O buffer|buffer|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O lysate|lysate|NN|O to|to|TO|O capture|capture|VB|O antibody-protein-DNA|antibody-protein-dna|JJ|O complex|complex|NN|O for|for|IN|O one|one|CD|O hour|hour|NN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O .|.|.|O Beads|bead|NNS|O were|be|VBD|O then|then|RB|O washed|wash|VBN|O once|once|RB|O with|with|IN|O 1|1|CD|O ml|ml|NN|O of|of|IN|O LiCl|licl|NN|O wash|wash|NN|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 100|100|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 250|250|CD|O mM|mm|NN|O LiCl|licl|NN|O ,|,|,|O 2|2|CD|O %|%|NN|O TritonX-100|tritonx-100|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O twice|twice|RB|O with|with|IN|O 600|600|CD|O mM|mm|NN|O NaCl|nacl|NN|O wash|wash|NN|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 100|100|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 600|600|CD|O mM|mm|NN|O NaCl|nacl|NN|O ,|,|,|O 2|2|CD|O %|%|NN|O TritonX-100|tritonx-100|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O twice|twice|RB|O with|with|IN|O 300|300|CD|O mM|mm|NN|O NaCl|nacl|NN|O wash|wash|NN|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 100|100|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 300|300|CD|O mM|mm|NN|O NaCl|nacl|NN|O ,|,|,|O 2|2|CD|O %|%|NN|O TritonX-100|tritonx-100|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O and|and|CC|O twice|twice|RB|O with|with|IN|O TE|te|NN|O .|.|.|O Elution|elution|NN|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 50|50|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 10|10|CD|O mM|mm|NN|O EDTA|edta|NN|O ,|,|,|O 1|1|CD|O %|%|NN|O SDS|sds|NN|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O after|after|IN|O the|the|DT|O final|final|JJ|O wash|wash|NN|O step|step|NN|O ,|,|,|O and|and|CC|O beads|bead|NNS|O were|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 65|65|CD|O °C|°c|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O remove|remove|VB|O the|the|DT|O crosslinked|crosslink|VBN|O protein-DNA|protein-dna|JJ|O complexes|complex|NNS|O from|from|IN|O the|the|DT|O beads|bead|NNS|O .|.|.|O After|after|IN|O centrifugation|centrifugation|NN|O to|to|TO|O remove|remove|VB|O the|the|DT|O beads|bead|NNS|O ,|,|,|O the|the|DT|O samples|sample|NNS|O were|be|VBD|O incubated|incubate|VBN|O overnight|overnight|RB|O at|at|IN|O 65|65|CD|O °C|°c|NN|O to|to|TO|O reverse|reverse|VB|O the|the|DT|O protein-DNA|protein-dna|JJ|O formaldehyde|formaldehyde|NN|O crosslinks|crosslink|NNS|O .|.|.|O DNA|dna|NN|O was|be|VBD|O purified|purify|VBN|O using|use|VBG|O Qiagen|Qiagen|NNP|O 's|'s|POS|O PCR|pcr|NN|O Purification|purification|NN|O kit|kit|NN|O and|and|CC|O eluted|elute|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O volume|volume|NN|O of|of|IN|O 50|50|CD|O μl|μl|NN|O with|with|IN|O EB|EB|NNP|O .|.|.|O
109 + ß|ß|SYM|O -|-|:|O Aerobic|aerobic|JJ|Air -|-|:|O B|b|NN|O
110 + ß|ß|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O A|a|NN|O
111 + strain|strain|NN|O :|:|:|O PK4854|pk4854|NN|Gtype
112 + strain|strain|NN|O :|:|:|O MG1655|mg1655|NN|O K-12|k-12|NN|O WT|wt|JJ|Gtype
113 + strain|strain|NN|O :|:|:|O K-12|k-12|NN|Strain
114 + ChIP-exo|chip-exo|NN|Technique GadX|gadx|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
115 + ChIP-exo|chip-exo|NN|Technique GadX|gadx|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
116 + ChIP-exo|ChIP-exo|NNP|Technique RpoS|rpos|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
117 + To|to|TO|O harvest|harvest|VB|O total|total|JJ|O RNA|rna|NN|O samples|sample|NNS|O ,|,|,|O overnight|overnight|JJ|O cultures|culture|NNS|O of|of|IN|O wild|wild|JJ|Gtype type|type|NN|Gtype MG1655|mg1655|NN|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O at|at|IN|O 37|37|CD|O ˚C|˚c|NN|O were|be|VBD|O diluted|dilute|VBN|O back|back|RB|O 1:500|1:500|CD|O in|in|IN|O either|either|CC|O fresh|fresh|JJ|O LB|lb|NN|O or|or|CC|O M63|m63|NN|O minimal|minimal|JJ|O glucose|glucose|NN|O medium|medium|NN|O and|and|CC|O allowed|allow|VBN|O to|to|TO|O grow|grow|VB|O until|until|IN|O the|the|DT|O cultures|culture|NNS|O reached|reach|VBD|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O and|and|CC|O 2.0|2.0|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O and|and|CC|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O M63|m63|NN|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.4|0.4|CD|OD a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 25|25|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O Ethanol|ethanol|NN|O ,|,|,|O 5|5|CD|O %|%|NN|O acid|acid|NN|O phenol|phenol|NN|O -RRB-|-rrb-|-RRB-|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|O of|of|IN|O 2.0|2.0|CD|O a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 1|1|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O .|.|.|O
118 + treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med M9|m9|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O without|without|IN|O 10|10|CD|Supp mM|mm|NN|Supp leucine|leucine|NN|Supp .|.|.|O
119 + treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med M9|m9|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 20|20|CD|Supp mg/L|mg/l|NN|Supp tryptophan|tryptophan|NN|Supp .|.|.|O
120 + TrpR|trpr|NN|O _|_|CD|O Trp|Trp|NNP|Supp
121 + σ32|σ32|NN|O 30|30|CD|Temp °C|°c|NN|Temp rep1|rep1|NN|O
122 + σ32|σ32|NN|O 30|30|CD|Temp °C|°c|NN|Temp short|short|JJ|O RNase|rnase|NN|O
123 + σ32|σ32|NN|O 43|43|CD|Temp °C|°c|NN|Temp rep1|rep1|NN|O
...\ No newline at end of file ...\ No newline at end of file
1 - affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
2 - affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
3 - affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
4 - affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
5 - affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
6 - agent|agent|NN|O :|:|:|O DPD|dpd|NN|Supp and|and|CC|Supp rifampicin|rifampicin|NN|Supp
7 - Anaerobic|anaerobic|JJ|Air cultures|culture|NNS|O
8 - All|all|DT|O strains|strain|NNS|O used|use|VBN|O in|in|IN|O this|this|DT|O study|study|NN|O were|be|VBD|O E.|e.|FW|O coli|coli|FW|O K-12|k-12|NN|O MG1655|mg1655|NN|O and|and|CC|O its|its|PRP$|O derivatives|derivative|NNS|O .|.|.|O The|the|DT|O deletion|deletion|NN|O mutants|mutant|NNS|O -LRB-|-lrb-|-LRB-|O Δfnr|δfnr|NN|O and|and|CC|O ΔarcA|δarca|NN|O -RRB-|-rrb-|-RRB-|O were|be|VBD|O constructed|construct|VBN|O by|by|IN|O a|a|DT|O λ|λ|NN|O red|red|JJ|O and|and|CC|O FLP-mediated|flp-mediated|JJ|O site-specific|site-specific|JJ|O recombination|recombination|NN|O method|method|NN|O .|.|.|O Glycerol|glycerol|NN|O stocks|stock|NNS|O of|of|IN|O E.|e.|FW|O coli|coli|FW|O strains|strain|NNS|O were|be|VBD|O inoculated|inoculate|VBN|O into|into|IN|O M9|m9|NN|O minimal|minimal|JJ|O medium|medium|NN|O containing|contain|VBG|O 0.2|0.2|CD|O %|%|NN|O -LRB-|-lrb-|-LRB-|O w/v|w/v|NN|O -RRB-|-rrb-|-RRB-|O carbon|carbon|NN|O source|source|NN|O -LRB-|-lrb-|-LRB-|O glucose|glucose|NN|O -RRB-|-rrb-|-RRB-|O and|and|CC|O 0.1|0.1|CD|O %|%|NN|O -LRB-|-lrb-|-LRB-|O w/v|w/v|NN|O -RRB-|-rrb-|-RRB-|O nitrogen|nitrogen|NN|O source|source|NN|O -LRB-|-lrb-|-LRB-|O NH4Cl|nh4cl|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O and|and|CC|O cultured|culture|VBN|O overnight|overnight|JJ|O at|at|IN|O 37|37|CD|O °C|°c|NN|O with|with|IN|O constant|constant|JJ|O agitation|agitation|NN|O .|.|.|O The|the|DT|O cultures|culture|NNS|O were|be|VBD|O diluted|dilute|VBN|O 1:100|1:100|CD|O into|into|IN|O fresh|fresh|JJ|O minimal|minimal|JJ|Med medium|medium|NN|Med and|and|CC|O then|then|RB|O cultured|culture|VBN|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp to|to|TO|O an|a|DT|O appropriate|appropriate|JJ|O cell|cell|NN|O density|density|NN|O with|with|IN|O constant|constant|JJ|O agitation|agitation|NN|O .|.|.|O For|for|IN|O the|the|DT|O anaerobic|anaerobic|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O minimal|minimal|JJ|O medium|medium|NN|O were|be|VBD|O flushed|flush|VBN|O with|with|IN|O nitrogen|nitrogen|NN|O and|and|CC|O then|then|RB|O continuously|continuously|RB|O monitored|monitor|VBN|O using|use|VBG|O a|a|DT|O polarographic-dissolved|polarographic-dissolved|JJ|O oxygen|oxygen|NN|O probe|probe|NN|O -LRB-|-lrb-|-LRB-|O Cole-Parmer|Cole-Parmer|NNP|O Instruments|Instruments|NNP|O -RRB-|-rrb-|-RRB-|O to|to|TO|O ensure|ensure|VB|O anaerobicity|anaerobicity|NN|O .|.|.|O For|for|IN|O nitrate|nitrate|JJ|O respiration|respiration|NN|O 20|20|CD|Supp mmol|mmol|NN|Supp potassium|potassium|NN|Supp nitrate|nitrate|JJ|Supp was|be|VBD|O added|add|VBN|O .|.|.|O
9 - All|All|NNP|O strains|strain|NNS|O used|use|VBN|O in|in|IN|O this|this|DT|O study|study|NN|O were|be|VBD|O E.|e.|FW|O coli|coli|FW|O K-12|k-12|NN|O MG1655|mg1655|NN|O and|and|CC|O its|its|PRP$|O derivatives|derivative|NNS|O .|.|.|O The|the|DT|O deletion|deletion|NN|O mutants|mutant|NNS|O -LRB-|-lrb-|-LRB-|O Δfnr|δfnr|NN|O and|and|CC|O ΔarcA|δarca|NN|O -RRB-|-rrb-|-RRB-|O were|be|VBD|O constructed|construct|VBN|O by|by|IN|O a|a|DT|O λ|λ|NN|O red|red|JJ|O and|and|CC|O FLP-mediated|flp-mediated|JJ|O site-specific|site-specific|JJ|O recombination|recombination|NN|O method|method|NN|O .|.|.|O Glycerol|glycerol|NN|O stocks|stock|NNS|O of|of|IN|O E.|e.|FW|O coli|coli|FW|O strains|strain|NNS|O were|be|VBD|O inoculated|inoculate|VBN|O into|into|IN|O M9|m9|NN|O minimal|minimal|JJ|O medium|medium|NN|O containing|contain|VBG|O 0.2|0.2|CD|O %|%|NN|O -LRB-|-lrb-|-LRB-|O w/v|w/v|NN|O -RRB-|-rrb-|-RRB-|O carbon|carbon|NN|O source|source|NN|O -LRB-|-lrb-|-LRB-|O glucose|glucose|NN|O -RRB-|-rrb-|-RRB-|O and|and|CC|O 0.1|0.1|CD|O %|%|NN|O -LRB-|-lrb-|-LRB-|O w/v|w/v|NN|O -RRB-|-rrb-|-RRB-|O nitrogen|nitrogen|NN|O source|source|NN|O -LRB-|-lrb-|-LRB-|O NH4Cl|nh4cl|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O and|and|CC|O cultured|culture|VBN|O overnight|overnight|JJ|O at|at|IN|O 37|37|CD|O °C|°c|NN|O with|with|IN|O constant|constant|JJ|O agitation|agitation|NN|O .|.|.|O The|the|DT|O cultures|culture|NNS|O were|be|VBD|O diluted|dilute|VBN|O 1:100|1:100|CD|O into|into|IN|O fresh|fresh|JJ|O minimal|minimal|JJ|Med medium|medium|NN|Med and|and|CC|O then|then|RB|O cultured|culture|VBN|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp to|to|TO|O an|a|DT|O appropriate|appropriate|JJ|O cell|cell|NN|O density|density|NN|O with|with|IN|O constant|constant|JJ|O agitation|agitation|NN|O .|.|.|O For|for|IN|O the|the|DT|O anaerobic|anaerobic|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O minimal|minimal|JJ|O medium|medium|NN|O were|be|VBD|O flushed|flush|VBN|O with|with|IN|O nitrogen|nitrogen|NN|Supp and|and|CC|O then|then|RB|O continuously|continuously|RB|O monitored|monitor|VBN|O using|use|VBG|O a|a|DT|O polarographic-dissolved|polarographic-dissolved|JJ|O oxygen|oxygen|NN|O probe|probe|NN|O -LRB-|-lrb-|-LRB-|O Cole-Parmer|Cole-Parmer|NNP|O Instruments|Instruments|NNP|O -RRB-|-rrb-|-RRB-|O to|to|TO|O ensure|ensure|VB|O anaerobicity|anaerobicity|NN|O .|.|.|O For|for|IN|O nitrate|nitrate|JJ|O respiration|respiration|NN|O 20|20|CD|O mmol|mmol|NN|O potassium|potassium|NN|O nitrate|nitrate|NN|O was|be|VBD|O added|add|VBN|O .|.|.|O
10 - antibody|antibody|NN|O :|:|:|O 9E10|9e10|CD|Anti Myc|myc|NN|Anti tag|tag|NN|Anti antibody|antibody|NN|O
11 - antibody|antibody|NN|O :|:|:|O anti-FLAG|anti-flag|JJ|Anti mAb|mab|NN|Anti
12 - A|a|NN|OD total|total|NN|OD of|of|IN|OD six|six|CD|OD samples|sample|NNS|OD were|be|VBD|OD analyzed|analyze|VBN|OD .|.|.|OD oxyR-8myc|oxyr-8myc|NN|OD ,|,|,|OD soxR-8myc|soxr-8myc|NN|OD ,|,|,|OD and|and|CC|OD soxS-8myc|soxs-8myc|NN|OD tagged|tag|VBD|OD cells|cell|NNS|OD were|be|VBD|OD cultured|culture|VBN|OD in|in|IN|OD M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O Then|then|RB|O cells|cell|NNS|O were|be|VBD|O treated|treat|VBN|O with|with|IN|O 250|250|CD|O uM|um|NN|O of|of|IN|O paraquat|paraquat|NN|O at|at|IN|O mid-log|mid-log|JJ|O pahse|pahse|NN|O for|for|IN|O 20|20|CD|O min|min|NN|O with|with|IN|O agitation|agitation|NN|O .|.|.|O
13 - A|a|NN|O total|total|NN|O of|of|IN|O two|two|CD|O samples|sample|NNS|O were|be|VBD|O analyzed|analyze|VBN|O .|.|.|O ompR-8myc|ompr-8myc|NN|O tagged|tag|VBD|O cells|cell|NNS|O were|be|VBD|O cultured|culture|VBN|O in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O Then|then|RB|O cells|cell|NNS|O were|be|VBD|O treated|treat|VBN|O with|with|IN|O 0.3|0.3|CD|Supp M|m|NN|Supp of|of|IN|Supp NaCl|nacl|NN|Supp at|at|IN|O mid-log|mid-log|NN|Phase pahse|pahse|NN|Phase for|for|IN|O 30|30|CD|Supp min|min|NN|Supp with|with|IN|O agitation|agitation|NN|O .|.|.|O
14 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 70|70|CD|Air %|%|NN|Air N2|n2|NN|Air ,|,|,|Air 25|25|CD|Air %|%|NN|Air O2|o2|CD|Air ,|,|,|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air or|or|CC|O anaerobically|anaerobically|RB|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O N2|n2|NN|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O .|.|.|O
15 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp to|to|TO|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD about|about|IN|OD 0.15|0.15|CD|OD in|in|IN|O 100|100|CD|O ml|ml|NN|O LB|lb|NN|Med -LRB-|-lrb-|-LRB-|O +|+|CC|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp -RRB-|-rrb-|-RRB-|O .|.|.|O
16 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O with|with|IN|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp and|and|CC|Supp 300|300|CD|Supp µL|µl|NN|Supp Cm20|cm20|NN|Supp anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
17 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O with|with|IN|O 8|8|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp and|and|CC|Supp 300|300|CD|Supp µL|µl|NN|Supp Cm20|cm20|NN|Supp anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
18 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-myc|anti-myc|JJ|Anti -LRB-|-lrb-|-LRB-|O Santa|Santa|NNP|O Cruz|Cruz|NNP|O Biotech|Biotech|NNP|O ,|,|,|O sc-28207|sc-28207|NN|O -RRB-|-rrb-|-RRB-|O
19 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-RpoB|anti-rpob|JJ|Anti -LRB-|-lrb-|-LRB-|O Neoclone|Neoclone|NNP|O ,|,|,|O WP002|wp002|NN|O -RRB-|-rrb-|-RRB-|O
20 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-rpoB|anti-rpob|JJ|Anti -LRB-|-lrb-|-LRB-|O Santa|Santa|NNP|O Cruz|Cruz|NNP|O Biotech|Biotech|NNP|O ,|,|,|O sc-56766|sc-56766|NN|O -RRB-|-rrb-|-RRB-|O
21 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O σ32|σ32|NN|Anti
22 - chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O
23 - chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O
24 - CsiR|csir|NN|O _|_|CD|O RNASeq|rnaseq|NN|Technique
25 - cultured|culture|VBN|O in|in|IN|O :|:|:|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp fructose|fructose|NN|Supp
26 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Fur-8-myc|fur-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|Supp mM|mm|NN|Supp of|of|IN|Supp FeCl2|fecl2|NN|Supp were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|O mM|mm|NN|O of|of|IN|O DPD|dpd|NN|O were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|Supp .|.|.|O For|for|IN|O the|the|DT|O rifampicin-treated|rifampicin-treated|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O rifampicin|rifampicin|NN|O dissolved|dissolve|VBN|O in|in|IN|O methanol|methanol|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O concentration|concentration|NN|O of|of|IN|O 150|150|CD|O mg/mL|mg/ml|NN|O at|at|IN|O mid-log|mid-log|JJ|O phase|phase|NN|O and|and|CC|O stirred|stir|VBD|O for|for|IN|O 20|20|CD|O min|min|NN|O .|.|.|O
27 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|WT|NNP|O ,|,|,|O and|and|CC|O Δcra|Δcra|NNP|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp ,|,|,|O fructose|fructose|NN|O and|and|CC|O acetate|acetate|NN|O .|.|.|O
28 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O ΔompR|δompr|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O Then|then|RB|O cells|cell|NNS|O were|be|VBD|O treated|treat|VBN|O with|with|IN|O 0.3|0.3|CD|Supp M|m|NN|Supp of|of|IN|Supp NaCl|nacl|NN|Supp at|at|IN|O mid-log|mid-log|JJ|O pahse|pahse|NN|O for|for|IN|O 30|30|CD|Supp min|min|NN|Supp with|with|IN|O agitation|agitation|NN|O .|.|.|O
29 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|WT|NNP|O ,|,|,|O GadE-8-myc|gade-8-myc|NN|O ,|,|,|O GadW-8-myc|gadw-8-myc|NN|O ,|,|,|O and|and|CC|O GadX-8-myc|gadx-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD
30 - E.|E.|NNP|O coli|coli|NN|O strains|strain|NNS|O harboring|harbor|VBG|O PurR-8myc|purr-8myc|NN|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O minimal|minimal|JJ|O M9|m9|NN|O medium|medium|NN|O supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|O -LRB-|-lrb-|-LRB-|O 2|2|CD|O g/L|g/l|NN|O -RRB-|-rrb-|-RRB-|O then|then|RB|O inoculated|inoculate|VBN|O into|into|IN|O 100mL|100ml|NN|O of|of|IN|O fresh|fresh|JJ|O M9|m9|NN|Med minimal|minimal|JJ|Med medium|medium|NN|Med .|.|.|O
31 - Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp .|.|.|O
32 - Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp .|.|.|O
33 - Escherichia|escherichia|FW|O coli|coli|FW|O MG1655|mg1655|NN|O K-12|k-12|NN|O dFNR|dfnr|NN|Gtype -LRB-|-lrb-|-LRB-|Gtype PK4854|pk4854|NN|Gtype -RRB-|-rrb-|-RRB-|Gtype
34 - FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O A|a|NN|O
35 - FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O Affinity|affinity|NN|O Purified|purify|VBN|O -|-|:|O B|b|NN|O
36 - FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O C|c|NN|O
37 - Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|Anaerobic|NNP|Air A|A|NNP|O
38 - Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|anaerobic|JJ|Air B|b|NN|O
39 - Fur|Fur|NNP|O with|with|IN|O Fe|Fe|NNP|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
40 - Fur|Fur|NNP|O with|with|IN|O Fe|Fe|NNP|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
41 - genotype|genotype|NN|O :|:|:|O delta|delta|NN|O -|-|:|O crp|crp|NN|Gtype Knock-out|knock-out|JJ|Gtype strain|strain|NN|Gtype
42 - genotype|genotype|NN|O :|:|:|O gadX-8myc|gadx-8myc|NN|Gtype
43 - genotype|genotype|NN|O :|:|:|O ompR-8myc|ompr-8myc|NN|Gtype
44 - genotype|genotype|NN|O :|:|:|O wildtype|wildtype|JJ|Gtype
45 - genotype/variation|genotype/variation|NN|O :|:|:|O delta|delta|NN|Gtype _|_|SYM|Gtype cra|cra|FW|Gtype
46 - genotype/variation|genotype/variation|NN|O :|:|:|O delta-gadE|delta-gade|NN|Gtype
47 - genotype/variation|genotype/variation|NN|O :|:|:|O delta-soxS|delta-soxs|NN|Gtype
48 - genotype/variation|genotype/variation|NN|O :|:|:|O -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype tonB|tonb|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype feoA|feoa|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype zupT|zupt|NN|Gtype K12|k12|NN|Gtype
49 - genotype/variation|genotype/variation|NN|O :|:|:|O lacking|lack|VBG|Gtype the|the|DT|Gtype transcription|transcription|NN|Gtype factor|factor|NN|Gtype Fur|Fur|NNP|Gtype and|and|CC|Gtype the|the|DT|Gtype small|small|JJ|Gtype RNA|rna|NN|Gtype RyhB|ryhb|NN|Gtype
50 - genotype/variation|genotype/variation|NN|O :|:|:|O lacking|lack|VBG|Gtype the|the|DT|Gtype transcription|transcription|NN|Gtype factor|factor|NN|Gtype Fur|Fur|NNP|Gtype
51 - genotype/variation|genotype/variation|NN|O :|:|:|O oxyR-8myc|oxyr-8myc|NN|Gtype -|-|:|O tagged|tag|VBN|O
52 - genotype/variation|genotype/variation|NN|O :|:|:|O Wild-type|wild-type|JJ|Gtype
53 - genotype/variation|genotype/variation|NN|O :|:|:|O harboring|harbor|VBG|O ArcA-8myc|arca-8myc|NN|Gtype
54 - genotype/variation|genotype/variation|NN|O :|:|:|O harboring|harbor|VBG|O Fnr-8myc|fnr-8myc|JJ|Gtype
55 - genoype|genoype|NN|O :|:|:|O Wild-Type|wild-type|JJ|Gtype
56 - growth|growth|NN|O condition|condition|NN|O :|:|:|O Aerobic|Aerobic|NNP|Air
57 - growth|growth|NN|O condition|condition|NN|O :|:|:|O anaerobic|anaerobic|JJ|Air
58 - growth|growth|NN|O condition|condition|NN|O :|:|:|O Anaerobic|anaerobic|JJ|Air
59 - growth|growth|NN|O condition|condition|NN|O :|:|:|O 8|8|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
60 - growth|growth|NN|O condition|condition|NN|O :|:|:|O Adenine|Adenine|NNP|Supp
61 - growth|growth|NN|O condition|condition|NN|O :|:|:|O glucose|glucose|NN|Supp
62 - growth|growth|NN|O medium|medium|NN|O :|:|:|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 1|1|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp
63 - growth|growth|NN|O phase|phase|NN|O :|:|:|O exponential|exponential|JJ|Phase
64 - growth|growth|NN|O phase|phase|NN|O :|:|:|O mid-log|mid-log|NN|Phase
65 - ∆|∆|CD|Gtype fnr|fnr|NN|Gtype -|-|:|O Anaeroibc|anaeroibc|NN|Air
66 - ∆|∆|CD|Gtype fur|fur|NN|Gtype Anaerobic|anaerobic|JJ|Air A|a|DT|O
67 - ∆|∆|CD|Gtype fur|fur|NN|Gtype Anaerobic|anaerobic|JJ|Air -LSB-|-lsb-|-LRB-|O IP|IP|NNP|O vs|vs|CC|O nput|nput|NN|O -RSB-|-rsb-|-RRB-|O
68 - Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O A|a|NN|O -|-|:|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
69 - Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O A|a|NN|O -|-|:|O 4|4|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
70 - ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Anaerobic|anaerobic|JJ|Air
71 - Wild-type|wild-type|JJ|Gtype Aerobic|aerobic|JJ|Air A|a|DT|O
72 - Wild-type|wild-type|JJ|Gtype Anaerobic|anaerobic|JJ|Air A|a|DT|O
73 - Wild-type|wild-type|JJ|Gtype Anaerobic|anaerobic|JJ|Air B|b|NN|O
74 - Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 10|10|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
75 - Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 5|5|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
76 - WT|wt|JJ|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
77 - WT|wt|JJ|Gtype acetate|acetate|NN|Supp 2|2|CD|O
78 - WT|wt|JJ|Gtype NaCl|nacl|NN|Supp 1|1|CD|O
79 - WT|wt|JJ|Gtype PQ|pq|NN|Supp 1|1|CD|O
80 - WT|wt|JJ|Gtype _|_|NN|O ChIPSeq|chipseq|NN|Technique _|_|NN|O 1|1|CD|O
81 - WT|wt|JJ|Gtype _|_|NN|O ChIPSeq|chipseq|NN|Technique _|_|NN|O 2|2|CD|O
82 - Δcra|δcra|NN|Gtype glucose|glucose|NN|Supp 1|1|CD|O
83 - Δfur|δfur|NN|Gtype with|with|IN|O DPD|dpd|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
84 - ΔgadE|δgade|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
85 - ΔgadE|δgade|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
86 - ΔgadX|δgadx|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
87 - ΔompR|δompr|NN|Gtype NaCl|nacl|NN|Supp 1|1|CD|O
88 - ΔoxyR|δoxyr|NN|Gtype PQ|pq|NN|Supp 1|1|CD|O
89 - ΔsoxR|δsoxr|NN|Gtype PQ|pq|NN|Supp 2|2|CD|O
90 - HNS|hns|SYM|O -|-|:|O Aerobic|aerobic|JJ|Air A|a|DT|O
91 - HNS|hns|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air A|a|DT|O
92 - IHF|ihf|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air B|b|NN|O
93 - medium|medium|NN|O :|:|:|O M63|m63|NN|Med
94 - LB|lb|NN|Med 2.0|2.0|CD|O B1|b1|NN|O TEX|tex|NN|O neg|neg|NN|O L1|l1|NN|O GA|ga|NN|O
95 - LB|lb|NN|Med 2.0|2.0|CD|O B1|b1|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O GA|ga|NN|O
96 - LB|lb|NN|Med 2.0|2.0|CD|O B1|b1|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L2|l2|NN|O HS2|hs2|NN|O
97 - LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS2|hs2|NN|O
98 - M63|m63|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS1|hs1|NN|O
99 - M63|m63|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS2|hs2|NN|O
100 - OmpR|ompr|NN|O NaCl|nacl|NN|Supp 1|1|CD|O
101 - Escherichia|escherichia|FW|O coli|coli|FW|O str|str|NN|O .|.|.|O K-12|k-12|NN|Strain substr|substr|NN|O .|.|.|O MG1655star|mg1655star|NN|Substrain
102 - RpoB|rpob|NN|O ∆|∆|CD|Gtype cra|cra|NN|Gtype 1|1|CD|O
103 - RpoB|rpob|NN|O with|with|IN|O DPD|dpd|NN|Supp and|and|CC|O rifampicin|rifampicin|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
104 - RpoB|rpob|NN|O with|with|IN|O Fe|Fe|NNP|Supp and|and|CC|O rifampicin|rifampicin|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
105 - SeqA|seqa|NN|O new|new|JJ|O deltaSeqA|deltaseqa|NN|Gtype
106 - SoxR|soxr|NN|O PQ|pq|NN|Supp 2|2|CD|O
107 - SoxS|soxs|NN|O PQ|pq|NN|Supp 2|2|CD|O
108 - ß|ß|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O B|b|NN|O
109 - strain|strain|NN|O :|:|:|O PK4854|pk4854|NN|Gtype
110 - strain|strain|NN|O :|:|:|O PK8263|pk8263|NN|Gtype
111 - strain|strain|NN|O :|:|:|O MG1655|mg1655|NN|O K-12|k-12|NN|O WT|wt|JJ|Gtype
112 - Sodium|sodium|NN|Supp phosphate|phosphate|NN|Supp -LRB-|-lrb-|-LRB-|Supp 1/100|1/100|CD|Supp vol|vol|NN|Supp .|.|.|Supp of|of|IN|Supp 1M|1m|NN|Supp ,|,|,|Supp pH|ph|NN|Supp 7.6|7.6|CD|Supp ;|;|:|Supp 10|10|CD|Supp mM|mm|NN|Supp final|final|JJ|Supp -RRB-|-rrb-|-RRB-|Supp was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|NN|Phase cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O aerobic|aerobic|JJ|O or|or|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O aerobic|aerobic|JJ|O or|or|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 3500|3500|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
113 - ChIP-exo|chip-exo|NN|Technique GadX|gadx|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
114 - ChIP-exo|chip-exo|NN|Technique GadX|gadx|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
115 - To|to|TO|O harvest|harvest|VB|O total|total|JJ|O RNA|rna|NN|O samples|sample|NNS|O ,|,|,|O overnight|overnight|JJ|O cultures|culture|NNS|O of|of|IN|O wild|wild|JJ|Gtype type|type|NN|Gtype MG1655|mg1655|NN|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O at|at|IN|O 37|37|CD|O ˚C|˚c|NN|O were|be|VBD|O diluted|dilute|VBN|O back|back|RB|O 1:500|1:500|CD|O in|in|IN|O either|either|CC|O fresh|fresh|JJ|O LB|lb|NN|O or|or|CC|O M63|m63|NN|O minimal|minimal|JJ|O glucose|glucose|NN|O medium|medium|NN|O and|and|CC|O allowed|allow|VBN|O to|to|TO|O grow|grow|VB|O until|until|IN|O the|the|DT|O cultures|culture|NNS|O reached|reach|VBD|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O and|and|CC|O 2.0|2.0|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O and|and|CC|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O M63|m63|NN|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 25|25|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O Ethanol|ethanol|NN|O ,|,|,|O 5|5|CD|O %|%|NN|O acid|acid|NN|O phenol|phenol|NN|O -RRB-|-rrb-|-RRB-|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|OD of|of|IN|OD 2.0|2.0|CD|OD a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 1|1|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O .|.|.|O
116 - treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med M9|m9|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O without|without|IN|O 10|10|CD|Supp mM|mm|NN|Supp leucine|leucine|NN|Supp .|.|.|O
117 - treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med M9|m9|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O without|without|IN|O 20|20|CD|Supp mg/L|mg/l|NN|Supp tryptophan|tryptophan|NN|Supp .|.|.|O
118 - TrpR|trpr|NN|O _|_|CD|O glucose|glucose|NN|Supp
119 - TrpR|trpr|NN|O _|_|CD|O Trp|Trp|NNP|Supp
120 - σ32|σ32|NN|O 30|30|CD|Temp °C|°c|NN|Temp rep2|rep2|NN|O
121 - σ32|σ32|NN|O 30|30|CD|Temp °C|°c|NN|Temp short|short|JJ|O RNase|rnase|NN|O
122 - σ32|σ32|NN|O 43|43|CD|Temp °C|°c|NN|Temp rep2|rep2|NN|O
...\ No newline at end of file ...\ No newline at end of file
1 + Cra|Cra|NNP|O fructose|fructose|NN|Supp 2|2|CD|O
2 + LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L2|l2|NN|O HS2|hs2|NN|O
3 + genotype|genotype|NN|O :|:|:|O ompR-8myc|ompr-8myc|NN|Gtype
4 + chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O
5 + affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
6 + chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O
7 + genotype/variation|genotype/variation|NN|O :|:|:|O fur-8myc|fur-8myc|JJ|Gtype
8 + Cra|Cra|NNP|O fructose|fructose|NN|Supp 1|1|CD|O
9 + genotype|genotype|NN|O :|:|:|O WT|WT|NNP|Gtype
10 + growth|growth|NN|O phase|phase|NN|O :|:|:|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD =|=|JJ|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O
11 + chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O
12 + RpoB|rpob|NN|O ∆|∆|CD|Gtype cra|cra|NN|Gtype 2|2|CD|O
13 + RpoB|rpob|NN|O with|with|IN|O Fe|Fe|NNP|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
14 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O ΔompR|δompr|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O Then|then|RB|O cells|cell|NNS|O were|be|VBD|O treated|treat|VBN|O with|with|IN|O 0.3|0.3|CD|Supp M|m|NN|Supp of|of|IN|Supp NaCl|nacl|NN|Supp at|at|IN|O mid-log|mid-log|JJ|O pahse|pahse|NN|O for|for|IN|O 30|30|CD|Supp min|min|NN|Supp with|with|IN|O agitation|agitation|NN|O .|.|.|O
15 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp to|to|TO|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD about|about|IN|OD 0.15|0.15|CD|OD in|in|IN|O 50|50|CD|O ml|ml|NN|O LB|lb|NN|Med -LRB-|-lrb-|-LRB-|O +|+|CC|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp -RRB-|-rrb-|-RRB-|O before|before|IN|O crosslinking|crosslink|VBG|O .|.|.|O
16 + genotype/variation|genotype/variation|NN|O :|:|:|O cra-8myc-tagged|cra-8myc-tagged|JJ|Gtype
17 + Δcra|δcra|NN|Gtype fructose|fructose|NN|Supp 1|1|CD|O
18 + Δcra|δcra|NN|Gtype fructose|fructose|NN|Supp 2|2|CD|O
19 + MG1655|mg1655|NN|Substrain PhtpG|phtpg|NN|Gtype :|:|:|Gtype :|:|:|Gtype lacZ|lacz|NN|Gtype delta|delta|NN|Gtype lacX74/pTG2|lacx74/ptg2|NN|Gtype -LRB-|-lrb-|-LRB-|Gtype vector|vector|NN|Gtype carrying|carrying|NN|Gtype inducible|inducible|JJ|Gtype Ptrc|ptrc|NN|Gtype :|:|:|Gtype :|:|:|Gtype rpoH|rpoh|NN|Gtype -RRB-|-rrb-|-RRB-|Gtype
20 + Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O A|a|NN|O -|-|:|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
21 + Escherichia|escherichia|FW|O coli|coli|FW|O MG1655|mg1655|NN|O K-12|k-12|NN|O WT|wt|NN|O and|and|CC|O ∆|∆|NN|O fnr|fnr|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O O.D.|o.d.|NN|OD 600nm|600nm|JJ|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O anerobically|anerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air ,|,|,|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O MOPS|MOPS|NNP|Med +|+|CC|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp media|media|NNS|O -LRB-|-lrb-|-LRB-|O Ref|ref|NN|O -RRB-|-rrb-|-RRB-|O .|.|.|O
22 + Fur|Fur|NNP|O with|with|IN|O Fe|Fe|NNP|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
23 + agent|agent|NN|O :|:|:|O Fe|Fe|NNP|Supp
24 + SoxS|soxs|NN|O PQ|pq|NN|Supp 1|1|CD|O
25 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-myc|anti-myc|JJ|Anti
26 + Fur|Fur|NNP|O with|with|IN|O DPD|dpd|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
27 + Escherichia|escherichia|FW|O coli|coli|FW|O str|str|NN|O .|.|.|O K-12|k-12|NN|Strain substr|substr|NN|O .|.|.|O MG1655|mg1655|NN|Substrain
28 + σ32|σ32|NN|O 43|43|CD|Temp °C|°c|NN|Temp short|short|JJ|O RNase|rnase|NN|O
29 + CsiR|csir|NN|O _|_|CD|O RNASeq|rnaseq|NN|Technique
30 + ChIP-exo|chip-exo|NN|O reads|read|VBZ|O were|be|VBD|O aligned|align|VBN|O to|to|TO|O the|the|DT|O NC|nc|NN|Gversion _|_|CD|Gversion 000913|000913|CD|Gversion genome|genome|NN|O reference|reference|NN|O sequence|sequence|NN|O using|use|VBG|O using|use|VBG|O bowtie|bowtie|NN|O v1|v1|NN|O .0.0|.0.0|CD|O with|with|IN|O parameters|parameter|NNS|O -|-|:|O S|s|NN|O
31 + Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp .|.|.|O
32 + WT|wt|JJ|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
33 + ∆|∆|CD|Gtype fur|fur|NN|Gtype ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Anaerobic|anaerobic|JJ|Air B|b|NN|O
34 + WT|wt|JJ|Gtype _|_|NN|O ChIPSeq|chipseq|NN|Technique _|_|NN|O 2|2|CD|O
35 + LB|lb|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS2|hs2|NN|O
36 + pT7|pt7|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique _|_|NN|O 1|1|CD|O
37 + growth|growth|NN|O phase|phase|NN|O :|:|:|O exponential|exponential|JJ|Phase
38 + All|All|NNP|O strains|strain|NNS|O used|use|VBN|O in|in|IN|O this|this|DT|O study|study|NN|O were|be|VBD|O E.|e.|FW|O coli|coli|FW|O K-12|k-12|NN|O MG1655|mg1655|NN|O and|and|CC|O its|its|PRP$|O derivatives|derivative|NNS|O .|.|.|O The|the|DT|O deletion|deletion|NN|O mutants|mutant|NNS|O -LRB-|-lrb-|-LRB-|O Δfnr|δfnr|NN|O and|and|CC|O ΔarcA|δarca|NN|O -RRB-|-rrb-|-RRB-|O were|be|VBD|O constructed|construct|VBN|O by|by|IN|O a|a|DT|O λ|λ|NN|O red|red|JJ|O and|and|CC|O FLP-mediated|flp-mediated|JJ|O site-specific|site-specific|JJ|O recombination|recombination|NN|O method|method|NN|O .|.|.|O Glycerol|glycerol|NN|O stocks|stock|NNS|O of|of|IN|O E.|e.|FW|O coli|coli|FW|O strains|strain|NNS|O were|be|VBD|O inoculated|inoculate|VBN|O into|into|IN|O M9|m9|NN|O minimal|minimal|JJ|O medium|medium|NN|O containing|contain|VBG|O 0.2|0.2|CD|O %|%|NN|O -LRB-|-lrb-|-LRB-|O w/v|w/v|NN|O -RRB-|-rrb-|-RRB-|O carbon|carbon|NN|O source|source|NN|O -LRB-|-lrb-|-LRB-|O glucose|glucose|NN|O -RRB-|-rrb-|-RRB-|O and|and|CC|O 0.1|0.1|CD|O %|%|NN|O -LRB-|-lrb-|-LRB-|O w/v|w/v|NN|O -RRB-|-rrb-|-RRB-|O nitrogen|nitrogen|NN|O source|source|NN|O -LRB-|-lrb-|-LRB-|O NH4Cl|nh4cl|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O and|and|CC|O cultured|culture|VBN|O overnight|overnight|JJ|O at|at|IN|O 37|37|CD|O °C|°c|NN|O with|with|IN|O constant|constant|JJ|O agitation|agitation|NN|O .|.|.|O The|the|DT|O cultures|culture|NNS|O were|be|VBD|O diluted|dilute|VBN|O 1:100|1:100|CD|O into|into|IN|O fresh|fresh|JJ|O minimal|minimal|JJ|Med medium|medium|NN|Med and|and|CC|O then|then|RB|O cultured|culture|VBN|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp to|to|TO|O an|a|DT|O appropriate|appropriate|JJ|O cell|cell|NN|O density|density|NN|O with|with|IN|O constant|constant|JJ|O agitation|agitation|NN|O .|.|.|O For|for|IN|O the|the|DT|O anaerobic|anaerobic|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O minimal|minimal|JJ|O medium|medium|NN|O were|be|VBD|O flushed|flush|VBN|O with|with|IN|O nitrogen|nitrogen|NN|Supp and|and|CC|O then|then|RB|O continuously|continuously|RB|O monitored|monitor|VBN|O using|use|VBG|O a|a|DT|O polarographic-dissolved|polarographic-dissolved|JJ|O oxygen|oxygen|NN|O probe|probe|NN|O -LRB-|-lrb-|-LRB-|O Cole-Parmer|Cole-Parmer|NNP|O Instruments|Instruments|NNP|O -RRB-|-rrb-|-RRB-|O to|to|TO|O ensure|ensure|VB|O anaerobicity|anaerobicity|NN|O .|.|.|O For|for|IN|O nitrate|nitrate|JJ|O respiration|respiration|NN|O 20|20|CD|O mmol|mmol|NN|O potassium|potassium|NN|O nitrate|nitrate|NN|O was|be|VBD|O added|add|VBN|O .|.|.|O
39 + MG1655|mg1655|NN|Substrain PhtpG|phtpg|NN|Gtype :|:|:|Gtype :|:|:|Gtype lacZ|lacz|NN|Gtype delta|delta|NN|Gtype lacX74/ptrc99A|lacx74/ptrc99a|NN|Gtype -LRB-|-lrb-|-LRB-|Gtype control|control|NN|Gtype vector|vector|NN|Gtype -RRB-|-rrb-|-RRB-|Gtype
40 + affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
41 + WT|wt|JJ|Gtype acetate|acetate|NN|Supp 1|1|CD|O
42 + SoxR|soxr|NN|O PQ|pq|NN|Supp 1|1|CD|O
43 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O σ32|σ32|NN|Anti
44 + HNS|hns|SYM|O -|-|:|O Aerobic|aerobic|JJ|Air B|b|NN|O
45 + Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 0|0|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
46 + ∆|∆|CD|Gtype fur|fur|NN|Gtype Anaerobic|anaerobic|JJ|Air -LSB-|-lsb-|-LRB-|O IP|IP|NNP|O vs|vs|CC|O nput|nput|NN|O -RSB-|-rsb-|-RRB-|O
47 + ΔgadW|δgadw|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
48 + affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
49 + cultured|culture|VBN|O in|in|IN|O :|:|:|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp fructose|fructose|NN|Supp
50 + chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O
51 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O ,|,|,|O gadE|gade|NN|O ,|,|,|O gadW|gadw|NN|O and|and|CC|O gadX|gadx|NN|O mutant|mutant|JJ|O cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|O phase|phase|NN|O -LRB-|-lrb-|-LRB-|O OD600|od600|NN|O =|=|JJ|O 0.3|0.3|CD|O -RRB-|-rrb-|-RRB-|O aerobically|aerobically|RB|Air -LRB-|-lrb-|-LRB-|O 250|250|CD|Agit rpm|rpm|NN|Agit -RRB-|-rrb-|-RRB-|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp at|at|IN|O pH|ph|NN|pH 5.5|5.5|CD|pH .|.|.|O
52 + At|at|IN|O OD450|od450|NN|OD =|=|JJ|OD 0.3|0.3|CD|OD ,|,|,|O cultures|culture|NNS|O induced|induce|VBN|O with|with|IN|O 1|1|CD|Supp mM|mm|NN|Supp IPTG|iptg|NN|Supp .|.|.|O Cells|cell|NNS|O harvested|harvest|VBN|O 5|5|CD|O min|min|NN|O after|after|IN|O induction|induction|NN|O
53 + acetate|acetate|NN|Supp
54 + Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O NC|nc|NN|Gversion _|_|CD|Gversion 000913|000913|CD|Gversion
55 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O 65|65|CD|O ml|ml|NN|O LB|lb|NN|O medium|medium|NN|O at|at|IN|O 30|30|CD|O °C|°c|NN|O to|to|TO|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD about|about|IN|OD 0.3|0.3|CD|OD .|.|.|O Subsequently|subsequently|RB|O 30|30|CD|O ml|ml|NN|O of|of|IN|O culture|culture|NN|O were|be|VBD|O transformed|transform|VBN|O to|to|TO|O a|a|DT|O pre|pre|JJ|O warmed|warm|VBN|O flask|flask|NN|Vess at|at|IN|O 43|43|CD|Temp °C|°c|NN|Temp and|and|CC|O the|the|DT|O remainder|remainder|NN|O kept|keep|VBD|O at|at|IN|O 30|30|CD|Temp °C|°c|NN|Temp -LRB-|-lrb-|-LRB-|Temp see|see|VB|Temp control|control|JJ|Temp sample|sample|NN|Temp -RRB-|-rrb-|-RRB-|Temp .|.|.|O
56 + At|at|IN|O OD450|od450|NN|OD =|=|JJ|OD 0.3|0.3|CD|OD ,|,|,|O cultures|culture|NNS|O induced|induce|VBN|O with|with|IN|O 1|1|CD|Supp mM|mm|NN|Supp IPTG|iptg|NN|Supp .|.|.|O Cells|cell|NNS|O harvested|harvest|VBN|O 20|20|CD|O min|min|NN|O after|after|IN|O induction|induction|NN|O
57 + Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp .|.|.|O
58 + WT|wt|JJ|Gtype NaCl|nacl|NN|Supp 2|2|CD|O
59 + Cra|cra|NN|O acetate|acetate|NN|Supp 1|1|CD|O
60 + ∆|∆|CD|Gtype fnr|fnr|NN|Gtype -|-|:|O Anaeroibc|anaeroibc|NN|Air
61 + ChIP-exo|chip-exo|NN|O reads|read|VBZ|O were|be|VBD|O aligned|align|VBN|O to|to|TO|O the|the|DT|O NC|nc|NN|Gversion _|_|CD|Gversion 000913|000913|CD|Gversion genome|genome|NN|O reference|reference|NN|O sequence|sequence|NN|O using|use|VBG|O using|use|VBG|O bowtie|bowtie|NN|O v1|v1|NN|O .0.0|.0.0|CD|O with|with|IN|O parameters|parameter|NNS|O -|-|:|O S|s|NN|O
62 + growth|growth|NN|O condition|condition|NN|O :|:|:|O 8|8|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
63 + Sodium|sodium|NN|Supp phosphate|phosphate|NN|Supp -LRB-|-lrb-|-LRB-|Supp 1/100|1/100|CD|Supp vol|vol|NN|Supp .|.|.|Supp of|of|IN|Supp 1M|1m|NN|Supp ,|,|,|Supp pH|ph|NN|Supp 7.6|7.6|CD|Supp ;|;|:|Supp 10|10|CD|Supp mM|mm|NN|Supp final|final|JJ|Supp -RRB-|-rrb-|-RRB-|Supp was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|NN|Phase cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O aerobic|aerobic|JJ|O or|or|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O aerobic|aerobic|JJ|O or|or|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 3500|3500|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
64 + WT|wt|JJ|Gtype _|_|NN|O RNASeq|rnaseq|NN|Technique
65 + RpoB|rpob|NN|O with|with|IN|O DPD|dpd|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
66 + growth|growth|NN|O condition|condition|NN|O :|:|:|O anaerobic|anaerobic|JJ|Air
67 + NsrR|nsrr|NN|Gtype _|_|CD|Gtype Flagtag|flagtag|NN|Gtype _|_|CD|O rep3|rep3|NN|O
68 + IHF|ihf|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air B|b|NN|O
69 + Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Aerobic|Aerobic|NNP|Air C|C|NNP|O
70 + Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Aerobic|Aerobic|NNP|Air B|b|NN|O
71 + RpoB|rpob|NN|O WT|wt|JJ|Gtype 2|2|CD|O
72 + LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS1|hs1|NN|O
73 + genotype|genotype|NN|O :|:|:|O Wildtype|wildtype|NN|Gtype
74 + LB|lb|NN|Med 2.0|2.0|CD|O B1|b1|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L2|l2|NN|O HS2|hs2|NN|O
75 + cultured|culture|VBN|O in|in|IN|O :|:|:|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp
76 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O none|none|NN|Anti
77 + genotype|genotype|NN|O :|:|:|O TrpR-8myc|trpr-8myc|NN|Gtype
78 + affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
79 + WT|wt|JJ|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
80 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-RpoB|anti-rpob|JJ|Anti -LRB-|-lrb-|-LRB-|O Neoclone|Neoclone|NNP|O ,|,|,|O WP002|wp002|NN|O -RRB-|-rrb-|-RRB-|O
81 + OxyR|oxyr|NN|O PQ|pq|NN|Supp 1|1|CD|O
82 + chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O
83 + Sequenced|sequence|VBN|O reads|read|VBZ|O were|be|VBD|O mapped|map|VBN|O onto|onto|IN|O NC|nc|NN|Gversion _|_|CD|Gversion 000913|000913|CD|Gversion reference|reference|NN|O genome|genome|NN|O sequence|sequence|NN|O using|use|VBG|O bowtie|bowtie|NN|O v1|v1|NN|O .0.0|.0.0|CD|O with|with|IN|O parameters|parameter|NNS|O -|-|:|O X|x|NN|O 1000|1000|CD|O -|-|:|O n|n|NN|O 2|2|CD|O -3|-3|CD|O 3|3|LS|O -|-|:|O S|s|NN|O
84 + genotype/variation|genotype/variation|NN|O :|:|:|O lacking|lack|VBG|Gtype the|the|DT|Gtype transcription|transcription|NN|Gtype factor|factor|NN|Gtype Fur|Fur|NNP|Gtype
85 + ΔsoxR|δsoxr|NN|Gtype PQ|pq|NN|Supp 1|1|CD|O
86 + NsrR|nsrr|NN|Gtype _|_|CD|Gtype Flagtag|flagtag|NN|Gtype _|_|CD|O rep1|rep1|NN|O
87 + genotype/variation|genotype/variation|NN|O :|:|:|O harboring|harbor|VBG|O ArcA-8myc|arca-8myc|NN|Gtype
88 + genotype|genotype|NN|O :|:|:|O delta|delta|NN|O -|-|:|O cra|cra|NN|Gtype Knock-out|knock-out|JJ|Gtype strain|strain|NN|Gtype
89 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O RNA|rna|NN|Anti polymerase|polymerase|NN|Anti subunit|subunit|NN|Anti β|β|NN|Anti
90 + LB|lb|NN|Med 2.0|2.0|CD|O B1|b1|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O GA|ga|NN|O
91 + OmpR|ompr|NN|O NaCl|nacl|NN|Supp 1|1|CD|O
92 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|O -LRB-|-lrb-|-LRB-|O 70|70|CD|O %|%|NN|O N2|n2|NN|O ,|,|,|O 25|25|CD|O %|%|NN|O O2|o2|CD|O ,|,|,|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O or|or|CC|O anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O .|.|.|O
93 + ∆|∆|CD|Gtype fur|fur|NN|Gtype ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Anaerobic|anaerobic|JJ|Air A|a|DT|O
94 + At|at|IN|O OD450|od450|NN|OD =|=|JJ|OD 0.3|0.3|CD|OD ,|,|,|O cultures|culture|NNS|O induced|induce|VBN|O with|with|IN|O 1|1|CD|Supp mM|mm|NN|Supp IPTG|iptg|NN|Supp .|.|.|O Cells|cell|NNS|O harvested|harvest|VBD|O 0|0|CD|O min|min|NN|O after|after|IN|O induction|induction|NN|O
95 + M9|m9|NN|Med minimal|minimal|JJ|Med complete|complete|JJ|Med media|media|NNS|Med ,|,|,|O cultures|culture|NNS|O grown|grow|VBN|O aerobically|aerobically|RB|Air at|at|IN|O 30|30|CD|Temp degrees|degree|NNS|Temp C|c|NN|Temp in|in|IN|O a|a|DT|O gyratory|gyratory|JJ|Agit water|water|NN|Agit bath|bath|NN|Agit shaking|shake|VBG|Agit at|at|IN|Agit 240|240|CD|Agit rpm|rpm|NN|Agit
96 + Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp .|.|.|O
97 + LB|lb|NN|Med 0.4|0.4|CD|O B1|b1|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O GA|ga|NN|O
98 + culture|culture|NN|O condition|condition|NN|O :|:|:|O anaerobic|anaerobic|JJ|Air fermentive|fermentive|JJ|O condition|condition|NN|O
99 + genotype/variation|genotype/variation|NN|O :|:|:|O oxyR-8myc|oxyr-8myc|NN|Gtype -|-|:|O tagged|tag|VBN|O
100 + treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med W2|w2|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 1g/L|1g/l|NN|Supp arginine|arginine|NN|Supp .|.|.|O
101 + Wild-type|wild-type|JJ|Gtype Anaerobic|anaerobic|JJ|Air B|b|NN|O
102 + WT|wt|JJ|Gtype with|with|IN|O DPD|dpd|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
103 + ß|ß|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O B|b|NN|O
104 + ArgR|argr|NN|O _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|NN|O 1|1|CD|O
105 + Escherichia|escherichia|FW|O coli|coli|FW|O MG1655|mg1655|NN|O K-12|k-12|NN|O dFNR|dfnr|NN|Gtype -LRB-|-lrb-|-LRB-|Gtype PK4854|pk4854|NN|Gtype -RRB-|-rrb-|-RRB-|Gtype
106 + ∆|∆|CD|Gtype fur|fur|NN|Gtype ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Aerobic|aerobic|JJ|Air B|b|NN|O
107 + affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
108 + affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
109 + genotype|genotype|NN|O :|:|:|O gadW-8myc|gadw-8myc|NN|Gtype
110 + SeqA|seqa|NN|O old|old|JJ|O deltaSeqA|deltaseqa|NN|Gtype
111 + agent|agent|NN|O :|:|:|O DPD|dpd|NN|Supp
112 + Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O A|a|NN|O -|-|:|O 4|4|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
113 + genotype/variation|genotype/variation|NN|O :|:|:|O delta-gadE|delta-gade|NN|Gtype
114 + agent|agent|NN|O :|:|:|O Fe|Fe|NNP|Supp and|and|CC|Supp rifampicin|rifampicin|NN|Supp
115 + ChIP-Seq|chip-seq|NN|Technique
116 + CsiR|csir|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique
117 + genoype|genoype|NN|O :|:|:|O dFNR|dfnr|NN|Gtype
118 + genotype/variation|genotype/variation|NN|O :|:|:|O wild|wild|JJ|Gtype type|type|NN|Gtype
119 + Resulting|result|VBG|O reads|read|VBZ|O were|be|VBD|O aligned|align|VBN|O to|to|TO|O the|the|DT|O published|publish|VBN|O E.|e.|FW|O coli|coli|FW|O K-12|k-12|NN|O MG1655|mg1655|NN|O genome|genome|NN|O -LRB-|-lrb-|-LRB-|O U00096|u00096|NN|Gversion .2|.2|NN|Gversion -RRB-|-rrb-|-RRB-|O using|use|VBG|O the|the|DT|O software|software|NN|O package|package|NN|O SOAP|soap|NN|O -LRB-|-lrb-|-LRB-|O Li|Li|NNP|O et|et|FW|O al|al|FW|O ,|,|,|O 2009|2009|CD|O -RRB-|-rrb-|-RRB-|O ,|,|,|O allowing|allow|VBG|O no|no|RB|O more|more|JJR|O than|than|IN|O two|two|CD|O mismatches|mismatch|NNS|O -LRB-|-lrb-|-LRB-|O Supplemental|Supplemental|NNP|O File|File|NNP|O -RRB-|-rrb-|-RRB-|O .|.|.|O Reads|read|VBZ|O aligning|align|VBG|O to|to|TO|O repeated|repeated|JJ|O elements|element|NNS|O in|in|IN|O the|the|DT|O genome|genome|NN|O -LRB-|-lrb-|-LRB-|O e.g.|e.g.|FW|O rRNA|rrna|NN|O -RRB-|-rrb-|-RRB-|O were|be|VBD|O removed|remove|VBN|O from|from|IN|O analysis|analysis|NN|O .|.|.|O For|for|IN|O reads|read|VBZ|O that|that|IN|O had|have|VBD|O no|no|DT|O mapping|mapping|NN|O locations|location|NNS|O for|for|IN|O the|the|DT|O first|first|JJ|O 36|36|CD|O bp|bp|NN|O ,|,|,|O the|the|DT|O 3-30|3-30|CD|O bp|bp|NN|O subsequences|subsequence|NNS|O were|be|VBD|O used|use|VBN|O in|in|IN|O the|the|DT|O subsequent|subsequent|JJ|O mapping|mapping|NN|O to|to|TO|O the|the|DT|O reference|reference|NN|O genome|genome|NN|O .|.|.|O Reads|read|NNS|O that|that|WDT|O had|have|VBD|O unique|unique|JJ|O mapping|mapping|NN|O locations|location|NNS|O and|and|CC|O did|do|VBD|O not|not|RB|O match|match|VB|O annotated|annotated|JJ|O rRNA|rrna|NN|O genes|gene|NNS|O were|be|VBD|O used|use|VBN|O for|for|IN|O further|further|JJ|O analysis|analysis|NN|O .|.|.|O For|for|IN|O each|each|DT|O gene|gene|NN|O ,|,|,|O the|the|DT|O tag|tag|NN|O density|density|NN|O was|be|VBD|O estimated|estimate|VBN|O as|as|IN|O the|the|DT|O number|number|NN|O of|of|IN|O aligned|align|VBN|O sequencing|sequencing|NN|O tags|tag|NNS|O divided|divide|VBN|O by|by|IN|O gene|gene|NN|O size|size|NN|O in|in|IN|O kb|kb|NN|O .|.|.|O Per-gene|per-gene|JJ|O tag|tag|NN|O density|density|NN|O was|be|VBD|O normalized|normalize|VBN|O using|use|VBG|O quantile|quantile|JJ|O normalization|normalization|NN|O -LRB-|-lrb-|-LRB-|O Supplemental|Supplemental|NNP|O Files|Files|NNP|O -RRB-|-rrb-|-RRB-|O .|.|.|O The|the|DT|O tag|tag|NN|O density|density|NN|O data|datum|NNS|O were|be|VBD|O analyzed|analyze|VBN|O for|for|IN|O statistically|statistically|RB|O significant|significant|JJ|O differential|differential|JJ|O expression|expression|NN|O using|use|VBG|O BaySeq|BaySeq|NNP|O -LRB-|-lrb-|-LRB-|O Hardcastle|Hardcastle|NNP|O &|&|CC|O Kelly|Kelly|NNP|O ,|,|,|O 2010|2010|CD|O -RRB-|-rrb-|-RRB-|O with|with|IN|O a|a|DT|O FDR|FDR|NNP|O of|of|IN|O 0.01|0.01|CD|O ,|,|,|O and|and|CC|O genes|gene|NNS|O were|be|VBD|O organized|organize|VBN|O into|into|IN|O operons|operon|NNS|O using|use|VBG|O data|datum|NNS|O from|from|IN|O EcoCyc|EcoCyc|NNP|O -LRB-|-lrb-|-LRB-|O Keseler|Keseler|NNP|O et|et|FW|O al|al|FW|O ,|,|,|O 2011|2011|CD|O -RRB-|-rrb-|-RRB-|O .|.|.|O
120 + affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
121 + genotype|genotype|NN|O :|:|:|O wildtype|wildtype|JJ|Gtype
122 + ∆|∆|CD|Gtype fnr|fnr|NN|Gtype ChIP|chip|NN|O DNA|dna|NN|O from|from|IN|O PK4854|pk4854|NN|Gtype
123 + ∆|∆|CD|Gtype fur|fur|NN|Gtype ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Aerobic|aerobic|JJ|Air A|a|DT|O
124 + Ecoli|ecolus|NNS|O _|_|VBP|O dFNR|dfnr|NN|Gtype _|_|CD|O rep2|rep2|NN|O _|_|CD|O anaerobic|anaerobic|JJ|Air
125 + M63|m63|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS1|hs1|NN|O
126 + growth|growth|NN|O phase|phase|NN|O :|:|:|O mid-log|mid-log|NN|Phase
127 + Cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 10|10|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp
128 + Wild-type|wild-type|JJ|Gtype Aerobic|aerobic|JJ|Air A|a|DT|O
129 + Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O C|c|NN|O -|-|:|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
130 + Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|Anaerobic|NNP|Air ,|,|,|O Iron|Iron|NNP|Supp Deficient|Deficient|NNP|O A|A|NNP|O
131 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
132 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O with|with|IN|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp and|and|CC|Supp 300|300|CD|Supp µL|µl|NN|Supp Cm20|cm20|NN|Supp anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
133 + Aerobic|Aerobic|NNP|Air cultures|culture|NNS|O
134 + antibody|antibody|NN|O :|:|:|O anti-FLAG|anti-flag|JJ|Anti mAb|mab|NN|Anti
135 + RpoB|rpob|NN|O with|with|IN|O Fe|Fe|NNP|Supp and|and|CC|O rifampicin|rifampicin|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
136 + M63|m63|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS1|hs1|NN|O
137 + LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L2|l2|NN|O HS2|hs2|NN|O
138 + Δfur|δfur|NN|Gtype with|with|IN|O Fe|Fe|NNP|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
139 + Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O ASM584v2|asm584v2|NN|Gversion
140 + Nac|Nac|NNP|O _|_|NNP|O ChIPSeq|ChIPSeq|NNP|Technique
141 + Δfur|δfur|NN|Gtype with|with|IN|O Fe|Fe|NNP|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
142 + Δcra|δcra|NN|Gtype glucose|glucose|NN|Supp 2|2|CD|O
143 + ChIP-exo|ChIP-exo|NNP|Technique GadE|gade|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
144 + genotype/variation|genotype/variation|NN|O :|:|:|O soxS-8myc|soxs-8myc|NN|Gtype -|-|:|O tagged|tag|VBN|O
145 + Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O Escherichia|escherichia|FW|O coli|coli|FW|O MG1655|mg1655|NN|O K-12|k-12|NN|O genome|genome|NN|O version|version|NN|O U00096|u00096|NN|Gversion .2|.2|NN|Gversion
146 + FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O B|b|NN|O
147 + Δfur|δfur|NN|Gtype with|with|IN|O DPD|dpd|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
148 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O biotin|biotin|NN|Anti conjugated|conjugate|VBN|Anti anti-c-myc|anti-c-myc|JJ|Anti antibody|antibody|NN|Anti
149 + genotype/variation|genotype/variation|NN|O :|:|:|O delta-soxS|delta-soxs|NN|Gtype
150 + genotype/variation|genotype/variation|NN|O :|:|:|O Combined|Combined|NNP|Gtype input|input|NN|Gtype
151 + treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med M9|m9|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O without|without|IN|O 20|20|CD|Supp mg/L|mg/l|NN|Supp tryptophan|tryptophan|NN|Supp .|.|.|O
152 + genotype/variation|genotype/variation|NN|O :|:|:|O WT|WT|NNP|Gtype
153 + ∆|∆|CD|Gtype fur|fur|NN|Gtype Aerobic|aerobic|JJ|Air A|a|DT|O
154 + strain|strain|NN|O :|:|:|O ∆|∆|CD|Gtype hns|hn|NNS|Gtype /|/|:|Gtype ∆|∆|SYM|Gtype stpA|stpa|NN|Gtype
155 + To|to|TO|O harvest|harvest|VB|O total|total|JJ|O RNA|rna|NN|O samples|sample|NNS|O ,|,|,|O overnight|overnight|JJ|O cultures|culture|NNS|O of|of|IN|O wild|wild|JJ|Gtype type|type|NN|Gtype MG1655|mg1655|NN|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O at|at|IN|O 37|37|CD|O ˚C|˚c|NN|O were|be|VBD|O diluted|dilute|VBN|O back|back|RB|O 1:500|1:500|CD|O in|in|IN|O either|either|CC|O fresh|fresh|JJ|O LB|lb|NN|O or|or|CC|O M63|m63|NN|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med medium|medium|NN|O and|and|CC|O allowed|allow|VBN|O to|to|TO|O grow|grow|VB|O until|until|IN|O the|the|DT|O cultures|culture|NNS|O reached|reach|VBD|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O and|and|CC|O 2.0|2.0|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O and|and|CC|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.4|0.4|CD|OD for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O M63|m63|NN|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 25|25|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O Ethanol|ethanol|NN|O ,|,|,|O 5|5|CD|O %|%|NN|O acid|acid|NN|O phenol|phenol|NN|O -RRB-|-rrb-|-RRB-|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|O of|of|IN|O 2.0|2.0|CD|O a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 1|1|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O .|.|.|O
156 + Lrp|Lrp|NNP|O _|_|SYM|O Leu|Leu|NNP|Supp _|_|SYM|O 1|1|CD|O
157 + A|a|NN|O total|total|NN|O of|of|IN|O six|six|CD|O samples|sample|NNS|O were|be|VBD|O analyzed|analyze|VBN|O .|.|.|O oxyR-8myc|oxyr-8myc|NN|O ,|,|,|O soxR-8myc|soxr-8myc|NN|O ,|,|,|O and|and|CC|O soxS-8myc|soxs-8myc|NN|O tagged|tag|VBD|O cells|cell|NNS|O were|be|VBD|O cultured|culture|VBN|O in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O Then|then|RB|O cells|cell|NNS|O were|be|VBD|O treated|treat|VBN|O with|with|IN|O 250|250|CD|O uM|um|NN|O of|of|IN|O paraquat|paraquat|NN|O at|at|IN|O mid-log|mid-log|JJ|O pahse|pahse|NN|O for|for|IN|O 20|20|CD|O min|min|NN|O with|with|IN|O agitation|agitation|NN|O .|.|.|O
158 + Δcra|δcra|NN|Gtype glucose|glucose|NN|Supp 1|1|CD|O
159 + HNS|hns|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air A|a|DT|O
160 + FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O Affinity|affinity|NN|O Purified|purify|VBN|O -|-|:|O A|a|NN|O
161 + SoxR|soxr|NN|O PQ|pq|NN|Supp 2|2|CD|O
162 + Fur|Fur|NNP|O with|with|IN|O Fe|Fe|NNP|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
163 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|O -LRB-|-lrb-|-LRB-|O 70|70|CD|O %|%|NN|O N2|n2|NN|O ,|,|,|O 25|25|CD|O %|%|NN|O O2|o2|CD|O ,|,|,|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O or|or|CC|O anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O in|in|IN|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 10|10|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp .|.|.|O
164 + RNA-Seq|rna-seq|NN|Technique
165 + Δfur|δfur|NN|Gtype with|with|IN|O DPD|dpd|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
166 + culture|culture|NN|O condition|condition|NN|O :|:|:|O nitrate|nitrate|JJ|Supp respiratory|respiratory|JJ|O condition|condition|NN|O
167 + genotype/variation|genotype/variation|NN|O :|:|:|O ΔarcA|δarca|NN|Gtype
168 + ΔgadW|δgadw|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
169 + ∆|∆|CD|Gtype fur|fur|NN|Gtype Anaerobic|anaerobic|JJ|Air B|b|NN|O
170 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Fur-8-myc|fur-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|O mM|mm|NN|O of|of|IN|O FeCl2|fecl2|NN|O were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|Supp mM|mm|NN|Supp of|of|IN|Supp DPD|dpd|NN|Supp were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|Supp .|.|.|O For|for|IN|O the|the|DT|O rifampicin-treated|rifampicin-treated|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O rifampicin|rifampicin|NN|O dissolved|dissolve|VBN|O in|in|IN|O methanol|methanol|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O concentration|concentration|NN|O of|of|IN|O 150|150|CD|O mg/mL|mg/ml|NN|O at|at|IN|O mid-log|mid-log|JJ|O phase|phase|NN|O and|and|CC|O stirred|stir|VBD|O for|for|IN|O 20|20|CD|O min|min|NN|O .|.|.|O
171 + Lrp|Lrp|NNP|O _|_|SYM|O Leu|Leu|NNP|Supp _|_|SYM|O 3|3|CD|O
172 + RpoB|rpob|NN|O WT|wt|JJ|Gtype 1|1|CD|O
173 + IHF|ihf|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air A|a|DT|O
174 + genotype|genotype|NN|O :|:|:|O gadE-8myc|gade-8myc|NN|Gtype
175 + Δcra|δcra|NN|Gtype acetate|acetate|NN|Supp 2|2|CD|O
176 + genotype/variation|genotype/variation|NN|O :|:|:|O delta-gadX|delta-gadx|NN|Gtype
177 + ChIP-exo|ChIP-exo|NNP|Technique GadW|gadw|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
178 + ChIP-Seq|chip-seq|NN|Gversion
179 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-RpoS|anti-rpos|JJ|Anti -LRB-|-lrb-|-LRB-|O neoclone|neoclone|NN|O ,|,|,|O WP009|wp009|NN|O -RRB-|-rrb-|-RRB-|O
180 + E.|E.|NNP|O coli|coli|NN|O strains|strain|NNS|O harboring|harbor|VBG|O PurR-8myc|purr-8myc|NN|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O minimal|minimal|JJ|O M9|m9|NN|O medium|medium|NN|O supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|O -LRB-|-lrb-|-LRB-|O 2|2|CD|O g/L|g/l|NN|O -RRB-|-rrb-|-RRB-|O then|then|RB|O inoculated|inoculate|VBN|O into|into|IN|O 100mL|100ml|NN|O of|of|IN|O fresh|fresh|JJ|O M9|m9|NN|Med minimal|minimal|JJ|Med medium|medium|NN|Med .|.|.|O
181 + LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS1|hs1|NN|O
182 + Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 5|5|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
183 + strain|strain|NN|O :|:|:|O PK8263|pk8263|NN|Gtype
184 + ß|ß|SYM|O -|-|:|O Aerobic|aerobic|JJ|Air -|-|:|O A|a|NN|O
185 + LB|lb|NN|Med 2.0|2.0|CD|O B1|b1|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L2|l2|NN|O HS2|hs2|NN|O
186 + ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Aerobic|aerobic|JJ|Air
187 + σ32|σ32|NN|O 43|43|CD|Temp °C|°c|NN|Temp rep2|rep2|NN|O
188 + growth|growth|NN|O medium|medium|NN|O :|:|:|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 1|1|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp
189 + At|at|IN|O OD450|od450|NN|OD =|=|JJ|OD 0.3|0.3|CD|OD ,|,|,|O cultures|culture|NNS|O induced|induce|VBN|O with|with|IN|O 1|1|CD|Supp mM|mm|NN|Supp IPTG|iptg|NN|Supp .|.|.|O Cells|cell|NNS|O harvested|harvest|VBN|O 2.5|2.5|CD|O min|min|NN|O after|after|IN|O induction|induction|NN|O
190 + ChIP-exo|ChIP-exo|NNP|Technique RpoS|rpos|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
191 + TrpR|trpr|NN|O _|_|CD|O glucose|glucose|NN|Supp
192 + antibody|antibody|NN|O :|:|:|O Affinity|Affinity|NNP|Anti Purified|purify|VBN|Anti FNR|fnr|NN|Anti antibody|antibody|NN|Anti
193 + ip|ip|NN|O antibody|antibody|NN|O :|:|:|O affinity|affinity|NN|Anti purified|purify|VBN|Anti anti-Fur|anti-fur|JJ|Anti antibody|antibody|NN|Anti
194 + WT|wt|JJ|Gtype with|with|IN|O Fe|Fe|NNP|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
195 + LB|lb|NN|Med 2.0|2.0|CD|O B1|b1|NN|O TEX|tex|NN|O neg|neg|NN|O L1|l1|NN|O GA|ga|NN|O
196 + Nac|Nac|NNP|O _|_|SYM|O RNASeq|rnaseq|NN|Technique
197 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O Custom|Custom|NNP|O anti-Fur|anti-fur|JJ|Anti polyclonal|polyclonal|JJ|Anti antibody|antibody|NN|Anti
198 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp to|to|TO|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD about|about|IN|OD 0.15|0.15|CD|OD in|in|IN|O 100|100|CD|O ml|ml|NN|O LB|lb|NN|Med -LRB-|-lrb-|-LRB-|O +|+|CC|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp -RRB-|-rrb-|-RRB-|O .|.|.|O
199 + Wild-type|wild-type|JJ|Gtype Aerobic|aerobic|JJ|Air B|b|NN|O
200 + antibody|antibody|NN|O :|:|:|O Pre-cleared|pre-cleared|JJ|Anti IHF|ihf|NN|Anti polyclonal|polyclonal|JJ|Anti antibody|antibody|NN|Anti
201 + chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O
202 + genotype/variation|genotype/variation|NN|O :|:|:|O -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype lacZ|lacz|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype tonB|tonb|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype feoA|feoa|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype zupT|zupt|NN|Gtype K12|k12|NN|Gtype
203 + To|to|TO|O harvest|harvest|VB|O total|total|JJ|O RNA|rna|NN|O samples|sample|NNS|O ,|,|,|O overnight|overnight|JJ|O cultures|culture|NNS|O of|of|IN|O wild|wild|JJ|Gtype type|type|NN|Gtype MG1655|mg1655|NN|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O at|at|IN|O 37|37|CD|O ˚C|˚c|NN|O were|be|VBD|O diluted|dilute|VBN|O back|back|RB|O 1:500|1:500|CD|O in|in|IN|O either|either|CC|O fresh|fresh|JJ|O LB|lb|NN|O or|or|CC|O M63|m63|NN|O minimal|minimal|JJ|O glucose|glucose|NN|O medium|medium|NN|O and|and|CC|O allowed|allow|VBN|O to|to|TO|O grow|grow|VB|O until|until|IN|O the|the|DT|O cultures|culture|NNS|O reached|reach|VBD|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O and|and|CC|O 2.0|2.0|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O and|and|CC|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O M63|m63|NN|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 25|25|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O Ethanol|ethanol|NN|O ,|,|,|O 5|5|CD|O %|%|NN|O acid|acid|NN|O phenol|phenol|NN|O -RRB-|-rrb-|-RRB-|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|OD of|of|IN|OD 2.0|2.0|CD|OD a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 1|1|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O .|.|.|O
204 + genotype|genotype|NN|O :|:|:|O ArgR-8myc|argr-8myc|NN|Gtype
205 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|WT|NNP|O ,|,|,|O GadE-8-myc|gade-8-myc|NN|O ,|,|,|O GadW-8-myc|gadw-8-myc|NN|O ,|,|,|O and|and|CC|O GadX-8-myc|gadx-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD =|=|JJ|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O aerobically|aerobically|RB|Air -LRB-|-lrb-|-LRB-|O 250|250|CD|Agit rpm|rpm|NN|Agit -RRB-|-rrb-|-RRB-|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp at|at|IN|O pH|ph|NN|pH 5.5|5.5|CD|pH .|.|.|O
206 + Lrp|Lrp|NNP|O _|_|SYM|O Leu|Leu|NNP|Supp _|_|NN|O 2|2|CD|O
207 + Samples|sample|NNS|O for|for|IN|O transcriptome|transcriptome|NN|O analysis|analysis|NN|O were|be|VBD|O taken|take|VBN|O from|from|IN|O exponentially|exponentially|RB|Phase growing|grow|VBG|Phase cells|cell|NNS|Phase .|.|.|O From|from|IN|O the|the|DT|O cells|cell|NNS|O treated|treat|VBN|O by|by|IN|O RNAprotect|rnaprotect|NN|O Bacteria|bacterium|NNS|O Reagent|reagent|NN|O -LRB-|-lrb-|-LRB-|O Qiagen|qiagen|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O total|total|JJ|O RNA|rna|NN|O samples|sample|NNS|O were|be|VBD|O isolated|isolate|VBN|O using|use|VBG|O RNeasy|rneasy|JJ|O columns|column|NNS|O -LRB-|-lrb-|-LRB-|O Qiagen|Qiagen|NNP|O -RRB-|-rrb-|-RRB-|O in|in|IN|O accordance|accordance|NN|O with|with|IN|O manufacturer|manufacturer|NN|O 's|'s|POS|O instruction|instruction|NN|O .|.|.|O
208 + ΔsoxR|δsoxr|NN|Gtype PQ|pq|NN|Supp 2|2|CD|O
209 + genotype|genotype|NN|O :|:|:|O ΔseqA|δseqa|NN|Gtype
210 + agent|agent|NN|O :|:|:|O DPD|dpd|NN|Supp and|and|CC|Supp rifampicin|rifampicin|NN|Supp
211 + carbon|carbon|NN|O source|source|NN|O :|:|:|O acetate|acetate|NN|Supp
212 + affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
213 + PurR|purr|NN|O _|_|CD|O glucose|glucose|NN|Supp _|_|NN|O 2|2|CD|O
214 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O with|with|IN|O 8|8|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp and|and|CC|Supp 300|300|CD|Supp µL|µl|NN|Supp Cm20|cm20|NN|Supp anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
215 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Δfur|δfur|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|O mM|mm|NN|O of|of|IN|O FeCl2|fecl2|NN|O were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|Supp mM|mm|NN|Supp of|of|IN|Supp DPD|dpd|NN|Supp were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|O .|.|.|O
216 + antibody|antibody|NN|O :|:|:|O RNA|rna|NN|Anti Polymerase|polymerase|NN|Anti ß|ß|NN|Anti monoclonal|monoclonal|JJ|Anti antibody|antibody|NN|Anti from|from|IN|O NeoClone|NeoClone|NNP|O -LRB-|-lrb-|-LRB-|O W0002|w0002|NN|O -RRB-|-rrb-|-RRB-|O
217 + growth|growth|NN|O medium|medium|NN|O :|:|:|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 10|10|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp
218 + PurR|purr|NN|O _|_|CD|O Adenine|Adenine|NNP|Supp _|_|NN|O 2|2|CD|O
219 + WT|wt|JJ|Gtype NaCl|nacl|NN|Supp 1|1|CD|O
220 + genotype|genotype|NN|O :|:|:|O gadX-8myc|gadx-8myc|NN|Gtype
221 + Escherichia|escherichia|FW|O coli|coli|FW|O str|str|NN|O .|.|.|O K-12|k-12|NN|Strain substr|substr|NN|O .|.|.|O MG1655star|mg1655star|NN|Substrain
222 + library|library|NN|O strategy|strategy|NN|O :|:|:|O ChIP-exo|ChIP-exo|NNP|Technique
223 + affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
224 + treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med M9|m9|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 10|10|CD|Supp mM|mm|NN|Supp leucine|leucine|NN|Supp .|.|.|O
225 + treated|treat|VBN|O with|with|IN|O :|:|:|O 250|250|CD|Supp uM|um|NN|Supp of|of|IN|Supp paraquat|paraquat|NN|Supp at|at|IN|O mid-log|mid-log|NN|Phase pahse|pahse|NN|Phase for|for|IN|O 20|20|CD|Supp min|min|NN|Supp
226 + ΔoxyR|δoxyr|NN|Gtype PQ|pq|NN|Supp 2|2|CD|O
227 + SoxS|soxs|NN|O PQ|pq|NN|Supp 2|2|CD|O
228 + genotype/variation|genotype/variation|NN|O :|:|:|O delta-soxR|delta-soxr|NN|Gtype
229 + M63|m63|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS2|hs2|NN|O
230 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O SeqA|seqa|NN|Anti
231 + genotype/variation|genotype/variation|NN|O :|:|:|O Δfnr|δfnr|NN|Gtype
232 + ∆|∆|CD|Gtype fur|fur|NN|Gtype Aerobic|aerobic|JJ|Air B|b|NN|O
233 + E.|e.|FW|O coli|coli|FW|O K-12|k-12|NN|O MG1655|mg1655|NN|O cra-8myc|cra-8myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O was|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|O phase|phase|NN|O aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|O minimal|minimal|JJ|O media|media|NNS|O supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|O %|%|NN|O glucose|glucose|NN|O ,|,|,|O fructose|fructose|NN|O and|and|CC|O acetate|acetate|NN|O .|.|.|O
234 + Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O U00096|u00096|NN|Gversion .2|.2|NN|Gversion -LRB-|-lrb-|-LRB-|O GenBank|genbank|NN|O -RRB-|-rrb-|-RRB-|O
235 + M63|m63|NN|Med 0.4|0.4|CD|O B1|b1|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O GA|ga|NN|O
236 + WT|wt|JJ|Gtype _|_|NN|O ChIPSeq|chipseq|NN|Technique _|_|NN|O 1|1|CD|O
237 + Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 2.5|2.5|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
238 + chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O
239 + cultured|culture|VBN|O in|in|IN|O :|:|:|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp acetate|acetate|NN|Supp
240 + Cra|Cra|NNP|O glucose|glucose|NN|Supp 1|1|CD|O
241 + ΔgadX|δgadx|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
242 + LB|lb|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS1|hs1|NN|O
243 + WT|wt|JJ|Gtype glucose|glucose|NN|Supp 2|2|CD|O
244 + Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|Anaerobic|NNP|Air ,|,|,|O Iron|Iron|NNP|Supp Deficient|deficient|JJ|O B|b|NN|O
245 + Wild-type|wild-type|JJ|Gtype Anaerobic|anaerobic|JJ|Air A|a|DT|O
246 + Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O A|a|NN|O -|-|:|O 8|8|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
247 + Ecoli|ecolus|NNS|O _|_|VBP|O wild-type|wild-type|JJ|Gtype _|_|NN|O rep2|rep2|NN|O _|_|CD|O anaerobic|anaerobic|JJ|Air
248 + ΔgadE|δgade|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
249 + FNR|fnr|SYM|O -|-|:|O ∆|∆|CD|Gtype hns|hn|NNS|Gtype ∆|∆|VBP|Gtype stpA|stpa|NN|Gtype B|b|NN|O
250 + WT|wt|JJ|Gtype PQ|pq|NN|Supp 2|2|CD|O
251 + RpoB|rpob|NN|O with|with|IN|O DPD|dpd|NN|Supp and|and|CC|O rifampicin|rifampicin|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
252 + Ecoli|ecolus|NNS|O _|_|VBP|O wild-type|wild-type|JJ|Gtype _|_|NN|O rep1|rep1|NN|O _|_|CD|O anaerobic|anaerobic|JJ|Air
253 + A|a|NN|O total|total|NN|O of|of|IN|O two|two|CD|O samples|sample|NNS|O were|be|VBD|O analyzed|analyze|VBN|O .|.|.|O ompR-8myc|ompr-8myc|NN|O tagged|tag|VBD|O cells|cell|NNS|O were|be|VBD|O cultured|culture|VBN|O in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O Then|then|RB|O cells|cell|NNS|O were|be|VBD|O treated|treat|VBN|O with|with|IN|O 0.3|0.3|CD|Supp M|m|NN|Supp of|of|IN|Supp NaCl|nacl|NN|Supp at|at|IN|O mid-log|mid-log|NN|Phase pahse|pahse|NN|Phase for|for|IN|O 30|30|CD|Supp min|min|NN|Supp with|with|IN|O agitation|agitation|NN|O .|.|.|O
254 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|O -LRB-|-lrb-|-LRB-|O 70|70|CD|O %|%|NN|O N2|n2|NN|O ,|,|,|O 25|25|CD|O %|%|NN|O O2|o2|CD|O ,|,|,|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O or|or|CC|O anaerobically|anaerobically|RB|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O N2|n2|NN|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O .|.|.|O
255 + Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O B|b|NN|O -|-|:|O 8|8|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
256 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Fur-8-myc|fur-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|Supp mM|mm|NN|Supp of|of|IN|Supp FeCl2|fecl2|NN|Supp were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|O mM|mm|NN|O of|of|IN|O DPD|dpd|NN|O were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|Supp .|.|.|O For|for|IN|O the|the|DT|O rifampicin-treated|rifampicin-treated|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O rifampicin|rifampicin|NN|Supp dissolved|dissolve|VBN|Supp in|in|IN|Supp methanol|methanol|NN|Supp was|be|VBD|O added|add|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O concentration|concentration|NN|O of|of|IN|O 150|150|CD|Supp mg/mL|mg/ml|NN|Supp at|at|IN|O mid-log|mid-log|JJ|O phase|phase|NN|O and|and|CC|O stirred|stir|VBD|O for|for|IN|O 20|20|CD|Supp min|min|NN|Supp .|.|.|O
257 + σ32|σ32|NN|O 30|30|CD|Temp °C|°c|NN|Temp rep2|rep2|NN|O
258 + WT|wt|JJ|Gtype with|with|IN|O DPD|dpd|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
259 + genotype/variation|genotype/variation|NN|O :|:|:|O -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype tonB|tonb|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype feoA|feoa|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype zupT|zupt|NN|Gtype K12|k12|NN|Gtype
260 + ChIP-exo|ChIP-exo|NNP|Technique GadE|gade|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
261 + genotype/variation|genotype/variation|NN|O :|:|:|O delta|delta|NN|Gtype _|_|SYM|Gtype cra|cra|FW|Gtype
262 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O 9E10|9e10|CD|Anti Myc|myc|NN|Anti tag|tag|NN|Anti antibody|antibody|NN|O
263 + growth|growth|NN|O condition|condition|NN|O :|:|:|O Aerobic|Aerobic|NNP|Air
264 + chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-myc|anti-myc|JJ|Anti -LRB-|-lrb-|-LRB-|O Santa|Santa|NNP|O Cruz|Cruz|NNP|O Biotech|Biotech|NNP|O ,|,|,|O sc-28207|sc-28207|NN|O -RRB-|-rrb-|-RRB-|O
265 + ΔompR|δompr|NN|Gtype NaCl|nacl|NN|Supp 1|1|CD|O
266 + RpoB|rpob|NN|O with|with|IN|O DPD|dpd|NN|Supp and|and|CC|O rifampicin|rifampicin|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
267 + growth|growth|NN|O phase|phase|NN|O :|:|:|O stationary|stationary|JJ|Phase
268 + Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Aerobic|Aerobic|NNP|Air A|A|NNP|O
269 + ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Anaerobic|anaerobic|JJ|Air
270 + affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
271 + Input|input|NN|O ChIP-Seq|chip-seq|NN|Technique
272 + FNR|fnr|SYM|O -|-|:|O ∆|∆|CD|Gtype hns|hn|NNS|Gtype ∆|∆|VBP|Gtype stpA|stpa|NN|Gtype A|a|NN|O
273 + treated|treat|VBN|O with|with|IN|O :|:|:|O 250|250|CD|Supp uM|um|NN|Supp of|of|IN|Supp paraquat|paraquat|NN|Supp at|at|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase for|for|IN|O 20|20|CD|Supp min|min|NN|Supp
274 + Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|anaerobic|JJ|Air B|b|NN|O
275 + Cra|Cra|NNP|O acetate|acetate|NN|Supp 2|2|CD|O
276 + ArgR|argr|NN|O _|_|CD|O Arginine|arginine|NN|Supp _|_|NN|O 1|1|CD|O
277 + treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med W2|w2|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 2g/L|2g/l|NN|Supp glutamine|glutamine|NN|Supp .|.|.|O
278 + chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O
279 + ΔgadE|δgade|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
280 + culture|culture|NN|O condition|condition|NN|O :|:|:|O Anaerobic|anaerobic|JJ|Air cultures|culture|NNS|O
281 + growth|growth|NN|O condition|condition|NN|O :|:|:|O Adenine|Adenine|NNP|Supp
282 + Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp and|and|CC|O nitrate|nitrate|VBP|Supp .|.|.|O
283 + Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O with|with|IN|O 4|4|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp and|and|CC|Supp 300|300|CD|Supp µL|µl|NN|Supp Cm20|cm20|NN|Supp anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
284 + ChIP-exo|ChIP-exo|NNP|Technique GadW|gadw|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
285 + Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O NC|nc|NN|Gversion _|_|CD|Gversion 000913.2|000913.2|CD|Gversion
286 + E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|WT|NNP|O ,|,|,|O and|and|CC|O Δcra|Δcra|NNP|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|O ,|,|,|O fructose|fructose|NN|O and|and|CC|O acetate|acetate|NN|O .|.|.|O
...\ No newline at end of file ...\ No newline at end of file
1 - ΔsoxS|δsoxs|NN|Gtype PQ|pq|NN|Supp 1|1|CD|O
2 - genotype/variation|genotype/variation|NN|O :|:|:|O soxS-8myc|soxs-8myc|NN|Gtype -|-|:|O tagged|tag|VBN|O
3 - WT|wt|JJ|Gtype with|with|IN|O DPD|dpd|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
4 - genotype/variation|genotype/variation|NN|O :|:|:|O delta-gadW|delta-gadw|NN|Gtype
5 - antibody|antibody|NN|O :|:|:|O Pre-cleared|pre-cleared|JJ|Anti IHF|ihf|NN|Anti polyclonal|polyclonal|JJ|Anti antibody|antibody|NN|Anti
6 - Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O U00096|u00096|NN|Gversion .2|.2|NN|Gversion -LRB-|-lrb-|-LRB-|O GenBank|genbank|NN|O -RRB-|-rrb-|-RRB-|O
7 - cultured|culture|VBN|O in|in|IN|O :|:|:|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp acetate|acetate|NN|Supp
8 - RpoB|rpob|NN|O with|with|IN|O Fe|Fe|NNP|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
9 - Cra|Cra|NNP|O fructose|fructose|NN|Supp 1|1|CD|O
10 - WT|wt|JJ|Gtype glucose|glucose|NN|Supp 2|2|CD|O
11 - ΔoxyR|δoxyr|NN|Gtype PQ|pq|NN|Supp 2|2|CD|O
12 - ip|ip|NN|O antibody|antibody|NN|O :|:|:|O affinity|affinity|NN|Anti purified|purify|VBN|Anti anti-Fur|anti-fur|JJ|Anti antibody|antibody|NN|Anti
13 - σ32|σ32|NN|O 30|30|CD|Temp °C|°c|NN|Temp rep1|rep1|NN|O
14 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O RNA|rna|NN|Anti polymerase|polymerase|NN|Anti subunit|subunit|NN|Anti β|β|NN|Anti
15 - Lrp|Lrp|NNP|O _|_|SYM|O NH4Cl|nh4cl|NN|Supp _|_|NN|O 2|2|CD|O
16 - chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O
17 - ∆|∆|CD|Gtype fur|fur|NN|Gtype ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Anaerobic|anaerobic|JJ|Air A|a|DT|O
18 - LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS1|hs1|NN|O
19 - genotype/variation|genotype/variation|NN|O :|:|:|O lacking|lack|VBG|Gtype the|the|DT|Gtype small|small|JJ|Gtype RNA|rna|NN|Gtype RyhB|ryhb|NN|Gtype
20 - RpoB|rpob|NN|O with|with|IN|O Fe|Fe|NNP|Supp and|and|CC|O rifampicin|rifampicin|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
21 - ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Aerobic|aerobic|JJ|Air
22 - IHF|ihf|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air A|a|DT|O
23 - PurR|purr|NN|O _|_|CD|O glucose|glucose|NN|Supp _|_|NN|O 1|1|CD|O
24 - E.|e.|FW|O coli|coli|FW|O K-12|k-12|NN|O MG1655|mg1655|NN|O cra-8myc|cra-8myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O was|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|O phase|phase|NN|O aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|O minimal|minimal|JJ|O media|media|NNS|O supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|O %|%|NN|O glucose|glucose|NN|O ,|,|,|O fructose|fructose|NN|O and|and|CC|O acetate|acetate|NN|O .|.|.|O
25 - ∆|∆|CD|Gtype fur|fur|NN|Gtype Aerobic|aerobic|JJ|Air A|a|DT|O
26 - E.|e.|FW|OD coli|coli|FW|OD K-12|k-12|NN|OD MG1655|mg1655|NN|OD WT|wt|NN|OD ,|,|,|OD ΔoxyR|δoxyr|NN|OD ,|,|,|OD ΔsoxR|δsoxr|NN|OD ,|,|,|OD and|and|CC|OD ΔsoxS|δsoxs|NN|OD were|be|VBD|OD grown|grow|VBN|OD to|to|TO|OD mid-log|mid-log|JJ|OD phase|phase|NN|OD aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O Then|then|RB|O cells|cell|NNS|O were|be|VBD|O treated|treat|VBN|O with|with|IN|O 250|250|CD|O uM|um|NN|O of|of|IN|O paraquat|paraquat|NN|O at|at|IN|O mid-log|mid-log|JJ|O pahse|pahse|NN|O for|for|IN|O 20|20|CD|O min|min|NN|O with|with|IN|O agitation|agitation|NN|O .|.|.|O
27 - ArgR|argr|NN|O _|_|CD|O Arginine|arginine|NN|Supp _|_|NN|O 1|1|CD|O
28 - treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med W2|w2|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 1g/L|1g/l|NN|Supp arginine|arginine|NN|Supp .|.|.|O
29 - Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp and|and|CC|O nitrate|nitrate|VBP|Supp .|.|.|O
30 - growth|growth|NN|O condition|condition|NN|O :|:|:|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
31 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O LB|LB|NNP|Med media|media|NNS|Med with|with|IN|O 1mM|1mm|NN|Supp IPTG|iptg|NN|Supp at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp with|with|IN|O shaking|shake|VBG|O for|for|IN|O 2|2|CD|Supp hours|hour|NNS|Supp
32 - medium|medium|NN|O :|:|:|O LB|LB|NNP|Med
33 - MG1655|mg1655|NN|Substrain PhtpG|phtpg|NN|Gtype :|:|:|Gtype :|:|:|Gtype lacZ|lacz|NN|Gtype delta|delta|NN|Gtype lacX74/pTG2|lacx74/ptg2|NN|Gtype -LRB-|-lrb-|-LRB-|Gtype vector|vector|NN|Gtype carrying|carrying|NN|Gtype inducible|inducible|JJ|Gtype Ptrc|ptrc|NN|Gtype :|:|:|Gtype :|:|:|Gtype rpoH|rpoh|NN|Gtype -RRB-|-rrb-|-RRB-|Gtype
34 - Ecoli|ecolus|NNS|O _|_|VBP|O dFNR|dfnr|NN|Gtype _|_|CD|O rep2|rep2|NN|O _|_|CD|O anaerobic|anaerobic|JJ|Air
35 - affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
36 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 70|70|CD|Air %|%|NN|Air N2|n2|NN|Air ,|,|,|Air 25|25|CD|Air %|%|NN|Air O2|o2|CD|Air ,|,|,|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air or|or|CC|O anaerobically|anaerobically|RB|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O N2|n2|NN|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O in|in|IN|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 10|10|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp .|.|.|O
37 - ChIP-Seq|chip-seq|NN|Gversion
38 - genotype/variation|genotype/variation|NN|O :|:|:|O WT|WT|NNP|Gtype
39 - affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
40 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Δfur|δfur|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|Supp mM|mm|NN|Supp of|of|IN|Supp FeCl2|fecl2|NN|Supp were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|O mM|mm|NN|O of|of|IN|O DPD|dpd|NN|O were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|O .|.|.|O
41 - M9|m9|NN|Med minimal|minimal|JJ|Med complete|complete|JJ|Med media|media|NNS|Med ,|,|,|O cultures|culture|NNS|O grown|grow|VBN|O aerobically|aerobically|RB|Air at|at|IN|O 30|30|CD|Temp degrees|degree|NNS|Temp C|c|NN|Temp in|in|IN|O a|a|DT|O gyratory|gyratory|JJ|Agit water|water|NN|Agit bath|bath|NN|Agit shaking|shake|VBG|Agit at|at|IN|Agit 240|240|CD|Agit rpm|rpm|NN|Agit
42 - genotype/variation|genotype/variation|NN|O :|:|:|O cra-8myc-tagged|cra-8myc-tagged|JJ|Gtype
43 - ΔgadW|δgadw|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
44 - E.|E.|NNP|O coli|coli|NN|O strains|strain|NNS|O harboring|harbor|VBG|O PurR-8myc|purr-8myc|NN|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O minimal|minimal|JJ|O M9|m9|NN|O medium|medium|NN|O supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|O -LRB-|-lrb-|-LRB-|O 2|2|CD|O g/L|g/l|NN|O -RRB-|-rrb-|-RRB-|O then|then|RB|O inoculated|inoculate|VBN|O into|into|IN|O 100mL|100ml|NN|O of|of|IN|O fresh|fresh|JJ|O M9|m9|NN|Med minimal|minimal|JJ|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 100ug/L|100ug/l|NN|Supp adenine|adenine|NN|Supp .|.|.|O
45 - WT|wt|JJ|Gtype with|with|IN|O DPD|dpd|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
46 - genotype|genotype|NN|O :|:|:|O ompR|ompr|NN|Gtype deletion|deletion|NN|Gtype mutant|mutant|JJ|Gtype
47 - affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
48 - Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 20|20|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
49 - ΔsoxS|δsoxs|NN|Gtype PQ|pq|NN|Supp 2|2|CD|O
50 - pT7|pt7|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique _|_|NN|O 1|1|CD|O
51 - Ecoli|ecolus|NNS|O _|_|VBP|O wild-type|wild-type|JJ|Gtype _|_|NN|O rep1|rep1|NN|O _|_|CD|O anaerobic|anaerobic|JJ|Air
52 - Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O ASM584v2|asm584v2|NN|Gversion
53 - LB|lb|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS2|hs2|NN|O
54 - M63|m63|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS2|hs2|NN|O
55 - genotype/variation|genotype/variation|NN|O :|:|:|O Δfur|δfur|NN|Gtype
56 - Escherichia|escherichia|FW|O coli|coli|FW|O str|str|NN|O .|.|.|O K-12|k-12|NN|Strain substr|substr|NN|O .|.|.|O MG1655|mg1655|NN|Substrain
57 - Sequenced|sequence|VBN|O reads|read|VBZ|O were|be|VBD|O mapped|map|VBN|O onto|onto|IN|O NC|nc|NN|Gversion _|_|CD|Gversion 000913|000913|CD|Gversion reference|reference|NN|O genome|genome|NN|O sequence|sequence|NN|O using|use|VBG|O bowtie|bowtie|NN|O v1|v1|NN|O .0.0|.0.0|CD|O with|with|IN|O parameters|parameter|NNS|O -|-|:|O X|x|NN|O 1000|1000|CD|O -|-|:|O n|n|NN|O 2|2|CD|O -3|-3|CD|O 3|3|LS|O -|-|:|O S|s|NN|O
58 - Lrp|Lrp|NNP|O _|_|SYM|O Leu|Leu|NNP|Supp _|_|NN|O 2|2|CD|O
59 - Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Aerobic|Aerobic|NNP|Air B|b|NN|O
60 - Samples|sample|NNS|O for|for|IN|O transcriptome|transcriptome|NN|O analysis|analysis|NN|O were|be|VBD|O taken|take|VBN|O from|from|IN|O exponentially|exponentially|RB|Phase growing|grow|VBG|Phase cells|cell|NNS|Phase .|.|.|O From|from|IN|O the|the|DT|O cells|cell|NNS|O treated|treat|VBN|O by|by|IN|O RNAprotect|rnaprotect|NN|O Bacteria|bacterium|NNS|O Reagent|reagent|NN|O -LRB-|-lrb-|-LRB-|O Qiagen|qiagen|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O total|total|JJ|O RNA|rna|NN|O samples|sample|NNS|O were|be|VBD|O isolated|isolate|VBN|O using|use|VBG|O RNeasy|rneasy|JJ|O columns|column|NNS|O -LRB-|-lrb-|-LRB-|O Qiagen|Qiagen|NNP|O -RRB-|-rrb-|-RRB-|O in|in|IN|O accordance|accordance|NN|O with|with|IN|O manufacturer|manufacturer|NN|O 's|'s|POS|O instruction|instruction|NN|O .|.|.|O
61 - Lrp|Lrp|NNP|O _|_|SYM|O Leu|Leu|NNP|Supp _|_|SYM|O 1|1|CD|O
62 - Fur|Fur|NNP|O with|with|IN|O DPD|dpd|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
63 - treated|treat|VBN|O with|with|IN|O :|:|:|O 250|250|CD|Supp uM|um|NN|Supp of|of|IN|Supp paraquat|paraquat|NN|Supp at|at|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase for|for|IN|O 20|20|CD|Supp min|min|NN|Supp
64 - Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O C|c|NN|O -|-|:|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
65 - Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O NC|nc|NN|Gversion _|_|CD|Gversion 000913.2|000913.2|CD|Gversion
66 - treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med W2|w2|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 2g/L|2g/l|NN|Supp glutamine|glutamine|NN|Supp .|.|.|O
67 - Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|Anaerobic|NNP|Air ,|,|,|O Iron|Iron|NNP|Supp Deficient|deficient|JJ|O B|b|NN|O
68 - Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O B|b|NN|O -|-|:|O 8|8|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
69 - FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O B|b|NN|O
70 - RNA-Seq|rna-seq|NN|Technique
71 - LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L2|l2|NN|O HS2|hs2|NN|O
72 - LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS2|hs2|NN|O
73 - strain|strain|NN|O :|:|:|O ∆|∆|CD|Gtype hns|hn|NNS|Gtype /|/|:|Gtype ∆|∆|SYM|Gtype stpA|stpa|NN|Gtype
74 - MG1655|mg1655|NN|Substrain PhtpG|phtpg|NN|Gtype :|:|:|Gtype :|:|:|Gtype lacZ|lacz|NN|Gtype delta|delta|NN|Gtype lacX74/ptrc99A|lacx74/ptrc99a|NN|Gtype -LRB-|-lrb-|-LRB-|Gtype control|control|NN|Gtype vector|vector|NN|Gtype -RRB-|-rrb-|-RRB-|Gtype
75 - σ32|σ32|NN|O 43|43|CD|Temp °C|°c|NN|Temp rep1|rep1|NN|O
76 - chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O
77 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-myc|anti-myc|JJ|Anti
78 - Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O B|b|NN|O -|-|:|O 16|16|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
79 - affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
80 - affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
81 - Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 0|0|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
82 - genotype|genotype|NN|O :|:|:|O WT|WT|NNP|Gtype
83 - Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|Anaerobic|NNP|Air ,|,|,|O Iron|Iron|NNP|Supp Deficient|Deficient|NNP|O A|A|NNP|O
84 - culture|culture|NN|O condition|condition|NN|O :|:|:|O Aerobic|Aerobic|NNP|Air cultures|culture|NNS|O
85 - Wild-type|wild-type|JJ|Gtype Aerobic|aerobic|JJ|Air B|b|NN|O
86 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O 65|65|CD|O ml|ml|NN|O LB|lb|NN|O medium|medium|NN|O at|at|IN|O 30|30|CD|O °C|°c|NN|O to|to|TO|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD about|about|IN|OD 0.3|0.3|CD|OD .|.|.|O Subsequently|subsequently|RB|O 30|30|CD|O ml|ml|NN|O of|of|IN|O culture|culture|NN|O were|be|VBD|O transformed|transform|VBN|O to|to|TO|O a|a|DT|O pre|pre|JJ|O warmed|warm|VBN|O flask|flask|NN|Vess at|at|IN|O 43|43|CD|Temp °C|°c|NN|Temp -LRB-|-lrb-|-LRB-|Temp see|see|VB|Temp heat|heat|NN|Temp sample|sample|NN|Temp -RRB-|-rrb-|-RRB-|Temp and|and|CC|O the|the|DT|O remainder|remainder|NN|O kept|keep|VBD|O at|at|IN|O 30|30|CD|Temp °C|°c|NN|Temp .|.|.|O
87 - Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp and|and|CC|O nitrate|nitrate|VBP|Supp .|.|.|O
88 - RpoB|rpob|NN|O WT|wt|JJ|Gtype 2|2|CD|O
89 - LB|lb|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L1|l1|NN|O HS1|hs1|NN|O
90 - affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
91 - cultured|culture|VBN|O in|in|IN|O :|:|:|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp
92 - LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS1|hs1|NN|O
93 - genotype/variation|genotype/variation|NN|O :|:|:|O fur-8myc|fur-8myc|JJ|Gtype
94 - Cra|Cra|NNP|O glucose|glucose|NN|Supp 2|2|CD|O
95 - Lrp|lrp|NN|O _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O 3|3|CD|O
96 - WT|wt|JJ|Gtype with|with|IN|O Fe|Fe|NNP|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
97 - chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O
98 - chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O
99 - OmpR|ompr|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique
100 - treated|treat|VBN|O with|with|IN|O :|:|:|O 250|250|CD|Supp uM|um|NN|Supp of|of|IN|Supp paraquat|paraquat|NN|Supp at|at|IN|O mid-log|mid-log|NN|Phase pahse|pahse|NN|Phase for|for|IN|O 20|20|CD|Supp min|min|NN|Supp
101 - treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med M9|m9|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 20|20|CD|Supp mg/L|mg/l|NN|Supp tryptophan|tryptophan|NN|Supp .|.|.|O
102 - Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O NC|nc|NN|Gversion _|_|CD|Gversion 000913|000913|CD|Gversion
103 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp to|to|TO|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD about|about|IN|OD 0.15|0.15|CD|OD in|in|IN|O 50|50|CD|O ml|ml|NN|O LB|lb|NN|Med -LRB-|-lrb-|-LRB-|O +|+|CC|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp -RRB-|-rrb-|-RRB-|O before|before|IN|O crosslinking|crosslink|VBG|O .|.|.|O
104 - growth|growth|NN|O condition|condition|NN|O :|:|:|O 4|4|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
105 - ChIP-exo|ChIP-exo|NNP|Technique GadW|gadw|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
106 - Δfur|δfur|NN|Gtype with|with|IN|O Fe|Fe|NNP|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
107 - PurR|purr|NN|O _|_|CD|O Adenine|Adenine|NNP|Supp _|_|NN|O 2|2|CD|O
108 - Fur|Fur|NNP|O with|with|IN|O DPD|dpd|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
109 - ChIP-exo|ChIP-exo|NNP|Technique RpoS|rpos|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
110 - culture|culture|NN|O condition|condition|NN|O :|:|:|O anaerobic|anaerobic|JJ|Air fermentive|fermentive|JJ|O condition|condition|NN|O
111 - OxyR|oxyr|NN|O PQ|pq|NN|Supp 2|2|CD|O
112 - growth|growth|NN|O phase|phase|NN|O :|:|:|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD
113 - ß|ß|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O A|a|NN|O
114 - M63|m63|NN|Med 0.4|0.4|CD|O B1|b1|NN|O TEX|tex|NN|O neg|neg|NN|O L1|l1|NN|O GA|ga|NN|O
115 - affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
116 - affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
117 - ß|ß|SYM|O -|-|:|O Aerobic|aerobic|JJ|Air -|-|:|O B|b|NN|O
118 - Genome|Genome|NNP|O _|_|NNP|O build|build|VB|O :|:|:|O Escherichia|escherichia|FW|O coli|coli|FW|O MG1655|mg1655|NN|O K-12|k-12|NN|O genome|genome|NN|O version|version|NN|O U00096|u00096|NN|Gversion .2|.2|NN|Gversion
119 - genotype/variation|genotype/variation|NN|O :|:|:|O Δfnr|δfnr|NN|Gtype
120 - PurR|purr|NN|O _|_|SYM|O Adenine|Adenine|NNP|Supp _|_|SYM|O 1|1|CD|O
121 - genotype|genotype|NN|O :|:|:|O ΔseqA|δseqa|NN|Gtype
122 - Lrp|Lrp|NNP|O _|_|SYM|O Leu|Leu|NNP|Supp _|_|SYM|O 3|3|CD|O
123 - FNR|fnr|SYM|O -|-|:|O ∆|∆|CD|Gtype hns|hn|NNS|Gtype ∆|∆|VBP|Gtype stpA|stpa|NN|Gtype A|a|NN|O
124 - LB|lb|NN|Med 2.0|2.0|CD|O B1|b1|NN|O TEX|TEX|NNP|O neg|neg|NNP|O L2|l2|NN|O HS2|hs2|NN|O
125 - ChIP-exo|ChIP-exo|NNP|Technique GadE|gade|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
126 - WT|wt|JJ|Gtype PQ|pq|NN|Supp 2|2|CD|O
127 - treatment|treatment|NN|O :|:|:|O glucose|glucose|NN|Med -LRB-|-lrb-|-LRB-|Med 2|2|CD|Med g/L|g/l|NN|Med -RRB-|-rrb-|-RRB-|Med minimal|minimal|JJ|Med M9|m9|NN|Med medium|medium|NN|Med supplemented|supplement|VBN|O with|with|IN|O 10|10|CD|Supp mM|mm|NN|Supp leucine|leucine|NN|Supp .|.|.|O
128 - FNR|fnr|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air -|-|:|O Affinity|affinity|NN|O Purified|purify|VBN|O -|-|:|O A|a|NN|O
129 - Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Aerobic|Aerobic|NNP|Air C|C|NNP|O
130 - Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Aerobic|Aerobic|NNP|Air A|A|NNP|O
131 - antibody|antibody|NN|O :|:|:|O Pre-cleared|pre-cleared|JJ|Anti FNR|fnr|NN|Anti antibody|antibody|NN|Anti
132 - NsrR|nsrr|NN|Gtype _|_|CD|Gtype Flagtag|flagtag|NN|Gtype _|_|CD|O rep2|rep2|NN|O
133 - OmpR|ompr|NN|O NaCl|nacl|NN|Supp 2|2|CD|O
134 - genotype|genotype|NN|O :|:|:|O TrpR-8myc|trpr-8myc|NN|Gtype
135 - ∆|∆|CD|Gtype fur|fur|NN|Gtype ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Aerobic|aerobic|JJ|Air A|a|DT|O
136 - genotype|genotype|NN|O :|:|:|O gadE-8myc|gade-8myc|NN|Gtype
137 - genotype|genotype|NN|O :|:|:|O Lrp-8myc|lrp-8myc|JJ|Gtype
138 - ChIP-Seq|chip-seq|NN|Technique
139 - affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
140 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|WT|NNP|O ,|,|,|O and|and|CC|O Δcra|Δcra|NNP|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|O ,|,|,|O fructose|fructose|NN|O and|and|CC|O acetate|acetate|NN|O .|.|.|O
141 - RpoB|rpob|NN|O ∆|∆|CD|Gtype crp|crp|NN|Gtype 2|2|CD|O
142 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O in|in|IN|O 65|65|CD|O ml|ml|NN|O LB|lb|NN|O medium|medium|NN|O at|at|IN|O 30|30|CD|O °C|°c|NN|O to|to|TO|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD about|about|IN|OD 0.3|0.3|CD|OD .|.|.|O Subsequently|subsequently|RB|O 30|30|CD|O ml|ml|NN|O of|of|IN|O culture|culture|NN|O were|be|VBD|O transformed|transform|VBN|O to|to|TO|O a|a|DT|O pre|pre|JJ|O warmed|warm|VBN|O flask|flask|NN|Vess at|at|IN|O 43|43|CD|Temp °C|°c|NN|Temp and|and|CC|O the|the|DT|O remainder|remainder|NN|O kept|keep|VBD|O at|at|IN|O 30|30|CD|Temp °C|°c|NN|Temp -LRB-|-lrb-|-LRB-|Temp see|see|VB|Temp control|control|JJ|Temp sample|sample|NN|Temp -RRB-|-rrb-|-RRB-|Temp .|.|.|O
143 - chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 2|2|CD|O
144 - At|at|IN|O OD450|od450|NN|OD
145 - strain|strain|NN|O :|:|:|O K-12|k-12|NN|Strain
146 - ∆|∆|CD|Gtype fur|fur|NN|Gtype ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Anaerobic|anaerobic|JJ|Air B|b|NN|O
147 - antibody|antibody|NN|O :|:|:|O Pre-cleared|pre-cleared|JJ|Anti H-NS|h-ns|NN|Anti polyclonal|polyclonal|JJ|Anti antibody|antibody|NN|Anti
148 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Δfur|δfur|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|O mM|mm|NN|O of|of|IN|O FeCl2|fecl2|NN|O were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|Supp mM|mm|NN|Supp of|of|IN|Supp DPD|dpd|NN|Supp were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|O .|.|.|O
149 - LB|lb|NN|Med 0.4|0.4|CD|O B1|b1|NN|O TEX|tex|NN|O neg|neg|NN|O L1|l1|NN|O GA|ga|NN|O
150 - genotype|genotype|NN|O :|:|:|O gadW-8myc|gadw-8myc|NN|Gtype
151 - antibody|antibody|NN|O :|:|:|O Affinity|Affinity|NNP|Anti Purified|purify|VBN|Anti FNR|fnr|NN|Anti antibody|antibody|NN|Anti
152 - ΔgadW|δgadw|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
153 - pT7|pt7|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique _|_|NN|O 2|2|CD|O
154 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Fur-8-myc|fur-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|O mM|mm|NN|O of|of|IN|O FeCl2|fecl2|NN|O were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|Supp mM|mm|NN|Supp of|of|IN|Supp DPD|dpd|NN|Supp were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|Supp .|.|.|O For|for|IN|O the|the|DT|O rifampicin-treated|rifampicin-treated|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O rifampicin|rifampicin|NN|Supp dissolved|dissolve|VBN|Supp in|in|IN|Supp methanol|methanol|NN|Supp was|be|VBD|O added|add|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O concentration|concentration|NN|O of|of|IN|O 150|150|CD|Supp mg/mL|mg/ml|NN|Supp at|at|IN|O mid-log|mid-log|JJ|O phase|phase|NN|O and|and|CC|O stirred|stir|VBD|O for|for|IN|O 20|20|CD|Supp min|min|NN|Supp .|.|.|O
155 - affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
156 - ArgR|argr|NN|O _|_|CD|O Arginine|arginine|NN|Supp _|_|NN|O 2|2|CD|O
157 - PurR|purr|NN|O _|_|CD|O glucose|glucose|NN|Supp _|_|NN|O 2|2|CD|O
158 - RpoB|rpob|NN|O with|with|IN|O Fe|Fe|NNP|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
159 - HNS|hns|SYM|O -|-|:|O Aerobic|aerobic|JJ|Air B|b|NN|O
160 - ArgR|argr|NN|O _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|NN|O 2|2|CD|O
161 - chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O
162 - Escherichia|escherichia|FW|O coli|coli|FW|O ,|,|,|O expressing|express|VBG|O NsrR|nsrr|NN|Gtype with|with|IN|O a|a|DT|O C-terminal|c-terminal|JJ|O Flag-tag|flag-tag|NN|Gtype ,|,|,|O was|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air in|in|IN|O L|L|NNP|Med broth|broth|NN|Med supplemented|supplement|VBN|O with|with|IN|O glucose|glucose|NN|Supp .|.|.|O
163 - ∆|∆|CD|Gtype fur|fur|NN|Gtype Anaerobic|anaerobic|JJ|Air B|b|NN|O
164 - carbon|carbon|NN|O source|source|NN|O :|:|:|O acetate|acetate|NN|Supp
165 - WT|wt|JJ|Gtype fructose|fructose|NN|Supp 1|1|CD|O
166 - LB|lb|NN|Med 2.0|2.0|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L2|l2|NN|O HS2|hs2|NN|O
167 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 25|25|CD|Air %|%|NN|Air O2|o2|CD|Air ,|,|,|Air 70|70|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.35|0.35|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
168 - agent|agent|NN|O :|:|:|O Fe|Fe|NNP|Supp
169 - RpoB|rpob|NN|O WT|wt|JJ|Gtype 1|1|CD|O
170 - Input|input|NN|O ChIP-Seq|chip-seq|NN|Technique
171 - genotype/variation|genotype/variation|NN|O :|:|:|O -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype lacZ|lacz|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype tonB|tonb|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype feoA|feoa|NN|Gtype ,|,|,|Gtype -LCB-|-lcb-|-LRB-|Gtype delta|delta|NN|Gtype -RCB-|-rcb-|-RRB-|Gtype zupT|zupt|NN|Gtype K12|k12|NN|Gtype
172 - WT|wt|JJ|Gtype acetate|acetate|NN|Supp 1|1|CD|O
173 - library|library|NN|O strategy|strategy|NN|O :|:|:|O ChIP-exo|ChIP-exo|NNP|Technique
174 - ArgR|argr|NN|O _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|NN|O 1|1|CD|O
175 - Lrp|Lrp|NNP|O _|_|SYM|O NH4Cl|nh4cl|NN|Supp _|_|NN|O 1|1|CD|O
176 - WT|wt|JJ|Gtype _|_|NN|O RNASeq|rnaseq|NN|Technique
177 - antibody|antibody|NN|O :|:|:|O RNA|rna|NN|Anti Polymerase|polymerase|NN|Anti ß|ß|NN|Anti monoclonal|monoclonal|JJ|Anti antibody|antibody|NN|Anti from|from|IN|O NeoClone|NeoClone|NNP|O -LRB-|-lrb-|-LRB-|O W0002|w0002|NN|O -RRB-|-rrb-|-RRB-|O
178 - Δcra|δcra|NN|Gtype acetate|acetate|NN|Supp 1|1|CD|O
179 - genotype|genotype|NN|O :|:|:|O PurR-8myc|purr-8myc|NN|Gtype
180 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|O -LRB-|-lrb-|-LRB-|O 70|70|CD|O %|%|NN|O N2|n2|NN|O ,|,|,|O 25|25|CD|O %|%|NN|O O2|o2|CD|O ,|,|,|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O or|or|CC|O anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O .|.|.|O
181 - genotype/variation|genotype/variation|NN|O :|:|:|O delta-soxR|delta-soxr|NN|Gtype
182 - Cra|Cra|NNP|O acetate|acetate|NN|Supp 2|2|CD|O
183 - To|to|TO|O harvest|harvest|VB|O total|total|JJ|O RNA|rna|NN|O samples|sample|NNS|O ,|,|,|O overnight|overnight|JJ|O cultures|culture|NNS|O of|of|IN|O wild|wild|JJ|Gtype type|type|NN|Gtype MG1655|mg1655|NN|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O at|at|IN|O 37|37|CD|O ˚C|˚c|NN|O were|be|VBD|O diluted|dilute|VBN|O back|back|RB|O 1:500|1:500|CD|O in|in|IN|O either|either|CC|O fresh|fresh|JJ|O LB|lb|NN|O or|or|CC|O M63|m63|NN|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med medium|medium|NN|O and|and|CC|O allowed|allow|VBN|O to|to|TO|O grow|grow|VB|O until|until|IN|O the|the|DT|O cultures|culture|NNS|O reached|reach|VBD|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O and|and|CC|O 2.0|2.0|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O and|and|CC|O an|a|DT|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.4|0.4|CD|OD for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O M63|m63|NN|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 25|25|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O Ethanol|ethanol|NN|O ,|,|,|O 5|5|CD|O %|%|NN|O acid|acid|NN|O phenol|phenol|NN|O -RRB-|-rrb-|-RRB-|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|O of|of|IN|O 2.0|2.0|CD|O a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 1|1|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O .|.|.|O
184 - ΔompR|δompr|NN|Gtype NaCl|nacl|NN|Supp 2|2|CD|O
185 - Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O A|a|NN|O -|-|:|O 8|8|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
186 - Fur|Fur|NNP|O IP|IP|NNP|O ChIP-Seq|ChIP-Seq|NNP|Technique Anaerobic|anaerobic|JJ|Air C|c|NN|O
187 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|O -LRB-|-lrb-|-LRB-|O 70|70|CD|O %|%|NN|O N2|n2|NN|O ,|,|,|O 25|25|CD|O %|%|NN|O O2|o2|CD|O ,|,|,|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O or|or|CC|O anaerobically|anaerobically|RB|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O N2|n2|NN|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O .|.|.|O
188 - ΔgadX|δgadx|NN|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
189 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O anti-RpoS|anti-rpos|JJ|Anti -LRB-|-lrb-|-LRB-|O neoclone|neoclone|NN|O ,|,|,|O WP009|wp009|NN|O -RRB-|-rrb-|-RRB-|O
190 - chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O
191 - CsiR|csir|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique
192 - Δfur|δfur|NN|Gtype with|with|IN|O DPD|dpd|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
193 - WT|wt|JJ|Gtype NaCl|nacl|NN|Supp 2|2|CD|O
194 - chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|CD|O 3|3|CD|O
195 - WT|wt|JJ|Gtype pH5|ph5|NN|pH .5|.5|CD|pH 1|1|CD|O
196 - ChIP-exo|ChIP-exo|NNP|Technique RpoS|rpos|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
197 - genotype|genotype|NN|O :|:|:|O delta|delta|NN|O -|-|:|O cra|cra|NN|Gtype Knock-out|knock-out|JJ|Gtype strain|strain|NN|Gtype
198 - genotype/variation|genotype/variation|NN|O :|:|:|O delta-gadX|delta-gadx|NN|Gtype
199 - genotype/variation|genotype/variation|NN|O :|:|:|O soxR-8myc|soxr-8myc|NN|Gtype -|-|:|O tagged|tag|VBN|O
200 - NsrR|nsrr|NN|Gtype _|_|CD|Gtype Flagtag|flagtag|NN|Gtype _|_|CD|O rep3|rep3|NN|O
201 - σ32|σ32|NN|O 43|43|CD|Temp °C|°c|NN|Temp short|short|JJ|O RNase|rnase|NN|O
202 - growth|growth|NN|O medium|medium|NN|O :|:|:|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 10|10|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp
203 - Cra|Cra|NNP|O glucose|glucose|NN|Supp 1|1|CD|O
204 - HNS|hns|SYM|O -|-|:|O Anaerobic|anaerobic|JJ|Air B|b|NN|O
205 - affyexp|affyexp|JJ|O _|_|NN|O delta-arcA|delta-arca|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4Cl|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O .|.|.|O CEL|CEL|NNP|O
206 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O SeqA|seqa|NN|Anti
207 - SeqA|seqa|NN|O old|old|JJ|O deltaSeqA|deltaseqa|NN|Gtype
208 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
209 - genoype|genoype|NN|O :|:|:|O dFNR|dfnr|NN|Gtype
210 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O 9E10|9e10|CD|Anti Myc|myc|NN|Anti tag|tag|NN|Anti antibody|antibody|NN|O
211 - affyexp|affyexp|JJ|O _|_|NN|O wt|wt|JJ|Gtype _|_|NN|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 3|3|CD|O .|.|.|O CEL|CEL|NNP|O
212 - RpoB|rpob|NN|O with|with|IN|O DPD|dpd|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
213 - Nac|Nac|NNP|O _|_|NNP|O ChIPSeq|ChIPSeq|NNP|Technique
214 - Aerobic|Aerobic|NNP|Air cultures|culture|NNS|O
215 - Δcra|δcra|NN|Gtype glucose|glucose|NN|Supp 2|2|CD|O
216 - WT|wt|JJ|Gtype with|with|IN|O Fe|Fe|NNP|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
217 - SoxS|soxs|NN|O PQ|pq|NN|Supp 1|1|CD|O
218 - chip-Fnr|chip-fnr|JJ|O _|_|NN|O Fnr8myc|fnr8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 2|2|CD|O
219 - LB|lb|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS1|hs1|NN|O
220 - acetate|acetate|NN|Supp
221 - LB|lb|NN|Med 0.4|0.4|CD|O B1|b1|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O GA|ga|NN|O
222 - WT|wt|JJ|Gtype glucose|glucose|NN|Supp 1|1|CD|O
223 - SoxR|soxr|NN|O PQ|pq|NN|Supp 1|1|CD|O
224 - RpoB|rpob|NN|O with|with|IN|O DPD|dpd|NN|Supp and|and|CC|O rifampicin|rifampicin|NN|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
225 - ChIP-exo|chip-exo|NN|O reads|read|VBZ|O were|be|VBD|O aligned|align|VBN|O to|to|TO|O the|the|DT|O NC|nc|NN|Gversion _|_|CD|Gversion 000913|000913|CD|Gversion genome|genome|NN|O reference|reference|NN|O sequence|sequence|NN|O using|use|VBG|O using|use|VBG|O bowtie|bowtie|NN|O v1|v1|NN|O .0.0|.0.0|CD|O with|with|IN|O parameters|parameter|NNS|O -|-|:|O S|s|NN|O
226 - Ecoli|ecolus|NNS|O _|_|VBP|O wild-type|wild-type|JJ|Gtype _|_|NN|O rep2|rep2|NN|O _|_|CD|O anaerobic|anaerobic|JJ|Air
227 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O with|with|IN|O 4|4|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp and|and|CC|Supp 300|300|CD|Supp µL|µl|NN|Supp Cm20|cm20|NN|Supp anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O and|and|CC|O treated|treat|VBN|O with|with|IN|O 1|1|CD|O %|%|NN|O final|final|JJ|O volumen|voluman|NNS|O formaldehyde|formaldehyde|NN|O for|for|IN|O ten|ten|CD|O minutes|minute|NNS|O .|.|.|O Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|JJ|O cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O ,|,|,|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 5000|5000|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O
228 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O Custom|Custom|NNP|O anti-Fur|anti-fur|JJ|Anti polyclonal|polyclonal|JJ|Anti antibody|antibody|NN|Anti
229 - Δcra|δcra|NN|Gtype acetate|acetate|NN|Supp 2|2|CD|O
230 - ∆|∆|CD|Gtype fnr|fnr|NN|Gtype ChIP|chip|NN|O DNA|dna|NN|O from|from|IN|O PK4854|pk4854|NN|Gtype
231 - M63|m63|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS1|hs1|NN|O
232 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O none|none|NN|Anti
233 - genotype/variation|genotype/variation|NN|O :|:|:|O wild|wild|JJ|Gtype type|type|NN|Gtype
234 - chip|chip|NN|O antibody|antibody|NN|O :|:|:|O biotin|biotin|NN|Anti conjugated|conjugate|VBN|Anti anti-c-myc|anti-c-myc|JJ|Anti antibody|antibody|NN|Anti
235 - OxyR|oxyr|NN|O PQ|pq|NN|Supp 1|1|CD|O
236 - ΔsoxR|δsoxr|NN|Gtype PQ|pq|NN|Supp 1|1|CD|O
237 - carbon|carbon|NN|O source|source|NN|O :|:|:|O glucose|glucose|NN|Supp
238 - FNR|fnr|SYM|O -|-|:|O ∆|∆|CD|Gtype hns|hn|NNS|Gtype ∆|∆|VBP|Gtype stpA|stpa|NN|Gtype B|b|NN|O
239 - genotype/variation|genotype/variation|NN|O :|:|:|O delta-oxyR|delta-oxyr|NN|Gtype
240 - genotype/variation|genotype/variation|NN|O :|:|:|O Combined|Combined|NNP|Gtype input|input|NN|Gtype
241 - agent|agent|NN|O :|:|:|O Fe|Fe|NNP|Supp and|and|CC|Supp rifampicin|rifampicin|NN|Supp
242 - Cra|Cra|NNP|O fructose|fructose|NN|Supp 2|2|CD|O
243 - Nac|Nac|NNP|O _|_|SYM|O RNASeq|rnaseq|NN|Technique
244 - ß|ß|SYM|O -|-|:|O Aerobic|aerobic|JJ|Air -|-|:|O A|a|NN|O
245 - Ptac|ptac|NN|Gtype :|:|:|Gtype :|:|:|Gtype fnr|fnr|NN|Gtype -|-|:|O B|b|NN|O -|-|:|O 4|4|CD|Supp µM|µm|NN|Supp IPTG|iptg|NN|Supp
246 - RpoB|rpob|NN|O with|with|IN|O DPD|dpd|NN|Supp 2|2|CD|O -LRB-|-lrb-|-LRB-|Technique ChIP-exo|chip-exo|NN|Technique -RRB-|-rrb-|-RRB-|Technique
247 - ∆|∆|CD|Gtype fur|fur|NN|Gtype ∆|∆|CD|Gtype ryhB|ryhb|NN|Gtype Aerobic|aerobic|JJ|Air B|b|NN|O
248 - LB|lb|NN|Med 0.4|0.4|CD|O B2|b2|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O HS2|hs2|NN|O
249 - Resulting|result|VBG|O reads|read|VBZ|O were|be|VBD|O aligned|align|VBN|O to|to|TO|O the|the|DT|O published|publish|VBN|O E.|e.|FW|O coli|coli|FW|O K-12|k-12|NN|O MG1655|mg1655|NN|O genome|genome|NN|O -LRB-|-lrb-|-LRB-|O U00096|u00096|NN|Gversion .2|.2|NN|Gversion -RRB-|-rrb-|-RRB-|O using|use|VBG|O the|the|DT|O software|software|NN|O package|package|NN|O SOAP|soap|NN|O -LRB-|-lrb-|-LRB-|O Li|Li|NNP|O et|et|FW|O al|al|FW|O ,|,|,|O 2009|2009|CD|O -RRB-|-rrb-|-RRB-|O ,|,|,|O allowing|allow|VBG|O no|no|RB|O more|more|JJR|O than|than|IN|O two|two|CD|O mismatches|mismatch|NNS|O -LRB-|-lrb-|-LRB-|O Supplemental|Supplemental|NNP|O File|File|NNP|O -RRB-|-rrb-|-RRB-|O .|.|.|O Reads|read|VBZ|O aligning|align|VBG|O to|to|TO|O repeated|repeated|JJ|O elements|element|NNS|O in|in|IN|O the|the|DT|O genome|genome|NN|O -LRB-|-lrb-|-LRB-|O e.g.|e.g.|FW|O rRNA|rrna|NN|O -RRB-|-rrb-|-RRB-|O were|be|VBD|O removed|remove|VBN|O from|from|IN|O analysis|analysis|NN|O .|.|.|O For|for|IN|O reads|read|VBZ|O that|that|IN|O had|have|VBD|O no|no|DT|O mapping|mapping|NN|O locations|location|NNS|O for|for|IN|O the|the|DT|O first|first|JJ|O 36|36|CD|O bp|bp|NN|O ,|,|,|O the|the|DT|O 3-30|3-30|CD|O bp|bp|NN|O subsequences|subsequence|NNS|O were|be|VBD|O used|use|VBN|O in|in|IN|O the|the|DT|O subsequent|subsequent|JJ|O mapping|mapping|NN|O to|to|TO|O the|the|DT|O reference|reference|NN|O genome|genome|NN|O .|.|.|O Reads|read|NNS|O that|that|WDT|O had|have|VBD|O unique|unique|JJ|O mapping|mapping|NN|O locations|location|NNS|O and|and|CC|O did|do|VBD|O not|not|RB|O match|match|VB|O annotated|annotated|JJ|O rRNA|rrna|NN|O genes|gene|NNS|O were|be|VBD|O used|use|VBN|O for|for|IN|O further|further|JJ|O analysis|analysis|NN|O .|.|.|O For|for|IN|O each|each|DT|O gene|gene|NN|O ,|,|,|O the|the|DT|O tag|tag|NN|O density|density|NN|O was|be|VBD|O estimated|estimate|VBN|O as|as|IN|O the|the|DT|O number|number|NN|O of|of|IN|O aligned|align|VBN|O sequencing|sequencing|NN|O tags|tag|NNS|O divided|divide|VBN|O by|by|IN|O gene|gene|NN|O size|size|NN|O in|in|IN|O kb|kb|NN|O .|.|.|O Per-gene|per-gene|JJ|O tag|tag|NN|O density|density|NN|O was|be|VBD|O normalized|normalize|VBN|O using|use|VBG|O quantile|quantile|JJ|O normalization|normalization|NN|O -LRB-|-lrb-|-LRB-|O Supplemental|Supplemental|NNP|O Files|Files|NNP|O -RRB-|-rrb-|-RRB-|O .|.|.|O The|the|DT|O tag|tag|NN|O density|density|NN|O data|datum|NNS|O were|be|VBD|O analyzed|analyze|VBN|O for|for|IN|O statistically|statistically|RB|O significant|significant|JJ|O differential|differential|JJ|O expression|expression|NN|O using|use|VBG|O BaySeq|BaySeq|NNP|O -LRB-|-lrb-|-LRB-|O Hardcastle|Hardcastle|NNP|O &|&|CC|O Kelly|Kelly|NNP|O ,|,|,|O 2010|2010|CD|O -RRB-|-rrb-|-RRB-|O with|with|IN|O a|a|DT|O FDR|FDR|NNP|O of|of|IN|O 0.01|0.01|CD|O ,|,|,|O and|and|CC|O genes|gene|NNS|O were|be|VBD|O organized|organize|VBN|O into|into|IN|O operons|operon|NNS|O using|use|VBG|O data|datum|NNS|O from|from|IN|O EcoCyc|EcoCyc|NNP|O -LRB-|-lrb-|-LRB-|O Keseler|Keseler|NNP|O et|et|FW|O al|al|FW|O ,|,|,|O 2011|2011|CD|O -RRB-|-rrb-|-RRB-|O .|.|.|O
250 - Δcra|δcra|NN|Gtype fructose|fructose|NN|Supp 2|2|CD|O
251 - Wild|Wild|NNP|Gtype type|type|NN|Gtype control|control|NN|O -LRB-|-lrb-|-LRB-|O 2.5|2.5|CD|O min|min|NN|O -RRB-|-rrb-|-RRB-|O
252 - ∆|∆|CD|Gtype fur|fur|NN|Gtype Aerobic|aerobic|JJ|Air B|b|NN|O
253 - RpoB|rpob|NN|O ∆|∆|CD|Gtype crp|crp|NN|Gtype 1|1|CD|O
254 - chip-ArcA|chip-arca|NN|O _|_|CD|O ArcA8myc|arca8myc|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O NO3|no3|NN|Supp _|_|NN|O 1|1|CD|O
255 - NtrC|ntrc|NN|O _|_|CD|O ChIPSeq|chipseq|NN|Technique
256 - WT|wt|JJ|Gtype fructose|fructose|NN|Supp 2|2|CD|O
257 - RpoB|rpob|NN|O ∆|∆|CD|Gtype cra|cra|NN|Gtype 2|2|CD|O
258 - affyexp|affyexp|JJ|O _|_|NN|O delta-fnr|delta-fnr|NN|Gtype _|_|CD|O glucose|glucose|NN|Supp _|_|CD|O NH4CL|nh4cl|NN|Supp _|_|CD|O anaerobic|anaerobic|JJ|Air _|_|NN|O 1|1|CD|O .|.|.|O CEL|CEL|NNP|O
259 - E.|e.|FW|OD coli|coli|FW|OD K-12|k-12|NN|OD MG1655|mg1655|NN|OD WT|wt|NN|OD ,|,|,|OD gadE|gade|NN|OD ,|,|,|OD gadW|gadw|NN|OD and|and|CC|OD gadX|gadx|NN|OD mutant|mutant|JJ|OD cells|cell|NNS|OD were|be|VBD|OD grown|grow|VBN|OD to|to|TO|OD mid-log|mid-log|JJ|OD phase|phase|NN|OD -LRB-|-lrb-|-LRB-|OD OD600|od600|NN|OD
260 - Escherichia|escherichia|FW|O coli|coli|FW|O MG1655|mg1655|NN|O K-12|k-12|NN|O WT|wt|NN|O and|and|CC|O ∆|∆|NN|O fnr|fnr|NN|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O O.D.|o.d.|NN|OD 600nm|600nm|JJ|OD 0.3|0.3|CD|OD -RRB-|-rrb-|-RRB-|O anerobically|anerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air ,|,|,|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O MOPS|MOPS|NNP|Med +|+|CC|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp media|media|NNS|O -LRB-|-lrb-|-LRB-|O Ref|ref|NN|O -RRB-|-rrb-|-RRB-|O .|.|.|O
261 - Δfur|δfur|NN|Gtype with|with|IN|O Fe|Fe|NNP|Supp 1|1|CD|O -LRB-|-lrb-|-LRB-|Technique RNA-seq|rna-seq|NN|Technique -RRB-|-rrb-|-RRB-|Technique
262 - Ecoli|ecolus|NNS|O _|_|VBP|O dFNR|dfnr|NN|Gtype _|_|CD|O rep1|rep1|NN|O _|_|CD|O anaerobic|anaerobic|JJ|Air
263 - carbon|carbon|NN|O source|source|NN|O :|:|:|O fructose|fructose|NN|Supp
264 - Cra|cra|NN|O acetate|acetate|NN|Supp 1|1|CD|O
265 - culture|culture|NN|O condition|condition|NN|O :|:|:|O nitrate|nitrate|JJ|Supp respiratory|respiratory|JJ|O condition|condition|NN|O
266 - genotype|genotype|NN|O :|:|:|O ArgR-8myc|argr-8myc|NN|Gtype
267 - ChIP-exo|chip-exo|NN|O reads|read|VBZ|O were|be|VBD|O aligned|align|VBN|O to|to|TO|O the|the|DT|O NC|nc|NN|Gversion _|_|CD|Gversion 000913|000913|CD|Gversion genome|genome|NN|O reference|reference|NN|O sequence|sequence|NN|O using|use|VBG|O using|use|VBG|O bowtie|bowtie|NN|O v1|v1|NN|O .0.0|.0.0|CD|O with|with|IN|O parameters|parameter|NNS|O -|-|:|O S|s|NN|O
268 - Cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 10|10|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp
269 - ChIP-exo|ChIP-exo|NNP|Technique GadE|gade|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
270 - M63|m63|NN|Med 0.4|0.4|CD|O B1|b1|NN|O TEX|TEX|NNP|O pos|po|VBZ|O L1|l1|NN|O GA|ga|NN|O
271 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Fur-8-myc|fur-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|Supp mM|mm|NN|Supp of|of|IN|Supp FeCl2|fecl2|NN|Supp were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|O mM|mm|NN|O of|of|IN|O DPD|dpd|NN|O were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|Supp .|.|.|O For|for|IN|O the|the|DT|O rifampicin-treated|rifampicin-treated|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O rifampicin|rifampicin|NN|Supp dissolved|dissolve|VBN|Supp in|in|IN|Supp methanol|methanol|NN|Supp was|be|VBD|O added|add|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O concentration|concentration|NN|O of|of|IN|O 150|150|CD|Supp mg/mL|mg/ml|NN|Supp at|at|IN|O mid-log|mid-log|JJ|O phase|phase|NN|O and|and|CC|O stirred|stir|VBD|O for|for|IN|O 20|20|CD|Supp min|min|NN|Supp .|.|.|O
272 - ChIP-exo|ChIP-exo|NNP|Technique GadW|gadw|NN|O pH5|ph5|NN|pH .5|.5|CD|pH 2|2|CD|O
273 - Sodium|sodium|NN|O phosphate|phosphate|NN|O -LRB-|-lrb-|-LRB-|O 1/100|1/100|CD|O vol|vol|NN|O .|.|.|O of|of|IN|O 1M|1m|NN|O ,|,|,|O pH|ph|NN|O 7.6|7.6|CD|O ;|;|:|O 10|10|CD|O mM|mm|NN|O final|final|JJ|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O mid-log|mid-log|NN|Phase cultures|culture|NNS|O followed|follow|VBN|O by|by|IN|O formaldehyde|formaldehyde|NN|O to|to|TO|O 1|1|CD|O %|%|NN|O final|final|JJ|O and|and|CC|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O was|be|VBD|O continued|continue|VBN|O for|for|IN|O 10|10|CD|O min|min|NN|O .|.|.|O Cold|Cold|NNP|O 2.5|2.5|CD|O M|m|NN|O glycine|glycine|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 100mM|100mm|NN|O and|and|CC|O the|the|DT|O mixture|mixture|NN|O was|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O anaerobic|anaerobic|JJ|O sparging|sparging|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O stop|stop|VB|O the|the|DT|O crosslinking|crosslinking|NN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O spun|spin|VBN|O at|at|IN|O 3500|3500|CD|O x|x|CC|O g|g|NN|O ,|,|,|O and|and|CC|O washed|wash|VBN|O repeatedly|repeatedly|RB|O with|with|IN|O phosphate|phosphate|NN|O buffered|buffer|VBN|O saline|saline|NN|O before|before|IN|O being|be|VBG|O frozen|freeze|VBN|O at|at|IN|O -80|-80|CD|O °C|°c|NN|O .|.|.|O Cell|cell|NN|O pellets|pellet|NNS|O -LRB-|-lrb-|-LRB-|O from|from|IN|O initial|initial|JJ|O 250|250|CD|O mL|ml|NN|O of|of|IN|O culture|culture|NN|O -RRB-|-rrb-|-RRB-|O were|be|VBD|O thawed|thaw|VBN|O and|and|CC|O resuspended|resuspend|VBN|O in|in|IN|O 250|250|CD|O μL|μl|NN|O of|of|IN|O IP|IP|NNP|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 100|100|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 300|300|CD|O mM|mm|NN|O NaCl|nacl|NN|O ,|,|,|O 1|1|CD|O %|%|NN|O TritonX-100|tritonx-100|NN|O -RRB-|-rrb-|-RRB-|O and|and|CC|O sonicated|sonicate|VBN|O using|use|VBG|O a|a|DT|O microtip|microtip|NN|O sonicator|sonicator|NN|O set|set|VBN|O at|at|IN|O 10|10|CD|O %|%|NN|O output|output|NN|O for|for|IN|O 20|20|CD|O second|second|JJ|O intervals|interval|NNS|O with|with|IN|O periods|period|NNS|O of|of|IN|O cooling|cool|VBG|O in|in|IN|O between|between|IN|O .|.|.|O Cells|cell|NNS|O were|be|VBD|O then|then|RB|O treated|treat|VBN|O for|for|IN|O one|one|CD|O hour|hour|NN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O with|with|IN|O RNase|rnase|NN|O A|a|NN|O -LRB-|-lrb-|-LRB-|O 2|2|CD|O ng/ml|ng/ml|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O micrococcal|micrococcal|JJ|O nuclease|nuclease|NN|O -LRB-|-lrb-|-LRB-|O 50|50|CD|O units|unit|NNS|O -RRB-|-rrb-|-RRB-|O ,|,|,|O 20|20|CD|O μM|μm|NN|O CaCl2|cacl2|NN|O ,1.2|,1.2|CD|O mM|mm|NN|O KCl|kcl|NN|O ,|,|,|O 0.3|0.3|CD|O mM|mm|NN|O NaCl|nacl|NN|O ,|,|,|O 6|6|CD|O mM|mm|NN|O sucrose|sucrose|NN|O ,|,|,|O and|and|CC|O 10|10|CD|O μM|μm|NN|O DTT|dtt|NN|O .|.|.|O EDTA|edta|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O 10|10|CD|O mM|mm|NN|O to|to|TO|O stop|stop|VB|O the|the|DT|O micrococcal|micrococcal|JJ|O nuclease|nuclease|NN|O and|and|CC|O the|the|DT|O samples|sample|NNS|O were|be|VBD|O spun|spin|VBN|O down|down|RP|O to|to|TO|O remove|remove|VB|O cell|cell|NN|O debris|debris|NN|O .|.|.|O The|the|DT|O lysate|lysate|NN|O was|be|VBD|O then|then|RB|O precleared|preclear|VBN|O through|through|IN|O incubation|incubation|NN|O with|with|IN|O a|a|DT|O 50/50|50/50|CD|O slurry|slurry|NN|O of|of|IN|O sepharose|sepharose|NN|O protein|protein|NN|O A|a|NN|O beads|bead|NNS|O in|in|IN|O IP|IP|NNP|O buffer|buffer|NN|O for|for|IN|O 2-3|2-3|CD|O hours|hour|NNS|O at|at|IN|O 4|4|CD|O °C|°c|NN|O .|.|.|O The|the|DT|O beads|bead|NNS|O were|be|VBD|O removed|remove|VBN|O by|by|IN|O centrifugation|centrifugation|NN|O and|and|CC|O antibody|antibody|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O pre-cleared|pre-cleared|JJ|O lysate|lysate|NN|O for|for|IN|O an|a|DT|O overnight|overnight|JJ|O incubation|incubation|NN|O .|.|.|O The|the|DT|O next|next|JJ|O day|day|NN|O ,|,|,|O 30|30|CD|O μl|μl|NN|O of|of|IN|O a|a|DT|O 50/50|50/50|CD|O slurry|slurry|NN|O of|of|IN|O sepharose|sepharose|NN|O protein|protein|NN|O A|a|NN|O beads|bead|NNS|O in|in|IN|O IP|IP|NNP|O buffer|buffer|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O the|the|DT|O lysate|lysate|NN|O to|to|TO|O capture|capture|VB|O antibody-protein-DNA|antibody-protein-dna|JJ|O complex|complex|NN|O for|for|IN|O one|one|CD|O hour|hour|NN|O at|at|IN|O 4|4|CD|O °C|°c|NN|O .|.|.|O Beads|bead|NNS|O were|be|VBD|O then|then|RB|O washed|wash|VBN|O once|once|RB|O with|with|IN|O 1|1|CD|O ml|ml|NN|O of|of|IN|O LiCl|licl|NN|O wash|wash|NN|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 100|100|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 250|250|CD|O mM|mm|NN|O LiCl|licl|NN|O ,|,|,|O 2|2|CD|O %|%|NN|O TritonX-100|tritonx-100|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O twice|twice|RB|O with|with|IN|O 600|600|CD|O mM|mm|NN|O NaCl|nacl|NN|O wash|wash|NN|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 100|100|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 600|600|CD|O mM|mm|NN|O NaCl|nacl|NN|O ,|,|,|O 2|2|CD|O %|%|NN|O TritonX-100|tritonx-100|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O twice|twice|RB|O with|with|IN|O 300|300|CD|O mM|mm|NN|O NaCl|nacl|NN|O wash|wash|NN|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 100|100|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 300|300|CD|O mM|mm|NN|O NaCl|nacl|NN|O ,|,|,|O 2|2|CD|O %|%|NN|O TritonX-100|tritonx-100|NN|O -RRB-|-rrb-|-RRB-|O ,|,|,|O and|and|CC|O twice|twice|RB|O with|with|IN|O TE|te|NN|O .|.|.|O Elution|elution|NN|O buffer|buffer|NN|O -LRB-|-lrb-|-LRB-|O 50|50|CD|O mM|mm|NN|O Tris|Tris|NNP|O pH|ph|NN|O 8|8|CD|O ,|,|,|O 10|10|CD|O mM|mm|NN|O EDTA|edta|NN|O ,|,|,|O 1|1|CD|O %|%|NN|O SDS|sds|NN|O -RRB-|-rrb-|-RRB-|O was|be|VBD|O added|add|VBN|O after|after|IN|O the|the|DT|O final|final|JJ|O wash|wash|NN|O step|step|NN|O ,|,|,|O and|and|CC|O beads|bead|NNS|O were|be|VBD|O incubated|incubate|VBN|O at|at|IN|O 65|65|CD|O °C|°c|NN|O for|for|IN|O 30|30|CD|O minutes|minute|NNS|O to|to|TO|O remove|remove|VB|O the|the|DT|O crosslinked|crosslink|VBN|O protein-DNA|protein-dna|JJ|O complexes|complex|NNS|O from|from|IN|O the|the|DT|O beads|bead|NNS|O .|.|.|O After|after|IN|O centrifugation|centrifugation|NN|O to|to|TO|O remove|remove|VB|O the|the|DT|O beads|bead|NNS|O ,|,|,|O the|the|DT|O samples|sample|NNS|O were|be|VBD|O incubated|incubate|VBN|O overnight|overnight|RB|O at|at|IN|O 65|65|CD|O °C|°c|NN|O to|to|TO|O reverse|reverse|VB|O the|the|DT|O protein-DNA|protein-dna|JJ|O formaldehyde|formaldehyde|NN|O crosslinks|crosslink|NNS|O .|.|.|O DNA|dna|NN|O was|be|VBD|O purified|purify|VBN|O using|use|VBG|O Qiagen|Qiagen|NNP|O 's|'s|POS|O PCR|pcr|NN|O Purification|purification|NN|O kit|kit|NN|O and|and|CC|O eluted|elute|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O volume|volume|NN|O of|of|IN|O 50|50|CD|O μl|μl|NN|O with|with|IN|O EB|EB|NNP|O .|.|.|O
274 - To|to|TO|O harvest|harvest|VB|O total|total|JJ|O RNA|rna|NN|O samples|sample|NNS|O ,|,|,|O overnight|overnight|JJ|O cultures|culture|NNS|O of|of|IN|O wild|wild|JJ|Gtype type|type|NN|Gtype MG1655|mg1655|NN|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O at|at|IN|O 37|37|CD|O ˚C|˚c|NN|O were|be|VBD|O diluted|dilute|VBN|O back|back|RB|O 1:500|1:500|CD|O in|in|IN|O either|either|CC|O fresh|fresh|JJ|O LB|lb|NN|O or|or|CC|O M63|m63|NN|O minimal|minimal|JJ|O glucose|glucose|NN|O medium|medium|NN|O and|and|CC|O allowed|allow|VBN|O to|to|TO|O grow|grow|VB|O until|until|IN|O the|the|DT|O cultures|culture|NNS|O reached|reach|VBD|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O and|and|CC|O 2.0|2.0|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O LB|lb|NN|O and|and|CC|O an|a|DT|O OD600|od600|NN|O of|of|IN|O ~|~|NN|O 0.4|0.4|CD|O for|for|IN|O cultures|culture|NNS|O grown|grow|VBN|O in|in|IN|O M63|m63|NN|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.4|0.4|CD|OD a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 25|25|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O -LRB-|-lrb-|-LRB-|O 95|95|CD|O %|%|NN|O Ethanol|ethanol|NN|O ,|,|,|O 5|5|CD|O %|%|NN|O acid|acid|NN|O phenol|phenol|NN|O -RRB-|-rrb-|-RRB-|O .|.|.|O For|for|IN|O samples|sample|NNS|O grown|grow|VBN|O to|to|TO|O OD600|od600|NN|O of|of|IN|O 2.0|2.0|CD|O a|a|DT|O total|total|JJ|O volume|volume|NN|O of|of|IN|O 5|5|CD|O ml|ml|NN|O of|of|IN|O cells|cell|NNS|O were|be|VBD|O harvested|harvest|VBN|O and|and|CC|O combined|combine|VBN|O with|with|IN|O 1|1|CD|O ml|ml|NN|O of|of|IN|O stop|stop|NN|O solution|solution|NN|O .|.|.|O
275 - culture|culture|NN|O condition|condition|NN|O :|:|:|O Anaerobic|anaerobic|JJ|Air cultures|culture|NNS|O
276 - Cells|cell|NNS|O were|be|VBD|O grown|grow|VBN|O aerobically|aerobically|RB|O -LRB-|-lrb-|-LRB-|O 70|70|CD|O %|%|NN|O N2|n2|NN|O ,|,|,|O 25|25|CD|O %|%|NN|O O2|o2|CD|O ,|,|,|O and|and|CC|O 5|5|CD|O %|%|NN|O CO2|co2|NN|O -RRB-|-rrb-|-RRB-|O or|or|CC|O anaerobically|anaerobically|RB|Air -LRB-|-lrb-|-LRB-|Air 95|95|CD|Air %|%|NN|Air N2|n2|NN|Air and|and|CC|Air 5|5|CD|Air %|%|NN|Air CO2|co2|NN|Air -RRB-|-rrb-|-RRB-|Air until|until|IN|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase -LRB-|-lrb-|-LRB-|O OD600|od600|NN|OD of|of|IN|OD ~|~|NN|OD 0.3-0.35|0.3-0.35|CD|OD -RRB-|-rrb-|-RRB-|O in|in|IN|O MOPS|MOPS|NNP|Med minimal|minimal|JJ|Med glucose|glucose|NN|Med media|media|NNS|Med containing|contain|VBG|O 10|10|CD|Supp µM|µm|NN|Supp FeSO4|feso4|NN|Supp .|.|.|O
277 - genotype|genotype|NN|O :|:|:|O Wildtype|wildtype|NN|Gtype
278 - agent|agent|NN|O :|:|:|O DPD|dpd|NN|Supp
279 - growth|growth|NN|OD phase|phase|NN|OD :|:|:|OD stationary|stationary|JJ|Phase
280 - E.|E.|NNP|O coli|coli|NN|O K-12|k-12|NN|O MG1655|mg1655|NN|O WT|wt|NN|O and|and|CC|O Fur-8-myc|fur-8-myc|NN|O tagged|tag|VBD|O strains|strain|NNS|O were|be|VBD|O grown|grow|VBN|O to|to|TO|O mid-log|mid-log|JJ|Phase phase|phase|NN|Phase aerobically|aerobically|RB|Air at|at|IN|O 37|37|CD|Temp °C|°c|NN|Temp in|in|IN|O M9|m9|NN|Med minimal|minimal|JJ|Med media|media|NNS|Med supplemented|supplement|VBN|O with|with|IN|O 0.2|0.2|CD|Supp %|%|NN|Supp glucose|glucose|NN|Supp .|.|.|O For|for|IN|O iron|iron|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.1|0.1|CD|O mM|mm|NN|O of|of|IN|O FeCl2|fecl2|NN|O were|be|VBD|O treated|treat|VBN|O from|from|IN|O the|the|DT|O beginning|beginning|NN|O of|of|IN|O culture|culture|NN|O ,|,|,|O and|and|CC|O for|for|IN|O DPD|dpd|NN|O treated|treat|VBN|O cells|cell|NNS|O ,|,|,|O 0.2|0.2|CD|Supp mM|mm|NN|Supp of|of|IN|Supp DPD|dpd|NN|Supp were|be|VBD|O added|add|VBN|O at|at|IN|O early-log|early-log|JJ|O phase|phase|NN|O and|and|CC|O continued|continue|VBD|O to|to|TO|O culture|culture|NN|O for|for|IN|O additional|additional|JJ|O 2h|2h|NN|Supp .|.|.|O For|for|IN|O the|the|DT|O rifampicin-treated|rifampicin-treated|JJ|O cultures|culture|NNS|O ,|,|,|O the|the|DT|O rifampicin|rifampicin|NN|O dissolved|dissolve|VBN|O in|in|IN|O methanol|methanol|NN|O was|be|VBD|O added|add|VBN|O to|to|TO|O a|a|DT|O final|final|JJ|O concentration|concentration|NN|O of|of|IN|O 150|150|CD|O mg/mL|mg/ml|NN|O at|at|IN|O mid-log|mid-log|JJ|O phase|phase|NN|O and|and|CC|O stirred|stir|VBD|O for|for|IN|O 20|20|CD|O min|min|NN|O .|.|.|O
281 - genotype/variation|genotype/variation|NN|O :|:|:|O ΔarcA|δarca|NN|Gtype
282 - NsrR|nsrr|NN|Gtype _|_|CD|Gtype Flagtag|flagtag|NN|Gtype _|_|CD|O rep1|rep1|NN|O
283 - Δcra|δcra|NN|Gtype fructose|fructose|NN|Supp 1|1|CD|O
...\ No newline at end of file ...\ No newline at end of file
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: False False
8 -Report file: _v9
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003760s
15 -{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
16 -{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
17 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
18 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
19 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.905489 - 1.1s
20 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
21 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.577889 - 0.9s
22 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
23 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.679766 - 1.1s
24 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
25 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.767569 - 1.1s
26 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
27 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.838429 - 1.2s
28 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
29 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.857493 - 1.0s
30 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
31 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.938387 - 1.1s
32 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
33 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.848001 - 1.0s
34 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
35 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.660012 - 1.0s
36 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
37 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.721334 - 1.2s
38 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
39 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.669962 - 0.8s
40 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
41 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.703150 - 1.2s
42 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
43 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.724515 - 1.2s
44 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
45 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.708877 - 1.2s
46 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
47 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.679766 - 1.2s
48 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
49 -[CV] c1=0.20181412872449603, c2=0.1831099538162916, score=0.597458 - 1.0s
50 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
51 -[CV] c1=0.12349654401855631, c2=0.02271624803463124, score=0.720311 - 1.2s
52 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
53 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.661884 - 1.0s
54 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
55 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.761418 - 1.2s
56 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
57 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.586182 - 0.9s
58 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
59 -[CV] c1=0.20181412872449603, c2=0.1831099538162916, score=0.848001 - 1.2s
60 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
61 -[CV] c1=0.12349654401855631, c2=0.02271624803463124, score=0.596949 - 1.0s
62 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
63 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.586182 - 1.1s
64 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
65 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.905489 - 1.1s
66 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
67 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.920970 - 1.0s
68 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
69 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.866790 - 1.1s
70 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
71 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.756561 - 1.2s
72 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
73 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.741434 - 1.1s
74 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
75 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.857493 - 1.1s
76 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
77 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.687300 - 1.1s
78 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
79 -[CV] c1=0.20181412872449603, c2=0.1831099538162916, score=0.628354 - 1.1s
80 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
81 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.921915 - 1.2s
82 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
83 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.906853 - 1.2s
84 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
85 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.674776 - 1.1s
86 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
87 -[CV] c1=1.0380596275637475, c2=0.18279171536318017, score=0.609849 - 1.0s
88 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
89 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.547996 - 0.9s
90 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
91 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.848001 - 1.2s
92 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
93 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.773430 - 1.2s
94 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
95 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.538621 - 0.9s
96 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
97 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.848001 - 1.3s
98 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
99 -[CV] c1=0.27752606848750366, c2=0.036947033112907056, score=0.679766 - 0.9s
100 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
101 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.906853 - 1.1s
102 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
103 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.921915 - 1.1s
104 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
105 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.776203 - 1.1s
106 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
107 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.872249 - 1.2s
108 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
109 -[CV] c1=0.20181412872449603, c2=0.1831099538162916, score=0.784628 - 1.2s
110 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
111 -[CV] c1=0.12349654401855631, c2=0.02271624803463124, score=0.741434 - 1.1s
112 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
113 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.687750 - 1.1s
114 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
115 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.710539 - 1.1s
116 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
117 -[CV] c1=1.0380596275637475, c2=0.18279171536318017, score=0.627348 - 1.0s
118 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
119 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.761418 - 1.0s
120 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
121 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.740663 - 1.4s
122 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
123 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.730083 - 1.2s
124 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
125 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.583681 - 0.9s
126 -[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
127 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.899703 - 1.2s
128 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
129 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.781163 - 0.9s
130 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
131 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.871555 - 1.2s
132 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
133 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.881356 - 1.3s
134 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
135 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.855614 - 1.1s
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137 -[CV] c1=0.24819385946875622, c2=0.052655886800089084, score=0.740663 - 1.2s
138 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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140 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
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142 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
143 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.903565 - 1.0s
144 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
145 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.928170 - 1.1s
146 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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148 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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150 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
151 -[CV] c1=0.12349654401855631, c2=0.02271624803463124, score=0.735607 - 1.2s
152 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
153 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.632439 - 1.0s
154 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
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156 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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160 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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162 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
163 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.741527 - 1.0s
164 -[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
165 -[CV] c1=0.5713116669674538, c2=0.01054418037901807, score=0.883954 - 1.1s
166 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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168 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
169 -[CV] c1=0.20181412872449603, c2=0.1831099538162916, score=0.704237 - 1.1s
170 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
171 -[CV] c1=0.12349654401855631, c2=0.02271624803463124, score=0.838429 - 1.2s
172 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
173 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.697912 - 1.1s
174 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
175 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.741434 - 1.1s
176 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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178 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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180 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
181 -[CV] c1=0.5994878159065081, c2=0.04116230984146705, score=0.761818 - 1.0s
182 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
183 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.818617 - 1.2s
184 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
185 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.899703 - 1.1s
186 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
187 -[CV] c1=1.0380596275637475, c2=0.18279171536318017, score=0.526041 - 1.0s
188 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
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190 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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192 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
193 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.816469 - 1.2s
194 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
195 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.866790 - 1.2s
196 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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198 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
199 -[CV] c1=0.27752606848750366, c2=0.036947033112907056, score=0.838429 - 1.5s
200 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
201 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.899703 - 1.1s
202 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
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204 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
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206 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
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208 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
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210 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
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212 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
213 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.860755 - 1.2s
214 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
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216 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
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218 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
219 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.716266 - 0.9s
220 -[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
221 -[CV] c1=0.22716579831507944, c2=0.007171535474090697, score=0.674776 - 1.3s
222 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
223 -[CV] c1=0.09651425305864975, c2=0.0039926239609599816, score=0.924594 - 1.4s
224 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
225 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.847745 - 1.1s
226 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
227 -[CV] c1=1.0380596275637475, c2=0.18279171536318017, score=0.722890 - 1.2s
228 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
229 -[CV] c1=0.27752606848750366, c2=0.036947033112907056, score=0.848001 - 1.2s
230 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
231 -[CV] c1=0.5994878159065081, c2=0.04116230984146705, score=0.817004 - 1.3s
232 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
233 -[CV] c1=0.38390254403775603, c2=0.019141773881786436, score=0.710539 - 1.1s
234 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
235 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.606581 - 1.0s
236 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
237 -[CV] c1=0.17443878436909793, c2=0.025545309300829405, score=0.920970 - 0.9s
238 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
239 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.713945 - 1.2s
240 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
241 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.710539 - 1.1s
242 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
243 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.578904 - 1.0s
244 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
245 -[CV] c1=1.395645503093999, c2=0.03913303306397459, score=0.639214 - 1.2s
246 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
247 -[CV] c1=0.17443878436909793, c2=0.025545309300829405, score=0.935924 - 1.0s
248 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
249 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.899703 - 1.1s
250 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
251 -[CV] c1=0.12349654401855631, c2=0.02271624803463124, score=0.674776 - 1.3s
252 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
253 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.784628 - 1.2s
254 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
255 -[CV] c1=1.395645503093999, c2=0.03913303306397459, score=0.761165 - 1.1s
256 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
257 -[CV] c1=0.17443878436909793, c2=0.025545309300829405, score=0.796488 - 0.9s
258 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
259 -[CV] c1=0.27752606848750366, c2=0.036947033112907056, score=0.740663 - 1.2s
260 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
261 -[CV] c1=0.5994878159065081, c2=0.04116230984146705, score=0.917838 - 1.1s
262 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
263 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.673541 - 1.2s
264 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
265 -[CV] c1=1.395645503093999, c2=0.03913303306397459, score=0.605840 - 1.1s
266 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
267 -[CV] c1=0.17443878436909793, c2=0.025545309300829405, score=0.838429 - 1.1s
268 -[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
269 -[CV] c1=0.5461072593339137, c2=0.002561125547217938, score=0.728584 - 1.2s
270 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
271 -[CV] c1=0.12349654401855631, c2=0.02271624803463124, score=0.920970 - 1.3s
272 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
273 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.720535 - 1.2s
274 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
275 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.639214 - 1.1s
276 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
277 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.648261 - 0.9s
278 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
279 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.906853 - 1.2s
280 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
281 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.555809 - 1.0s
282 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
283 -[CV] c1=0.38390254403775603, c2=0.019141773881786436, score=0.899703 - 1.1s
284 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
285 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.530341 - 0.9s
286 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
287 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.639214 - 0.9s
288 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
289 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.608719 - 1.0s
290 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
291 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.866790 - 1.1s
292 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
293 -[CV] c1=0.38390254403775603, c2=0.019141773881786436, score=0.883034 - 1.1s
294 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
295 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.648261 - 1.4s
296 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
297 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.541373 - 0.7s
298 -[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
299 -[CV] c1=0.20181412872449603, c2=0.1831099538162916, score=0.906294 - 1.1s
300 -[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
301 -[CV] c1=0.12349654401855631, c2=0.02271624803463124, score=0.906853 - 1.1s
302 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
303 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.566256 - 1.0s
304 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
305 -[CV] c1=0.1550751527481274, c2=0.0018910637535844298, score=0.803761 - 1.2s
306 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
307 -[CV] c1=0.17443878436909793, c2=0.025545309300829405, score=0.727700 - 1.1s
308 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
309 -[CV] c1=0.27752606848750366, c2=0.036947033112907056, score=0.874934 - 1.1s
310 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
311 -[CV] c1=0.5994878159065081, c2=0.04116230984146705, score=0.656490 - 1.1s
312 -[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
313 -[CV] c1=0.9058341641460185, c2=0.007378307188927494, score=0.891760 - 1.1s
314 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
315 -[CV] c1=1.395645503093999, c2=0.03913303306397459, score=0.616903 - 0.9s
316 -[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
317 -[CV] c1=1.0380596275637475, c2=0.18279171536318017, score=0.685536 - 1.1s
318 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
319 -[CV] c1=0.27752606848750366, c2=0.036947033112907056, score=0.753176 - 1.1s
320 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
321 -[CV] c1=0.5994878159065081, c2=0.04116230984146705, score=0.710303 - 1.2s
322 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
323 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.899703 - 1.2s
324 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
325 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.614746 - 1.1s
326 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
327 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.616903 - 0.9s
328 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
329 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.848001 - 1.2s
330 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
331 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.852821 - 1.0s
332 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
333 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.919762 - 1.1s
334 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
335 -[CV] c1=1.395645503093999, c2=0.03913303306397459, score=0.680407 - 1.1s
336 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
337 -[CV] c1=0.17443878436909793, c2=0.025545309300829405, score=0.888529 - 1.1s
338 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
339 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.680867 - 1.1s
340 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
341 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.660012 - 1.0s
342 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
343 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.848001 - 1.1s
344 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
345 -[CV] c1=1.395645503093999, c2=0.03913303306397459, score=0.800487 - 1.1s
346 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
347 -[CV] c1=0.17443878436909793, c2=0.025545309300829405, score=0.740663 - 1.1s
348 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
349 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.867013 - 1.2s
350 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
351 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.784199 - 1.1s
352 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
353 -[CV] c1=0.38390254403775603, c2=0.019141773881786436, score=0.679766 - 1.1s
354 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
355 -[CV] c1=1.395645503093999, c2=0.03913303306397459, score=0.689868 - 1.1s
356 -[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
357 -[CV] c1=0.17443878436909793, c2=0.025545309300829405, score=0.906853 - 1.0s
358 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
359 -[CV] c1=0.27752606848750366, c2=0.036947033112907056, score=0.899703 - 1.3s
360 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
361 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.919762 - 1.1s
362 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
363 -[CV] c1=0.38390254403775603, c2=0.019141773881786436, score=0.919762 - 1.1s
364 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
365 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.689868 - 1.1s
366 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
367 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.689868 - 0.8s
368 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
369 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.775757 - 1.1s
370 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
371 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.798294 - 1.1s
372 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
373 -[CV] c1=0.38390254403775603, c2=0.019141773881786436, score=0.879383 - 1.2s
374 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
375 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.573741 - 1.1s
376 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
377 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.680407 - 0.8s
378 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
379 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.845912 - 1.1s
380 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
381 -[CV] c1=0.5994878159065081, c2=0.04116230984146705, score=0.556324 - 0.9s
382 -[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
383 -[CV] c1=0.33745249047104287, c2=0.12028799387317968, score=0.715320 - 1.0s
384 -[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
385 -[CV] c1=1.395645503093999, c2=0.03913303306397459, score=0.648261 - 1.4s
386 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
387 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.816730 - 1.0s
388 -[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
389 -[CV] c1=0.1126557712627844, c2=0.10045738310383956, score=0.919762 - 1.1s
390 -[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
391 -[CV] c1=0.5000947711428705, c2=0.016584093219888196, score=0.768203 - 1.1s
392 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
393 -[CV] c1=0.38390254403775603, c2=0.019141773881786436, score=0.866790 - 1.1s
394 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
395 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.748264 - 1.1s
396 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
397 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.624124 - 1.0s
398 -[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
399 -[CV] c1=0.27752606848750366, c2=0.036947033112907056, score=0.920970 - 1.2s
400 -[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
401 -[CV] c1=0.5994878159065081, c2=0.04116230984146705, score=0.883954 - 1.2s
402 -[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
403 -[CV] c1=0.38390254403775603, c2=0.019141773881786436, score=0.761418 - 1.1s
404 -[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
405 -[CV] c1=1.348060881200924, c2=0.05731692872510329, score=0.800487 - 1.1s
406 -[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
407 -[CV] c1=1.24594687727841, c2=0.044969845912413944, score=0.776399 - 1.0s
408 -Training done in: 7.289575s
409 - Saving training model...
410 - Saving training model done in: 0.015155s
411 -*********************************
412 -Prediction done in: 0.026515s
1 +-------------------------------- PARAMETERS --------------------------------
2 +Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 +File with training data set: training-data-set-70.txt
4 +Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 +File with test data set: test-data-set-30.txt
6 +Exclude stop words: False
7 +Levels: False False
8 +Report file: _v11
9 +Exclude symbols: False
10 +-------------------------------- PROCESSING --------------------------------
11 +Reading corpus...
12 + Sentences training data: 286
13 + Sentences test data: 123
14 +Reading corpus done in: 0.003661s
15 +-------------------------------- FEATURES --------------------------------
16 +--------------------------Features Training ---------------------------
17 + 0 1
18 +0 lemma 2
19 +1 postag CD
20 +2 -1:lemma fructose
21 +3 -1:postag NN
22 +--------------------------- FeaturesTest -----------------------------
23 + 0 1
24 +0 lemma delta-arca
25 +1 postag NN
26 +2 -1:lemma _
27 +3 -1:postag NN
28 +4 +1:lemma _
29 +5 +1:postag CD
30 +Fitting 10 folds for each of 20 candidates, totalling 200 fits
31 +[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
32 +[CV] c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.862849 - 1.1s
33 +[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
34 +[CV] c1=0.08128668233823869, c2=0.015540324479165422, score=0.919033 - 1.1s
35 +[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
36 +[CV] c1=0.5160556959866659, c2=0.00838831450556026, score=0.906157 - 1.3s
37 +[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
38 +[CV] c1=1.7122140999971878, c2=0.05658957314559598, score=0.844021 - 1.1s
39 +[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
40 +[CV] c1=0.4946687667859687, c2=0.0542592515703674, score=0.808915 - 0.7s
41 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
42 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276, score=0.792622 - 1.1s
43 +[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
44 +[CV] c1=0.4088757117025328, c2=0.09168395187353322, score=0.755521 - 1.1s
45 +[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
46 +[CV] c1=0.38466523790200696, c2=0.014294801698835725, score=0.792622 - 1.2s
47 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
48 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.832821 - 1.2s
49 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
50 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556, score=0.844183 - 0.9s
51 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
52 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276, score=0.911899 - 1.1s
53 +[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
54 +[CV] c1=0.4088757117025328, c2=0.09168395187353322, score=0.848019 - 1.0s
55 +[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
56 +[CV] c1=0.38466523790200696, c2=0.014294801698835725, score=0.794216 - 1.2s
57 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
58 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.929943 - 1.0s
59 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
60 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556, score=0.874938 - 1.1s
61 +[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
62 +[CV] c1=0.016682035458511702, c2=0.007521135075766578, score=0.869971 - 0.9s
63 +[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
64 +[CV] c1=0.4088757117025328, c2=0.09168395187353322, score=0.862491 - 1.2s
65 +[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
66 +[CV] c1=0.38466523790200696, c2=0.014294801698835725, score=0.868591 - 1.1s
67 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
68 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.892921 - 1.0s
69 +[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
70 +[CV] c1=0.4946687667859687, c2=0.0542592515703674, score=0.849102 - 1.0s
71 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
72 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276, score=0.927140 - 1.2s
73 +[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
74 +[CV] c1=0.9870335277617494, c2=0.04765866813729092, score=0.595497 - 1.1s
75 +[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
76 +[CV] c1=0.4739364495651378, c2=0.008016632345172418, score=0.708368 - 1.1s
77 +[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
78 +[CV] c1=0.7148705150289486, c2=0.0060592676388864924, score=0.791386 - 1.0s
79 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
80 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556, score=0.903946 - 1.0s
81 +[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
82 +[CV] c1=0.016682035458511702, c2=0.007521135075766578, score=0.698765 - 1.0s
83 +[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
84 +[CV] c1=0.4088757117025328, c2=0.09168395187353322, score=0.807845 - 1.2s
85 +[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
86 +[CV] c1=0.4739364495651378, c2=0.008016632345172418, score=0.827517 - 1.0s
87 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
88 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.862849 - 1.1s
89 +[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
90 +[CV] c1=0.4946687667859687, c2=0.0542592515703674, score=0.848019 - 1.0s
91 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
92 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276, score=0.856620 - 1.0s
93 +[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
94 +[CV] c1=0.4088757117025328, c2=0.09168395187353322, score=0.794216 - 1.1s
95 +[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
96 +[CV] c1=0.38466523790200696, c2=0.014294801698835725, score=0.851982 - 1.2s
97 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
98 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.902103 - 1.2s
99 +[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
100 +[CV] c1=0.28200022301003685, c2=0.0010305816691186325, score=0.874938 - 0.9s
101 +[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
102 +[CV] c1=0.016682035458511702, c2=0.007521135075766578, score=0.923212 - 1.0s
103 +[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
104 +[CV] c1=0.9870335277617494, c2=0.04765866813729092, score=0.726136 - 1.0s
105 +[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
106 +[CV] c1=0.38466523790200696, c2=0.014294801698835725, score=0.907748 - 1.2s
107 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
108 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.846394 - 1.1s
109 +[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
110 +[CV] c1=0.28200022301003685, c2=0.0010305816691186325, score=0.912263 - 0.8s
111 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
112 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276, score=0.868591 - 1.0s
113 +[CV] c1=0.4088757117025328, c2=0.09168395187353322 ...................
114 +[CV] c1=0.4088757117025328, c2=0.09168395187353322, score=0.634294 - 1.1s
115 +[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
116 +[CV] c1=0.38466523790200696, c2=0.014294801698835725, score=0.708368 - 1.2s
117 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
118 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.794216 - 1.1s
119 +[CV] c1=0.28200022301003685, c2=0.0010305816691186325 ................
120 +[CV] c1=0.28200022301003685, c2=0.0010305816691186325, score=0.821993 - 0.9s
121 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276 .................
122 +[CV] c1=0.3416431887936145, c2=0.0064368649263298276, score=0.920954 - 1.1s
123 +[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
124 +[CV] c1=0.9870335277617494, c2=0.04765866813729092, score=0.765873 - 1.1s
125 +[CV] c1=0.38466523790200696, c2=0.014294801698835725 .................
126 +[CV] c1=0.38466523790200696, c2=0.014294801698835725, score=0.812884 - 1.1s
127 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
128 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.935212 - 1.1s
129 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
130 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556, score=0.915096 - 1.0s
131 +[CV] c1=0.016682035458511702, c2=0.007521135075766578 ................
132 +[CV] c1=0.016682035458511702, c2=0.007521135075766578, score=0.878466 - 1.1s
133 +[CV] c1=0.9870335277617494, c2=0.04765866813729092 ...................
134 +[CV] c1=0.9870335277617494, c2=0.04765866813729092, score=0.729107 - 1.0s
135 +[CV] c1=0.4739364495651378, c2=0.008016632345172418 ..................
136 +[CV] c1=0.4739364495651378, c2=0.008016632345172418, score=0.913639 - 1.1s
137 +[CV] c1=0.7148705150289486, c2=0.0060592676388864924 .................
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139 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556 ................
140 +[CV] c1=0.25680804182641076, c2=0.0023964124558177556, score=0.842269 - 1.1s
141 +[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
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363 +[CV] c1=0.4978424280676325, c2=0.20578681248358272 ...................
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365 +[CV] c1=0.02176968258286127, c2=0.02945484477062978 ..................
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367 +[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
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371 +[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
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389 +[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
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391 +[CV] c1=0.12930688817551622, c2=0.07034964230848688 ..................
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393 +[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
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395 +[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
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397 +[CV] c1=0.1700832520653568, c2=0.028556204986796993 ..................
398 +[CV] c1=0.1700832520653568, c2=0.028556204986796993, score=0.931384 - 1.1s
399 +[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
400 +[CV] c1=0.20934163148847484, c2=5.972574594521125e-05, score=0.822899 - 1.4s
401 +[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
402 +[CV] c1=0.08128668233823869, c2=0.015540324479165422, score=0.930828 - 1.1s
403 +[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
404 +[CV] c1=0.5160556959866659, c2=0.00838831450556026, score=0.920058 - 1.3s
405 +[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
406 +[CV] c1=0.16523896983656627, c2=0.036164164069576, score=0.857498 - 0.9s
407 +[CV] c1=0.009613034807642702, c2=0.07925857169298134 .................
408 +[CV] c1=0.009613034807642702, c2=0.07925857169298134, score=0.910520 - 0.9s
409 +Training done in: 7.066632s
410 + Saving training model...
411 + Saving training model done in: 0.014236s
412 +*********************************
413 +Prediction done in: 0.026365s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: False False
8 -Report file: _v2
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003629s
15 --------------------------------- FEATURES --------------------------------
16 ---------------------------Features Training ---------------------------
17 - 0 1
18 -0 lemma 1
19 -1 postag CD
20 -2 -1:lemma pq
21 -3 -1:postag NN
22 ---------------------------- FeaturesTest -----------------------------
23 - 0 1
24 -0 lemma delta-fnr
25 -1 postag NN
26 -2 -1:lemma _
27 -3 -1:postag NN
28 -4 +1:lemma _
29 -5 +1:postag CD
30 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
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32 -[CV] c1=0.7577102413636053, c2=0.053324799785666135, score=0.659121 - 1.0s
33 -[CV] c1=0.16006119829799537, c2=0.019860752797724687 .................
34 -[CV] c1=0.16006119829799537, c2=0.019860752797724687, score=0.721334 - 1.2s
35 -[CV] c1=0.4473078179611142, c2=0.031890587207333114 ..................
36 -[CV] c1=0.4473078179611142, c2=0.031890587207333114, score=0.656490 - 1.1s
37 -[CV] c1=0.24874618699414613, c2=0.11465004865259165 ..................
38 -[CV] c1=0.24874618699414613, c2=0.11465004865259165, score=0.632439 - 1.1s
39 -[CV] c1=0.08079651514556553, c2=0.07338414365364293 ..................
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41 -[CV] c1=0.7577102413636053, c2=0.053324799785666135 ..................
42 -[CV] c1=0.7577102413636053, c2=0.053324799785666135, score=0.573418 - 0.9s
43 -[CV] c1=0.16006119829799537, c2=0.019860752797724687 .................
44 -[CV] c1=0.16006119829799537, c2=0.019860752797724687, score=0.674776 - 1.1s
45 -[CV] c1=0.4473078179611142, c2=0.031890587207333114 ..................
46 -[CV] c1=0.4473078179611142, c2=0.031890587207333114, score=0.721334 - 1.2s
47 -[CV] c1=0.24874618699414613, c2=0.11465004865259165 ..................
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49 -[CV] c1=0.08079651514556553, c2=0.07338414365364293 ..................
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51 -[CV] c1=0.07184657725057575, c2=0.06305366522004678 ..................
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53 -[CV] c1=0.006393182611656157, c2=0.021090760536671197 ................
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55 -[CV] c1=0.2962778461664418, c2=0.28403918392921157 ...................
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67 -[CV] c1=0.09369139763074265, c2=0.07537173130694604 ..................
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107 -[CV] c1=0.09369139763074265, c2=0.07537173130694604 ..................
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113 -[CV] c1=0.16006119829799537, c2=0.019860752797724687 .................
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125 -[CV] c1=0.2962778461664418, c2=0.28403918392921157 ...................
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127 -[CV] c1=0.09369139763074265, c2=0.07537173130694604 ..................
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155 -[CV] c1=0.4473078179611142, c2=0.031890587207333114 ..................
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264 -[CV] c1=0.014516456694382724, c2=0.020326963729101803, score=0.608985 - 0.9s
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270 -[CV] c1=0.02968662156028001, c2=0.12184278879734725, score=0.720311 - 1.1s
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272 -[CV] c1=0.1483614516251027, c2=0.06633729885192889, score=0.881938 - 1.2s
273 -[CV] c1=0.8749871337656958, c2=0.10465716037380113 ...................
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275 -[CV] c1=0.8748278310570387, c2=0.16014963439323648 ...................
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277 -[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
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279 -[CV] c1=0.02968662156028001, c2=0.12184278879734725 ..................
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281 -[CV] c1=0.5898209423957529, c2=0.01037034945739547 ...................
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283 -[CV] c1=0.014516456694382724, c2=0.020326963729101803 ................
284 -[CV] c1=0.014516456694382724, c2=0.020326963729101803, score=0.897401 - 1.1s
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286 -[CV] c1=0.17342748153476484, c2=0.03315662632542101, score=0.920970 - 1.2s
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290 -[CV] c1=0.02968662156028001, c2=0.12184278879734725, score=0.680867 - 1.1s
291 -[CV] c1=0.7577102413636053, c2=0.053324799785666135 ..................
292 -[CV] c1=0.7577102413636053, c2=0.053324799785666135, score=0.912680 - 1.3s
293 -[CV] c1=0.006393182611656157, c2=0.021090760536671197 ................
294 -[CV] c1=0.006393182611656157, c2=0.021090760536671197, score=0.902145 - 1.1s
295 -[CV] c1=0.2962778461664418, c2=0.28403918392921157 ...................
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297 -[CV] c1=0.026281073826085702, c2=0.11845123072490214 .................
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300 -[CV] c1=0.02968662156028001, c2=0.12184278879734725, score=0.775757 - 1.0s
301 -[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
302 -[CV] c1=0.1483614516251027, c2=0.06633729885192889, score=0.779725 - 1.1s
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305 -[CV] c1=0.8748278310570387, c2=0.16014963439323648 ...................
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307 -[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
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309 -[CV] c1=0.3233518999667819, c2=0.029859516013558064 ..................
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311 -[CV] c1=0.5898209423957529, c2=0.01037034945739547 ...................
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314 -[CV] c1=0.014516456694382724, c2=0.020326963729101803, score=0.741434 - 1.1s
315 -[CV] c1=0.8748278310570387, c2=0.16014963439323648 ...................
316 -[CV] c1=0.8748278310570387, c2=0.16014963439323648, score=0.653248 - 1.2s
317 -[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
318 -[CV] c1=0.23466274005583443, c2=0.14468669456987662, score=0.632439 - 1.0s
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320 -[CV] c1=0.02968662156028001, c2=0.12184278879734725, score=0.887557 - 1.1s
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322 -[CV] c1=0.5898209423957529, c2=0.01037034945739547, score=0.753693 - 1.1s
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324 -[CV] c1=0.014516456694382724, c2=0.020326963729101803, score=0.654823 - 1.0s
325 -[CV] c1=0.2962778461664418, c2=0.28403918392921157 ...................
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328 -[CV] c1=0.026281073826085702, c2=0.11845123072490214, score=0.720311 - 1.2s
329 -[CV] c1=0.02968662156028001, c2=0.12184278879734725 ..................
330 -[CV] c1=0.02968662156028001, c2=0.12184278879734725, score=0.840539 - 1.2s
331 -[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
332 -[CV] c1=0.1483614516251027, c2=0.06633729885192889, score=0.660510 - 1.1s
333 -[CV] c1=0.014516456694382724, c2=0.020326963729101803 ................
334 -[CV] c1=0.014516456694382724, c2=0.020326963729101803, score=0.923613 - 1.1s
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336 -[CV] c1=0.17342748153476484, c2=0.03315662632542101, score=0.906853 - 1.1s
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338 -[CV] c1=0.026281073826085702, c2=0.11845123072490214, score=0.775757 - 1.2s
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341 -[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
342 -[CV] c1=0.1483614516251027, c2=0.06633729885192889, score=0.906853 - 1.3s
343 -[CV] c1=0.8749871337656958, c2=0.10465716037380113 ...................
344 -[CV] c1=0.8749871337656958, c2=0.10465716037380113, score=0.852672 - 1.1s
345 -[CV] c1=0.8748278310570387, c2=0.16014963439323648 ...................
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347 -[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
348 -[CV] c1=0.23466274005583443, c2=0.14468669456987662, score=0.694090 - 1.1s
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350 -[CV] c1=0.3233518999667819, c2=0.029859516013558064, score=0.679766 - 1.0s
351 -[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
352 -[CV] c1=0.1483614516251027, c2=0.06633729885192889, score=0.603251 - 1.0s
353 -[CV] c1=0.8749871337656958, c2=0.10465716037380113 ...................
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355 -[CV] c1=0.8748278310570387, c2=0.16014963439323648 ...................
356 -[CV] c1=0.8748278310570387, c2=0.16014963439323648, score=0.624124 - 1.2s
357 -[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
358 -[CV] c1=0.23466274005583443, c2=0.14468669456987662, score=0.919762 - 1.4s
359 -[CV] c1=0.3233518999667819, c2=0.029859516013558064 ..................
360 -[CV] c1=0.3233518999667819, c2=0.029859516013558064, score=0.580556 - 0.7s
361 -[CV] c1=0.5898209423957529, c2=0.01037034945739547 ...................
362 -[CV] c1=0.5898209423957529, c2=0.01037034945739547, score=0.852821 - 1.2s
363 -[CV] c1=0.014516456694382724, c2=0.020326963729101803 ................
364 -[CV] c1=0.014516456694382724, c2=0.020326963729101803, score=0.760431 - 1.1s
365 -[CV] c1=0.17342748153476484, c2=0.03315662632542101 ..................
366 -[CV] c1=0.17342748153476484, c2=0.03315662632542101, score=0.740663 - 1.1s
367 -[CV] c1=0.026281073826085702, c2=0.11845123072490214 .................
368 -[CV] c1=0.026281073826085702, c2=0.11845123072490214, score=0.887557 - 1.3s
369 -[CV] c1=0.3233518999667819, c2=0.029859516013558064 ..................
370 -[CV] c1=0.3233518999667819, c2=0.029859516013558064, score=0.872249 - 0.9s
371 -[CV] c1=0.5898209423957529, c2=0.01037034945739547 ...................
372 -[CV] c1=0.5898209423957529, c2=0.01037034945739547, score=0.708877 - 1.2s
373 -[CV] c1=0.014516456694382724, c2=0.020326963729101803 ................
374 -[CV] c1=0.014516456694382724, c2=0.020326963729101803, score=0.866790 - 1.1s
375 -[CV] c1=0.17342748153476484, c2=0.03315662632542101 ..................
376 -[CV] c1=0.17342748153476484, c2=0.03315662632542101, score=0.783313 - 1.3s
377 -[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
378 -[CV] c1=0.23466274005583443, c2=0.14468669456987662, score=0.848001 - 1.2s
379 -[CV] c1=0.3233518999667819, c2=0.029859516013558064 ..................
380 -[CV] c1=0.3233518999667819, c2=0.029859516013558064, score=0.867217 - 1.0s
381 -Training done in: 7.447655s
382 - Saving training model...
383 - Saving training model done in: 0.014152s
384 -*********************************
385 -Prediction done in: 0.025248s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: True False
8 -Report file: _v9
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003666s
15 -{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
16 -{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
17 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
18 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
19 -[CV] c1=1.00966870162731, c2=0.025958556376657574, score=0.656999 - 1.0s
20 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
21 -[CV] c1=1.168847855695387, c2=0.054074754440257625, score=0.549071 - 0.9s
22 -[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
23 -[CV] c1=0.7463567881969966, c2=0.010504031522292094, score=0.559946 - 0.9s
24 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
25 -[CV] c1=0.06766924551335582, c2=0.05664528713448661, score=0.840539 - 1.1s
26 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
27 -[CV] c1=0.48395276763378503, c2=0.022365459591399905, score=0.660012 - 1.2s
28 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
29 -[CV] c1=1.00966870162731, c2=0.025958556376657574, score=0.826261 - 0.8s
30 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
31 -[CV] c1=0.22656149469246054, c2=0.06475330717049832, score=0.919762 - 1.0s
32 -[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
33 -[CV] c1=0.7463567881969966, c2=0.010504031522292094, score=0.761818 - 1.1s
34 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
35 -[CV] c1=0.06766924551335582, c2=0.05664528713448661, score=0.848001 - 1.2s
36 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
37 -[CV] c1=0.48395276763378503, c2=0.022365459591399905, score=0.761418 - 1.1s
38 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
39 -[CV] c1=1.00966870162731, c2=0.025958556376657574, score=0.716676 - 0.9s
40 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
41 -[CV] c1=1.168847855695387, c2=0.054074754440257625, score=0.670684 - 1.1s
42 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
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44 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
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46 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
47 -[CV] c1=0.20078106949479455, c2=0.023670407350363146, score=0.838429 - 1.0s
48 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
49 -[CV] c1=1.00966870162731, c2=0.025958556376657574, score=0.641040 - 0.9s
50 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
51 -[CV] c1=1.168847855695387, c2=0.054074754440257625, score=0.704277 - 1.0s
52 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
53 -[CV] c1=0.7823077481969921, c2=0.03404532137185433, score=0.694072 - 1.2s
54 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
55 -[CV] c1=0.6765797517220264, c2=0.007434912899378703, score=0.694072 - 1.2s
56 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
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58 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
59 -[CV] c1=1.00966870162731, c2=0.025958556376657574, score=0.787287 - 0.8s
60 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
61 -[CV] c1=0.22656149469246054, c2=0.06475330717049832, score=0.724007 - 1.1s
62 -[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
63 -[CV] c1=0.7463567881969966, c2=0.010504031522292094, score=0.719596 - 1.2s
64 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
65 -[CV] c1=0.06766924551335582, c2=0.05664528713448661, score=0.919762 - 1.0s
66 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
67 -[CV] c1=0.48395276763378503, c2=0.022365459591399905, score=0.852821 - 1.2s
68 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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70 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
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72 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
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74 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
75 -[CV] c1=0.6765797517220264, c2=0.007434912899378703, score=0.666440 - 1.0s
76 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
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78 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
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80 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
81 -[CV] c1=0.22656149469246054, c2=0.06475330717049832, score=0.660510 - 1.2s
82 -[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
83 -[CV] c1=0.7463567881969966, c2=0.010504031522292094, score=0.891760 - 1.2s
84 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
85 -[CV] c1=0.06766924551335582, c2=0.05664528713448661, score=0.607039 - 0.9s
86 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
87 -[CV] c1=0.48395276763378503, c2=0.022365459591399905, score=0.848001 - 1.3s
88 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
89 -[CV] c1=0.6395797105929565, c2=0.0461197515046378, score=0.852821 - 1.1s
90 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
91 -[CV] c1=0.22656149469246054, c2=0.06475330717049832, score=0.592237 - 1.0s
92 -[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
93 -[CV] c1=0.7463567881969966, c2=0.010504031522292094, score=0.843338 - 1.2s
94 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
95 -[CV] c1=0.06766924551335582, c2=0.05664528713448661, score=0.718941 - 1.2s
96 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
97 -[CV] c1=0.48395276763378503, c2=0.022365459591399905, score=0.899703 - 1.3s
98 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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100 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
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102 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
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104 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
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106 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
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108 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
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110 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
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112 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
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114 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
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116 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
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118 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
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120 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
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122 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
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124 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
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126 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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128 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
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132 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
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134 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
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136 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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144 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
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146 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
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148 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
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150 -[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
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152 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
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154 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
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156 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
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158 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
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160 -[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
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162 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
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164 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
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166 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
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170 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
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172 -[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
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174 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
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176 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
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178 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
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180 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
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184 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
185 -[CV] c1=0.16888346085657382, c2=0.02208269716963201, score=0.843407 - 1.3s
186 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
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188 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
189 -[CV] c1=0.6168211659220036, c2=0.006845272732197598, score=0.753693 - 1.0s
190 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
191 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.721192 - 1.1s
192 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
193 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.590583 - 0.8s
194 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
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196 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
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198 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
199 -[CV] c1=0.6168211659220036, c2=0.006845272732197598, score=0.666440 - 1.0s
200 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
201 -[CV] c1=0.2837138419533594, c2=0.009966189901122134, score=0.848001 - 1.1s
202 -[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
203 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.866790 - 0.9s
204 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
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206 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
207 -[CV] c1=0.6326902790510075, c2=0.060383400796135134, score=0.761818 - 1.2s
208 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
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210 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
211 -[CV] c1=0.6765797517220264, c2=0.007434912899378703, score=0.719596 - 1.2s
212 -[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
213 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.679766 - 1.0s
214 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
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216 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
217 -[CV] c1=0.6326902790510075, c2=0.060383400796135134, score=0.860755 - 1.3s
218 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
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220 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
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222 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
223 -[CV] c1=0.20078106949479455, c2=0.023670407350363146, score=0.920970 - 1.2s
224 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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226 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
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228 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
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230 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
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233 -[CV] c1=0.20078106949479455, c2=0.023670407350363146, score=0.740663 - 1.2s
234 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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236 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
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238 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
239 -[CV] c1=0.016463867524667154, c2=0.009787977090088149, score=0.716313 - 1.2s
240 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
241 -[CV] c1=0.2837138419533594, c2=0.009966189901122134, score=0.899703 - 1.1s
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243 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.592237 - 0.9s
244 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
245 -[CV] c1=0.16888346085657382, c2=0.02208269716963201, score=0.674776 - 1.3s
246 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
247 -[CV] c1=0.8607518495035315, c2=0.15862627698471804, score=0.624832 - 1.0s
248 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
249 -[CV] c1=0.6168211659220036, c2=0.006845272732197598, score=0.704526 - 1.2s
250 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
251 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.656999 - 1.0s
252 -[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
253 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.742853 - 1.0s
254 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
255 -[CV] c1=0.6395797105929565, c2=0.0461197515046378, score=0.656490 - 1.1s
256 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
257 -[CV] c1=1.168847855695387, c2=0.054074754440257625, score=0.678288 - 1.2s
258 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
259 -[CV] c1=0.7823077481969921, c2=0.03404532137185433, score=0.737619 - 1.3s
260 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
261 -[CV] c1=0.6765797517220264, c2=0.007434912899378703, score=0.548511 - 1.1s
262 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
263 -[CV] c1=0.20078106949479455, c2=0.023670407350363146, score=0.906853 - 1.2s
264 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
265 -[CV] c1=1.00966870162731, c2=0.025958556376657574, score=0.584074 - 0.9s
266 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
267 -[CV] c1=0.6326902790510075, c2=0.060383400796135134, score=0.673541 - 1.1s
268 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
269 -[CV] c1=0.016463867524667154, c2=0.009787977090088149, score=0.852146 - 1.1s
270 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
271 -[CV] c1=0.6765797517220264, c2=0.007434912899378703, score=0.883954 - 1.2s
272 -[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
273 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.724515 - 1.1s
274 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
275 -[CV] c1=0.6395797105929565, c2=0.0461197515046378, score=0.571166 - 1.0s
276 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
277 -[CV] c1=0.22656149469246054, c2=0.06475330717049832, score=0.899703 - 1.2s
278 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
279 -[CV] c1=0.7823077481969921, c2=0.03404532137185433, score=0.817004 - 1.3s
280 -[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
281 -[CV] c1=0.6765797517220264, c2=0.007434912899378703, score=0.903565 - 1.1s
282 -[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
283 -[CV] c1=0.20078106949479455, c2=0.023670407350363146, score=0.796488 - 1.3s
284 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
285 -[CV] c1=0.6395797105929565, c2=0.0461197515046378, score=0.713917 - 1.2s
286 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
287 -[CV] c1=1.168847855695387, c2=0.054074754440257625, score=0.776399 - 1.2s
288 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
289 -[CV] c1=0.7823077481969921, c2=0.03404532137185433, score=0.695544 - 1.3s
290 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
291 -[CV] c1=0.2837138419533594, c2=0.009966189901122134, score=0.710539 - 1.2s
292 -[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
293 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.843407 - 1.1s
294 -[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
295 -[CV] c1=1.00966870162731, c2=0.025958556376657574, score=0.678696 - 1.1s
296 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
297 -[CV] c1=0.6326902790510075, c2=0.060383400796135134, score=0.912680 - 1.2s
298 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
299 -[CV] c1=0.016463867524667154, c2=0.009787977090088149, score=0.649105 - 1.1s
300 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
301 -[CV] c1=0.2837138419533594, c2=0.009966189901122134, score=0.851740 - 1.1s
302 -[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
303 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.924594 - 1.1s
304 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
305 -[CV] c1=0.37276009448707553, c2=0.08055336693981598, score=0.717253 - 1.1s
306 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
307 -[CV] c1=1.168847855695387, c2=0.054074754440257625, score=0.852672 - 1.3s
308 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
309 -[CV] c1=0.016463867524667154, c2=0.009787977090088149, score=0.741434 - 1.2s
310 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
311 -[CV] c1=0.2837138419533594, c2=0.009966189901122134, score=0.911855 - 1.1s
312 -[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
313 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.906853 - 1.0s
314 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
315 -[CV] c1=0.16888346085657382, c2=0.02208269716963201, score=0.848001 - 1.4s
316 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
317 -[CV] c1=0.8607518495035315, c2=0.15862627698471804, score=0.698982 - 1.2s
318 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
319 -[CV] c1=0.6168211659220036, c2=0.006845272732197598, score=0.547996 - 0.9s
320 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
321 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.716676 - 1.1s
322 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
323 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.559475 - 0.9s
324 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
325 -[CV] c1=0.6395797105929565, c2=0.0461197515046378, score=0.715320 - 1.3s
326 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
327 -[CV] c1=1.168847855695387, c2=0.054074754440257625, score=0.698982 - 1.2s
328 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
329 -[CV] c1=0.016463867524667154, c2=0.009787977090088149, score=0.679766 - 1.2s
330 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
331 -[CV] c1=0.2837138419533594, c2=0.009966189901122134, score=0.766379 - 1.1s
332 -[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
333 -[CV] c1=0.10973444640225576, c2=0.010828669158530741, score=0.920970 - 1.1s
334 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
335 -[CV] c1=0.16888346085657382, c2=0.02208269716963201, score=0.800678 - 1.2s
336 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
337 -[CV] c1=0.8607518495035315, c2=0.15862627698471804, score=0.624124 - 1.1s
338 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
339 -[CV] c1=0.6168211659220036, c2=0.006845272732197598, score=0.857493 - 1.2s
340 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
341 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.701526 - 1.1s
342 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
343 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.596309 - 0.9s
344 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
345 -[CV] c1=0.16888346085657382, c2=0.02208269716963201, score=0.920970 - 1.2s
346 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
347 -[CV] c1=0.8607518495035315, c2=0.15862627698471804, score=0.691841 - 1.1s
348 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
349 -[CV] c1=0.6168211659220036, c2=0.006845272732197598, score=0.778347 - 1.2s
350 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
351 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.566256 - 1.0s
352 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
353 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.773116 - 0.9s
354 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
355 -[CV] c1=0.37276009448707553, c2=0.08055336693981598, score=0.632439 - 0.7s
356 -[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
357 -[CV] c1=0.22656149469246054, c2=0.06475330717049832, score=0.652192 - 1.0s
358 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
359 -[CV] c1=0.8607518495035315, c2=0.15862627698471804, score=0.852672 - 1.2s
360 -[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
361 -[CV] c1=0.06766924551335582, c2=0.05664528713448661, score=0.654823 - 1.0s
362 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
363 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.836651 - 1.1s
364 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
365 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.588339 - 0.9s
366 -[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
367 -[CV] c1=0.37276009448707553, c2=0.08055336693981598, score=0.748070 - 1.1s
368 -[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
369 -[CV] c1=0.6326902790510075, c2=0.060383400796135134, score=0.794740 - 1.2s
370 -[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
371 -[CV] c1=0.016463867524667154, c2=0.009787977090088149, score=0.866790 - 1.3s
372 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
373 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.687750 - 1.4s
374 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
375 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.512837 - 0.7s
376 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
377 -[CV] c1=0.16888346085657382, c2=0.02208269716963201, score=0.876920 - 1.4s
378 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
379 -[CV] c1=0.8607518495035315, c2=0.15862627698471804, score=0.564654 - 0.9s
380 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
381 -[CV] c1=0.6168211659220036, c2=0.006845272732197598, score=0.843338 - 1.1s
382 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
383 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.856715 - 1.2s
384 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
385 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.657444 - 0.9s
386 -[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
387 -[CV] c1=0.6395797105929565, c2=0.0461197515046378, score=0.883954 - 1.2s
388 -[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
389 -[CV] c1=1.168847855695387, c2=0.054074754440257625, score=0.686713 - 1.2s
390 -[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
391 -[CV] c1=0.7823077481969921, c2=0.03404532137185433, score=0.891760 - 1.3s
392 -[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
393 -[CV] c1=0.2837138419533594, c2=0.009966189901122134, score=0.740663 - 1.3s
394 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
395 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.580569 - 1.0s
396 -[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
397 -[CV] c1=0.16888346085657382, c2=0.02208269716963201, score=0.713945 - 1.3s
398 -[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
399 -[CV] c1=0.8607518495035315, c2=0.15862627698471804, score=0.654029 - 1.1s
400 -[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
401 -[CV] c1=0.6168211659220036, c2=0.006845272732197598, score=0.761818 - 1.2s
402 -[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
403 -[CV] c1=0.9988969075737604, c2=0.006345198146357405, score=0.787287 - 1.3s
404 -[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
405 -[CV] c1=2.243122699972053, c2=0.02408920842785463, score=0.660504 - 0.9s
406 -Training done in: 7.331329s
407 - Saving training model...
408 - Saving training model done in: 0.014029s
409 -*********************************
410 -Prediction done in: 0.024944s
1 +-------------------------------- PARAMETERS --------------------------------
2 +Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 +File with training data set: training-data-set-70.txt
4 +Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 +File with test data set: test-data-set-30.txt
6 +Exclude stop words: False
7 +Levels: True False
8 +Report file: _v11
9 +Exclude symbols: False
10 +-------------------------------- PROCESSING --------------------------------
11 +Reading corpus...
12 + Sentences training data: 286
13 + Sentences test data: 123
14 +Reading corpus done in: 0.003565s
15 +-------------------------------- FEATURES --------------------------------
16 +--------------------------Features Training ---------------------------
17 + 0 1
18 +0 lemma 2
19 +1 postag CD
20 +2 -1:lemma fructose
21 +3 -1:postag NN
22 +4 hUpper False
23 +5 hLower False
24 +6 hGreek False
25 +7 symb False
26 +8 lemma[:1] 2
27 +9 postag[:1] C
28 +10 postag[:2] CD
29 +--------------------------- FeaturesTest -----------------------------
30 + 0 1
31 +0 lemma delta-arca
32 +1 postag NN
33 +2 -1:lemma _
34 +3 -1:postag NN
35 +4 +1:lemma _
36 +5 +1:postag CD
37 +6 hUpper True
38 +7 hLower True
39 +8 hGreek False
40 +9 symb True
41 +10 lemma[:1] d
42 +11 postag[:1] N
43 +12 lemma[:2] de
44 +13 postag[:2] NN
45 +Fitting 10 folds for each of 20 candidates, totalling 200 fits
46 +[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
47 +[CV] c1=0.0861167403673638, c2=0.04828247009963213, score=0.896342 - 1.4s
48 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
49 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712, score=0.924267 - 1.2s
50 +[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
51 +[CV] c1=0.6417792255119764, c2=0.055291444870536756, score=0.924608 - 1.4s
52 +[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
53 +[CV] c1=1.0804138881567058, c2=0.02459855006208165, score=0.814051 - 1.4s
54 +[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
55 +[CV] c1=1.5847200457248953, c2=0.006014325493850365, score=0.867984 - 1.3s
56 +[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
57 +[CV] c1=0.11358491196479957, c2=0.07461322610286401, score=0.768346 - 1.5s
58 +[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
59 +[CV] c1=0.7033458837225772, c2=0.02974788560801502, score=0.885181 - 1.6s
60 +[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
61 +[CV] c1=1.49287494311989, c2=0.05403116080542014, score=0.889263 - 1.5s
62 +[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
63 +[CV] c1=0.6478044566379584, c2=0.002961554846996858, score=0.869411 - 1.6s
64 +[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
65 +[CV] c1=0.11358491196479957, c2=0.07461322610286401, score=0.896342 - 1.5s
66 +[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
67 +[CV] c1=0.7033458837225772, c2=0.02974788560801502, score=0.807845 - 1.6s
68 +[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
69 +[CV] c1=1.0804138881567058, c2=0.02459855006208165, score=0.726535 - 1.4s
70 +[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
71 +[CV] c1=1.5847200457248953, c2=0.006014325493850365, score=0.688144 - 1.6s
72 +[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
73 +[CV] c1=0.7920601040963161, c2=0.07895815842200327, score=0.939372 - 1.5s
74 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
75 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712, score=0.745590 - 1.4s
76 +[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
77 +[CV] c1=0.7398050605125945, c2=0.05046057309258661, score=0.859656 - 1.3s
78 +[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
79 +[CV] c1=2.7077934374074655, c2=0.11493498577823619, score=0.668205 - 1.2s
80 +[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
81 +[CV] c1=1.5847200457248953, c2=0.006014325493850365, score=0.836822 - 1.2s
82 +[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
83 +[CV] c1=0.0861167403673638, c2=0.04828247009963213, score=0.796207 - 1.4s
84 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
85 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712, score=0.826447 - 1.2s
86 +[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
87 +[CV] c1=0.6417792255119764, c2=0.055291444870536756, score=0.878690 - 1.4s
88 +[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
89 +[CV] c1=1.0804138881567058, c2=0.02459855006208165, score=0.800403 - 1.4s
90 +[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
91 +[CV] c1=1.5847200457248953, c2=0.006014325493850365, score=0.790879 - 1.4s
92 +[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
93 +[CV] c1=0.0861167403673638, c2=0.04828247009963213, score=0.884837 - 1.4s
94 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
95 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712, score=0.914124 - 1.3s
96 +[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
97 +[CV] c1=0.7398050605125945, c2=0.05046057309258661, score=0.751364 - 1.3s
98 +[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
99 +[CV] c1=1.0804138881567058, c2=0.02459855006208165, score=0.857689 - 1.5s
100 +[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
101 +[CV] c1=1.5847200457248953, c2=0.006014325493850365, score=0.856261 - 1.4s
102 +[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
103 +[CV] c1=0.7920601040963161, c2=0.07895815842200327, score=0.735586 - 1.5s
104 +[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
105 +[CV] c1=0.08407572754540328, c2=0.009478896359475734, score=0.914124 - 1.0s
106 +[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
107 +[CV] c1=0.6417792255119764, c2=0.055291444870536756, score=0.773694 - 1.3s
108 +[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
109 +[CV] c1=1.49287494311989, c2=0.05403116080542014, score=0.761785 - 1.7s
110 +[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
111 +[CV] c1=1.5847200457248953, c2=0.006014325493850365, score=0.546879 - 1.7s
112 +[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
113 +[CV] c1=0.0861167403673638, c2=0.04828247009963213, score=0.935664 - 1.4s
114 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
115 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712, score=0.939675 - 1.4s
116 +[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
117 +[CV] c1=0.004178967435122849, c2=0.09079861448733734, score=0.881870 - 1.5s
118 +[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
119 +[CV] c1=0.020561906935503537, c2=0.058243167770064976, score=0.826784 - 1.2s
120 +[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
121 +[CV] c1=0.1388422147182745, c2=0.019507314290179247, score=0.823347 - 1.3s
122 +[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
123 +[CV] c1=1.3822985394905212, c2=0.018122887822950486, score=0.591566 - 1.3s
124 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
125 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712, score=0.845585 - 1.3s
126 +[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
127 +[CV] c1=0.7398050605125945, c2=0.05046057309258661, score=0.891072 - 1.4s
128 +[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
129 +[CV] c1=2.7077934374074655, c2=0.11493498577823619, score=0.755838 - 1.3s
130 +[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
131 +[CV] c1=0.1388422147182745, c2=0.019507314290179247, score=0.850014 - 1.3s
132 +[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
133 +[CV] c1=0.0861167403673638, c2=0.04828247009963213, score=0.830232 - 1.3s
134 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
135 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712, score=0.847686 - 1.4s
136 +[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
137 +[CV] c1=0.7398050605125945, c2=0.05046057309258661, score=0.806456 - 1.5s
138 +[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
139 +[CV] c1=2.7077934374074655, c2=0.11493498577823619, score=0.726728 - 1.4s
140 +[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
141 +[CV] c1=0.1388422147182745, c2=0.019507314290179247, score=0.860459 - 1.2s
142 +[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
143 +[CV] c1=0.7920601040963161, c2=0.07895815842200327, score=0.840020 - 1.4s
144 +[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
145 +[CV] c1=0.08407572754540328, c2=0.009478896359475734, score=0.912280 - 1.3s
146 +[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
147 +[CV] c1=0.6417792255119764, c2=0.055291444870536756, score=0.908551 - 1.4s
148 +[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
149 +[CV] c1=1.0804138881567058, c2=0.02459855006208165, score=0.900097 - 1.4s
150 +[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
151 +[CV] c1=1.5847200457248953, c2=0.006014325493850365, score=0.880185 - 1.6s
152 +[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
153 +[CV] c1=0.7920601040963161, c2=0.07895815842200327, score=0.802723 - 1.4s
154 +[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
155 +[CV] c1=0.08407572754540328, c2=0.009478896359475734, score=0.845585 - 1.3s
156 +[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
157 +[CV] c1=0.6417792255119764, c2=0.055291444870536756, score=0.891072 - 1.5s
158 +[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
159 +[CV] c1=1.0804138881567058, c2=0.02459855006208165, score=0.918264 - 1.6s
160 +[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
161 +[CV] c1=0.1388422147182745, c2=0.019507314290179247, score=0.914124 - 1.3s
162 +[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
163 +[CV] c1=1.3822985394905212, c2=0.018122887822950486, score=0.867984 - 1.3s
164 +[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
165 +[CV] c1=0.3175148951065869, c2=0.037005562427169, score=0.827976 - 1.3s
166 +[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
167 +[CV] c1=0.7398050605125945, c2=0.05046057309258661, score=0.939372 - 1.4s
168 +[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
169 +[CV] c1=2.7077934374074655, c2=0.11493498577823619, score=0.853551 - 1.4s
170 +[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
171 +[CV] c1=0.1388422147182745, c2=0.019507314290179247, score=0.897553 - 1.3s
172 +[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
173 +[CV] c1=0.7920601040963161, c2=0.07895815842200327, score=0.806456 - 1.4s
174 +[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
175 +[CV] c1=0.08407572754540328, c2=0.009478896359475734, score=0.916493 - 1.4s
176 +[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
177 +[CV] c1=0.6417792255119764, c2=0.055291444870536756, score=0.853411 - 1.4s
178 +[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
179 +[CV] c1=1.0804138881567058, c2=0.02459855006208165, score=0.852407 - 1.5s
180 +[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
181 +[CV] c1=1.5847200457248953, c2=0.006014325493850365, score=0.736415 - 1.5s
182 +[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
183 +[CV] c1=0.11358491196479957, c2=0.07461322610286401, score=0.826784 - 1.3s
184 +[CV] c1=0.3175148951065869, c2=0.037005562427169 .....................
185 +[CV] c1=0.3175148951065869, c2=0.037005562427169, score=0.831922 - 1.5s
186 +[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
187 +[CV] c1=0.004178967435122849, c2=0.09079861448733734, score=0.839590 - 1.3s
188 +[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
189 +[CV] c1=0.020561906935503537, c2=0.058243167770064976, score=0.768346 - 1.3s
190 +[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
191 +[CV] c1=0.1388422147182745, c2=0.019507314290179247, score=0.845585 - 1.2s
192 +[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
193 +[CV] c1=0.7920601040963161, c2=0.07895815842200327, score=0.885181 - 1.5s
194 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
195 +[CV] c1=0.19109403616449935, c2=0.0010764561143359712, score=0.849959 - 1.4s
196 +[CV] c1=0.7398050605125945, c2=0.05046057309258661 ...................
197 +[CV] c1=0.7398050605125945, c2=0.05046057309258661, score=0.899678 - 1.3s
198 +[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
199 +[CV] c1=2.7077934374074655, c2=0.11493498577823619, score=0.530224 - 1.4s
200 +[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
201 +[CV] c1=0.1388422147182745, c2=0.019507314290179247, score=0.741087 - 1.4s
202 +[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
203 +[CV] c1=0.11358491196479957, c2=0.07461322610286401, score=0.890597 - 1.4s
204 +[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
205 +[CV] c1=0.7033458837225772, c2=0.02974788560801502, score=0.728849 - 1.5s
206 +[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
207 +[CV] c1=1.49287494311989, c2=0.05403116080542014, score=0.889041 - 1.0s
208 +[CV] c1=2.7077934374074655, c2=0.11493498577823619 ...................
209 +[CV] c1=2.7077934374074655, c2=0.11493498577823619, score=0.706265 - 1.4s
210 +[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
211 +[CV] c1=0.1388422147182745, c2=0.019507314290179247, score=0.924267 - 1.2s
212 +[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
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416 +[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
417 +[CV] c1=0.7033458837225772, c2=0.02974788560801502, score=0.756130 - 1.4s
418 +[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
419 +[CV] c1=0.004178967435122849, c2=0.09079861448733734, score=0.920610 - 1.5s
420 +[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
421 +[CV] c1=0.6478044566379584, c2=0.002961554846996858, score=0.801168 - 1.6s
422 +[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
423 +[CV] c1=0.6322742654390535, c2=0.009349248677093488, score=0.878690 - 1.2s
424 +[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
425 +[CV] c1=0.7920601040963161, c2=0.07895815842200327, score=0.900097 - 1.3s
426 +[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
427 +[CV] c1=0.08407572754540328, c2=0.009478896359475734, score=0.826784 - 1.2s
428 +[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
429 +[CV] c1=0.6417792255119764, c2=0.055291444870536756, score=0.735583 - 1.5s
430 +[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
431 +[CV] c1=1.0804138881567058, c2=0.02459855006208165, score=0.765646 - 1.3s
432 +[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
433 +[CV] c1=0.6478044566379584, c2=0.002961554846996858, score=0.816050 - 1.5s
434 +[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
435 +[CV] c1=0.6322742654390535, c2=0.009349248677093488, score=0.869411 - 1.1s
436 +Training done in: 9.362880s
437 + Saving training model...
438 + Saving training model done in: 0.013935s
439 +*********************************
440 +Prediction done in: 0.035958s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: True False
8 -Report file: _v2
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003846s
15 --------------------------------- FEATURES --------------------------------
16 ---------------------------Features Training ---------------------------
17 - 0 1
18 -0 lemma 1
19 -1 postag CD
20 -2 -1:lemma pq
21 -3 -1:postag NN
22 -4 hUpper False
23 -5 hLower False
24 -6 hGreek False
25 -7 symb False
26 -8 word[:1] 1
27 ---------------------------- FeaturesTest -----------------------------
28 - 0 1
29 -0 lemma delta-fnr
30 -1 postag NN
31 -2 -1:lemma _
32 -3 -1:postag NN
33 -4 +1:lemma _
34 -5 +1:postag CD
35 -6 hUpper False
36 -7 hLower False
37 -8 hGreek False
38 -9 symb True
39 -10 word[:1] d
40 -11 word[:2] de
41 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
42 -[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
43 -[CV] c1=0.7552293645263738, c2=0.010542927773867011, score=0.692390 - 1.1s
44 -[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
45 -[CV] c1=1.4589431115727765, c2=0.00462048934522589, score=0.677656 - 1.4s
46 -[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
47 -[CV] c1=0.47432740691636344, c2=0.03758235542198346, score=0.697829 - 1.6s
48 -[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
49 -[CV] c1=0.4819640275387183, c2=0.029691473721229295, score=0.720638 - 1.4s
50 -[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
51 -[CV] c1=0.21506344691612903, c2=0.02416742878069053, score=0.716901 - 1.5s
52 -[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
53 -[CV] c1=0.298080277984045, c2=0.05416968597972857, score=0.866982 - 1.4s
54 -[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
55 -[CV] c1=0.350973260533853, c2=0.010037581949873645, score=0.701470 - 1.2s
56 -[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
57 -[CV] c1=0.47432740691636344, c2=0.03758235542198346, score=0.687400 - 1.3s
58 -[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
59 -[CV] c1=0.4819640275387183, c2=0.029691473721229295, score=0.941969 - 1.5s
60 -[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
61 -[CV] c1=0.21506344691612903, c2=0.02416742878069053, score=0.712895 - 1.1s
62 -[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
63 -[CV] c1=0.7552293645263738, c2=0.010542927773867011, score=0.764724 - 1.3s
64 -[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
65 -[CV] c1=1.4589431115727765, c2=0.00462048934522589, score=0.691639 - 1.4s
66 -[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
67 -[CV] c1=0.47432740691636344, c2=0.03758235542198346, score=0.765131 - 1.3s
68 -[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
69 -[CV] c1=0.4819640275387183, c2=0.029691473721229295, score=0.891979 - 1.4s
70 -[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
71 -[CV] c1=0.21506344691612903, c2=0.02416742878069053, score=0.704318 - 1.4s
72 -[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
73 -[CV] c1=0.7552293645263738, c2=0.010542927773867011, score=0.679052 - 1.4s
74 -[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
75 -[CV] c1=0.350973260533853, c2=0.010037581949873645, score=0.723654 - 1.3s
76 -[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
77 -[CV] c1=0.47432740691636344, c2=0.03758235542198346, score=0.882037 - 1.4s
78 -[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
79 -[CV] c1=0.4819640275387183, c2=0.029691473721229295, score=0.687400 - 1.3s
80 -[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
81 -[CV] c1=0.21506344691612903, c2=0.02416742878069053, score=0.885770 - 1.5s
82 -[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
83 -[CV] c1=0.298080277984045, c2=0.05416968597972857, score=0.895305 - 1.2s
84 -[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
85 -[CV] c1=1.4589431115727765, c2=0.00462048934522589, score=0.782459 - 1.6s
86 -[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
87 -[CV] c1=0.06546675625130262, c2=0.059226785100600615, score=0.911666 - 1.5s
88 -[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
89 -[CV] c1=0.8446622313160173, c2=0.03942509766742223, score=0.697504 - 1.4s
90 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
91 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694, score=0.696275 - 0.9s
92 -[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
93 -[CV] c1=0.298080277984045, c2=0.05416968597972857, score=0.706631 - 1.1s
94 -[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
95 -[CV] c1=1.4589431115727765, c2=0.00462048934522589, score=0.685539 - 1.4s
96 -[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
97 -[CV] c1=0.47432740691636344, c2=0.03758235542198346, score=0.871122 - 1.5s
98 -[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
99 -[CV] c1=0.4819640275387183, c2=0.029691473721229295, score=0.765131 - 1.5s
100 -[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
101 -[CV] c1=0.21506344691612903, c2=0.02416742878069053, score=0.747961 - 1.4s
102 -[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
103 -[CV] c1=0.5467988707284427, c2=0.00803194900725053, score=0.704197 - 1.3s
104 -[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
105 -[CV] c1=0.350973260533853, c2=0.010037581949873645, score=0.768514 - 1.3s
106 -[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
107 -[CV] c1=0.06546675625130262, c2=0.059226785100600615, score=0.729114 - 1.4s
108 -[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
109 -[CV] c1=0.7298207185304556, c2=0.03502458791701493, score=0.692390 - 1.3s
110 -[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
111 -[CV] c1=0.21506344691612903, c2=0.02416742878069053, score=0.686683 - 1.4s
112 -[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
113 -[CV] c1=0.7552293645263738, c2=0.010542927773867011, score=0.680303 - 1.2s
114 -[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
115 -[CV] c1=1.4589431115727765, c2=0.00462048934522589, score=0.679944 - 1.3s
116 -[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
117 -[CV] c1=0.47432740691636344, c2=0.03758235542198346, score=0.724757 - 1.4s
118 -[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
119 -[CV] c1=0.4819640275387183, c2=0.029691473721229295, score=0.700894 - 1.7s
120 -[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
121 -[CV] c1=0.21506344691612903, c2=0.02416742878069053, score=0.876503 - 1.6s
122 -[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
123 -[CV] c1=0.5467988707284427, c2=0.00803194900725053, score=0.692577 - 1.2s
124 -[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
125 -[CV] c1=0.350973260533853, c2=0.010037581949873645, score=0.882037 - 1.3s
126 -[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
127 -[CV] c1=0.06546675625130262, c2=0.059226785100600615, score=0.866982 - 1.4s
128 -[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
129 -[CV] c1=0.7298207185304556, c2=0.03502458791701493, score=0.874383 - 1.5s
130 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
131 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694, score=0.780716 - 1.3s
132 -[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
133 -[CV] c1=0.24706375983667295, c2=0.024420937052355998, score=0.711689 - 1.3s
134 -[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
135 -[CV] c1=1.0834398150991624, c2=0.003997536598295317, score=0.925608 - 1.3s
136 -[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
137 -[CV] c1=0.0978143608714834, c2=0.07833099658452108, score=0.686683 - 1.2s
138 -[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
139 -[CV] c1=0.7298207185304556, c2=0.03502458791701493, score=0.699064 - 1.2s
140 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
141 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694, score=0.891477 - 1.4s
142 -[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
143 -[CV] c1=0.5467988707284427, c2=0.00803194900725053, score=0.746445 - 1.4s
144 -[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
145 -[CV] c1=1.0834398150991624, c2=0.003997536598295317, score=0.704118 - 1.3s
146 -[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
147 -[CV] c1=0.0978143608714834, c2=0.07833099658452108, score=0.889040 - 1.4s
148 -[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
149 -[CV] c1=0.8446622313160173, c2=0.03942509766742223, score=0.758798 - 1.3s
150 -[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
151 -[CV] c1=0.20192101167465534, c2=0.04531597351347868, score=0.714313 - 1.2s
152 -[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
153 -[CV] c1=0.298080277984045, c2=0.05416968597972857, score=0.798839 - 1.5s
154 -[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
155 -[CV] c1=1.0834398150991624, c2=0.003997536598295317, score=0.761432 - 1.4s
156 -[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
157 -[CV] c1=0.0978143608714834, c2=0.07833099658452108, score=0.810699 - 1.5s
158 -[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
159 -[CV] c1=0.8446622313160173, c2=0.03942509766742223, score=0.691266 - 1.1s
160 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
161 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694, score=0.925608 - 1.4s
162 -[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
163 -[CV] c1=0.7552293645263738, c2=0.010542927773867011, score=0.859428 - 1.3s
164 -[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
165 -[CV] c1=1.4589431115727765, c2=0.00462048934522589, score=0.716965 - 1.4s
166 -[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
167 -[CV] c1=0.47432740691636344, c2=0.03758235542198346, score=0.932342 - 1.5s
168 -[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
169 -[CV] c1=0.7298207185304556, c2=0.03502458791701493, score=0.891477 - 1.5s
170 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
171 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694, score=0.816091 - 1.4s
172 -[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
173 -[CV] c1=0.5467988707284427, c2=0.00803194900725053, score=0.876688 - 1.5s
174 -[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
175 -[CV] c1=1.0834398150991624, c2=0.003997536598295317, score=0.849726 - 1.5s
176 -[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
177 -[CV] c1=0.0978143608714834, c2=0.07833099658452108, score=0.711634 - 1.1s
178 -[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
179 -[CV] c1=0.7298207185304556, c2=0.03502458791701493, score=0.771801 - 1.3s
180 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
181 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694, score=0.849461 - 1.4s
182 -[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
183 -[CV] c1=0.7552293645263738, c2=0.010542927773867011, score=0.715703 - 1.4s
184 -[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
185 -[CV] c1=1.4589431115727765, c2=0.00462048934522589, score=0.846342 - 1.6s
186 -[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
187 -[CV] c1=0.06546675625130262, c2=0.059226785100600615, score=0.888767 - 1.5s
188 -[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
189 -[CV] c1=0.8446622313160173, c2=0.03942509766742223, score=0.679944 - 1.5s
190 -[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
191 -[CV] c1=0.20192101167465534, c2=0.04531597351347868, score=0.686683 - 1.2s
192 -[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
193 -[CV] c1=0.298080277984045, c2=0.05416968597972857, score=0.718007 - 1.4s
194 -[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
195 -[CV] c1=0.350973260533853, c2=0.010037581949873645, score=0.792078 - 1.4s
196 -[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
197 -[CV] c1=0.06546675625130262, c2=0.059226785100600615, score=0.810699 - 1.4s
198 -[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
199 -[CV] c1=0.7298207185304556, c2=0.03502458791701493, score=0.925608 - 1.5s
200 -[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
201 -[CV] c1=0.20192101167465534, c2=0.04531597351347868, score=0.903464 - 1.3s
202 -[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
203 -[CV] c1=0.5467988707284427, c2=0.00803194900725053, score=0.880433 - 1.6s
204 -[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
205 -[CV] c1=0.5752830046115532, c2=0.029011946679537343, score=0.687131 - 1.3s
206 -[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
207 -[CV] c1=0.0978143608714834, c2=0.07833099658452108, score=0.941969 - 1.3s
208 -[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
209 -[CV] c1=0.8446622313160173, c2=0.03942509766742223, score=0.715703 - 1.3s
210 -[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
211 -[CV] c1=0.20192101167465534, c2=0.04531597351347868, score=0.723701 - 1.4s
212 -[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
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254 -[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
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310 -[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
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314 -[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
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318 -[CV] c1=0.5405494603106622, c2=0.02185761043719437 ...................
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320 -[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
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324 -[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
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326 -[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
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328 -[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
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330 -[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
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332 -[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
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334 -[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
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336 -[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
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338 -[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
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340 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
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342 -[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
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344 -[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
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350 -[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
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354 -[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
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360 -[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
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362 -[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
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364 -[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
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366 -[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
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368 -[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
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370 -[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
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378 -[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
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380 -[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
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382 -[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
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384 -[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
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386 -[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
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388 -[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
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390 -[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
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392 -[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
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394 -[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
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396 -[CV] c1=0.12822074735920433, c2=0.028255623123597452 .................
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398 -[CV] c1=0.5405494603106622, c2=0.02185761043719437 ...................
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400 -[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
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404 -[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
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408 -[CV] c1=0.5405494603106622, c2=0.02185761043719437 ...................
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410 -[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
411 -[CV] c1=0.3811975088263534, c2=0.09035610955818969, score=0.866982 - 1.3s
412 -[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
413 -[CV] c1=0.24706375983667295, c2=0.024420937052355998, score=0.895305 - 1.5s
414 -[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
415 -[CV] c1=0.5752830046115532, c2=0.029011946679537343, score=0.765131 - 1.4s
416 -[CV] c1=0.12822074735920433, c2=0.028255623123597452 .................
417 -[CV] c1=0.12822074735920433, c2=0.028255623123597452, score=0.905956 - 1.5s
418 -[CV] c1=0.5405494603106622, c2=0.02185761043719437 ...................
419 -[CV] c1=0.5405494603106622, c2=0.02185761043719437, score=0.941969 - 1.4s
420 -[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
421 -[CV] c1=0.3811975088263534, c2=0.09035610955818969, score=0.877324 - 1.2s
422 -[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
423 -[CV] c1=0.24706375983667295, c2=0.024420937052355998, score=0.943015 - 1.5s
424 -[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
425 -[CV] c1=0.5752830046115532, c2=0.029011946679537343, score=0.941969 - 1.5s
426 -[CV] c1=0.12822074735920433, c2=0.028255623123597452 .................
427 -[CV] c1=0.12822074735920433, c2=0.028255623123597452, score=0.712895 - 1.3s
428 -[CV] c1=0.5405494603106622, c2=0.02185761043719437 ...................
429 -[CV] c1=0.5405494603106622, c2=0.02185761043719437, score=0.746445 - 1.4s
430 -[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
431 -[CV] c1=0.3811975088263534, c2=0.09035610955818969, score=0.941969 - 1.2s
432 -Training done in: 9.118032s
433 - Saving training model...
434 - Saving training model done in: 0.013122s
435 -*********************************
436 -Prediction done in: 0.030181s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: False True
8 -Report file: _v9
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003814s
15 -{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
16 -{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
17 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
18 -[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
19 -[CV] c1=0.016595180754549518, c2=0.030948306031002376, score=0.867500 - 1.3s
20 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
21 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354, score=0.903565 - 1.2s
22 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
23 -[CV] c1=0.43749590188690224, c2=0.13150259694056668, score=0.883954 - 1.3s
24 -[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
25 -[CV] c1=1.5356087724511331, c2=0.14043664965912495, score=0.577372 - 1.1s
26 -[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
27 -[CV] c1=0.016595180754549518, c2=0.030948306031002376, score=0.923613 - 1.4s
28 -[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
29 -[CV] c1=0.7789541450968716, c2=0.013394697180379615, score=0.651934 - 1.0s
30 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
31 -[CV] c1=0.43749590188690224, c2=0.13150259694056668, score=0.917838 - 1.0s
32 -[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
33 -[CV] c1=2.0055201578565307, c2=0.00218367124029512, score=0.674465 - 1.4s
34 -[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
35 -[CV] c1=1.1186692278337627, c2=0.22309738782267205, score=0.571018 - 1.0s
36 -[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
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38 -[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
39 -[CV] c1=0.7789541450968716, c2=0.013394697180379615, score=0.708065 - 1.1s
40 -[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
41 -[CV] c1=0.3568772328262357, c2=0.03679897833962741, score=0.899703 - 1.1s
42 -[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
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44 -[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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48 -[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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50 -[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
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52 -[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
53 -[CV] c1=1.5356087724511331, c2=0.14043664965912495, score=0.771784 - 1.2s
54 -[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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56 -[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
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60 -[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
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62 -[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
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66 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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72 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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76 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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80 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
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82 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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84 -[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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88 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
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90 -[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
91 -[CV] c1=0.5286937810460386, c2=0.02768432633092313, score=0.555809 - 0.8s
92 -[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
93 -[CV] c1=1.5356087724511331, c2=0.14043664965912495, score=0.509067 - 1.1s
94 -[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
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96 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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98 -[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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100 -[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
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102 -[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
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104 -[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
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106 -[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
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108 -[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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118 -[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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120 -[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
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122 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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148 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
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152 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
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162 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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166 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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172 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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174 -[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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178 -[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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188 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
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191 -[CV] c1=2.0055201578565307, c2=0.00218367124029512, score=0.643620 - 1.1s
192 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
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194 -[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
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196 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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198 -[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
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200 -[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
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202 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
203 -[CV] c1=0.7423324269870698, c2=0.05489724550548968, score=0.852044 - 1.0s
204 -[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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206 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
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208 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
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210 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
211 -[CV] c1=0.09784611146788476, c2=0.054300102474929904, score=0.652192 - 1.1s
212 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
213 -[CV] c1=0.7423324269870698, c2=0.05489724550548968, score=0.891760 - 1.1s
214 -[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
215 -[CV] c1=0.016595180754549518, c2=0.030948306031002376, score=0.890667 - 1.2s
216 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
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218 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
219 -[CV] c1=0.43749590188690224, c2=0.13150259694056668, score=0.766755 - 1.2s
220 -[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
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222 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
223 -[CV] c1=0.3136994988226159, c2=0.003462481114435929, score=0.570077 - 0.9s
224 -[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
225 -[CV] c1=1.1186692278337627, c2=0.22309738782267205, score=0.654414 - 1.4s
226 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
227 -[CV] c1=0.1181247797079666, c2=0.014644040000881146, score=0.707919 - 1.2s
228 -[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
229 -[CV] c1=2.291960860484793, c2=0.020013816890766867, score=0.660064 - 1.1s
230 -[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
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232 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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234 -[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
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236 -[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
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238 -[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
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240 -[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
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242 -[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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244 -[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
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246 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
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248 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
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250 -[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
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252 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
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255 -[CV] c1=0.016595180754549518, c2=0.030948306031002376, score=0.848001 - 1.2s
256 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
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258 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
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260 -[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
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262 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
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264 -[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
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266 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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268 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
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270 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
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272 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
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276 -[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
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278 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
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280 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
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282 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
283 -[CV] c1=0.3136994988226159, c2=0.003462481114435929, score=0.737308 - 0.8s
284 -[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
285 -[CV] c1=0.016595180754549518, c2=0.030948306031002376, score=0.686683 - 1.0s
286 -[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
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288 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
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290 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
291 -[CV] c1=0.09784611146788476, c2=0.054300102474929904, score=0.920970 - 1.0s
292 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
293 -[CV] c1=0.3136994988226159, c2=0.003462481114435929, score=0.847745 - 1.1s
294 -[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
295 -[CV] c1=0.3624734639674293, c2=0.06885589564532553, score=0.860755 - 1.1s
296 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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298 -[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
299 -[CV] c1=2.291960860484793, c2=0.020013816890766867, score=0.600817 - 1.1s
300 -[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
301 -[CV] c1=0.5286937810460386, c2=0.02768432633092313, score=0.861675 - 1.3s
302 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
303 -[CV] c1=0.3136994988226159, c2=0.003462481114435929, score=0.866790 - 1.2s
304 -[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
305 -[CV] c1=0.5018716826309633, c2=0.04614139578392318, score=0.721334 - 1.3s
306 -[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
307 -[CV] c1=0.649264531621016, c2=0.031877071613145826, score=0.656490 - 1.1s
308 -[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
309 -[CV] c1=2.291960860484793, c2=0.020013816890766867, score=0.718275 - 1.1s
310 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
311 -[CV] c1=0.09784611146788476, c2=0.054300102474929904, score=0.720311 - 1.2s
312 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
313 -[CV] c1=0.3136994988226159, c2=0.003462481114435929, score=0.765698 - 1.1s
314 -[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
315 -[CV] c1=0.5018716826309633, c2=0.04614139578392318, score=0.729308 - 1.4s
316 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
317 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354, score=0.761818 - 1.0s
318 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
319 -[CV] c1=0.10489093988322791, c2=0.040276414459420484, score=0.603251 - 0.9s
320 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
321 -[CV] c1=0.09784611146788476, c2=0.054300102474929904, score=0.848001 - 1.3s
322 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
323 -[CV] c1=0.44728536850250333, c2=0.015283238629035883, score=0.710539 - 1.0s
324 -[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
325 -[CV] c1=0.3624734639674293, c2=0.06885589564532553, score=0.715320 - 1.1s
326 -[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
327 -[CV] c1=0.649264531621016, c2=0.031877071613145826, score=0.698204 - 1.2s
328 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
329 -[CV] c1=0.10489093988322791, c2=0.040276414459420484, score=0.858333 - 1.1s
330 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
331 -[CV] c1=0.09784611146788476, c2=0.054300102474929904, score=0.830436 - 1.1s
332 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
333 -[CV] c1=0.3136994988226159, c2=0.003462481114435929, score=0.872249 - 1.1s
334 -[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
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336 -[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
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338 -[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
339 -[CV] c1=0.7789541450968716, c2=0.013394697180379615, score=0.743125 - 1.2s
340 -[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
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342 -[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
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344 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
345 -[CV] c1=0.44728536850250333, c2=0.015283238629035883, score=0.852821 - 0.8s
346 -[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
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348 -[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
349 -[CV] c1=0.1181247797079666, c2=0.014644040000881146, score=0.848001 - 1.1s
350 -[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
351 -[CV] c1=2.291960860484793, c2=0.020013816890766867, score=0.601310 - 1.2s
352 -[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
353 -[CV] c1=0.5286937810460386, c2=0.02768432633092313, score=0.753693 - 1.2s
354 -[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
355 -[CV] c1=0.3136994988226159, c2=0.003462481114435929, score=0.710539 - 1.3s
356 -[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
357 -[CV] c1=0.3624734639674293, c2=0.06885589564532553, score=0.824781 - 1.1s
358 -[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
359 -[CV] c1=0.649264531621016, c2=0.031877071613145826, score=0.817004 - 1.3s
360 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
361 -[CV] c1=0.10489093988322791, c2=0.040276414459420484, score=0.906853 - 1.3s
362 -[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
363 -[CV] c1=2.0055201578565307, c2=0.00218367124029512, score=0.614085 - 1.2s
364 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
365 -[CV] c1=0.44728536850250333, c2=0.015283238629035883, score=0.841313 - 1.0s
366 -[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
367 -[CV] c1=0.016595180754549518, c2=0.030948306031002376, score=0.709345 - 1.1s
368 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
369 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354, score=0.823922 - 1.2s
370 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
371 -[CV] c1=0.43749590188690224, c2=0.13150259694056668, score=0.753693 - 1.1s
372 -[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
373 -[CV] c1=2.0055201578565307, c2=0.00218367124029512, score=0.596309 - 1.2s
374 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
375 -[CV] c1=0.44728536850250333, c2=0.015283238629035883, score=0.789914 - 1.0s
376 -[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
377 -[CV] c1=0.016595180754549518, c2=0.030948306031002376, score=0.723492 - 1.4s
378 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
379 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354, score=0.708065 - 1.2s
380 -[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
381 -[CV] c1=0.43749590188690224, c2=0.13150259694056668, score=0.705332 - 1.2s
382 -[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
383 -[CV] c1=2.0055201578565307, c2=0.00218367124029512, score=0.515901 - 1.1s
384 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
385 -[CV] c1=0.44728536850250333, c2=0.015283238629035883, score=0.761418 - 0.9s
386 -[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
387 -[CV] c1=0.3624734639674293, c2=0.06885589564532553, score=0.572450 - 1.1s
388 -[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
389 -[CV] c1=0.649264531621016, c2=0.031877071613145826, score=0.713917 - 1.1s
390 -[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
391 -[CV] c1=0.10489093988322791, c2=0.040276414459420484, score=0.735607 - 1.1s
392 -[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
393 -[CV] c1=0.09784611146788476, c2=0.054300102474929904, score=0.731639 - 1.3s
394 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
395 -[CV] c1=0.44728536850250333, c2=0.015283238629035883, score=0.835074 - 1.0s
396 -[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
397 -[CV] c1=1.1186692278337627, c2=0.22309738782267205, score=0.598718 - 0.8s
398 -[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
399 -[CV] c1=0.5233514980566518, c2=0.05607213609434676, score=0.721334 - 1.1s
400 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
401 -[CV] c1=0.7863468698144266, c2=0.0037442044888246354, score=0.891760 - 1.3s
402 -[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
403 -[CV] c1=0.3568772328262357, c2=0.03679897833962741, score=0.721334 - 1.1s
404 -[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
405 -[CV] c1=1.5356087724511331, c2=0.14043664965912495, score=0.654414 - 1.2s
406 -[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
407 -[CV] c1=0.44728536850250333, c2=0.015283238629035883, score=0.899703 - 0.8s
408 -Training done in: 7.351656s
409 - Saving training model...
410 - Saving training model done in: 0.013628s
411 -*********************************
412 -Prediction done in: 0.024027s
1 +-------------------------------- PARAMETERS --------------------------------
2 +Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 +File with training data set: training-data-set-70.txt
4 +Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 +File with test data set: test-data-set-30.txt
6 +Exclude stop words: False
7 +Levels: False True
8 +Report file: _v11
9 +Exclude symbols: False
10 +-------------------------------- PROCESSING --------------------------------
11 +Reading corpus...
12 + Sentences training data: 286
13 + Sentences test data: 123
14 +Reading corpus done in: 0.003641s
15 +-------------------------------- FEATURES --------------------------------
16 +--------------------------Features Training ---------------------------
17 + 0 1
18 +0 lemma 2
19 +1 postag CD
20 +2 -1:lemma fructose
21 +3 -1:postag NN
22 +4 word 2
23 +5 isUpper False
24 +6 isLower False
25 +7 isGreek False
26 +8 isNumber True
27 +9 -1:word fructose
28 +--------------------------- FeaturesTest -----------------------------
29 + 0 1
30 +0 lemma delta-arca
31 +1 postag NN
32 +2 -1:lemma _
33 +3 -1:postag NN
34 +4 +1:lemma _
35 +5 +1:postag CD
36 +6 word delta-arcA
37 +7 isUpper False
38 +8 isLower False
39 +9 isGreek False
40 +10 isNumber False
41 +11 -1:word _
42 +12 +1:word _
43 +Fitting 10 folds for each of 20 candidates, totalling 200 fits
44 +[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
45 +[CV] c1=0.23106473162087696, c2=0.015694520156649943, score=0.908106 - 1.6s
46 +[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
47 +[CV] c1=0.11486416926458794, c2=0.02680674100354409, score=0.920093 - 1.3s
48 +[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
49 +[CV] c1=1.1984741556968186, c2=0.05653817320378769, score=0.849130 - 1.6s
50 +[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
51 +[CV] c1=2.593347208872597, c2=0.012299824833226647, score=0.853878 - 1.5s
52 +[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
53 +[CV] c1=0.022102126823387226, c2=0.06924520730038973, score=0.852298 - 1.2s
54 +[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
55 +[CV] c1=0.6378651675797636, c2=0.013941131343344033, score=0.863495 - 1.2s
56 +[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
57 +[CV] c1=0.20126118928313821, c2=0.08056323897622286, score=0.918743 - 1.3s
58 +[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
59 +[CV] c1=0.3861841949004038, c2=0.03323132379303178, score=0.935722 - 1.4s
60 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
61 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.923212 - 1.3s
62 +[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
63 +[CV] c1=0.30533486314094455, c2=0.0914754586936966, score=0.794216 - 1.3s
64 +[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
65 +[CV] c1=0.6378651675797636, c2=0.013941131343344033, score=0.773435 - 1.2s
66 +[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
67 +[CV] c1=0.5698075862470543, c2=0.010481334464662654, score=0.674636 - 1.4s
68 +[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
69 +[CV] c1=0.12681094579027236, c2=0.0036690595009708006, score=0.848937 - 1.3s
70 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
71 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.840107 - 1.4s
72 +[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
73 +[CV] c1=0.022102126823387226, c2=0.06924520730038973, score=0.869790 - 1.3s
74 +[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
75 +[CV] c1=0.1339240355864409, c2=0.020293819707040375, score=0.853491 - 1.3s
76 +[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
77 +[CV] c1=0.6125085358121363, c2=0.029808644201330697, score=0.926918 - 1.2s
78 +[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
79 +[CV] c1=0.12681094579027236, c2=0.0036690595009708006, score=0.862849 - 1.3s
80 +[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
81 +[CV] c1=0.1962647469141778, c2=0.03287380929699173, score=0.839700 - 1.1s
82 +[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
83 +[CV] c1=0.30533486314094455, c2=0.0914754586936966, score=0.846616 - 1.2s
84 +[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
85 +[CV] c1=0.03425956492795125, c2=0.007813038595582533, score=0.930828 - 1.3s
86 +[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
87 +[CV] c1=0.5698075862470543, c2=0.010481334464662654, score=0.725919 - 1.4s
88 +[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
89 +[CV] c1=0.3861841949004038, c2=0.03323132379303178, score=0.879946 - 1.3s
90 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
91 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.906184 - 1.3s
92 +[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
93 +[CV] c1=0.23106473162087696, c2=0.015694520156649943, score=0.830873 - 1.1s
94 +[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
95 +[CV] c1=0.1339240355864409, c2=0.020293819707040375, score=0.855715 - 1.2s
96 +[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
97 +[CV] c1=0.5698075862470543, c2=0.010481334464662654, score=0.879946 - 1.3s
98 +[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
99 +[CV] c1=0.12681094579027236, c2=0.0036690595009708006, score=0.927937 - 1.3s
100 +[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
101 +[CV] c1=0.1962647469141778, c2=0.03287380929699173, score=0.839942 - 1.2s
102 +[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
103 +[CV] c1=0.2912635826026504, c2=0.02156672100740503, score=0.826386 - 1.0s
104 +[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
105 +[CV] c1=0.03425956492795125, c2=0.007813038595582533, score=0.910672 - 1.4s
106 +[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
107 +[CV] c1=0.11486416926458794, c2=0.02680674100354409, score=0.930828 - 1.5s
108 +[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
109 +[CV] c1=0.3861841949004038, c2=0.03323132379303178, score=0.809719 - 1.5s
110 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
111 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.814300 - 1.6s
112 +[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
113 +[CV] c1=0.022102126823387226, c2=0.06924520730038973, score=0.841339 - 1.1s
114 +[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
115 +[CV] c1=0.03425956492795125, c2=0.007813038595582533, score=0.839499 - 1.3s
116 +[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
117 +[CV] c1=0.20126118928313821, c2=0.08056323897622286, score=0.895946 - 1.3s
118 +[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
119 +[CV] c1=0.3861841949004038, c2=0.03323132379303178, score=0.794216 - 1.2s
120 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
121 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.852010 - 1.5s
122 +[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
123 +[CV] c1=0.2912635826026504, c2=0.02156672100740503, score=0.794216 - 1.4s
124 +[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
125 +[CV] c1=0.03425956492795125, c2=0.007813038595582533, score=0.869790 - 1.3s
126 +[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
127 +[CV] c1=0.20126118928313821, c2=0.08056323897622286, score=0.794216 - 1.5s
128 +[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
129 +[CV] c1=0.3861841949004038, c2=0.03323132379303178, score=0.856620 - 1.5s
130 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
131 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.930828 - 1.4s
132 +[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
133 +[CV] c1=0.2912635826026504, c2=0.02156672100740503, score=0.926918 - 1.1s
134 +[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
135 +[CV] c1=0.03425956492795125, c2=0.007813038595582533, score=0.854345 - 1.3s
136 +[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
137 +[CV] c1=0.20126118928313821, c2=0.08056323897622286, score=0.857663 - 1.4s
138 +[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
139 +[CV] c1=0.3861841949004038, c2=0.03323132379303178, score=0.759504 - 1.6s
140 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
141 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.857803 - 1.4s
142 +[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
143 +[CV] c1=0.2912635826026504, c2=0.02156672100740503, score=0.863576 - 1.3s
144 +[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
145 +[CV] c1=0.03425956492795125, c2=0.007813038595582533, score=0.927937 - 1.2s
146 +[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
147 +[CV] c1=0.20126118928313821, c2=0.08056323897622286, score=0.660059 - 1.5s
148 +[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
149 +[CV] c1=0.3861841949004038, c2=0.03323132379303178, score=0.926918 - 1.3s
150 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
151 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.694239 - 1.5s
152 +[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
153 +[CV] c1=0.022102126823387226, c2=0.06924520730038973, score=0.930828 - 1.2s
154 +[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
155 +[CV] c1=0.1339240355864409, c2=0.020293819707040375, score=0.704991 - 1.4s
156 +[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
157 +[CV] c1=0.6125085358121363, c2=0.029808644201330697, score=0.674636 - 1.4s
158 +[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
159 +[CV] c1=0.4770198491983926, c2=0.011670029650325785, score=0.678668 - 1.3s
160 +[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
161 +[CV] c1=0.1962647469141778, c2=0.03287380929699173, score=0.794216 - 1.2s
162 +[CV] c1=0.2912635826026504, c2=0.02156672100740503 ...................
163 +[CV] c1=0.2912635826026504, c2=0.02156672100740503, score=0.888761 - 1.2s
164 +[CV] c1=0.03425956492795125, c2=0.007813038595582533 .................
165 +[CV] c1=0.03425956492795125, c2=0.007813038595582533, score=0.853754 - 1.3s
166 +[CV] c1=0.20126118928313821, c2=0.08056323897622286 ..................
167 +[CV] c1=0.20126118928313821, c2=0.08056323897622286, score=0.927937 - 1.3s
168 +[CV] c1=0.3861841949004038, c2=0.03323132379303178 ...................
169 +[CV] c1=0.3861841949004038, c2=0.03323132379303178, score=0.678668 - 1.5s
170 +[CV] c1=0.017720414748734287, c2=0.14805811330028124 .................
171 +[CV] c1=0.017720414748734287, c2=0.14805811330028124, score=0.830776 - 1.6s
172 +[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
173 +[CV] c1=0.022102126823387226, c2=0.06924520730038973, score=0.923212 - 1.3s
174 +[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
175 +[CV] c1=0.1339240355864409, c2=0.020293819707040375, score=0.794216 - 1.4s
176 +[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
177 +[CV] c1=0.6125085358121363, c2=0.029808644201330697, score=0.863495 - 1.4s
178 +[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
179 +[CV] c1=0.4770198491983926, c2=0.011670029650325785, score=0.926918 - 1.3s
180 +[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
181 +[CV] c1=0.1962647469141778, c2=0.03287380929699173, score=0.862849 - 1.2s
182 +[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
183 +[CV] c1=0.022102126823387226, c2=0.06924520730038973, score=0.694239 - 1.3s
184 +[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
185 +[CV] c1=0.6378651675797636, c2=0.013941131343344033, score=0.928690 - 1.3s
186 +[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
187 +[CV] c1=0.5698075862470543, c2=0.010481334464662654, score=0.928690 - 1.4s
188 +[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
189 +[CV] c1=0.4770198491983926, c2=0.011670029650325785, score=0.809719 - 1.3s
190 +[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
191 +[CV] c1=0.1962647469141778, c2=0.03287380929699173, score=0.927937 - 1.3s
192 +[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
193 +[CV] c1=0.022102126823387226, c2=0.06924520730038973, score=0.849711 - 1.3s
194 +[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
195 +[CV] c1=0.1339240355864409, c2=0.020293819707040375, score=0.838382 - 1.4s
196 +[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
197 +[CV] c1=1.1984741556968186, c2=0.05653817320378769, score=0.687196 - 1.4s
198 +[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
199 +[CV] c1=0.4770198491983926, c2=0.011670029650325785, score=0.808847 - 1.2s
200 +[CV] c1=0.1962647469141778, c2=0.03287380929699173 ...................
201 +[CV] c1=0.1962647469141778, c2=0.03287380929699173, score=0.795085 - 1.2s
202 +[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
203 +[CV] c1=0.022102126823387226, c2=0.06924520730038973, score=0.830776 - 1.3s
204 +[CV] c1=0.1339240355864409, c2=0.020293819707040375 ..................
205 +[CV] c1=0.1339240355864409, c2=0.020293819707040375, score=0.955586 - 1.4s
206 +[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
207 +[CV] c1=0.6125085358121363, c2=0.029808644201330697, score=0.928690 - 1.4s
208 +[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
209 +[CV] c1=0.4770198491983926, c2=0.011670029650325785, score=0.851982 - 1.4s
210 +[CV] c1=0.4918515596977871, c2=0.0022814573087973607 .................
211 +[CV] c1=0.4918515596977871, c2=0.0022814573087973607, score=0.926918 - 1.1s
212 +[CV] c1=0.30533486314094455, c2=0.0914754586936966 ...................
213 +[CV] c1=0.30533486314094455, c2=0.0914754586936966, score=0.791788 - 1.5s
214 +[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
215 +[CV] c1=0.6378651675797636, c2=0.013941131343344033, score=0.875374 - 1.2s
216 +[CV] c1=0.5698075862470543, c2=0.010481334464662654 ..................
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218 +[CV] c1=0.12681094579027236, c2=0.0036690595009708006 ................
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418 +[CV] c1=0.6125085358121363, c2=0.029808644201330697 ..................
419 +[CV] c1=0.6125085358121363, c2=0.029808644201330697, score=0.904039 - 1.5s
420 +[CV] c1=0.4770198491983926, c2=0.011670029650325785 ..................
421 +[CV] c1=0.4770198491983926, c2=0.011670029650325785, score=0.928690 - 1.5s
422 +[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
423 +[CV] c1=1.6065853828524328, c2=0.007959562254287294, score=0.567922 - 1.4s
424 +[CV] c1=0.23106473162087696, c2=0.015694520156649943 .................
425 +[CV] c1=0.23106473162087696, c2=0.015694520156649943, score=0.794216 - 1.4s
426 +[CV] c1=0.11486416926458794, c2=0.02680674100354409 ..................
427 +[CV] c1=0.11486416926458794, c2=0.02680674100354409, score=0.705243 - 1.5s
428 +[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
429 +[CV] c1=1.1984741556968186, c2=0.05653817320378769, score=0.839761 - 1.3s
430 +[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
431 +[CV] c1=2.593347208872597, c2=0.012299824833226647, score=0.617476 - 1.5s
432 +[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
433 +[CV] c1=1.6065853828524328, c2=0.007959562254287294, score=0.846283 - 1.3s
434 +Training done in: 8.982838s
435 + Saving training model...
436 + Saving training model done in: 0.013084s
437 +*********************************
438 +Prediction done in: 0.033790s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: False True
8 -Report file: _v2
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003654s
15 --------------------------------- FEATURES --------------------------------
16 ---------------------------Features Training ---------------------------
17 - 0 1
18 -0 lemma 1
19 -1 postag CD
20 -2 -1:lemma pq
21 -3 -1:postag NN
22 -4 word 1
23 -5 isUpper False
24 -6 isLower False
25 -7 isGreek False
26 -8 isNumber True
27 -9 -1:word PQ
28 ---------------------------- FeaturesTest -----------------------------
29 - 0 1
30 -0 lemma delta-fnr
31 -1 postag NN
32 -2 -1:lemma _
33 -3 -1:postag NN
34 -4 +1:lemma _
35 -5 +1:postag CD
36 -6 word delta-fnr
37 -7 isUpper False
38 -8 isLower True
39 -9 isGreek False
40 -10 isNumber False
41 -11 -1:word _
42 -12 +1:word _
43 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
44 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
45 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.630601 - 1.2s
46 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
47 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.848001 - 1.6s
48 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
49 -[CV] c1=0.25902302075140105, c2=0.03091362551658973, score=0.899703 - 1.6s
50 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
51 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.742271 - 1.4s
52 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
53 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.678771 - 1.1s
54 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
55 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.719617 - 1.4s
56 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
57 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.873584 - 1.5s
58 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
59 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.690262 - 1.3s
60 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
61 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.577546 - 1.2s
62 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
63 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.719481 - 1.1s
64 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
65 -[CV] c1=0.2905084415493135, c2=0.01849397696699137, score=0.902737 - 1.6s
66 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
67 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.549739 - 1.2s
68 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
69 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.925743 - 1.5s
70 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
71 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.848001 - 1.5s
72 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
73 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.940286 - 1.4s
74 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
75 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.849399 - 1.4s
76 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
77 -[CV] c1=0.5665040037123241, c2=0.011962486026690578, score=0.887803 - 1.2s
78 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
79 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.853386 - 1.4s
80 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
81 -[CV] c1=1.6511701323120827, c2=0.08558259304928574, score=0.632374 - 1.3s
82 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
83 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.857175 - 1.4s
84 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
85 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.863912 - 1.4s
86 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
87 -[CV] c1=0.5665040037123241, c2=0.011962486026690578, score=0.768974 - 1.3s
88 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
89 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.938387 - 1.5s
90 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
91 -[CV] c1=1.6511701323120827, c2=0.08558259304928574, score=0.624854 - 1.3s
92 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
93 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.721089 - 1.2s
94 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
95 -[CV] c1=0.2905084415493135, c2=0.01849397696699137, score=0.624196 - 1.2s
96 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
97 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.849399 - 1.5s
98 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
99 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.904833 - 1.7s
100 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
101 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.908205 - 1.4s
102 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
103 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.692991 - 1.3s
104 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
105 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.803642 - 1.5s
106 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
107 -[CV] c1=0.5665040037123241, c2=0.011962486026690578, score=0.680458 - 1.3s
108 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
109 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.919762 - 1.4s
110 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
111 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.703784 - 1.5s
112 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
113 -[CV] c1=0.11429489799744622, c2=0.01488578964446575, score=0.883871 - 1.0s
114 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
115 -[CV] c1=0.2905084415493135, c2=0.01849397696699137, score=0.866790 - 1.6s
116 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
117 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.871122 - 1.5s
118 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
119 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.747448 - 1.5s
120 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
121 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.757664 - 1.5s
122 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
123 -[CV] c1=0.11429489799744622, c2=0.01488578964446575, score=0.708356 - 1.4s
124 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
125 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.675999 - 1.3s
126 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
127 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.927708 - 1.5s
128 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
129 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.899703 - 1.4s
130 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
131 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.919762 - 1.6s
132 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
133 -[CV] c1=0.11429489799744622, c2=0.01488578964446575, score=0.690262 - 1.1s
134 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
135 -[CV] c1=0.2905084415493135, c2=0.01849397696699137, score=0.938387 - 1.5s
136 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
137 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.737065 - 1.5s
138 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
139 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.717966 - 1.5s
140 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
141 -[CV] c1=1.6511701323120827, c2=0.08558259304928574, score=0.671836 - 1.5s
142 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
143 -[CV] c1=0.11429489799744622, c2=0.01488578964446575, score=0.935584 - 1.1s
144 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
145 -[CV] c1=0.2905084415493135, c2=0.01849397696699137, score=0.747448 - 1.5s
146 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
147 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.687077 - 1.5s
148 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
149 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.627027 - 1.2s
150 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
151 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.857982 - 1.5s
152 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
153 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.731659 - 1.4s
154 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
155 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.719617 - 1.5s
156 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
157 -[CV] c1=0.5665040037123241, c2=0.011962486026690578, score=0.929632 - 1.4s
158 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
159 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.602106 - 1.3s
160 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
161 -[CV] c1=1.6511701323120827, c2=0.08558259304928574, score=0.779997 - 1.4s
162 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
163 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.823710 - 1.4s
164 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
165 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.706548 - 1.3s
166 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
167 -[CV] c1=0.5665040037123241, c2=0.011962486026690578, score=0.720838 - 1.3s
168 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
169 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.752021 - 1.4s
170 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
171 -[CV] c1=1.6511701323120827, c2=0.08558259304928574, score=0.726221 - 1.4s
172 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
173 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.900039 - 1.5s
174 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
175 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.532088 - 1.3s
176 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
177 -[CV] c1=0.04258998203691286, c2=0.08845660294483688, score=0.738823 - 1.4s
178 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
179 -[CV] c1=0.08442255640374982, c2=0.07334312442868467, score=0.665417 - 1.5s
180 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
181 -[CV] c1=0.17037724024202613, c2=0.04579884459555339, score=0.690262 - 1.3s
182 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
183 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.620108 - 1.2s
184 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
185 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.818254 - 1.5s
186 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
187 -[CV] c1=0.04258998203691286, c2=0.08845660294483688, score=0.665417 - 1.3s
188 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
189 -[CV] c1=0.08442255640374982, c2=0.07334312442868467, score=0.721089 - 1.5s
190 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
191 -[CV] c1=0.17037724024202613, c2=0.04579884459555339, score=0.734882 - 1.3s
192 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
193 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.866790 - 1.5s
194 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
195 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.535633 - 1.2s
196 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
197 -[CV] c1=0.5665040037123241, c2=0.011962486026690578, score=0.734882 - 1.4s
198 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
199 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.724270 - 1.5s
200 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
201 -[CV] c1=1.6511701323120827, c2=0.08558259304928574, score=0.672403 - 1.4s
202 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
203 -[CV] c1=0.11429489799744622, c2=0.01488578964446575, score=0.906853 - 1.4s
204 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
205 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.849399 - 1.5s
206 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
207 -[CV] c1=0.5665040037123241, c2=0.011962486026690578, score=0.830312 - 1.5s
208 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
209 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.779574 - 1.6s
210 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
211 -[CV] c1=1.6511701323120827, c2=0.08558259304928574, score=0.521176 - 1.2s
212 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
213 -[CV] c1=0.11429489799744622, c2=0.01488578964446575, score=0.740663 - 0.9s
214 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
215 -[CV] c1=0.2905084415493135, c2=0.01849397696699137, score=0.723944 - 1.4s
216 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
217 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.675999 - 1.4s
218 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
219 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.728478 - 1.7s
220 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
221 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.851068 - 1.6s
222 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
223 -[CV] c1=0.11429489799744622, c2=0.01488578964446575, score=0.724270 - 1.4s
224 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
225 -[CV] c1=0.2905084415493135, c2=0.01849397696699137, score=0.717243 - 2.0s
226 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
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228 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
229 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.895775 - 1.6s
230 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
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232 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
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234 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
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236 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
237 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.710564 - 1.6s
238 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
239 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.843585 - 1.5s
240 -[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
241 -[CV] c1=0.25483228949461545, c2=0.13089764900278175, score=0.662689 - 1.5s
242 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
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244 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
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246 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
247 -[CV] c1=0.5665040037123241, c2=0.011962486026690578, score=0.849399 - 1.5s
248 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
249 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.930841 - 1.4s
250 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
251 -[CV] c1=1.6511701323120827, c2=0.08558259304928574, score=0.681542 - 1.4s
252 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
253 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.583104 - 1.3s
254 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
255 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.871122 - 1.5s
256 -[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
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258 -[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
259 -[CV] c1=0.07999002423801141, c2=0.000868661924339573, score=0.922675 - 1.5s
260 -[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
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262 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
263 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.930841 - 1.5s
264 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
265 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.895623 - 1.4s
266 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
267 -[CV] c1=0.04258998203691286, c2=0.08845660294483688, score=0.871945 - 1.5s
268 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
269 -[CV] c1=0.08442255640374982, c2=0.07334312442868467, score=0.909467 - 1.5s
270 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
271 -[CV] c1=0.17037724024202613, c2=0.04579884459555339, score=0.630601 - 1.1s
272 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
273 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.920970 - 1.5s
274 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
275 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.909467 - 1.4s
276 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
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278 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
279 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.690262 - 1.3s
280 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
281 -[CV] c1=0.17037724024202613, c2=0.04579884459555339, score=0.919762 - 1.2s
282 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
283 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.766835 - 1.6s
284 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
285 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.754855 - 1.4s
286 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
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288 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
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290 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
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292 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
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294 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
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296 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
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298 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
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300 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
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302 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
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304 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
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306 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
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308 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
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310 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
311 -[CV] c1=0.17037724024202613, c2=0.04579884459555339, score=0.740663 - 1.3s
312 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
313 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.899703 - 1.4s
314 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
315 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.881363 - 1.6s
316 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
317 -[CV] c1=0.04258998203691286, c2=0.08845660294483688, score=0.711434 - 1.4s
318 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
319 -[CV] c1=0.08442255640374982, c2=0.07334312442868467, score=0.711434 - 1.6s
320 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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322 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
323 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.778194 - 1.5s
324 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
325 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.708650 - 1.6s
326 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
327 -[CV] c1=0.25902302075140105, c2=0.03091362551658973, score=0.723944 - 1.3s
328 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
329 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.724270 - 1.4s
330 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
331 -[CV] c1=0.17037724024202613, c2=0.04579884459555339, score=0.899703 - 1.3s
332 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
333 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.748932 - 1.5s
334 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
335 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.755552 - 1.4s
336 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
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338 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
339 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.603222 - 1.2s
340 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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342 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
343 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.766835 - 1.5s
344 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
345 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.766835 - 1.3s
346 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
347 -[CV] c1=0.25902302075140105, c2=0.03091362551658973, score=0.883871 - 1.4s
348 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
349 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.904833 - 1.4s
350 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
351 -[CV] c1=1.6087629131114594, c2=0.06538470359631814, score=0.779997 - 1.1s
352 -[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
353 -[CV] c1=0.11429489799744622, c2=0.01488578964446575, score=0.933789 - 0.9s
354 -[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
355 -[CV] c1=0.2905084415493135, c2=0.01849397696699137, score=0.843585 - 1.5s
356 -[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
357 -[CV] c1=0.9997736934864921, c2=0.026878803960042243, score=0.790471 - 1.4s
358 -[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
359 -[CV] c1=0.22692190968141177, c2=0.023819618838019103, score=0.723944 - 1.4s
360 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
361 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.933040 - 1.5s
362 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
363 -[CV] c1=1.6087629131114594, c2=0.06538470359631814, score=0.535144 - 0.9s
364 -[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
365 -[CV] c1=0.18982871503169924, c2=0.046233745555238626, score=0.819775 - 1.5s
366 -[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
367 -[CV] c1=0.8685665773754986, c2=0.040475472475883754, score=0.754855 - 1.7s
368 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
369 -[CV] c1=0.04258998203691286, c2=0.08845660294483688, score=0.881282 - 1.4s
370 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
371 -[CV] c1=0.08442255640374982, c2=0.07334312442868467, score=0.892457 - 1.7s
372 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
373 -[CV] c1=1.6087629131114594, c2=0.06538470359631814, score=0.678081 - 1.3s
374 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
375 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.848001 - 1.5s
376 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
377 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.892457 - 1.4s
378 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
379 -[CV] c1=0.25902302075140105, c2=0.03091362551658973, score=0.943287 - 1.4s
380 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
381 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.705101 - 1.5s
382 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
383 -[CV] c1=1.6087629131114594, c2=0.06538470359631814, score=0.703127 - 1.0s
384 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
385 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.819775 - 1.5s
386 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
387 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.721089 - 1.4s
388 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
389 -[CV] c1=0.25902302075140105, c2=0.03091362551658973, score=0.721089 - 1.5s
390 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
391 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.819775 - 1.4s
392 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
393 -[CV] c1=1.6087629131114594, c2=0.06538470359631814, score=0.726221 - 1.1s
394 -[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
395 -[CV] c1=0.031955518564645284, c2=0.004198138415764393, score=0.684656 - 1.4s
396 -[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
397 -[CV] c1=0.6747528619946138, c2=0.07283789541988857, score=0.863912 - 1.4s
398 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
399 -[CV] c1=0.04258998203691286, c2=0.08845660294483688, score=0.698041 - 1.4s
400 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
401 -[CV] c1=0.08442255640374982, c2=0.07334312442868467, score=0.766835 - 1.4s
402 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
403 -[CV] c1=0.17037724024202613, c2=0.04579884459555339, score=0.937982 - 1.3s
404 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
405 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.906853 - 1.5s
406 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
407 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.608111 - 1.1s
408 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
409 -[CV] c1=0.25902302075140105, c2=0.03091362551658973, score=0.843585 - 1.5s
410 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
411 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.921146 - 1.5s
412 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
413 -[CV] c1=1.6087629131114594, c2=0.06538470359631814, score=0.681542 - 1.0s
414 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
415 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.690262 - 1.5s
416 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
417 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.665417 - 1.3s
418 -[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
419 -[CV] c1=0.04258998203691286, c2=0.08845660294483688, score=0.629561 - 1.4s
420 -[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
421 -[CV] c1=0.08442255640374982, c2=0.07334312442868467, score=0.613609 - 1.3s
422 -[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
423 -[CV] c1=0.17037724024202613, c2=0.04579884459555339, score=0.883871 - 1.4s
424 -[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
425 -[CV] c1=0.15911702521720522, c2=0.046161934701581496, score=0.933070 - 1.6s
426 -[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
427 -[CV] c1=0.09008322955518538, c2=0.07446232300940821, score=0.925714 - 1.3s
428 -[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
429 -[CV] c1=0.25902302075140105, c2=0.03091362551658973, score=0.747448 - 1.4s
430 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
431 -[CV] c1=0.10267282220358842, c2=0.0004147936931735207, score=0.752021 - 1.4s
432 -[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
433 -[CV] c1=1.6087629131114594, c2=0.06538470359631814, score=0.624854 - 1.1s
434 -Training done in: 9.342762s
435 - Saving training model...
436 - Saving training model done in: 0.013957s
437 -*********************************
438 -Prediction done in: 0.032526s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: True True
8 -Report file: _v9
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003836s
15 -{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
16 -{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
17 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
18 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
19 -[CV] c1=0.489724053657197, c2=0.044922427709806804, score=0.567237 - 0.9s
20 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
21 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.852821 - 1.1s
22 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
23 -[CV] c1=0.035487685725177805, c2=0.07066796438693485, score=0.654823 - 1.0s
24 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
25 -[CV] c1=0.1942293390156905, c2=0.0118048238421011, score=0.921915 - 1.2s
26 -[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
27 -[CV] c1=0.32462532886586554, c2=0.018288220546846753, score=0.899703 - 1.2s
28 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
29 -[CV] c1=0.15761238349200285, c2=0.002525593517619589, score=0.920970 - 1.4s
30 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
31 -[CV] c1=0.035487685725177805, c2=0.07066796438693485, score=0.720311 - 1.3s
32 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
33 -[CV] c1=0.7754820747377101, c2=0.12099050393613156, score=0.675506 - 1.3s
34 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
35 -[CV] c1=0.38805051498984994, c2=0.01477620810001598, score=0.570419 - 1.0s
36 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
37 -[CV] c1=0.489724053657197, c2=0.044922427709806804, score=0.723593 - 0.8s
38 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
39 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.710539 - 1.2s
40 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
41 -[CV] c1=0.035487685725177805, c2=0.07066796438693485, score=0.867500 - 1.1s
42 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
43 -[CV] c1=0.7754820747377101, c2=0.12099050393613156, score=0.701323 - 1.2s
44 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
45 -[CV] c1=0.38805051498984994, c2=0.01477620810001598, score=0.858883 - 1.2s
46 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
47 -[CV] c1=0.08401658210095098, c2=0.01884625069711085, score=0.848230 - 0.7s
48 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
49 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.753693 - 1.2s
50 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
51 -[CV] c1=0.035487685725177805, c2=0.07066796438693485, score=0.766835 - 1.0s
52 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
53 -[CV] c1=0.7754820747377101, c2=0.12099050393613156, score=0.624832 - 1.2s
54 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
55 -[CV] c1=0.38805051498984994, c2=0.01477620810001598, score=0.679766 - 1.3s
56 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
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58 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
59 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.919762 - 1.1s
60 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
61 -[CV] c1=0.035487685725177805, c2=0.07066796438693485, score=0.887557 - 1.1s
62 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
63 -[CV] c1=0.7754820747377101, c2=0.12099050393613156, score=0.640353 - 1.1s
64 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
65 -[CV] c1=0.38805051498984994, c2=0.01477620810001598, score=0.848001 - 1.2s
66 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
67 -[CV] c1=0.489724053657197, c2=0.044922427709806804, score=0.774739 - 0.9s
68 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
69 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.656490 - 1.1s
70 -[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
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72 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
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74 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
75 -[CV] c1=0.38805051498984994, c2=0.01477620810001598, score=0.864316 - 1.2s
76 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
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78 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
79 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.761818 - 1.1s
80 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
81 -[CV] c1=0.035487685725177805, c2=0.07066796438693485, score=0.848001 - 1.2s
82 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
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84 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
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86 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
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88 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
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90 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
91 -[CV] c1=0.48021458727568206, c2=0.024520344430852173, score=0.715300 - 1.1s
92 -[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
93 -[CV] c1=1.1913664771508643, c2=0.02636126240604801, score=0.632407 - 1.0s
94 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
95 -[CV] c1=0.011396903498125098, c2=0.08331303274987872, score=0.867500 - 1.1s
96 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
97 -[CV] c1=0.489724053657197, c2=0.044922427709806804, score=0.852821 - 1.1s
98 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
99 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.556973 - 1.0s
100 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
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102 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
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104 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
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106 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
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108 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
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110 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
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112 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
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114 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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116 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
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118 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
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120 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
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122 -[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
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124 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
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126 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
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128 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
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132 -[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
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134 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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140 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
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144 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
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146 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
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148 -[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
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150 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
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152 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
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158 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
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160 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
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162 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
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164 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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166 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
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174 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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176 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
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178 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
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180 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
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184 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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186 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
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188 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
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190 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
191 -[CV] c1=0.585686407327112, c2=0.012901559348345326, score=0.573749 - 1.1s
192 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
193 -[CV] c1=1.2077186464874288, c2=0.11106721030811739, score=0.698982 - 1.1s
194 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
195 -[CV] c1=0.725079276744011, c2=0.0025324013059438034, score=0.905489 - 0.9s
196 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
197 -[CV] c1=0.08401658210095098, c2=0.01884625069711085, score=0.599785 - 0.8s
198 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
199 -[CV] c1=0.037804502799856664, c2=0.17775310605580735, score=0.654823 - 1.0s
200 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
201 -[CV] c1=0.035487685725177805, c2=0.07066796438693485, score=0.875991 - 1.2s
202 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
203 -[CV] c1=0.7754820747377101, c2=0.12099050393613156, score=0.815463 - 1.0s
204 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
205 -[CV] c1=0.38805051498984994, c2=0.01477620810001598, score=0.710539 - 1.1s
206 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
207 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.553828 - 0.5s
208 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
209 -[CV] c1=0.389627350050321, c2=0.20541641674647737, score=0.625815 - 1.1s
210 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
211 -[CV] c1=0.037804502799856664, c2=0.17775310605580735, score=0.860536 - 1.2s
212 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
213 -[CV] c1=0.48021458727568206, c2=0.024520344430852173, score=0.920970 - 1.2s
214 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
215 -[CV] c1=1.2077186464874288, c2=0.11106721030811739, score=0.659056 - 1.2s
216 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
217 -[CV] c1=0.725079276744011, c2=0.0025324013059438034, score=0.659253 - 1.1s
218 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
219 -[CV] c1=0.389627350050321, c2=0.20541641674647737, score=0.705332 - 1.1s
220 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
221 -[CV] c1=0.037804502799856664, c2=0.17775310605580735, score=0.606859 - 1.0s
222 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
223 -[CV] c1=0.48021458727568206, c2=0.024520344430852173, score=0.793956 - 1.2s
224 -[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
225 -[CV] c1=1.1913664771508643, c2=0.02636126240604801, score=0.787287 - 1.3s
226 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
227 -[CV] c1=0.011396903498125098, c2=0.08331303274987872, score=0.906853 - 1.1s
228 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
229 -[CV] c1=0.15761238349200285, c2=0.002525593517619589, score=0.703150 - 1.1s
230 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
231 -[CV] c1=0.478213957506215, c2=0.020477014457446593, score=0.761418 - 1.2s
232 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
233 -[CV] c1=0.585686407327112, c2=0.012901559348345326, score=0.905489 - 1.2s
234 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
235 -[CV] c1=1.2077186464874288, c2=0.11106721030811739, score=0.605840 - 1.1s
236 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
237 -[CV] c1=0.725079276744011, c2=0.0025324013059438034, score=0.761818 - 1.1s
238 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
239 -[CV] c1=0.389627350050321, c2=0.20541641674647737, score=0.812195 - 1.1s
240 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
241 -[CV] c1=0.478213957506215, c2=0.020477014457446593, score=0.660012 - 1.1s
242 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
243 -[CV] c1=0.48021458727568206, c2=0.024520344430852173, score=0.551686 - 1.0s
244 -[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
245 -[CV] c1=1.1913664771508643, c2=0.02636126240604801, score=0.784955 - 1.2s
246 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
247 -[CV] c1=0.011396903498125098, c2=0.08331303274987872, score=0.607039 - 1.1s
248 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
249 -[CV] c1=0.489724053657197, c2=0.044922427709806804, score=0.919762 - 1.2s
250 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
251 -[CV] c1=0.037804502799856664, c2=0.17775310605580735, score=0.730124 - 1.3s
252 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
253 -[CV] c1=0.585686407327112, c2=0.012901559348345326, score=0.761818 - 1.3s
254 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
255 -[CV] c1=1.2077186464874288, c2=0.11106721030811739, score=0.843581 - 1.2s
256 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
257 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.624832 - 0.8s
258 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
259 -[CV] c1=0.389627350050321, c2=0.20541641674647737, score=0.664849 - 1.1s
260 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
261 -[CV] c1=0.037804502799856664, c2=0.17775310605580735, score=0.915377 - 1.1s
262 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
263 -[CV] c1=0.48021458727568206, c2=0.024520344430852173, score=0.857493 - 1.4s
264 -[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
265 -[CV] c1=1.1913664771508643, c2=0.02636126240604801, score=0.540524 - 0.9s
266 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
267 -[CV] c1=0.011396903498125098, c2=0.08331303274987872, score=0.724290 - 1.2s
268 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
269 -[CV] c1=0.08401658210095098, c2=0.01884625069711085, score=0.866790 - 1.2s
270 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
271 -[CV] c1=0.478213957506215, c2=0.020477014457446593, score=0.899703 - 1.1s
272 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
273 -[CV] c1=0.585686407327112, c2=0.012901559348345326, score=0.883954 - 1.2s
274 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
275 -[CV] c1=1.2077186464874288, c2=0.11106721030811739, score=0.526041 - 1.0s
276 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
277 -[CV] c1=0.725079276744011, c2=0.0025324013059438034, score=0.883954 - 1.2s
278 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
279 -[CV] c1=0.15761238349200285, c2=0.002525593517619589, score=0.761597 - 1.4s
280 -[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
281 -[CV] c1=0.10252491344185391, c2=0.035456409715521185, score=0.906853 - 1.1s
282 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
283 -[CV] c1=0.1942293390156905, c2=0.0118048238421011, score=0.577889 - 0.9s
284 -[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
285 -[CV] c1=0.32462532886586554, c2=0.018288220546846753, score=0.721334 - 1.4s
286 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
287 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.815463 - 0.9s
288 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
289 -[CV] c1=0.15761238349200285, c2=0.002525593517619589, score=0.661281 - 1.4s
290 -[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
291 -[CV] c1=0.10252491344185391, c2=0.035456409715521185, score=0.779725 - 1.2s
292 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
293 -[CV] c1=0.1942293390156905, c2=0.0118048238421011, score=0.906853 - 1.2s
294 -[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
295 -[CV] c1=0.32462532886586554, c2=0.018288220546846753, score=0.580556 - 1.0s
296 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
297 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.794740 - 1.0s
298 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
299 -[CV] c1=0.15761238349200285, c2=0.002525593517619589, score=0.928170 - 1.4s
300 -[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
301 -[CV] c1=0.10252491344185391, c2=0.035456409715521185, score=0.929766 - 1.1s
302 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
303 -[CV] c1=0.1942293390156905, c2=0.0118048238421011, score=0.938387 - 1.2s
304 -[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
305 -[CV] c1=0.32462532886586554, c2=0.018288220546846753, score=0.879383 - 1.1s
306 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
307 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.670787 - 1.1s
308 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
309 -[CV] c1=0.15761238349200285, c2=0.002525593517619589, score=0.906853 - 1.3s
310 -[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
311 -[CV] c1=0.10252491344185391, c2=0.035456409715521185, score=0.603251 - 0.9s
312 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
313 -[CV] c1=0.1942293390156905, c2=0.0118048238421011, score=0.848001 - 1.3s
314 -[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
315 -[CV] c1=0.32462532886586554, c2=0.018288220546846753, score=0.740663 - 1.2s
316 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
317 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.878327 - 0.9s
318 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
319 -[CV] c1=0.08401658210095098, c2=0.01884625069711085, score=0.740663 - 1.0s
320 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
321 -[CV] c1=0.037804502799856664, c2=0.17775310605580735, score=0.875991 - 1.2s
322 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
323 -[CV] c1=0.585686407327112, c2=0.012901559348345326, score=0.716266 - 1.3s
324 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
325 -[CV] c1=1.2077186464874288, c2=0.11106721030811739, score=0.578869 - 1.1s
326 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
327 -[CV] c1=0.725079276744011, c2=0.0025324013059438034, score=0.753693 - 1.1s
328 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
329 -[CV] c1=0.08401658210095098, c2=0.01884625069711085, score=0.674776 - 0.8s
330 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
331 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.729308 - 1.2s
332 -[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
333 -[CV] c1=0.035487685725177805, c2=0.07066796438693485, score=0.607039 - 0.9s
334 -[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
335 -[CV] c1=0.7754820747377101, c2=0.12099050393613156, score=0.787287 - 1.3s
336 -[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
337 -[CV] c1=0.38805051498984994, c2=0.01477620810001598, score=0.782641 - 1.4s
338 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
339 -[CV] c1=0.08401658210095098, c2=0.01884625069711085, score=0.720311 - 1.2s
340 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
341 -[CV] c1=0.478213957506215, c2=0.020477014457446593, score=0.919762 - 1.1s
342 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
343 -[CV] c1=0.585686407327112, c2=0.012901559348345326, score=0.729308 - 1.2s
344 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
345 -[CV] c1=1.2077186464874288, c2=0.11106721030811739, score=0.788630 - 1.1s
346 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
347 -[CV] c1=0.725079276744011, c2=0.0025324013059438034, score=0.852821 - 1.1s
348 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
349 -[CV] c1=0.08401658210095098, c2=0.01884625069711085, score=0.906853 - 1.2s
350 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
351 -[CV] c1=0.478213957506215, c2=0.020477014457446593, score=0.547996 - 1.0s
352 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
353 -[CV] c1=0.585686407327112, c2=0.012901559348345326, score=0.855614 - 1.2s
354 -[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
355 -[CV] c1=1.2077186464874288, c2=0.11106721030811739, score=0.722890 - 1.1s
356 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
357 -[CV] c1=0.725079276744011, c2=0.0025324013059438034, score=0.728584 - 1.1s
358 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
359 -[CV] c1=0.489724053657197, c2=0.044922427709806804, score=0.812131 - 1.1s
360 -[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
361 -[CV] c1=0.5672718732034153, c2=0.02408083022682672, score=0.899703 - 1.3s
362 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
363 -[CV] c1=0.48021458727568206, c2=0.024520344430852173, score=0.841313 - 1.4s
364 -[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
365 -[CV] c1=1.1913664771508643, c2=0.02636126240604801, score=0.852672 - 1.2s
366 -[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
367 -[CV] c1=0.725079276744011, c2=0.0025324013059438034, score=0.843338 - 1.2s
368 -[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
369 -[CV] c1=0.15761238349200285, c2=0.002525593517619589, score=0.867217 - 1.5s
370 -[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
371 -[CV] c1=0.10252491344185391, c2=0.035456409715521185, score=0.866790 - 1.1s
372 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
373 -[CV] c1=0.1942293390156905, c2=0.0118048238421011, score=0.741434 - 1.3s
374 -[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
375 -[CV] c1=0.32462532886586554, c2=0.018288220546846753, score=0.920970 - 1.1s
376 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
377 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.728987 - 0.9s
378 -[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
379 -[CV] c1=0.08401658210095098, c2=0.01884625069711085, score=0.920970 - 1.5s
380 -[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
381 -[CV] c1=0.10252491344185391, c2=0.035456409715521185, score=0.814619 - 1.2s
382 -[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
383 -[CV] c1=0.1942293390156905, c2=0.0118048238421011, score=0.839369 - 1.1s
384 -[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
385 -[CV] c1=0.32462532886586554, c2=0.018288220546846753, score=0.838429 - 1.1s
386 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
387 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.691890 - 1.1s
388 -[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
389 -[CV] c1=0.489724053657197, c2=0.044922427709806804, score=0.656490 - 1.2s
390 -[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
391 -[CV] c1=0.037804502799856664, c2=0.17775310605580735, score=0.707931 - 1.2s
392 -[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
393 -[CV] c1=0.48021458727568206, c2=0.024520344430852173, score=0.710539 - 1.2s
394 -[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
395 -[CV] c1=1.1913664771508643, c2=0.02636126240604801, score=0.677417 - 1.2s
396 -[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
397 -[CV] c1=0.011396903498125098, c2=0.08331303274987872, score=0.866790 - 1.1s
398 -[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
399 -[CV] c1=0.389627350050321, c2=0.20541641674647737, score=0.877067 - 1.1s
400 -[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
401 -[CV] c1=0.478213957506215, c2=0.020477014457446593, score=0.793956 - 1.2s
402 -[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
403 -[CV] c1=0.585686407327112, c2=0.012901559348345326, score=0.852821 - 1.4s
404 -[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
405 -[CV] c1=0.32462532886586554, c2=0.018288220546846753, score=0.848001 - 1.3s
406 -[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
407 -[CV] c1=0.7414419018297659, c2=0.12193121091232882, score=0.853988 - 1.0s
408 -Training done in: 7.486107s
409 - Saving training model...
410 - Saving training model done in: 0.013334s
411 -*********************************
412 -Prediction done in: 0.023981s
1 +-------------------------------- PARAMETERS --------------------------------
2 +Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 +File with training data set: training-data-set-70.txt
4 +Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 +File with test data set: test-data-set-30.txt
6 +Exclude stop words: False
7 +Levels: True True
8 +Report file: _v11
9 +Exclude symbols: False
10 +-------------------------------- PROCESSING --------------------------------
11 +Reading corpus...
12 + Sentences training data: 286
13 + Sentences test data: 123
14 +Reading corpus done in: 0.003649s
15 +-------------------------------- FEATURES --------------------------------
16 +--------------------------Features Training ---------------------------
17 + 0 1
18 +0 lemma 2
19 +1 postag CD
20 +2 -1:lemma fructose
21 +3 -1:postag NN
22 +4 hUpper False
23 +5 hLower False
24 +6 hGreek False
25 +7 symb False
26 +8 lemma[:1] 2
27 +9 postag[:1] C
28 +10 postag[:2] CD
29 +11 word 2
30 +12 isUpper False
31 +13 isLower False
32 +14 isGreek False
33 +15 isNumber True
34 +16 -1:word fructose
35 +--------------------------- FeaturesTest -----------------------------
36 + 0 1
37 +0 lemma delta-arca
38 +1 postag NN
39 +2 -1:lemma _
40 +3 -1:postag NN
41 +4 +1:lemma _
42 +5 +1:postag CD
43 +6 hUpper True
44 +7 hLower True
45 +8 hGreek False
46 +9 symb True
47 +10 lemma[:1] d
48 +11 postag[:1] N
49 +12 lemma[:2] de
50 +13 postag[:2] NN
51 +14 word delta-arcA
52 +15 isUpper False
53 +16 isLower False
54 +17 isGreek False
55 +18 isNumber False
56 +19 -1:word _
57 +20 +1:word _
58 +Fitting 10 folds for each of 20 candidates, totalling 200 fits
59 +[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
60 +[CV] c1=0.2530415538363529, c2=0.01421999529254304, score=0.789624 - 1.3s
61 +[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
62 +[CV] c1=0.0706583501364852, c2=0.007766154606045574, score=0.813743 - 1.7s
63 +[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
64 +[CV] c1=0.2323716379870112, c2=0.06329296060320068, score=0.949229 - 1.6s
65 +[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
66 +[CV] c1=0.08296411755539199, c2=0.02012113673798377, score=0.843361 - 1.9s
67 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
68 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.820019 - 1.6s
69 +[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
70 +[CV] c1=0.35697431252186523, c2=0.053072104891904226, score=0.921016 - 1.6s
71 +[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
72 +[CV] c1=0.3270597884667632, c2=0.010347987464658356, score=0.892120 - 1.7s
73 +[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
74 +[CV] c1=0.04937325798482469, c2=0.021347060592283952, score=0.969625 - 1.9s
75 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
76 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.896961 - 1.9s
77 +[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
78 +[CV] c1=0.8497482346216051, c2=0.13810348554922147, score=0.824874 - 1.5s
79 +[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
80 +[CV] c1=0.0706583501364852, c2=0.007766154606045574, score=0.851303 - 1.9s
81 +[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
82 +[CV] c1=0.4047465682558066, c2=0.024420878445861913, score=0.799176 - 1.7s
83 +[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
84 +[CV] c1=0.14106027770288562, c2=0.02011348479945861, score=0.923027 - 1.6s
85 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
86 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.912280 - 1.6s
87 +[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
88 +[CV] c1=0.35697431252186523, c2=0.053072104891904226, score=0.834170 - 1.6s
89 +[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
90 +[CV] c1=0.45932518333010963, c2=0.05807947207491818, score=0.923027 - 1.5s
91 +[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
92 +[CV] c1=0.4047465682558066, c2=0.024420878445861913, score=0.921016 - 1.6s
93 +[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
94 +[CV] c1=0.14106027770288562, c2=0.02011348479945861, score=0.909289 - 1.5s
95 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
96 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.718722 - 1.6s
97 +[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
98 +[CV] c1=0.2530415538363529, c2=0.01421999529254304, score=0.814665 - 1.3s
99 +[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
100 +[CV] c1=0.0706583501364852, c2=0.007766154606045574, score=0.823347 - 1.6s
101 +[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
102 +[CV] c1=0.2323716379870112, c2=0.06329296060320068, score=0.827976 - 1.8s
103 +[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
104 +[CV] c1=0.08296411755539199, c2=0.02012113673798377, score=0.826784 - 2.0s
105 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
106 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.734353 - 1.7s
107 +[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
108 +[CV] c1=0.2530415538363529, c2=0.01421999529254304, score=0.730238 - 1.5s
109 +[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
110 +[CV] c1=0.0706583501364852, c2=0.007766154606045574, score=0.923027 - 1.6s
111 +[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
112 +[CV] c1=0.2323716379870112, c2=0.06329296060320068, score=0.794216 - 1.9s
113 +[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
114 +[CV] c1=0.08296411755539199, c2=0.02012113673798377, score=0.900463 - 1.9s
115 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
116 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.847287 - 1.7s
117 +[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
118 +[CV] c1=0.5383828181005542, c2=0.03841071924486563, score=0.719240 - 1.7s
119 +[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
120 +[CV] c1=0.08116859297589825, c2=0.01402217610152598, score=0.924709 - 1.6s
121 +[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
122 +[CV] c1=0.4047465682558066, c2=0.024420878445861913, score=0.892120 - 1.5s
123 +[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
124 +[CV] c1=0.14106027770288562, c2=0.02011348479945861, score=0.741087 - 1.9s
125 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
126 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.865380 - 1.5s
127 +[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
128 +[CV] c1=0.2530415538363529, c2=0.01421999529254304, score=0.867165 - 1.7s
129 +[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
130 +[CV] c1=0.0706583501364852, c2=0.007766154606045574, score=0.844380 - 1.6s
131 +[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
132 +[CV] c1=0.2323716379870112, c2=0.06329296060320068, score=0.865097 - 1.9s
133 +[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
134 +[CV] c1=0.08296411755539199, c2=0.02012113673798377, score=0.851303 - 1.8s
135 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
136 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.843486 - 1.8s
137 +[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
138 +[CV] c1=0.8497482346216051, c2=0.13810348554922147, score=0.747025 - 1.7s
139 +[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
140 +[CV] c1=0.08116859297589825, c2=0.01402217610152598, score=0.820019 - 1.6s
141 +[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
142 +[CV] c1=0.2323716379870112, c2=0.06329296060320068, score=0.914885 - 1.8s
143 +[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
144 +[CV] c1=0.14106027770288562, c2=0.02011348479945861, score=0.899524 - 1.9s
145 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
146 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.923027 - 1.7s
147 +[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
148 +[CV] c1=0.2530415538363529, c2=0.01421999529254304, score=0.914885 - 1.6s
149 +[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
150 +[CV] c1=0.0706583501364852, c2=0.007766154606045574, score=0.936198 - 1.7s
151 +[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
152 +[CV] c1=0.2323716379870112, c2=0.06329296060320068, score=0.820852 - 1.8s
153 +[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
154 +[CV] c1=0.08296411755539199, c2=0.02012113673798377, score=0.923229 - 1.8s
155 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
156 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.916002 - 1.8s
157 +[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
158 +[CV] c1=0.5383828181005542, c2=0.03841071924486563, score=0.843908 - 1.7s
159 +[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
160 +[CV] c1=0.45932518333010963, c2=0.05807947207491818, score=0.719240 - 1.7s
161 +[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
162 +[CV] c1=0.6223773708649032, c2=0.007605247773857023, score=0.783387 - 1.7s
163 +[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
164 +[CV] c1=0.5404386702330402, c2=0.00940384945509182, score=0.718722 - 1.7s
165 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
166 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.816050 - 1.5s
167 +[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
168 +[CV] c1=0.2530415538363529, c2=0.01421999529254304, score=0.830456 - 1.7s
169 +[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
170 +[CV] c1=0.0706583501364852, c2=0.007766154606045574, score=0.923229 - 1.8s
171 +[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
172 +[CV] c1=0.4047465682558066, c2=0.024420878445861913, score=0.797998 - 1.6s
173 +[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
174 +[CV] c1=0.08296411755539199, c2=0.02012113673798377, score=0.956017 - 2.0s
175 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
176 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.817424 - 1.6s
177 +[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
178 +[CV] c1=0.2530415538363529, c2=0.01421999529254304, score=0.941585 - 1.8s
179 +[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
180 +[CV] c1=0.08116859297589825, c2=0.01402217610152598, score=0.733882 - 1.6s
181 +[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
182 +[CV] c1=0.4047465682558066, c2=0.024420878445861913, score=0.841027 - 1.8s
183 +[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
184 +[CV] c1=0.14106027770288562, c2=0.02011348479945861, score=0.823347 - 1.7s
185 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
186 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.869064 - 1.9s
187 +[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
188 +[CV] c1=0.5383828181005542, c2=0.03841071924486563, score=0.799746 - 1.6s
189 +[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
190 +[CV] c1=0.08116859297589825, c2=0.01402217610152598, score=0.912280 - 1.5s
191 +[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
192 +[CV] c1=0.4047465682558066, c2=0.024420878445861913, score=0.740042 - 1.8s
193 +[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
194 +[CV] c1=0.14106027770288562, c2=0.02011348479945861, score=0.862696 - 1.8s
195 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
196 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.946646 - 1.7s
197 +[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
198 +[CV] c1=0.8497482346216051, c2=0.13810348554922147, score=0.855838 - 1.6s
199 +[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
200 +[CV] c1=0.08116859297589825, c2=0.01402217610152598, score=0.827913 - 1.7s
201 +[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
202 +[CV] c1=0.4047465682558066, c2=0.024420878445861913, score=0.922774 - 1.7s
203 +[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
204 +[CV] c1=0.14106027770288562, c2=0.02011348479945861, score=0.917968 - 1.8s
205 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
206 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.892120 - 1.6s
207 +[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
208 +[CV] c1=0.8497482346216051, c2=0.13810348554922147, score=0.913219 - 1.9s
209 +[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
210 +[CV] c1=0.45932518333010963, c2=0.05807947207491818, score=0.799176 - 1.8s
211 +[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
212 +[CV] c1=0.6223773708649032, c2=0.007605247773857023, score=0.933588 - 1.7s
213 +[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
214 +[CV] c1=0.5404386702330402, c2=0.00940384945509182, score=0.866290 - 1.6s
215 +[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
216 +[CV] c1=0.8168034772987887, c2=0.06477230233366042, score=0.723924 - 1.6s
217 +[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
218 +[CV] c1=0.35697431252186523, c2=0.053072104891904226, score=0.820752 - 1.6s
219 +[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
220 +[CV] c1=0.45932518333010963, c2=0.05807947207491818, score=0.816050 - 1.7s
221 +[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
222 +[CV] c1=0.6223773708649032, c2=0.007605247773857023, score=0.883328 - 1.7s
223 +[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
224 +[CV] c1=0.5404386702330402, c2=0.00940384945509182, score=0.922774 - 1.7s
225 +[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
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425 +[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
426 +[CV] c1=0.08296411755539199, c2=0.02012113673798377, score=0.924267 - 1.5s
427 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
428 +[CV] c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.837553 - 1.7s
429 +[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
430 +[CV] c1=0.8497482346216051, c2=0.13810348554922147, score=0.804464 - 1.6s
431 +[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
432 +[CV] c1=0.08116859297589825, c2=0.01402217610152598, score=0.909646 - 1.8s
433 +[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
434 +[CV] c1=0.4047465682558066, c2=0.024420878445861913, score=0.865380 - 1.6s
435 +[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
436 +[CV] c1=0.14106027770288562, c2=0.02011348479945861, score=0.805596 - 1.8s
437 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
438 +[CV] c1=0.4447485859982712, c2=0.0016484083449467537, score=0.794216 - 1.8s
439 +[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
440 +[CV] c1=0.5383828181005542, c2=0.03841071924486563, score=0.946646 - 1.7s
441 +[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
442 +[CV] c1=0.45932518333010963, c2=0.05807947207491818, score=0.884120 - 1.7s
443 +[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
444 +[CV] c1=0.6223773708649032, c2=0.007605247773857023, score=0.880765 - 1.9s
445 +[CV] c1=0.3444576411414005, c2=0.0178963036693645 ....................
446 +[CV] c1=0.3444576411414005, c2=0.0178963036693645, score=0.734741 - 1.6s
447 +[CV] c1=0.649548584923434, c2=0.09611048012847326 ....................
448 +[CV] c1=0.649548584923434, c2=0.09611048012847326, score=0.774513 - 1.2s
449 +Training done in: 11.158256s
450 + Saving training model...
451 + Saving training model done in: 0.014234s
452 +*********************************
453 +Prediction done in: 0.048239s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: True True
8 -Report file: _v2
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.004035s
15 --------------------------------- FEATURES --------------------------------
16 ---------------------------Features Training ---------------------------
17 - 0 1
18 -0 lemma 1
19 -1 postag CD
20 -2 -1:lemma pq
21 -3 -1:postag NN
22 -4 hUpper False
23 -5 hLower False
24 -6 hGreek False
25 -7 symb False
26 -8 word[:1] 1
27 -9 word 1
28 -10 isUpper False
29 -11 isLower False
30 -12 isGreek False
31 -13 isNumber True
32 -14 -1:word PQ
33 ---------------------------- FeaturesTest -----------------------------
34 - 0 1
35 -0 lemma delta-fnr
36 -1 postag NN
37 -2 -1:lemma _
38 -3 -1:postag NN
39 -4 +1:lemma _
40 -5 +1:postag CD
41 -6 hUpper False
42 -7 hLower False
43 -8 hGreek False
44 -9 symb True
45 -10 word[:1] d
46 -11 word[:2] de
47 -12 word delta-fnr
48 -13 isUpper False
49 -14 isLower True
50 -15 isGreek False
51 -16 isNumber False
52 -17 -1:word _
53 -18 +1:word _
54 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
55 -[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
56 -[CV] c1=0.07231471163871557, c2=0.09430964775259432, score=0.719482 - 1.7s
57 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
58 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.964829 - 1.8s
59 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
60 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.671893 - 1.4s
61 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
62 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.860861 - 1.8s
63 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
64 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.714313 - 1.7s
65 -[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
66 -[CV] c1=0.5522760556298829, c2=0.011764289096805257, score=0.932342 - 1.5s
67 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
68 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.893986 - 1.6s
69 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
70 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.850267 - 1.6s
71 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
72 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.713686 - 1.4s
73 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
74 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.728846 - 1.7s
75 -[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
76 -[CV] c1=0.07231471163871557, c2=0.09430964775259432, score=0.715320 - 1.7s
77 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
78 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.854753 - 1.6s
79 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
80 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.644709 - 1.7s
81 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
82 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.868023 - 2.1s
83 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
84 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.628257 - 1.6s
85 -[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
86 -[CV] c1=0.4078998263978875, c2=0.03823537952712818, score=0.729114 - 1.5s
87 -[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
88 -[CV] c1=1.0979918753546847, c2=0.002918879102946894, score=0.805804 - 1.7s
89 -[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
90 -[CV] c1=1.9851987092826848, c2=0.05255571087688783, score=0.630354 - 1.3s
91 -[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
92 -[CV] c1=0.7263916143048589, c2=0.031205799626709132, score=0.714493 - 1.6s
93 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
94 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.750968 - 1.8s
95 -[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
96 -[CV] c1=0.5522760556298829, c2=0.011764289096805257, score=0.696002 - 1.5s
97 -[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
98 -[CV] c1=1.0979918753546847, c2=0.002918879102946894, score=0.664975 - 1.4s
99 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
100 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.745162 - 1.7s
101 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
102 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.792078 - 1.8s
103 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
104 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.947941 - 1.6s
105 -[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
106 -[CV] c1=0.07231471163871557, c2=0.09430964775259432, score=0.628257 - 1.4s
107 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
108 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.718319 - 1.8s
109 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
110 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.855472 - 1.7s
111 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
112 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.757924 - 1.8s
113 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
114 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.885770 - 1.9s
115 -[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
116 -[CV] c1=0.07231471163871557, c2=0.09430964775259432, score=0.885770 - 1.8s
117 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
118 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.708131 - 1.3s
119 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
120 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.709305 - 1.6s
121 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
122 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.709789 - 1.9s
123 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
124 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.854474 - 1.8s
125 -[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
126 -[CV] c1=0.07231471163871557, c2=0.09430964775259432, score=0.706850 - 1.6s
127 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
128 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.778194 - 1.4s
129 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
130 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.657958 - 1.7s
131 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
132 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.718319 - 2.0s
133 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
134 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.879698 - 1.9s
135 -[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
136 -[CV] c1=0.5522760556298829, c2=0.011764289096805257, score=0.760487 - 1.3s
137 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
138 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.733738 - 1.8s
139 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
140 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.666232 - 1.7s
141 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
142 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.887504 - 2.0s
143 -[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
144 -[CV] c1=0.19555004078116134, c2=0.013719557943369584, score=0.729277 - 1.6s
145 -[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
146 -[CV] c1=0.07231471163871557, c2=0.09430964775259432, score=0.766835 - 1.6s
147 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
148 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.868023 - 1.8s
149 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
150 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.682610 - 1.6s
151 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
152 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.959209 - 1.8s
153 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
154 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.778194 - 1.8s
155 -[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
156 -[CV] c1=0.4078998263978875, c2=0.03823537952712818, score=0.885770 - 1.8s
157 -[CV] c1=0.6094784835218059, c2=0.01690933209411638 ...................
158 -[CV] c1=0.6094784835218059, c2=0.01690933209411638, score=0.730987 - 1.4s
159 -[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
160 -[CV] c1=0.4346959767707268, c2=0.004694241666253667, score=0.709789 - 1.6s
161 -[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
162 -[CV] c1=0.7263916143048589, c2=0.031205799626709132, score=0.887052 - 1.7s
163 -[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
164 -[CV] c1=0.19555004078116134, c2=0.013719557943369584, score=0.779163 - 1.6s
165 -[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
166 -[CV] c1=0.07231471163871557, c2=0.09430964775259432, score=0.864078 - 1.8s
167 -[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
168 -[CV] c1=0.2858121257516539, c2=0.017143803593821803, score=0.747961 - 1.6s
169 -[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
170 -[CV] c1=1.6285175067140285, c2=0.06773142195214325, score=0.883968 - 1.6s
171 -[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
172 -[CV] c1=0.30683200632675367, c2=0.019783947264900577, score=0.941969 - 1.8s
173 -[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
174 -[CV] c1=0.03158220752670695, c2=0.051210940198560144, score=0.901159 - 1.9s
175 -[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
176 -[CV] c1=0.4078998263978875, c2=0.03823537952712818, score=0.709789 - 1.7s
177 -[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
178 -[CV] c1=1.0979918753546847, c2=0.002918879102946894, score=0.883806 - 1.6s
179 -[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
180 -[CV] c1=1.9851987092826848, c2=0.05255571087688783, score=0.849709 - 1.7s
181 -[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
182 -[CV] c1=0.7263916143048589, c2=0.031205799626709132, score=0.930418 - 1.7s
183 -[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
184 -[CV] c1=0.19555004078116134, c2=0.013719557943369584, score=0.888519 - 1.7s
185 -[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
186 -[CV] c1=0.4078998263978875, c2=0.03823537952712818, score=0.881641 - 1.8s
187 -[CV] c1=0.6094784835218059, c2=0.01690933209411638 ...................
188 -[CV] c1=0.6094784835218059, c2=0.01690933209411638, score=0.887052 - 1.8s
189 -[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
190 -[CV] c1=0.4346959767707268, c2=0.004694241666253667, score=0.720815 - 1.5s
191 -[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
192 -[CV] c1=0.48552233382782606, c2=0.16512343963590606, score=0.852225 - 1.8s
193 -[CV] c1=0.4728739554959987, c2=0.22420666837898567 ...................
194 -[CV] c1=0.4728739554959987, c2=0.22420666837898567, score=0.880778 - 1.4s
195 -[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
196 -[CV] c1=0.5522760556298829, c2=0.011764289096805257, score=0.715254 - 1.7s
197 -[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
198 -[CV] c1=1.0979918753546847, c2=0.002918879102946894, score=0.807056 - 1.6s
199 -[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
200 -[CV] c1=1.9851987092826848, c2=0.05255571087688783, score=0.855472 - 1.8s
201 -[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
202 -[CV] c1=0.7263916143048589, c2=0.031205799626709132, score=0.779866 - 1.7s
203 -[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
204 -[CV] c1=0.19555004078116134, c2=0.013719557943369584, score=0.943602 - 1.8s
205 -[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
206 -[CV] c1=0.5522760556298829, c2=0.011764289096805257, score=0.847994 - 1.7s
207 -[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
208 -[CV] c1=1.0979918753546847, c2=0.002918879102946894, score=0.919451 - 1.5s
209 -[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
210 -[CV] c1=1.9851987092826848, c2=0.05255571087688783, score=0.657337 - 1.7s
211 -[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
212 -[CV] c1=0.7263916143048589, c2=0.031205799626709132, score=0.876022 - 1.9s
213 -[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
214 -[CV] c1=0.19555004078116134, c2=0.013719557943369584, score=0.943015 - 1.6s
215 -[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
216 -[CV] c1=0.07231471163871557, c2=0.09430964775259432, score=0.941969 - 1.7s
217 -[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
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231 -[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
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269 -[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
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281 -[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
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283 -[CV] c1=0.4728739554959987, c2=0.22420666837898567 ...................
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285 -[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
286 -[CV] c1=0.4078998263978875, c2=0.03823537952712818, score=0.754322 - 1.7s
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291 -[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
292 -[CV] c1=0.48552233382782606, c2=0.16512343963590606, score=0.932342 - 1.7s
293 -[CV] c1=0.4728739554959987, c2=0.22420666837898567 ...................
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295 -[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
296 -[CV] c1=0.4078998263978875, c2=0.03823537952712818, score=0.868023 - 1.4s
297 -[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
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299 -[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
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301 -[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
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305 -[CV] c1=0.10648945642165056, c2=0.015449511254995961 .................
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307 -[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
308 -[CV] c1=0.8236049945299427, c2=0.15208965114284034, score=0.787795 - 1.7s
309 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
310 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.719482 - 1.6s
311 -[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
312 -[CV] c1=0.48552233382782606, c2=0.16512343963590606, score=0.674297 - 1.6s
313 -[CV] c1=0.4728739554959987, c2=0.22420666837898567 ...................
314 -[CV] c1=0.4728739554959987, c2=0.22420666837898567, score=0.854753 - 1.7s
315 -[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
316 -[CV] c1=0.5522760556298829, c2=0.011764289096805257, score=0.849461 - 1.9s
317 -[CV] c1=0.6094784835218059, c2=0.01690933209411638 ...................
318 -[CV] c1=0.6094784835218059, c2=0.01690933209411638, score=0.849461 - 1.9s
319 -[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
320 -[CV] c1=0.4346959767707268, c2=0.004694241666253667, score=0.932342 - 1.8s
321 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
322 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.692156 - 1.8s
323 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
324 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.714313 - 1.4s
325 -[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
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327 -[CV] c1=0.6094784835218059, c2=0.01690933209411638 ...................
328 -[CV] c1=0.6094784835218059, c2=0.01690933209411638, score=0.932342 - 1.9s
329 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
330 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.798468 - 1.7s
331 -[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
332 -[CV] c1=0.48552233382782606, c2=0.16512343963590606, score=0.887504 - 1.7s
333 -[CV] c1=0.4728739554959987, c2=0.22420666837898567 ...................
334 -[CV] c1=0.4728739554959987, c2=0.22420666837898567, score=0.887504 - 1.5s
335 -[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
336 -[CV] c1=0.5522760556298829, c2=0.011764289096805257, score=0.880778 - 1.9s
337 -[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
338 -[CV] c1=1.0979918753546847, c2=0.002918879102946894, score=0.699725 - 1.3s
339 -[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
340 -[CV] c1=1.9851987092826848, c2=0.05255571087688783, score=0.657958 - 1.8s
341 -[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
342 -[CV] c1=0.7263916143048589, c2=0.031205799626709132, score=0.811024 - 1.8s
343 -[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
344 -[CV] c1=0.19555004078116134, c2=0.013719557943369584, score=0.873401 - 1.7s
345 -[CV] c1=0.10648945642165056, c2=0.015449511254995961 .................
346 -[CV] c1=0.10648945642165056, c2=0.015449511254995961, score=0.933701 - 1.6s
347 -[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
348 -[CV] c1=0.8236049945299427, c2=0.15208965114284034, score=0.901764 - 1.7s
349 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
350 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.651984 - 1.4s
351 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
352 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.875476 - 1.8s
353 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
354 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.706850 - 1.4s
355 -[CV] c1=0.10648945642165056, c2=0.015449511254995961 .................
356 -[CV] c1=0.10648945642165056, c2=0.015449511254995961, score=0.732294 - 1.8s
357 -[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
358 -[CV] c1=0.8236049945299427, c2=0.15208965114284034, score=0.876022 - 1.7s
359 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
360 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.792078 - 1.9s
361 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
362 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.719347 - 1.3s
363 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
364 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.728846 - 1.5s
365 -[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
366 -[CV] c1=0.4078998263978875, c2=0.03823537952712818, score=0.746445 - 1.7s
367 -[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
368 -[CV] c1=0.8236049945299427, c2=0.15208965114284034, score=0.719074 - 1.8s
369 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
370 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.938702 - 1.6s
371 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
372 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.750923 - 1.7s
373 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
374 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.854474 - 1.4s
375 -[CV] c1=0.10648945642165056, c2=0.015449511254995961 .................
376 -[CV] c1=0.10648945642165056, c2=0.015449511254995961, score=0.943602 - 1.7s
377 -[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
378 -[CV] c1=0.8236049945299427, c2=0.15208965114284034, score=0.705909 - 1.6s
379 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
380 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.698041 - 1.7s
381 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
382 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.699565 - 1.7s
383 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
384 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.778194 - 1.4s
385 -[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
386 -[CV] c1=0.5522760556298829, c2=0.011764289096805257, score=0.887504 - 1.8s
387 -[CV] c1=0.6094784835218059, c2=0.01690933209411638 ...................
388 -[CV] c1=0.6094784835218059, c2=0.01690933209411638, score=0.881641 - 1.9s
389 -[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
390 -[CV] c1=0.4346959767707268, c2=0.004694241666253667, score=0.882037 - 1.8s
391 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
392 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.664975 - 1.9s
393 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
394 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.943015 - 1.3s
395 -[CV] c1=0.10648945642165056, c2=0.015449511254995961 .................
396 -[CV] c1=0.10648945642165056, c2=0.015449511254995961, score=0.885770 - 1.7s
397 -[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
398 -[CV] c1=0.8236049945299427, c2=0.15208965114284034, score=0.843229 - 1.7s
399 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
400 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.860861 - 1.7s
401 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
402 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.788564 - 1.9s
403 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
404 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.624694 - 1.3s
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406 -[CV] c1=0.10648945642165056, c2=0.015449511254995961, score=0.888519 - 1.6s
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408 -[CV] c1=0.8236049945299427, c2=0.15208965114284034, score=0.680329 - 1.3s
409 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
410 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.872268 - 1.7s
411 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
412 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.684029 - 1.6s
413 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
414 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.891699 - 1.5s
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416 -[CV] c1=0.10648945642165056, c2=0.015449511254995961, score=0.792078 - 1.6s
417 -[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
418 -[CV] c1=0.8236049945299427, c2=0.15208965114284034, score=0.925608 - 1.7s
419 -[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
420 -[CV] c1=0.046498819434789694, c2=0.007495861195002632, score=0.870252 - 1.7s
421 -[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
422 -[CV] c1=1.3104946340308028, c2=0.016932301174739674, score=0.871212 - 1.7s
423 -[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
424 -[CV] c1=0.021441360234559073, c2=0.04563400559940925, score=0.855704 - 1.4s
425 -Training done in: 11.278545s
426 - Saving training model...
427 - Saving training model done in: 0.014307s
428 -*********************************
429 -Prediction done in: 0.041099s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: False False
8 -Report file: _v9
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003781s
15 -{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
16 -{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
17 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
18 -[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
19 -[CV] c1=0.6194603776098887, c2=0.003983838476166578, score=0.656490 - 1.1s
20 -[CV] c1=1.529507873115847, c2=0.024136783344165424 ...................
21 -[CV] c1=1.529507873115847, c2=0.024136783344165424, score=0.643620 - 1.1s
22 -[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
23 -[CV] c1=0.4486050985597108, c2=0.00923136182458732, score=0.710539 - 1.3s
24 -[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
25 -[CV] c1=0.39114608628354247, c2=0.04029658321961293, score=0.899703 - 1.3s
26 -[CV] c1=0.02824756371284651, c2=0.0335948035118798 ...................
27 -[CV] c1=0.02824756371284651, c2=0.0335948035118798, score=0.890667 - 1.1s
28 -[CV] c1=0.25969741666753743, c2=0.027938172584771492 .................
29 -[CV] c1=0.25969741666753743, c2=0.027938172584771492, score=0.784613 - 1.2s
30 -[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
31 -[CV] c1=0.4878310757485807, c2=0.05686345202582919, score=0.567237 - 0.9s
32 -[CV] c1=0.06596113672627639, c2=0.005613954965247502 .................
33 -[CV] c1=0.06596113672627639, c2=0.005613954965247502, score=0.679766 - 1.0s
34 -[CV] c1=0.2467287269984389, c2=0.00376365828037806 ...................
35 -[CV] c1=0.2467287269984389, c2=0.00376365828037806, score=0.710539 - 1.2s
36 -[CV] c1=0.02824756371284651, c2=0.0335948035118798 ...................
37 -[CV] c1=0.02824756371284651, c2=0.0335948035118798, score=0.848001 - 1.1s
38 -[CV] c1=0.25969741666753743, c2=0.027938172584771492 .................
39 -[CV] c1=0.25969741666753743, c2=0.027938172584771492, score=0.920970 - 1.1s
40 -[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
41 -[CV] c1=0.4878310757485807, c2=0.05686345202582919, score=0.918945 - 1.2s
42 -[CV] c1=0.3926811460995468, c2=0.0013244367466887003 .................
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44 -[CV] c1=0.2467287269984389, c2=0.00376365828037806 ...................
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46 -[CV] c1=0.20710070358327326, c2=0.014282330320157044 .................
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48 -[CV] c1=0.4128620881801901, c2=0.04225367471784858 ...................
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50 -[CV] c1=0.2505843507627238, c2=0.02792808991248863 ...................
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52 -[CV] c1=0.3926811460995468, c2=0.0013244367466887003 .................
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54 -[CV] c1=0.2467287269984389, c2=0.00376365828037806 ...................
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56 -[CV] c1=0.02824756371284651, c2=0.0335948035118798 ...................
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60 -[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
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66 -[CV] c1=0.20710070358327326, c2=0.014282330320157044 .................
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70 -[CV] c1=0.2505843507627238, c2=0.02792808991248863 ...................
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74 -[CV] c1=0.2467287269984389, c2=0.00376365828037806 ...................
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76 -[CV] c1=0.20710070358327326, c2=0.014282330320157044 .................
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80 -[CV] c1=0.2505843507627238, c2=0.02792808991248863 ...................
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82 -[CV] c1=0.06596113672627639, c2=0.005613954965247502 .................
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84 -[CV] c1=0.2467287269984389, c2=0.00376365828037806 ...................
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88 -[CV] c1=0.25969741666753743, c2=0.027938172584771492 .................
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90 -[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
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92 -[CV] c1=0.06596113672627639, c2=0.005613954965247502 .................
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94 -[CV] c1=0.2467287269984389, c2=0.00376365828037806 ...................
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96 -[CV] c1=0.20710070358327326, c2=0.014282330320157044 .................
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98 -[CV] c1=0.4128620881801901, c2=0.04225367471784858 ...................
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100 -[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
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102 -[CV] c1=0.06596113672627639, c2=0.005613954965247502 .................
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106 -[CV] c1=0.20710070358327326, c2=0.014282330320157044 .................
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108 -[CV] c1=0.4128620881801901, c2=0.04225367471784858 ...................
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110 -[CV] c1=0.2505843507627238, c2=0.02792808991248863 ...................
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112 -[CV] c1=0.3926811460995468, c2=0.0013244367466887003 .................
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120 -[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
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216 -[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
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252 -[CV] c1=0.3926811460995468, c2=0.0013244367466887003 .................
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276 -[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
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280 -[CV] c1=0.02551053031873781, c2=0.07127942992256919 ..................
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284 -[CV] c1=0.6228806234995589, c2=0.261535114687589 .....................
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290 -[CV] c1=0.02551053031873781, c2=0.07127942992256919 ..................
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292 -[CV] c1=0.6144514862830527, c2=0.07803079130334861 ...................
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294 -[CV] c1=0.6228806234995589, c2=0.261535114687589 .....................
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296 -[CV] c1=0.02824756371284651, c2=0.0335948035118798 ...................
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300 -[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
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302 -[CV] c1=0.06596113672627639, c2=0.005613954965247502 .................
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304 -[CV] c1=0.2467287269984389, c2=0.00376365828037806 ...................
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306 -[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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310 -[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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312 -[CV] c1=0.02551053031873781, c2=0.07127942992256919 ..................
313 -[CV] c1=0.02551053031873781, c2=0.07127942992256919, score=0.867500 - 1.1s
314 -[CV] c1=0.6144514862830527, c2=0.07803079130334861 ...................
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316 -[CV] c1=0.6228806234995589, c2=0.261535114687589 .....................
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318 -[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
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320 -[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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322 -[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
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324 -[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
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326 -[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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328 -[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
329 -[CV] c1=0.6194603776098887, c2=0.003983838476166578, score=0.761818 - 1.1s
330 -[CV] c1=1.529507873115847, c2=0.024136783344165424 ...................
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332 -[CV] c1=0.02551053031873781, c2=0.07127942992256919 ..................
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336 -[CV] c1=0.6228806234995589, c2=0.261535114687589 .....................
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338 -[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
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340 -[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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342 -[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
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344 -[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
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348 -[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
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350 -[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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352 -[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
353 -[CV] c1=0.4486050985597108, c2=0.00923136182458732, score=0.858883 - 1.1s
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356 -[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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358 -[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
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360 -[CV] c1=1.529507873115847, c2=0.024136783344165424 ...................
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362 -[CV] c1=0.02551053031873781, c2=0.07127942992256919 ..................
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364 -[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
365 -[CV] c1=0.39114608628354247, c2=0.04029658321961293, score=0.721334 - 1.2s
366 -[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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368 -[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
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370 -[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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372 -[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
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375 -[CV] c1=0.39114608628354247, c2=0.04029658321961293, score=0.874700 - 1.2s
376 -[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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378 -[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
379 -[CV] c1=1.1631641707070273, c2=0.023763063982595384, score=0.686713 - 1.1s
380 -[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
381 -[CV] c1=0.2526516086542792, c2=0.00238624899782224, score=0.762808 - 1.2s
382 -[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
383 -[CV] c1=0.4486050985597108, c2=0.00923136182458732, score=0.899703 - 1.1s
384 -[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
385 -[CV] c1=0.39114608628354247, c2=0.04029658321961293, score=0.759149 - 1.1s
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387 -[CV] c1=0.07271681477281164, c2=0.02046865622687442, score=0.906853 - 0.9s
388 -[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
389 -[CV] c1=1.1631641707070273, c2=0.023763063982595384, score=0.678288 - 1.2s
390 -[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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392 -[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
393 -[CV] c1=0.4486050985597108, c2=0.00923136182458732, score=0.860729 - 1.3s
394 -[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
395 -[CV] c1=0.39114608628354247, c2=0.04029658321961293, score=0.920970 - 1.1s
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398 -[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
399 -[CV] c1=1.1631641707070273, c2=0.023763063982595384, score=0.548196 - 1.0s
400 -[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
401 -[CV] c1=0.2526516086542792, c2=0.00238624899782224, score=0.899703 - 1.1s
402 -[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
403 -[CV] c1=0.4486050985597108, c2=0.00923136182458732, score=0.556932 - 0.9s
404 -[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
405 -[CV] c1=0.39114608628354247, c2=0.04029658321961293, score=0.679766 - 1.1s
406 -[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
407 -[CV] c1=0.07271681477281164, c2=0.02046865622687442, score=0.720311 - 0.9s
408 -Training done in: 7.364966s
409 - Saving training model...
410 - Saving training model done in: 0.014886s
411 -*********************************
412 -Prediction done in: 0.025883s
1 +-------------------------------- PARAMETERS --------------------------------
2 +Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 +File with training data set: training-data-set-70.txt
4 +Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 +File with test data set: test-data-set-30.txt
6 +Exclude stop words: False
7 +Levels: False False
8 +Report file: _v11
9 +Exclude symbols: False
10 +-------------------------------- PROCESSING --------------------------------
11 +Reading corpus...
12 + Sentences training data: 286
13 + Sentences test data: 123
14 +Reading corpus done in: 0.003735s
15 +-------------------------------- FEATURES --------------------------------
16 +--------------------------Features Training ---------------------------
17 + 0 1
18 +0 lemma 2
19 +1 postag CD
20 +2 -1:lemma fructose
21 +3 -1:postag NN
22 +4 -2:lemma Cra
23 +5 -2:postag NNP
24 +--------------------------- FeaturesTest -----------------------------
25 + 0 1
26 +0 lemma delta-arca
27 +1 postag NN
28 +2 -1:lemma _
29 +3 -1:postag NN
30 +4 +1:lemma _
31 +5 +1:postag CD
32 +6 -2:lemma affyexp
33 +7 -2:postag JJ
34 +8 +2:lemma glucose
35 +9 +2:postag NN
36 +Fitting 10 folds for each of 20 candidates, totalling 200 fits
37 +[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
38 +[CV] c1=0.08426040318830852, c2=0.002328265004792895, score=0.876754 - 1.0s
39 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
40 +[CV] c1=1.8566153502825635, c2=0.0595145726559928, score=0.870921 - 1.0s
41 +[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
42 +[CV] c1=0.5240513458580968, c2=0.013581892070558639, score=0.911799 - 1.4s
43 +[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
44 +[CV] c1=0.8398646451603109, c2=0.015812206995340566, score=0.911799 - 1.1s
45 +[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
46 +[CV] c1=0.08086735329920966, c2=0.046728936926976494, score=0.722395 - 1.2s
47 +[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
48 +[CV] c1=0.08426040318830852, c2=0.002328265004792895, score=0.853481 - 1.0s
49 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
50 +[CV] c1=1.8566153502825635, c2=0.0595145726559928, score=0.679217 - 1.3s
51 +[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
52 +[CV] c1=1.6432543044010746, c2=0.052616499777765384, score=0.870921 - 1.2s
53 +[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
54 +[CV] c1=0.8398646451603109, c2=0.015812206995340566, score=0.801130 - 1.0s
55 +[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
56 +[CV] c1=0.08086735329920966, c2=0.046728936926976494, score=0.954937 - 1.1s
57 +[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
58 +[CV] c1=0.04963393265100299, c2=0.088551724674726, score=0.903499 - 1.4s
59 +[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
60 +[CV] c1=0.1938501827725464, c2=0.060963666181269166, score=0.874448 - 1.3s
61 +[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
62 +[CV] c1=0.46250133950837036, c2=0.03491945784167068, score=0.816898 - 1.3s
63 +[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
64 +[CV] c1=0.16709072688926693, c2=0.03966093568152965, score=0.942868 - 1.4s
65 +[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
66 +[CV] c1=0.3021941878425496, c2=0.003216589098510098, score=0.866353 - 1.1s
67 +[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
68 +[CV] c1=0.20607603990598763, c2=0.0747627966661754, score=0.854935 - 1.2s
69 +[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
70 +[CV] c1=0.5240513458580968, c2=0.013581892070558639, score=0.787478 - 1.4s
71 +[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
72 +[CV] c1=0.8398646451603109, c2=0.015812206995340566, score=0.783151 - 1.2s
73 +[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
74 +[CV] c1=0.08086735329920966, c2=0.046728936926976494, score=0.796785 - 1.3s
75 +[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
76 +[CV] c1=0.14521637026904505, c2=0.02160263268998293, score=0.836305 - 1.1s
77 +[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
78 +[CV] c1=0.20607603990598763, c2=0.0747627966661754, score=0.924842 - 1.2s
79 +[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
80 +[CV] c1=0.5240513458580968, c2=0.013581892070558639, score=0.692146 - 1.5s
81 +[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
82 +[CV] c1=0.8398646451603109, c2=0.015812206995340566, score=0.820836 - 1.1s
83 +[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
84 +[CV] c1=0.08086735329920966, c2=0.046728936926976494, score=0.864680 - 1.2s
85 +[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
86 +[CV] c1=0.04963393265100299, c2=0.088551724674726, score=0.859890 - 1.5s
87 +[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
88 +[CV] c1=0.1938501827725464, c2=0.060963666181269166, score=0.907893 - 1.2s
89 +[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
90 +[CV] c1=0.46250133950837036, c2=0.03491945784167068, score=0.925933 - 1.4s
91 +[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
92 +[CV] c1=0.08086735329920966, c2=0.046728936926976494, score=0.839355 - 1.4s
93 +[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
94 +[CV] c1=0.14521637026904505, c2=0.02160263268998293, score=0.924118 - 1.3s
95 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
96 +[CV] c1=1.8566153502825635, c2=0.0595145726559928, score=0.695802 - 1.1s
97 +[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
98 +[CV] c1=0.5240513458580968, c2=0.013581892070558639, score=0.854874 - 1.3s
99 +[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
100 +[CV] c1=0.8398646451603109, c2=0.015812206995340566, score=0.626801 - 1.3s
101 +[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
102 +[CV] c1=0.08086735329920966, c2=0.046728936926976494, score=0.854811 - 1.4s
103 +[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
104 +[CV] c1=0.3021941878425496, c2=0.003216589098510098, score=0.931824 - 1.1s
105 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
106 +[CV] c1=1.8566153502825635, c2=0.0595145726559928, score=0.801531 - 1.4s
107 +[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
108 +[CV] c1=0.04758003297351373, c2=0.10579732691225392, score=0.884047 - 1.1s
109 +[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
110 +[CV] c1=0.4238319563930542, c2=0.08124852735361125, score=0.924842 - 1.1s
111 +[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
112 +[CV] c1=0.22568008528765934, c2=0.025016650518504283, score=0.888803 - 1.1s
113 +[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
114 +[CV] c1=0.14521637026904505, c2=0.02160263268998293, score=0.931814 - 1.1s
115 +[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
116 +[CV] c1=0.20607603990598763, c2=0.0747627966661754, score=0.824358 - 1.4s
117 +[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
118 +[CV] c1=1.6432543044010746, c2=0.052616499777765384, score=0.597112 - 1.3s
119 +[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
120 +[CV] c1=0.8398646451603109, c2=0.015812206995340566, score=0.912409 - 1.3s
121 +[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
122 +[CV] c1=0.08086735329920966, c2=0.046728936926976494, score=0.931814 - 1.3s
123 +[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
124 +[CV] c1=0.3021941878425496, c2=0.003216589098510098, score=0.831726 - 1.2s
125 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
126 +[CV] c1=1.8566153502825635, c2=0.0595145726559928, score=0.566809 - 1.3s
127 +[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
128 +[CV] c1=1.6432543044010746, c2=0.052616499777765384, score=0.672936 - 1.3s
129 +[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
130 +[CV] c1=0.8398646451603109, c2=0.015812206995340566, score=0.878774 - 1.2s
131 +[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
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133 +[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
134 +[CV] c1=0.14521637026904505, c2=0.02160263268998293, score=0.888803 - 1.2s
135 +[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
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137 +[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
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139 +[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
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143 +[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
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145 +[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
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147 +[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
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149 +[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
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151 +[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
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153 +[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
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155 +[CV] c1=0.20607603990598763, c2=0.0747627966661754 ...................
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157 +[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
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159 +[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
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163 +[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
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165 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
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167 +[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
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169 +[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
170 +[CV] c1=0.4238319563930542, c2=0.08124852735361125, score=0.816898 - 1.1s
171 +[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
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173 +[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
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175 +[CV] c1=0.02350745992548303, c2=0.05840652032018121 ..................
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177 +[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
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179 +[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
180 +[CV] c1=0.4238319563930542, c2=0.08124852735361125, score=0.907893 - 1.0s
181 +[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
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183 +[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
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185 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
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187 +[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
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189 +[CV] c1=0.4238319563930542, c2=0.08124852735361125 ...................
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191 +[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
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193 +[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
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195 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
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197 +[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
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201 +[CV] c1=0.22568008528765934, c2=0.025016650518504283 .................
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203 +[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
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207 +[CV] c1=0.04758003297351373, c2=0.10579732691225392 ..................
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209 +[CV] c1=0.42180099361133494, c2=0.054830905439908206 .................
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211 +[CV] c1=0.15129291116762528, c2=0.040969962486065804 .................
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213 +[CV] c1=0.14521637026904505, c2=0.02160263268998293 ..................
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215 +[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
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217 +[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
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418 +[CV] c1=0.1938501827725464, c2=0.060963666181269166, score=0.722395 - 1.2s
419 +[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
420 +[CV] c1=0.46250133950837036, c2=0.03491945784167068, score=0.702493 - 1.4s
421 +[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
422 +[CV] c1=0.16709072688926693, c2=0.03966093568152965, score=0.913784 - 1.4s
423 +[CV] c1=0.39517791711719746, c2=0.009650373540785788 .................
424 +[CV] c1=0.39517791711719746, c2=0.009650373540785788, score=0.815919 - 0.9s
425 +Training done in: 8.310973s
426 + Saving training model...
427 + Saving training model done in: 0.013086s
428 +*********************************
429 +Prediction done in: 0.030126s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: False False
8 -Report file: _v2
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003701s
15 --------------------------------- FEATURES --------------------------------
16 ---------------------------Features Training ---------------------------
17 - 0 1
18 -0 lemma 1
19 -1 postag CD
20 -2 -1:lemma pq
21 -3 -1:postag NN
22 -4 -2:lemma δsoxs
23 -5 -2:postag NN
24 ---------------------------- FeaturesTest -----------------------------
25 - 0 1
26 -0 lemma delta-fnr
27 -1 postag NN
28 -2 -1:lemma _
29 -3 -1:postag NN
30 -4 +1:lemma _
31 -5 +1:postag CD
32 -6 -2:lemma affyexp
33 -7 -2:postag JJ
34 -8 +2:lemma glucose
35 -9 +2:postag NN
36 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
37 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
38 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.765174 - 1.3s
39 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
40 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.873237 - 1.3s
41 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
42 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.849739 - 1.3s
43 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
44 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.850404 - 1.5s
45 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
46 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.825973 - 1.4s
47 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
48 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.713945 - 1.5s
49 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
50 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.930099 - 1.4s
51 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
52 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.880074 - 1.5s
53 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
54 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.602692 - 1.2s
55 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
56 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.741134 - 1.3s
57 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
58 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.814966 - 1.3s
59 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
60 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.846366 - 1.3s
61 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
62 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.946893 - 1.3s
63 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
64 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.713945 - 1.2s
65 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
66 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.817898 - 1.5s
67 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
68 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.783004 - 1.3s
69 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
70 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.883871 - 1.5s
71 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
72 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.617261 - 1.2s
73 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
74 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.580603 - 0.9s
75 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
76 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.705309 - 1.5s
77 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
78 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.878755 - 1.4s
79 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
80 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.764892 - 1.3s
81 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
82 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.883871 - 1.3s
83 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
84 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.873237 - 1.2s
85 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
86 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.721789 - 1.2s
87 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
88 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.860074 - 1.3s
89 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
90 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.880669 - 1.4s
91 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
92 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.855756 - 1.4s
93 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
94 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.588336 - 1.1s
95 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
96 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.755640 - 1.3s
97 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
98 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.643984 - 1.2s
99 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
100 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.763666 - 1.3s
101 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
102 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.846366 - 1.3s
103 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
104 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.755267 - 1.3s
105 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
106 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.673745 - 1.3s
107 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
108 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.922694 - 1.3s
109 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
110 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.673261 - 1.2s
111 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
112 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.875886 - 1.4s
113 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
114 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.613486 - 1.3s
115 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
116 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.624447 - 1.0s
117 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
118 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.737002 - 1.3s
119 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
120 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.930099 - 1.3s
121 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
122 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.807783 - 1.4s
123 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
124 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.577291 - 1.0s
125 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
126 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.807783 - 1.3s
127 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
128 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.855756 - 1.2s
129 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
130 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.716841 - 1.4s
131 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
132 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.602692 - 1.3s
133 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
134 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.770157 - 1.3s
135 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
136 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.828868 - 1.3s
137 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
138 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.895825 - 1.3s
139 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
140 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.602057 - 1.2s
141 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
142 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.581839 - 1.0s
143 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
144 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.906931 - 1.2s
145 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
146 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.886235 - 1.3s
147 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
148 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.774690 - 1.4s
149 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
150 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.602692 - 1.3s
151 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
152 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.707931 - 1.3s
153 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
154 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.749874 - 1.2s
155 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
156 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.877596 - 1.3s
157 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
158 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.776342 - 1.4s
159 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
160 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.753602 - 1.3s
161 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
162 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.762084 - 1.1s
163 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
164 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.762084 - 1.1s
165 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
166 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.853062 - 1.3s
167 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
168 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.853062 - 1.2s
169 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
170 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.823922 - 1.4s
171 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
172 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.708142 - 1.2s
173 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
174 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.719686 - 1.1s
175 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
176 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.620310 - 1.4s
177 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
178 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.872221 - 1.3s
179 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
180 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.777713 - 1.3s
181 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
182 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.796745 - 1.3s
183 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
184 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.862660 - 1.4s
185 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
186 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.578525 - 1.1s
187 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
188 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.859836 - 1.2s
189 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
190 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.571193 - 1.1s
191 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
192 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.831348 - 1.3s
193 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
194 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.783286 - 1.2s
195 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
196 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.725747 - 1.5s
197 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
198 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.635930 - 1.4s
199 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
200 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.699809 - 1.3s
201 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
202 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.860961 - 1.3s
203 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
204 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.824622 - 1.3s
205 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
206 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.783286 - 1.3s
207 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
208 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.883871 - 1.4s
209 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
210 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.906931 - 1.3s
211 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
212 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.575394 - 0.8s
213 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
214 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.829883 - 1.1s
215 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
216 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.646087 - 1.4s
217 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
218 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.895825 - 1.3s
219 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
220 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.872221 - 1.4s
221 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
222 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.764892 - 1.4s
223 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
224 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.774690 - 1.4s
225 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
226 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.631124 - 1.2s
227 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
228 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.646209 - 1.1s
229 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
230 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.885756 - 1.2s
231 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
232 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.737652 - 1.3s
233 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
234 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.868690 - 1.5s
235 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
236 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.922694 - 1.2s
237 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
238 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.737002 - 1.4s
239 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
240 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.721610 - 1.3s
241 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
242 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.845960 - 1.1s
243 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
244 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.930099 - 1.6s
245 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
246 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.755640 - 1.4s
247 -[CV] c1=0.17774701316807118, c2=0.012695982200445625 .................
248 -[CV] c1=0.17774701316807118, c2=0.012695982200445625, score=0.635930 - 1.2s
249 -[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
250 -[CV] c1=0.10611954839898095, c2=0.006346156532999689, score=0.799365 - 1.3s
251 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
252 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.586852 - 0.8s
253 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
254 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.718403 - 1.3s
255 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
256 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.631124 - 1.2s
257 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
258 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.930099 - 1.5s
259 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
260 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.854651 - 1.4s
261 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
262 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.775826 - 1.1s
263 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
264 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.895825 - 1.4s
265 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
266 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.777529 - 1.3s
267 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
268 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.769500 - 1.2s
269 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
270 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.635254 - 1.3s
271 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
272 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.707931 - 1.0s
273 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
274 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.828156 - 1.3s
275 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
276 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.855731 - 1.4s
277 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
278 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.763666 - 1.4s
279 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
280 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.719686 - 1.4s
281 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
282 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.718403 - 1.2s
283 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
284 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.845960 - 1.3s
285 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
286 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.833643 - 1.2s
287 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
288 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.635930 - 1.3s
289 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
290 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.718403 - 1.4s
291 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
292 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.847660 - 1.2s
293 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
294 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.854651 - 1.5s
295 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
296 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.939073 - 1.3s
297 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
298 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.770299 - 1.4s
299 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
300 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.867483 - 1.4s
301 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
302 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.737002 - 1.1s
303 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
304 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.673261 - 1.2s
305 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
306 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.783004 - 1.4s
307 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
308 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.922694 - 1.3s
309 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
310 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.930099 - 1.3s
311 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
312 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.755991 - 1.0s
313 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
314 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.922694 - 1.4s
315 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
316 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.711676 - 1.2s
317 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
318 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.763666 - 1.3s
319 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
320 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.783286 - 1.3s
321 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
322 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.783004 - 1.2s
323 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
324 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.883871 - 1.5s
325 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
326 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.737002 - 1.3s
327 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
328 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.737652 - 1.3s
329 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
330 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.765174 - 1.2s
331 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
332 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.603550 - 1.1s
333 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
334 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.698500 - 1.3s
335 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
336 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.782739 - 1.3s
337 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
338 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.883871 - 1.7s
339 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
340 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.786546 - 1.4s
341 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
342 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.922694 - 1.1s
343 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
344 -[CV] c1=0.7356533023470947, c2=0.0013731489455130663, score=0.630265 - 1.1s
345 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
346 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.615688 - 1.2s
347 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
348 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.645707 - 1.2s
349 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
350 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.838090 - 1.4s
351 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
352 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.657909 - 1.2s
353 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
354 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.849052 - 1.0s
355 -[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
356 -[CV] c1=0.48638772360527766, c2=0.06914443790613625, score=0.783286 - 1.3s
357 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
358 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.867483 - 1.5s
359 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
360 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.830824 - 1.3s
361 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
362 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.878755 - 1.4s
363 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
364 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.708142 - 0.9s
365 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
366 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.742392 - 1.6s
367 -[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
368 -[CV] c1=0.6705921332964635, c2=0.014427642144010306, score=0.781418 - 1.3s
369 -[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
370 -[CV] c1=0.21956205153360858, c2=0.009541738536313635, score=0.764892 - 1.3s
371 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
372 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.848575 - 1.3s
373 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
374 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.873237 - 1.3s
375 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
376 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.846366 - 1.3s
377 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
378 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.845960 - 1.3s
379 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
380 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.860961 - 1.4s
381 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
382 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.832898 - 1.3s
383 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
384 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.867483 - 1.1s
385 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
386 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.843338 - 1.2s
387 -[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
388 -[CV] c1=0.061878622473100685, c2=0.008830927560874847, score=0.883871 - 1.4s
389 -[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
390 -[CV] c1=0.12334803790775734, c2=0.016826815569305428, score=0.630065 - 1.2s
391 -[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
392 -[CV] c1=1.0784241377074688, c2=0.041059790429751976, score=0.730707 - 1.4s
393 -[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
394 -[CV] c1=0.7489529455784063, c2=0.07012128593942421, score=0.906931 - 1.3s
395 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
396 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.636829 - 1.3s
397 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
398 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.747753 - 1.2s
399 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
400 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.707931 - 1.3s
401 -[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
402 -[CV] c1=0.6555816084765733, c2=0.022533357743075463, score=0.584620 - 1.1s
403 -[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
404 -[CV] c1=0.5243479435689085, c2=0.020264421529990553, score=0.631124 - 1.1s
405 -[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
406 -[CV] c1=0.927177018037934, c2=0.023269220013262686, score=0.906931 - 1.1s
407 -[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
408 -[CV] c1=1.439077844699842, c2=0.02774426387487829, score=0.518811 - 1.1s
409 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
410 -[CV] c1=0.3918550763541644, c2=0.0010997783061468906, score=0.660872 - 1.2s
411 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
412 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.589040 - 1.2s
413 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
414 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.777342 - 1.3s
415 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
416 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.841965 - 1.1s
417 -[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
418 -[CV] c1=0.14009357256950483, c2=0.009314873469817363, score=0.855731 - 1.3s
419 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
420 -[CV] c1=0.5652943015138516, c2=0.0037589652831553928, score=0.860160 - 1.2s
421 -[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
422 -[CV] c1=0.676799569030537, c2=0.05862110387649719, score=0.612772 - 1.3s
423 -[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
424 -[CV] c1=0.2644150178675066, c2=0.046160424707653254, score=0.770299 - 1.5s
425 -[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
426 -[CV] c1=0.7156254494091757, c2=0.04252905244564888, score=0.776162 - 1.0s
427 -Training done in: 8.656537s
428 - Saving training model...
429 - Saving training model done in: 0.013108s
430 -*********************************
431 -Prediction done in: 0.028636s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: True False
8 -Report file: _v9
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003860s
15 -{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
16 -{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
17 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
18 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
19 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263, score=0.903565 - 1.2s
20 -[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
21 -[CV] c1=0.020829028765021226, c2=0.330913244342466, score=0.630985 - 1.0s
22 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
23 -[CV] c1=1.1133560080812872, c2=0.03524217248955633, score=0.559014 - 0.9s
24 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
25 -[CV] c1=2.2946346184092543, c2=0.026838185424639973, score=0.592492 - 1.1s
26 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
27 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.582068 - 1.1s
28 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
29 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263, score=0.743125 - 1.0s
30 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
31 -[CV] c1=0.09511707500453928, c2=0.0519939941697524, score=0.866790 - 1.2s
32 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
33 -[CV] c1=1.1133560080812872, c2=0.03524217248955633, score=0.825330 - 1.1s
34 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
35 -[CV] c1=2.2946346184092543, c2=0.026838185424639973, score=0.596309 - 1.1s
36 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
37 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.789900 - 1.2s
38 -[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
39 -[CV] c1=0.1614939954077374, c2=0.06205814047571822, score=0.603251 - 1.0s
40 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
41 -[CV] c1=0.09511707500453928, c2=0.0519939941697524, score=0.920970 - 1.1s
42 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
43 -[CV] c1=1.1133560080812872, c2=0.03524217248955633, score=0.870586 - 1.1s
44 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
45 -[CV] c1=2.2946346184092543, c2=0.026838185424639973, score=0.660504 - 1.1s
46 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
47 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.605840 - 1.1s
48 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
49 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263, score=0.865533 - 1.2s
50 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
51 -[CV] c1=0.09511707500453928, c2=0.0519939941697524, score=0.906853 - 1.1s
52 -[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
53 -[CV] c1=1.1533562821101506, c2=0.019354995709139386, score=0.647745 - 1.1s
54 -[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
55 -[CV] c1=0.1266383951793103, c2=0.0393032467121349, score=0.649654 - 1.0s
56 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
57 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.824341 - 1.1s
58 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
59 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263, score=0.701461 - 1.0s
60 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
61 -[CV] c1=0.09511707500453928, c2=0.0519939941697524, score=0.840539 - 1.2s
62 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
63 -[CV] c1=1.1133560080812872, c2=0.03524217248955633, score=0.712560 - 1.2s
64 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
65 -[CV] c1=2.2946346184092543, c2=0.026838185424639973, score=0.718275 - 1.1s
66 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
67 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.672745 - 1.1s
68 -[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
69 -[CV] c1=0.1614939954077374, c2=0.06205814047571822, score=0.881938 - 1.1s
70 -[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
71 -[CV] c1=0.020829028765021226, c2=0.330913244342466, score=0.703305 - 1.1s
72 -[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
73 -[CV] c1=1.1533562821101506, c2=0.019354995709139386, score=0.673633 - 1.0s
74 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
75 -[CV] c1=2.2946346184092543, c2=0.026838185424639973, score=0.568556 - 1.2s
76 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
77 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.518602 - 1.0s
78 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
79 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263, score=0.659253 - 1.0s
80 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
81 -[CV] c1=0.09511707500453928, c2=0.0519939941697524, score=0.720311 - 1.2s
82 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
83 -[CV] c1=1.1133560080812872, c2=0.03524217248955633, score=0.677417 - 1.1s
84 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
85 -[CV] c1=2.2946346184092543, c2=0.026838185424639973, score=0.683547 - 1.2s
86 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
87 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.556540 - 1.2s
88 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
89 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263, score=0.753693 - 1.2s
90 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
91 -[CV] c1=0.09511707500453928, c2=0.0519939941697524, score=0.601571 - 0.9s
92 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
93 -[CV] c1=1.1133560080812872, c2=0.03524217248955633, score=0.647745 - 0.9s
94 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
95 -[CV] c1=2.2946346184092543, c2=0.026838185424639973, score=0.582162 - 1.2s
96 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
97 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.643620 - 1.2s
98 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
99 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263, score=0.550050 - 0.9s
100 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
101 -[CV] c1=0.09511707500453928, c2=0.0519939941697524, score=0.654823 - 1.2s
102 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
103 -[CV] c1=1.1133560080812872, c2=0.03524217248955633, score=0.678288 - 1.1s
104 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
105 -[CV] c1=2.2946346184092543, c2=0.026838185424639973, score=0.507094 - 1.1s
106 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
107 -[CV] c1=1.4864633814895774, c2=0.07443280995437437, score=0.614085 - 1.3s
108 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
109 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263, score=0.883954 - 1.2s
110 -[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
111 -[CV] c1=0.020829028765021226, c2=0.330913244342466, score=0.710369 - 1.1s
112 -[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
113 -[CV] c1=1.1533562821101506, c2=0.019354995709139386, score=0.686713 - 1.1s
114 -[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
115 -[CV] c1=0.1266383951793103, c2=0.0393032467121349, score=0.594837 - 0.9s
116 -[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
117 -[CV] c1=0.03116962391669711, c2=0.034902897212510296, score=0.866790 - 1.1s
118 -[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
119 -[CV] c1=0.1614939954077374, c2=0.06205814047571822, score=0.740663 - 1.1s
120 -[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
121 -[CV] c1=0.020829028765021226, c2=0.330913244342466, score=0.770846 - 1.1s
122 -[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
123 -[CV] c1=1.1533562821101506, c2=0.019354995709139386, score=0.677417 - 1.1s
124 -[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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126 -[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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128 -[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
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130 -[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
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132 -[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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134 -[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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136 -[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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138 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
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140 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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142 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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144 -[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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146 -[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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148 -[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
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150 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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152 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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154 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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156 -[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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158 -[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
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160 -[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
161 -[CV] c1=0.0033333355799007253, c2=0.01971173429048602, score=0.878773 - 1.1s
162 -[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
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164 -[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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166 -[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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168 -[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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170 -[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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172 -[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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174 -[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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176 -[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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178 -[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
179 -[CV] c1=0.1614939954077374, c2=0.06205814047571822, score=0.654823 - 1.0s
180 -[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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182 -[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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184 -[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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186 -[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
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188 -[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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190 -[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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192 -[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
193 -[CV] c1=1.1533562821101506, c2=0.019354995709139386, score=0.810738 - 1.1s
194 -[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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196 -[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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198 -[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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200 -[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
201 -[CV] c1=0.020829028765021226, c2=0.330913244342466, score=0.688789 - 1.2s
202 -[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
203 -[CV] c1=1.1533562821101506, c2=0.019354995709139386, score=0.689868 - 1.0s
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286 -[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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294 -[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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296 -[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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298 -[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
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300 -[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
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302 -[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
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304 -[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
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306 -[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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308 -[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
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310 -[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
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312 -[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
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316 -[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
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318 -[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
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320 -[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
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324 -[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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326 -[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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328 -[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
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330 -[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
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334 -[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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336 -[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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340 -[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
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342 -[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
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344 -[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
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346 -[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
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348 -[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
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350 -[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
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352 -[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
353 -[CV] c1=1.6722766965579237, c2=0.013291004231457602, score=0.643620 - 1.1s
354 -[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
355 -[CV] c1=0.08475757164945485, c2=0.13819696066777126, score=0.652192 - 1.3s
356 -[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
357 -[CV] c1=0.001922394963124772, c2=0.1166032351837375, score=0.875991 - 0.9s
358 -[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
359 -[CV] c1=0.3213690128955612, c2=0.03898256391447408, score=0.575822 - 0.9s
360 -[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
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362 -[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
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364 -[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
365 -[CV] c1=0.08475757164945485, c2=0.13819696066777126, score=0.735257 - 1.2s
366 -[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
367 -[CV] c1=0.001922394963124772, c2=0.1166032351837375, score=0.906853 - 0.9s
368 -[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
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370 -[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
371 -[CV] c1=0.21271540606230951, c2=0.030620357980156894, score=0.693714 - 1.2s
372 -[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
373 -[CV] c1=1.6722766965579237, c2=0.013291004231457602, score=0.667190 - 1.1s
374 -[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
375 -[CV] c1=0.08475757164945485, c2=0.13819696066777126, score=0.906853 - 1.1s
376 -[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
377 -[CV] c1=0.001922394963124772, c2=0.1166032351837375, score=0.607039 - 0.8s
378 -[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
379 -[CV] c1=0.3213690128955612, c2=0.03898256391447408, score=0.867217 - 1.1s
380 -[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
381 -[CV] c1=0.21271540606230951, c2=0.030620357980156894, score=0.814619 - 1.1s
382 -[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
383 -[CV] c1=1.6722766965579237, c2=0.013291004231457602, score=0.607625 - 1.1s
384 -[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
385 -[CV] c1=0.08475757164945485, c2=0.13819696066777126, score=0.680867 - 1.1s
386 -[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
387 -[CV] c1=0.001922394963124772, c2=0.1166032351837375, score=0.848001 - 1.0s
388 -[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
389 -[CV] c1=0.4084834008911277, c2=0.06619217123115333, score=0.673541 - 1.1s
390 -[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
391 -[CV] c1=0.0033333355799007253, c2=0.01971173429048602, score=0.866790 - 1.1s
392 -[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
393 -[CV] c1=0.7225500746993299, c2=0.17031685283847245, score=0.852672 - 1.1s
394 -[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
395 -[CV] c1=2.0488638507950374, c2=0.05830217300206339, score=0.778713 - 1.2s
396 -[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
397 -[CV] c1=0.001922394963124772, c2=0.1166032351837375, score=0.724290 - 1.1s
398 -Training done in: 7.322848s
399 - Saving training model...
400 - Saving training model done in: 0.013721s
401 -*********************************
402 -Prediction done in: 0.023824s
1 +-------------------------------- PARAMETERS --------------------------------
2 +Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 +File with training data set: training-data-set-70.txt
4 +Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 +File with test data set: test-data-set-30.txt
6 +Exclude stop words: False
7 +Levels: True False
8 +Report file: _v11
9 +Exclude symbols: False
10 +-------------------------------- PROCESSING --------------------------------
11 +Reading corpus...
12 + Sentences training data: 286
13 + Sentences test data: 123
14 +Reading corpus done in: 0.003670s
15 +-------------------------------- FEATURES --------------------------------
16 +--------------------------Features Training ---------------------------
17 + 0 1
18 +0 lemma 2
19 +1 postag CD
20 +2 -1:lemma fructose
21 +3 -1:postag NN
22 +4 hUpper False
23 +5 hLower False
24 +6 hGreek False
25 +7 symb False
26 +8 lemma[:1] 2
27 +9 postag[:1] C
28 +10 postag[:2] CD
29 +11 -2:lemma Cra
30 +12 -2:postag NNP
31 +--------------------------- FeaturesTest -----------------------------
32 + 0 1
33 +0 lemma delta-arca
34 +1 postag NN
35 +2 -1:lemma _
36 +3 -1:postag NN
37 +4 +1:lemma _
38 +5 +1:postag CD
39 +6 hUpper True
40 +7 hLower True
41 +8 hGreek False
42 +9 symb True
43 +10 lemma[:1] d
44 +11 postag[:1] N
45 +12 lemma[:2] de
46 +13 postag[:2] NN
47 +14 -2:lemma affyexp
48 +15 -2:postag JJ
49 +16 +2:lemma glucose
50 +17 +2:postag NN
51 +Fitting 10 folds for each of 20 candidates, totalling 200 fits
52 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
53 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197, score=0.744355 - 1.3s
54 +[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
55 +[CV] c1=0.21944861613366148, c2=0.007493367060064349, score=0.822757 - 1.4s
56 +[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
57 +[CV] c1=1.1791456131357725, c2=0.009905947625121205, score=0.918061 - 1.9s
58 +[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
59 +[CV] c1=1.1770464694382454, c2=0.07280122254622126, score=0.894139 - 1.6s
60 +[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
61 +[CV] c1=0.151964914335486, c2=0.06419525243307017, score=0.864177 - 1.5s
62 +[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
63 +[CV] c1=1.508340551127507, c2=0.021335543550593316, score=0.876836 - 1.2s
64 +[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
65 +[CV] c1=0.4737963896619468, c2=0.010699938700759807, score=0.820742 - 1.6s
66 +[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
67 +[CV] c1=0.09326310944142512, c2=0.02293857362257262, score=0.825305 - 1.4s
68 +[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
69 +[CV] c1=1.1770464694382454, c2=0.07280122254622126, score=0.918061 - 1.4s
70 +[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
71 +[CV] c1=0.151964914335486, c2=0.06419525243307017, score=0.683730 - 1.5s
72 +[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
73 +[CV] c1=0.005294883330735351, c2=0.01797692767656751, score=0.862409 - 1.2s
74 +[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
75 +[CV] c1=0.21944861613366148, c2=0.007493367060064349, score=0.974589 - 1.8s
76 +[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
77 +[CV] c1=0.09326310944142512, c2=0.02293857362257262, score=0.852603 - 1.6s
78 +[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
79 +[CV] c1=0.19547632362615144, c2=0.051817682646593026, score=0.856825 - 1.4s
80 +[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
81 +[CV] c1=0.151964914335486, c2=0.06419525243307017, score=0.823313 - 1.6s
82 +[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
83 +[CV] c1=0.005294883330735351, c2=0.01797692767656751, score=0.892089 - 1.5s
84 +[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
85 +[CV] c1=0.4737963896619468, c2=0.010699938700759807, score=0.862528 - 1.6s
86 +[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
87 +[CV] c1=0.09326310944142512, c2=0.02293857362257262, score=0.926731 - 1.4s
88 +[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
89 +[CV] c1=0.19547632362615144, c2=0.051817682646593026, score=0.839218 - 1.6s
90 +[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
91 +[CV] c1=0.151964914335486, c2=0.06419525243307017, score=0.843508 - 1.3s
92 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
93 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197, score=0.808908 - 1.2s
94 +[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
95 +[CV] c1=0.21944861613366148, c2=0.007493367060064349, score=0.850984 - 1.6s
96 +[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
97 +[CV] c1=0.13542106358526157, c2=0.06613572987227866, score=0.844946 - 1.6s
98 +[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
99 +[CV] c1=0.01625033152790397, c2=0.004437967561302151, score=0.854858 - 2.1s
100 +[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
101 +[CV] c1=0.151964914335486, c2=0.06419525243307017, score=0.913115 - 1.5s
102 +[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
103 +[CV] c1=0.015260815191617596, c2=0.010533468233650554, score=0.817270 - 1.8s
104 +[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
105 +[CV] c1=1.1791456131357725, c2=0.009905947625121205, score=0.927009 - 2.0s
106 +[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
107 +[CV] c1=1.1770464694382454, c2=0.07280122254622126, score=0.593314 - 1.9s
108 +[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
109 +[CV] c1=0.151964914335486, c2=0.06419525243307017, score=0.893806 - 1.5s
110 +[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
111 +[CV] c1=1.508340551127507, c2=0.021335543550593316, score=0.593314 - 1.8s
112 +[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
113 +[CV] c1=1.1791456131357725, c2=0.009905947625121205, score=0.727632 - 1.5s
114 +[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
115 +[CV] c1=0.41069923197664315, c2=0.02601572011706776, score=0.877930 - 1.4s
116 +[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
117 +[CV] c1=0.19547632362615144, c2=0.051817682646593026, score=0.931609 - 1.4s
118 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
119 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.738299 - 1.4s
120 +[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
121 +[CV] c1=0.015260815191617596, c2=0.010533468233650554, score=0.884690 - 1.4s
122 +[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
123 +[CV] c1=1.1791456131357725, c2=0.009905947625121205, score=0.889202 - 1.4s
124 +[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
125 +[CV] c1=0.01625033152790397, c2=0.004437967561302151, score=0.928892 - 1.4s
126 +[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
127 +[CV] c1=0.6526918794500971, c2=0.014168653025375195, score=0.818750 - 1.3s
128 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
129 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.621607 - 1.4s
130 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
131 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197, score=0.821991 - 1.5s
132 +[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
133 +[CV] c1=0.21944861613366148, c2=0.007493367060064349, score=0.901996 - 1.6s
134 +[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
135 +[CV] c1=0.13542106358526157, c2=0.06613572987227866, score=0.928660 - 1.9s
136 +[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
137 +[CV] c1=0.19547632362615144, c2=0.051817682646593026, score=0.825305 - 1.7s
138 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
139 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.918674 - 1.5s
140 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
141 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197, score=0.932900 - 1.6s
142 +[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
143 +[CV] c1=0.21944861613366148, c2=0.007493367060064349, score=0.925560 - 1.6s
144 +[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
145 +[CV] c1=0.09326310944142512, c2=0.02293857362257262, score=0.841914 - 1.5s
146 +[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
147 +[CV] c1=1.1770464694382454, c2=0.07280122254622126, score=0.800885 - 1.7s
148 +[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
149 +[CV] c1=0.151964914335486, c2=0.06419525243307017, score=0.871570 - 1.6s
150 +[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
151 +[CV] c1=1.508340551127507, c2=0.021335543550593316, score=0.782611 - 1.4s
152 +[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
153 +[CV] c1=0.3279727332028919, c2=0.004720316064409802, score=0.729474 - 1.6s
154 +[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
155 +[CV] c1=0.41069923197664315, c2=0.02601572011706776, score=0.702472 - 1.6s
156 +[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
157 +[CV] c1=0.6526918794500971, c2=0.014168653025375195, score=0.810655 - 1.4s
158 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
159 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.868123 - 1.5s
160 +[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
161 +[CV] c1=1.508340551127507, c2=0.021335543550593316, score=0.759234 - 1.4s
162 +[CV] c1=0.3279727332028919, c2=0.004720316064409802 ..................
163 +[CV] c1=0.3279727332028919, c2=0.004720316064409802, score=0.923594 - 1.5s
164 +[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
165 +[CV] c1=0.41069923197664315, c2=0.02601572011706776, score=0.825609 - 1.7s
166 +[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
167 +[CV] c1=0.6526918794500971, c2=0.014168653025375195, score=0.918674 - 1.4s
168 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
169 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.929634 - 1.4s
170 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
171 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197, score=0.633367 - 1.5s
172 +[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
173 +[CV] c1=0.21944861613366148, c2=0.007493367060064349, score=0.946672 - 1.5s
174 +[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
175 +[CV] c1=0.13542106358526157, c2=0.06613572987227866, score=0.691973 - 1.7s
176 +[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
177 +[CV] c1=1.1770464694382454, c2=0.07280122254622126, score=0.818750 - 2.0s
178 +[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
179 +[CV] c1=0.151964914335486, c2=0.06419525243307017, score=0.931609 - 1.7s
180 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
181 +[CV] c1=0.9362245178762235, c2=0.0036840823697806197, score=0.872081 - 1.4s
182 +[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
183 +[CV] c1=0.21944861613366148, c2=0.007493367060064349, score=0.867416 - 1.6s
184 +[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
185 +[CV] c1=0.13542106358526157, c2=0.06613572987227866, score=0.876526 - 1.7s
186 +[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
187 +[CV] c1=1.1770464694382454, c2=0.07280122254622126, score=0.873607 - 2.0s
188 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
189 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.812173 - 1.7s
190 +[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
191 +[CV] c1=0.015260815191617596, c2=0.010533468233650554, score=0.925560 - 1.6s
192 +[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
193 +[CV] c1=0.13542106358526157, c2=0.06613572987227866, score=0.839327 - 1.9s
194 +[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
195 +[CV] c1=1.1770464694382454, c2=0.07280122254622126, score=0.923229 - 2.0s
196 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
197 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.927148 - 1.6s
198 +[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
199 +[CV] c1=0.015260815191617596, c2=0.010533468233650554, score=0.918835 - 1.6s
200 +[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
201 +[CV] c1=1.1791456131357725, c2=0.009905947625121205, score=0.818165 - 1.6s
202 +[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
203 +[CV] c1=0.01625033152790397, c2=0.004437967561302151, score=0.913446 - 1.5s
204 +[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
205 +[CV] c1=1.0574768522936129, c2=0.010094693629619428, score=0.818750 - 1.3s
206 +[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
207 +[CV] c1=0.16617627893415826, c2=0.016246283722594547, score=0.925560 - 1.2s
208 +[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
209 +[CV] c1=0.015260815191617596, c2=0.010533468233650554, score=0.946685 - 1.5s
210 +[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
211 +[CV] c1=1.1791456131357725, c2=0.009905947625121205, score=0.609476 - 1.7s
212 +[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
213 +[CV] c1=0.01625033152790397, c2=0.004437967561302151, score=0.888815 - 1.4s
214 +[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
215 +[CV] c1=0.6526918794500971, c2=0.014168653025375195, score=0.929634 - 1.5s
216 +[CV] c1=0.16617627893415826, c2=0.016246283722594547 .................
217 +[CV] c1=0.16617627893415826, c2=0.016246283722594547, score=0.969625 - 1.3s
218 +[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
219 +[CV] c1=0.005294883330735351, c2=0.01797692767656751, score=0.730024 - 1.6s
220 +[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
221 +[CV] c1=0.4737963896619468, c2=0.010699938700759807, score=0.905760 - 1.5s
222 +[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
223 +[CV] c1=0.09326310944142512, c2=0.02293857362257262, score=0.881315 - 1.7s
224 +[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
225 +[CV] c1=0.19547632362615144, c2=0.051817682646593026, score=0.916643 - 1.6s
226 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
227 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.811582 - 1.6s
228 +[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
229 +[CV] c1=0.005294883330735351, c2=0.01797692767656751, score=0.860761 - 1.6s
230 +[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
231 +[CV] c1=0.4737963896619468, c2=0.010699938700759807, score=0.824101 - 1.6s
232 +[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
233 +[CV] c1=0.09326310944142512, c2=0.02293857362257262, score=0.858859 - 1.6s
234 +[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
235 +[CV] c1=0.19547632362615144, c2=0.051817682646593026, score=0.950946 - 1.6s
236 +[CV] c1=0.7691901366762777, c2=0.018786342851753436 ..................
237 +[CV] c1=0.7691901366762777, c2=0.018786342851753436, score=0.845991 - 1.5s
238 +[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
239 +[CV] c1=0.005294883330735351, c2=0.01797692767656751, score=0.886827 - 1.5s
240 +[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
241 +[CV] c1=0.4737963896619468, c2=0.010699938700759807, score=0.927302 - 1.8s
242 +[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
243 +[CV] c1=0.41069923197664315, c2=0.02601572011706776, score=0.872077 - 1.5s
244 +[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
245 +[CV] c1=0.6526918794500971, c2=0.014168653025375195, score=0.868123 - 1.8s
246 +[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
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441 +[CV] c1=0.4639226651882826, c2=0.1771708074662829, score=0.898935 - 1.4s
442 +Training done in: 10.548893s
443 + Saving training model...
444 + Saving training model done in: 0.013080s
445 +*********************************
446 +Prediction done in: 0.041656s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: True False
8 -Report file: _v2
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003824s
15 --------------------------------- FEATURES --------------------------------
16 ---------------------------Features Training ---------------------------
17 - 0 1
18 -0 lemma 1
19 -1 postag CD
20 -2 -1:lemma pq
21 -3 -1:postag NN
22 -4 hUpper False
23 -5 hLower False
24 -6 hGreek False
25 -7 symb False
26 -8 word[:1] 1
27 -9 -2:lemma δsoxs
28 -10 -2:postag NN
29 ---------------------------- FeaturesTest -----------------------------
30 - 0 1
31 -0 lemma delta-fnr
32 -1 postag NN
33 -2 -1:lemma _
34 -3 -1:postag NN
35 -4 +1:lemma _
36 -5 +1:postag CD
37 -6 hUpper False
38 -7 hLower False
39 -8 hGreek False
40 -9 symb True
41 -10 word[:1] d
42 -11 word[:2] de
43 -12 -2:lemma affyexp
44 -13 -2:postag JJ
45 -14 +2:lemma glucose
46 -15 +2:postag NN
47 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
48 -[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
49 -[CV] c1=0.2615074589465166, c2=0.00276705652339924, score=0.748989 - 1.5s
50 -[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
51 -[CV] c1=0.5185417642698361, c2=0.053008807244735806, score=0.688607 - 1.2s
52 -[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
53 -[CV] c1=0.15577693298267048, c2=0.06637448911598333, score=0.705446 - 1.3s
54 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
55 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.844579 - 1.6s
56 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
57 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.682226 - 1.5s
58 -[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
59 -[CV] c1=0.12876611002706792, c2=0.005687634151887815, score=0.701013 - 1.3s
60 -[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
61 -[CV] c1=0.4343684628584727, c2=0.035865115766266005, score=0.895566 - 1.8s
62 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
63 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.719074 - 1.7s
64 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
65 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.724487 - 1.6s
66 -[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
67 -[CV] c1=0.11430921774270934, c2=0.06174595493921575, score=0.868519 - 1.1s
68 -[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
69 -[CV] c1=0.5185417642698361, c2=0.053008807244735806, score=0.682226 - 1.4s
70 -[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
71 -[CV] c1=0.15577693298267048, c2=0.06637448911598333, score=0.947516 - 1.6s
72 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
73 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.933155 - 1.6s
74 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
75 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.727054 - 1.3s
76 -[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
77 -[CV] c1=0.2615074589465166, c2=0.00276705652339924, score=0.917847 - 1.3s
78 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
79 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534, score=0.738970 - 1.3s
80 -[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
81 -[CV] c1=0.15577693298267048, c2=0.06637448911598333, score=0.907093 - 1.6s
82 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
83 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.868659 - 1.7s
84 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
85 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.780640 - 1.5s
86 -[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
87 -[CV] c1=1.3873487379708354, c2=0.05280678047492682, score=0.683958 - 1.4s
88 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
89 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534, score=0.705265 - 1.4s
90 -[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
91 -[CV] c1=0.15577693298267048, c2=0.06637448911598333, score=0.732294 - 1.6s
92 -[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
93 -[CV] c1=0.4187966865740437, c2=0.19166197167501114, score=0.931297 - 1.9s
94 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
95 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.878329 - 1.6s
96 -[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
97 -[CV] c1=1.3873487379708354, c2=0.05280678047492682, score=0.773191 - 1.4s
98 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
99 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534, score=0.885638 - 1.6s
100 -[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
101 -[CV] c1=0.15577693298267048, c2=0.06637448911598333, score=0.891699 - 1.7s
102 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
103 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.673861 - 1.6s
104 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
105 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.842875 - 1.7s
106 -[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
107 -[CV] c1=0.2615074589465166, c2=0.00276705652339924, score=0.868519 - 1.3s
108 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
109 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534, score=0.759154 - 1.4s
110 -[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
111 -[CV] c1=0.15577693298267048, c2=0.06637448911598333, score=0.796438 - 1.5s
112 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
113 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.880312 - 1.8s
114 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
115 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.734892 - 1.6s
116 -[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
117 -[CV] c1=0.11430921774270934, c2=0.06174595493921575, score=0.660504 - 1.1s
118 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
119 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534, score=0.748989 - 1.6s
120 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459 .................
121 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459, score=0.688077 - 1.4s
122 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
123 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.752420 - 1.6s
124 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
125 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.754344 - 1.6s
126 -[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
127 -[CV] c1=0.2615074589465166, c2=0.00276705652339924, score=0.698897 - 1.1s
128 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
129 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534, score=0.914825 - 1.6s
130 -[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
131 -[CV] c1=0.15577693298267048, c2=0.06637448911598333, score=0.911961 - 1.6s
132 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
133 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.796825 - 1.6s
134 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
135 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.885638 - 1.7s
136 -[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
137 -[CV] c1=0.11430921774270934, c2=0.06174595493921575, score=0.704835 - 1.3s
138 -[CV] c1=0.25383138714597037, c2=0.04263753154943412 ..................
139 -[CV] c1=0.25383138714597037, c2=0.04263753154943412, score=0.648856 - 1.5s
140 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459 .................
141 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459, score=0.721111 - 1.5s
142 -[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
143 -[CV] c1=0.35338694963813927, c2=0.027153986749367698, score=0.786586 - 1.5s
144 -[CV] c1=0.07859831333888312, c2=0.07646449848130295 ..................
145 -[CV] c1=0.07859831333888312, c2=0.07646449848130295, score=0.653316 - 1.5s
146 -[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
147 -[CV] c1=1.3873487379708354, c2=0.05280678047492682, score=0.673792 - 1.4s
148 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
149 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534, score=0.784018 - 1.5s
150 -[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
151 -[CV] c1=0.15577693298267048, c2=0.06637448911598333, score=0.746614 - 1.7s
152 -[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
153 -[CV] c1=0.823900513809091, c2=0.0387534873299443, score=0.700287 - 1.5s
154 -[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
155 -[CV] c1=0.6399264634452653, c2=0.014870218135147216, score=0.940069 - 1.6s
156 -[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
157 -[CV] c1=0.11430921774270934, c2=0.06174595493921575, score=0.891699 - 1.4s
158 -[CV] c1=0.25383138714597037, c2=0.04263753154943412 ..................
159 -[CV] c1=0.25383138714597037, c2=0.04263753154943412, score=0.730917 - 1.6s
160 -[CV] c1=0.5229213398180802, c2=0.05988470409107292 ...................
161 -[CV] c1=0.5229213398180802, c2=0.05988470409107292, score=0.682226 - 1.4s
162 -[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
163 -[CV] c1=0.35338694963813927, c2=0.027153986749367698, score=0.759154 - 1.8s
164 -[CV] c1=0.07859831333888312, c2=0.07646449848130295 ..................
165 -[CV] c1=0.07859831333888312, c2=0.07646449848130295, score=0.713594 - 1.2s
166 -[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
167 -[CV] c1=1.3873487379708354, c2=0.05280678047492682, score=0.893607 - 1.6s
168 -[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
169 -[CV] c1=0.5185417642698361, c2=0.053008807244735806, score=0.923873 - 1.6s
170 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459 .................
171 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459, score=0.631616 - 1.4s
172 -[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
173 -[CV] c1=0.35338694963813927, c2=0.027153986749367698, score=0.907061 - 1.8s
174 -[CV] c1=0.07859831333888312, c2=0.07646449848130295 ..................
175 -[CV] c1=0.07859831333888312, c2=0.07646449848130295, score=0.859105 - 1.4s
176 -[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
177 -[CV] c1=0.2615074589465166, c2=0.00276705652339924, score=0.706154 - 1.5s
178 -[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
179 -[CV] c1=0.5185417642698361, c2=0.053008807244735806, score=0.885638 - 1.6s
180 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459 .................
181 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459, score=0.928523 - 1.6s
182 -[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
183 -[CV] c1=0.35338694963813927, c2=0.027153986749367698, score=0.891699 - 1.7s
184 -[CV] c1=0.07859831333888312, c2=0.07646449848130295 ..................
185 -[CV] c1=0.07859831333888312, c2=0.07646449848130295, score=0.891699 - 1.6s
186 -[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
187 -[CV] c1=0.2615074589465166, c2=0.00276705652339924, score=0.786586 - 1.3s
188 -[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
189 -[CV] c1=0.5185417642698361, c2=0.053008807244735806, score=0.724487 - 1.5s
190 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459 .................
191 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459, score=0.745942 - 1.7s
192 -[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
193 -[CV] c1=0.35338694963813927, c2=0.027153986749367698, score=0.891015 - 1.6s
194 -[CV] c1=0.07859831333888312, c2=0.07646449848130295 ..................
195 -[CV] c1=0.07859831333888312, c2=0.07646449848130295, score=0.889925 - 1.6s
196 -[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
197 -[CV] c1=1.3873487379708354, c2=0.05280678047492682, score=0.729157 - 1.6s
198 -[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
199 -[CV] c1=0.5185417642698361, c2=0.053008807244735806, score=0.779671 - 1.6s
200 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459 .................
201 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459, score=0.715316 - 1.6s
202 -[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
203 -[CV] c1=0.35338694963813927, c2=0.027153986749367698, score=0.916959 - 1.6s
204 -[CV] c1=0.07859831333888312, c2=0.07646449848130295 ..................
205 -[CV] c1=0.07859831333888312, c2=0.07646449848130295, score=0.774444 - 1.5s
206 -[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
207 -[CV] c1=1.3873487379708354, c2=0.05280678047492682, score=0.766425 - 1.5s
208 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
209 -[CV] c1=0.4188873236253328, c2=0.0026616054692428534, score=0.923873 - 1.6s
210 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459 .................
211 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459, score=0.889925 - 1.5s
212 -[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
213 -[CV] c1=0.35338694963813927, c2=0.027153986749367698, score=0.727640 - 1.9s
214 -[CV] c1=0.07859831333888312, c2=0.07646449848130295 ..................
215 -[CV] c1=0.07859831333888312, c2=0.07646449848130295, score=0.716285 - 1.5s
216 -[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
217 -[CV] c1=0.11430921774270934, c2=0.06174595493921575, score=0.926662 - 1.3s
218 -[CV] c1=0.25383138714597037, c2=0.04263753154943412 ..................
219 -[CV] c1=0.25383138714597037, c2=0.04263753154943412, score=0.881840 - 1.8s
220 -[CV] c1=0.5229213398180802, c2=0.05988470409107292 ...................
221 -[CV] c1=0.5229213398180802, c2=0.05988470409107292, score=0.732929 - 1.5s
222 -[CV] c1=1.0068963881008774, c2=0.0209795411094058 ....................
223 -[CV] c1=1.0068963881008774, c2=0.0209795411094058, score=0.880312 - 1.8s
224 -[CV] c1=0.031180803180743573, c2=0.07896645089543503 .................
225 -[CV] c1=0.031180803180743573, c2=0.07896645089543503, score=0.626853 - 1.1s
226 -[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
227 -[CV] c1=0.11430921774270934, c2=0.06174595493921575, score=0.906414 - 1.3s
228 -[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
229 -[CV] c1=0.5185417642698361, c2=0.053008807244735806, score=0.868519 - 1.6s
230 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459 .................
231 -[CV] c1=0.0027865899296892344, c2=0.0322630560189459, score=0.865839 - 1.6s
232 -[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
233 -[CV] c1=0.35338694963813927, c2=0.027153986749367698, score=0.737479 - 1.3s
234 -[CV] c1=0.07859831333888312, c2=0.07646449848130295 ..................
235 -[CV] c1=0.07859831333888312, c2=0.07646449848130295, score=0.735598 - 1.6s
236 -[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
237 -[CV] c1=1.3873487379708354, c2=0.05280678047492682, score=0.752420 - 1.5s
238 -[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
239 -[CV] c1=0.5185417642698361, c2=0.053008807244735806, score=0.882932 - 1.8s
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420 -[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
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422 -[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
423 -[CV] c1=0.4187966865740437, c2=0.19166197167501114, score=0.894300 - 1.7s
424 -[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
425 -[CV] c1=0.010635150805068118, c2=0.013559125772358571, score=0.903099 - 1.7s
426 -[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
427 -[CV] c1=0.5348883068759939, c2=0.00832448452340161, score=0.759154 - 1.2s
428 -[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
429 -[CV] c1=0.12876611002706792, c2=0.005687634151887815, score=0.914459 - 1.6s
430 -[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
431 -[CV] c1=0.4343684628584727, c2=0.035865115766266005, score=0.926812 - 1.5s
432 -[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
433 -[CV] c1=0.4187966865740437, c2=0.19166197167501114, score=0.855051 - 1.6s
434 -[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
435 -[CV] c1=0.010635150805068118, c2=0.013559125772358571, score=0.886041 - 1.6s
436 -[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
437 -[CV] c1=0.5348883068759939, c2=0.00832448452340161, score=0.933155 - 1.2s
438 -Training done in: 10.407644s
439 - Saving training model...
440 - Saving training model done in: 0.013260s
441 -*********************************
442 -Prediction done in: 0.035441s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: False True
8 -Report file: _v9
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003661s
15 -{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
16 -{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
17 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
18 -[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
19 -[CV] c1=0.8576127193843588, c2=0.011655958946285804, score=0.568777 - 0.8s
20 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
21 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.761418 - 1.3s
22 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
23 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.815463 - 1.1s
24 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
25 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.761418 - 1.1s
26 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
27 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.753693 - 1.1s
28 -[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
29 -[CV] c1=0.8576127193843588, c2=0.011655958946285804, score=0.651934 - 1.0s
30 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
31 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.789190 - 1.2s
32 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
33 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.558164 - 0.9s
34 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
35 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.860729 - 1.2s
36 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
37 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.794740 - 1.1s
38 -[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
39 -[CV] c1=0.03962800005233316, c2=0.022576612705236622, score=0.866790 - 0.8s
40 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
41 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.666440 - 1.0s
42 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
43 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.691890 - 1.0s
44 -[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
45 -[CV] c1=1.4731035528519316, c2=0.0985918850323886, score=0.824341 - 1.2s
46 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
47 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.694072 - 1.2s
48 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
49 -[CV] c1=0.38596509561932013, c2=0.021114690490169043, score=0.761418 - 1.1s
50 -[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
51 -[CV] c1=1.6387163642774465, c2=0.006347413830953892, score=0.662630 - 1.3s
52 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
53 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.703150 - 1.2s
54 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
55 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.659253 - 1.0s
56 -[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
57 -[CV] c1=0.6639775093102331, c2=0.05327533729445978, score=0.659121 - 1.0s
58 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
59 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.538621 - 1.0s
60 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
61 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.712560 - 1.1s
62 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
63 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.920970 - 1.1s
64 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
65 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.852821 - 1.2s
66 -[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
67 -[CV] c1=0.03962800005233316, c2=0.022576612705236622, score=0.652192 - 0.8s
68 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
69 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.716266 - 1.2s
70 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
71 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.716676 - 1.2s
72 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
73 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.867889 - 1.1s
74 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
75 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.739174 - 1.2s
76 -[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
77 -[CV] c1=0.03962800005233316, c2=0.022576612705236622, score=0.723492 - 1.0s
78 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
79 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.857493 - 1.2s
80 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
81 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.826261 - 1.3s
82 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
83 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.553248 - 1.1s
84 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
85 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.561630 - 1.2s
86 -[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
87 -[CV] c1=0.03962800005233316, c2=0.022576612705236622, score=0.923613 - 1.2s
88 -[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
89 -[CV] c1=0.18334620784152844, c2=0.008065728975440238, score=0.843407 - 1.1s
90 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
91 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.656999 - 1.0s
92 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
93 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.899703 - 1.1s
94 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
95 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.891760 - 1.2s
96 -[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
97 -[CV] c1=0.8576127193843588, c2=0.011655958946285804, score=0.844400 - 1.1s
98 -[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
99 -[CV] c1=0.18334620784152844, c2=0.008065728975440238, score=0.920970 - 1.2s
100 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
101 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.555648 - 0.9s
102 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
103 -[CV] c1=2.2502498485352547, c2=0.014818926001867778, score=0.588673 - 1.2s
104 -[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
105 -[CV] c1=0.061316816538251634, c2=0.10728243189441995, score=0.832206 - 1.1s
106 -[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
107 -[CV] c1=0.03962800005233316, c2=0.022576612705236622, score=0.607039 - 0.9s
108 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
109 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.843338 - 1.2s
110 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
111 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.787287 - 1.2s
112 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
113 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.855506 - 1.1s
114 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
115 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.708065 - 1.3s
116 -[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
117 -[CV] c1=0.03962800005233316, c2=0.022576612705236622, score=0.741434 - 1.1s
118 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
119 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.904567 - 1.1s
120 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
121 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.870586 - 1.2s
122 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
123 -[CV] c1=2.2502498485352547, c2=0.014818926001867778, score=0.592492 - 1.0s
124 -[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
125 -[CV] c1=0.7882460794764874, c2=0.008314409656759104, score=0.903565 - 1.2s
126 -[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
127 -[CV] c1=0.8576127193843588, c2=0.011655958946285804, score=0.843338 - 1.2s
128 -[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
129 -[CV] c1=0.18334620784152844, c2=0.008065728975440238, score=0.631269 - 0.9s
130 -[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
131 -[CV] c1=0.8830586244748654, c2=0.08016526354894071, score=0.691841 - 1.1s
132 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
133 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.775906 - 1.2s
134 -[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
135 -[CV] c1=0.061316816538251634, c2=0.10728243189441995, score=0.720311 - 1.2s
136 -[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
137 -[CV] c1=0.6639775093102331, c2=0.05327533729445978, score=0.571166 - 0.9s
138 -[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
139 -[CV] c1=0.18334620784152844, c2=0.008065728975440238, score=0.906853 - 1.1s
140 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
141 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.856715 - 1.1s
142 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
143 -[CV] c1=2.2502498485352547, c2=0.014818926001867778, score=0.773116 - 1.1s
144 -[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
145 -[CV] c1=0.061316816538251634, c2=0.10728243189441995, score=0.654823 - 1.1s
146 -[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
147 -[CV] c1=0.8576127193843588, c2=0.011655958946285804, score=0.891760 - 1.1s
148 -[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
149 -[CV] c1=0.09824882728525007, c2=0.01967357302620265, score=0.674776 - 1.0s
150 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
151 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.787287 - 1.2s
152 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
153 -[CV] c1=2.2502498485352547, c2=0.014818926001867778, score=0.660064 - 1.1s
154 -[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
155 -[CV] c1=0.061316816538251634, c2=0.10728243189441995, score=0.607039 - 1.0s
156 -[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
157 -[CV] c1=0.8576127193843588, c2=0.011655958946285804, score=0.747150 - 1.1s
158 -[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
159 -[CV] c1=0.18334620784152844, c2=0.008065728975440238, score=0.766379 - 1.1s
160 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
161 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.698636 - 1.1s
162 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
163 -[CV] c1=2.2502498485352547, c2=0.014818926001867778, score=0.596309 - 1.1s
164 -[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
165 -[CV] c1=0.061316816538251634, c2=0.10728243189441995, score=0.654694 - 1.1s
166 -[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
167 -[CV] c1=0.03962800005233316, c2=0.022576612705236622, score=0.920970 - 1.2s
168 -[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
169 -[CV] c1=0.18334620784152844, c2=0.008065728975440238, score=0.721334 - 1.1s
170 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
171 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.678696 - 1.2s
172 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
173 -[CV] c1=2.2502498485352547, c2=0.014818926001867778, score=0.535665 - 1.2s
174 -[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
175 -[CV] c1=0.061316816538251634, c2=0.10728243189441995, score=0.881938 - 1.2s
176 -[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
177 -[CV] c1=0.6639775093102331, c2=0.05327533729445978, score=0.852821 - 1.1s
178 -[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
179 -[CV] c1=0.09824882728525007, c2=0.01967357302620265, score=0.866790 - 1.3s
180 -[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
181 -[CV] c1=0.5517747693290754, c2=0.03723059660924028, score=0.556324 - 0.9s
182 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
183 -[CV] c1=2.2502498485352547, c2=0.014818926001867778, score=0.507480 - 0.9s
184 -[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
185 -[CV] c1=0.061316816538251634, c2=0.10728243189441995, score=0.848001 - 1.2s
186 -[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
187 -[CV] c1=0.6639775093102331, c2=0.05327533729445978, score=0.712255 - 1.1s
188 -[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
189 -[CV] c1=0.09824882728525007, c2=0.01967357302620265, score=0.848230 - 1.1s
190 -[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
191 -[CV] c1=0.5517747693290754, c2=0.03723059660924028, score=0.704526 - 1.2s
192 -[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
193 -[CV] c1=0.7431358277276424, c2=0.011105476280036924, score=0.757867 - 1.1s
194 -[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
195 -[CV] c1=0.2936978694984962, c2=0.18231632927233646, score=0.628354 - 1.0s
196 -[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
197 -[CV] c1=0.03962800005233316, c2=0.022576612705236622, score=0.935386 - 1.1s
198 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
199 -[CV] c1=0.6043003012819512, c2=0.0016246066449729678, score=0.899703 - 1.2s
200 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
201 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.716676 - 1.2s
202 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
203 -[CV] c1=2.2502498485352547, c2=0.014818926001867778, score=0.678203 - 1.1s
204 -[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
205 -[CV] c1=0.061316816538251634, c2=0.10728243189441995, score=0.730124 - 1.2s
206 -[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
207 -[CV] c1=0.8576127193843588, c2=0.011655958946285804, score=0.739174 - 1.1s
208 -[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
209 -[CV] c1=0.18334620784152844, c2=0.008065728975440238, score=0.938387 - 1.2s
210 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
211 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.873262 - 1.2s
212 -[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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226 -[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
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228 -[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
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230 -[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
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270 -[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
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278 -[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
279 -[CV] c1=0.09824882728525007, c2=0.01967357302620265, score=0.717126 - 1.3s
280 -[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
281 -[CV] c1=0.5517747693290754, c2=0.03723059660924028, score=0.753693 - 1.1s
282 -[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
283 -[CV] c1=0.7431358277276424, c2=0.011105476280036924, score=0.852821 - 1.2s
284 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
285 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744, score=0.724515 - 0.9s
286 -[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
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288 -[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
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290 -[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
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292 -[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
293 -[CV] c1=0.03993462764763037, c2=0.10539193423951572, score=0.654823 - 1.0s
294 -[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
295 -[CV] c1=0.2936978694984962, c2=0.18231632927233646, score=0.892456 - 1.0s
296 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
297 -[CV] c1=0.38596509561932013, c2=0.021114690490169043, score=0.679766 - 1.0s
298 -[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
299 -[CV] c1=0.09824882728525007, c2=0.01967357302620265, score=0.741434 - 1.2s
300 -[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
301 -[CV] c1=0.5517747693290754, c2=0.03723059660924028, score=0.729308 - 1.1s
302 -[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
303 -[CV] c1=0.7431358277276424, c2=0.011105476280036924, score=0.912680 - 1.1s
304 -[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
305 -[CV] c1=0.2936978694984962, c2=0.18231632927233646, score=0.674703 - 1.1s
306 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
307 -[CV] c1=0.38596509561932013, c2=0.021114690490169043, score=0.920970 - 1.1s
308 -[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
309 -[CV] c1=1.6387163642774465, c2=0.006347413830953892, score=0.723537 - 1.3s
310 -[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
311 -[CV] c1=1.4731035528519316, c2=0.0985918850323886, score=0.682607 - 1.2s
312 -[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
313 -[CV] c1=0.03993462764763037, c2=0.10539193423951572, score=0.906853 - 1.1s
314 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
315 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744, score=0.654817 - 0.7s
316 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
317 -[CV] c1=0.38596509561932013, c2=0.021114690490169043, score=0.710539 - 1.1s
318 -[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
319 -[CV] c1=0.09824882728525007, c2=0.01967357302620265, score=0.598446 - 1.0s
320 -[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
321 -[CV] c1=0.5517747693290754, c2=0.03723059660924028, score=0.761818 - 1.2s
322 -[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
323 -[CV] c1=0.7431358277276424, c2=0.011105476280036924, score=0.718872 - 1.1s
324 -[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
325 -[CV] c1=0.2936978694984962, c2=0.18231632927233646, score=0.575917 - 1.0s
326 -[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
327 -[CV] c1=0.8576127193843588, c2=0.011655958946285804, score=0.836651 - 1.1s
328 -[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
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330 -[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
331 -[CV] c1=0.9896982442127485, c2=0.029349684897034673, score=0.870586 - 1.3s
332 -[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
333 -[CV] c1=0.7431358277276424, c2=0.011105476280036924, score=0.753693 - 1.1s
334 -[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
335 -[CV] c1=0.2936978694984962, c2=0.18231632927233646, score=0.717219 - 1.1s
336 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
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338 -[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
339 -[CV] c1=1.6387163642774465, c2=0.006347413830953892, score=0.517508 - 0.9s
340 -[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
341 -[CV] c1=1.4731035528519316, c2=0.0985918850323886, score=0.788076 - 1.2s
342 -[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
343 -[CV] c1=0.03993462764763037, c2=0.10539193423951572, score=0.877650 - 1.2s
344 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
345 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744, score=0.935386 - 0.9s
346 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
347 -[CV] c1=0.38596509561932013, c2=0.021114690490169043, score=0.841313 - 1.2s
348 -[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
349 -[CV] c1=1.6387163642774465, c2=0.006347413830953892, score=0.673654 - 1.3s
350 -[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
351 -[CV] c1=1.4731035528519316, c2=0.0985918850323886, score=0.518602 - 1.0s
352 -[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
353 -[CV] c1=0.03993462764763037, c2=0.10539193423951572, score=0.654694 - 1.2s
354 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
355 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744, score=0.741434 - 0.9s
356 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
357 -[CV] c1=0.38596509561932013, c2=0.021114690490169043, score=0.863440 - 1.1s
358 -[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
359 -[CV] c1=1.6387163642774465, c2=0.006347413830953892, score=0.789900 - 1.2s
360 -[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
361 -[CV] c1=1.4731035528519316, c2=0.0985918850323886, score=0.698163 - 1.1s
362 -[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
363 -[CV] c1=0.03993462764763037, c2=0.10539193423951572, score=0.730124 - 1.0s
364 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
365 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744, score=0.664655 - 1.0s
366 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
367 -[CV] c1=0.38596509561932013, c2=0.021114690490169043, score=0.570419 - 0.9s
368 -[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
369 -[CV] c1=0.09824882728525007, c2=0.01967357302620265, score=0.920970 - 1.1s
370 -[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
371 -[CV] c1=0.5517747693290754, c2=0.03723059660924028, score=0.852821 - 1.2s
372 -[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
373 -[CV] c1=0.03993462764763037, c2=0.10539193423951572, score=0.720311 - 1.3s
374 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
375 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744, score=0.923613 - 0.8s
376 -[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
377 -[CV] c1=0.38596509561932013, c2=0.021114690490169043, score=0.772136 - 1.3s
378 -[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
379 -[CV] c1=1.6387163642774465, c2=0.006347413830953892, score=0.843581 - 1.2s
380 -[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
381 -[CV] c1=0.4160233685238722, c2=0.015614531623244441, score=0.679766 - 1.0s
382 -[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
383 -[CV] c1=0.03993462764763037, c2=0.10539193423951572, score=0.875991 - 1.1s
384 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
385 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744, score=0.707036 - 0.9s
386 -[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
387 -[CV] c1=0.6639775093102331, c2=0.05327533729445978, score=0.682045 - 1.2s
388 -[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
389 -[CV] c1=1.6387163642774465, c2=0.006347413830953892, score=0.599660 - 1.3s
390 -[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
391 -[CV] c1=1.4731035528519316, c2=0.0985918850323886, score=0.605840 - 1.1s
392 -[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
393 -[CV] c1=0.03993462764763037, c2=0.10539193423951572, score=0.866790 - 1.2s
394 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
395 -[CV] c1=0.011903408156662585, c2=0.0023869256052412744, score=0.927704 - 0.9s
396 -Training done in: 7.249866s
397 - Saving training model...
398 - Saving training model done in: 0.014392s
399 -*********************************
400 -Prediction done in: 0.025039s
1 +-------------------------------- PARAMETERS --------------------------------
2 +Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 +File with training data set: training-data-set-70.txt
4 +Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 +File with test data set: test-data-set-30.txt
6 +Exclude stop words: False
7 +Levels: False True
8 +Report file: _v11
9 +Exclude symbols: False
10 +-------------------------------- PROCESSING --------------------------------
11 +Reading corpus...
12 + Sentences training data: 286
13 + Sentences test data: 123
14 +Reading corpus done in: 0.003621s
15 +-------------------------------- FEATURES --------------------------------
16 +--------------------------Features Training ---------------------------
17 + 0 1
18 +0 lemma 2
19 +1 postag CD
20 +2 -1:lemma fructose
21 +3 -1:postag NN
22 +4 word 2
23 +5 isUpper False
24 +6 isLower False
25 +7 isGreek False
26 +8 isNumber True
27 +9 -1:word fructose
28 +10 -2:lemma Cra
29 +11 -2:postag NNP
30 +--------------------------- FeaturesTest -----------------------------
31 + 0 1
32 +0 lemma delta-arca
33 +1 postag NN
34 +2 -1:lemma _
35 +3 -1:postag NN
36 +4 +1:lemma _
37 +5 +1:postag CD
38 +6 word delta-arcA
39 +7 isUpper False
40 +8 isLower False
41 +9 isGreek False
42 +10 isNumber False
43 +11 -1:word _
44 +12 +1:word _
45 +13 -2:lemma affyexp
46 +14 -2:postag JJ
47 +15 +2:lemma glucose
48 +16 +2:postag NN
49 +Fitting 10 folds for each of 20 candidates, totalling 200 fits
50 +[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
51 +[CV] c1=1.31221984858164, c2=0.02750876882572302, score=0.612088 - 1.6s
52 +[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
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332 +[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
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414 +[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
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416 +[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
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418 +[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
419 +[CV] c1=0.33946363371240573, c2=0.06622555496570426, score=0.884921 - 1.1s
420 +[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
421 +[CV] c1=1.31221984858164, c2=0.02750876882572302, score=0.801309 - 1.4s
422 +[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
423 +[CV] c1=0.22410917154971952, c2=0.0741115060611966, score=0.931991 - 1.5s
424 +[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
425 +[CV] c1=0.3711464209171215, c2=0.026426512830792455, score=0.712169 - 1.6s
426 +[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
427 +[CV] c1=1.7997186106473309, c2=0.0754349182496969, score=0.774478 - 1.7s
428 +[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
429 +[CV] c1=0.33946363371240573, c2=0.06622555496570426, score=0.913784 - 1.2s
430 +Training done in: 10.202275s
431 + Saving training model...
432 + Saving training model done in: 0.014887s
433 +*********************************
434 +Prediction done in: 0.043297s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: False True
8 -Report file: _v2
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003552s
15 --------------------------------- FEATURES --------------------------------
16 ---------------------------Features Training ---------------------------
17 - 0 1
18 -0 lemma 1
19 -1 postag CD
20 -2 -1:lemma pq
21 -3 -1:postag NN
22 -4 word 1
23 -5 isUpper False
24 -6 isLower False
25 -7 isGreek False
26 -8 isNumber True
27 -9 -1:word PQ
28 -10 -2:lemma δsoxs
29 -11 -2:postag NN
30 ---------------------------- FeaturesTest -----------------------------
31 - 0 1
32 -0 lemma delta-fnr
33 -1 postag NN
34 -2 -1:lemma _
35 -3 -1:postag NN
36 -4 +1:lemma _
37 -5 +1:postag CD
38 -6 word delta-fnr
39 -7 isUpper False
40 -8 isLower True
41 -9 isGreek False
42 -10 isNumber False
43 -11 -1:word _
44 -12 +1:word _
45 -13 -2:lemma affyexp
46 -14 -2:postag JJ
47 -15 +2:lemma glucose
48 -16 +2:postag NN
49 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
50 -[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
51 -[CV] c1=0.17002935344175654, c2=0.03048089985747861, score=0.930099 - 1.6s
52 -[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
53 -[CV] c1=0.4722267453140106, c2=0.001685255428968536, score=0.909545 - 1.9s
54 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
55 -[CV] c1=0.038297678976678046, c2=0.1916126137406044, score=0.636866 - 1.5s
56 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
57 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506, score=0.766937 - 1.6s
58 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
59 -[CV] c1=0.7316013853643798, c2=0.25017196058094404, score=0.619815 - 1.4s
60 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
61 -[CV] c1=0.7934403590252077, c2=0.010140047052715413, score=0.751476 - 1.6s
62 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
63 -[CV] c1=1.2484765854262996, c2=0.03066474574094165, score=0.724597 - 1.5s
64 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
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66 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
67 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506, score=0.850760 - 1.6s
68 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
69 -[CV] c1=0.16521043789445478, c2=0.12734995352729425, score=0.930099 - 1.6s
70 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
71 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.614273 - 1.2s
72 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
73 -[CV] c1=1.2484765854262996, c2=0.03066474574094165, score=0.630631 - 1.3s
74 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
75 -[CV] c1=0.038297678976678046, c2=0.1916126137406044, score=0.893154 - 1.7s
76 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
77 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506, score=0.906170 - 1.6s
78 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
79 -[CV] c1=0.7316013853643798, c2=0.25017196058094404, score=0.849859 - 1.5s
80 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
81 -[CV] c1=0.7934403590252077, c2=0.010140047052715413, score=0.711614 - 1.6s
82 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
83 -[CV] c1=1.2484765854262996, c2=0.03066474574094165, score=0.711518 - 1.6s
84 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
85 -[CV] c1=0.038297678976678046, c2=0.1916126137406044, score=0.930099 - 1.7s
86 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
87 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506, score=0.686192 - 1.4s
88 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
89 -[CV] c1=0.7316013853643798, c2=0.25017196058094404, score=0.856270 - 1.5s
90 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
91 -[CV] c1=0.7934403590252077, c2=0.010140047052715413, score=0.874769 - 1.7s
92 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
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94 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
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96 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
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98 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
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100 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
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102 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
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104 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
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106 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
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108 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
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110 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
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112 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
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114 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
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116 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
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118 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
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120 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
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122 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
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124 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
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128 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
129 -[CV] c1=0.16521043789445478, c2=0.12734995352729425, score=0.771474 - 1.7s
130 -[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
131 -[CV] c1=0.19372696796129896, c2=0.018101673564889433, score=0.660529 - 1.5s
132 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
133 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.675493 - 1.3s
134 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
135 -[CV] c1=0.038297678976678046, c2=0.1916126137406044, score=0.624751 - 1.4s
136 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
137 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506, score=0.883871 - 1.8s
138 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
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140 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
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142 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
143 -[CV] c1=1.2484765854262996, c2=0.03066474574094165, score=0.862223 - 1.5s
144 -[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
145 -[CV] c1=0.038297678976678046, c2=0.1916126137406044, score=0.895358 - 1.8s
146 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
147 -[CV] c1=0.22369184983412724, c2=0.0039152206686826506, score=0.791491 - 1.8s
148 -[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
149 -[CV] c1=0.14528662487494648, c2=0.20027010511973786, score=0.636866 - 1.5s
150 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
151 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.765174 - 1.6s
152 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
153 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.737002 - 1.5s
154 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
155 -[CV] c1=0.22991065454519655, c2=0.05704963083080379, score=0.760794 - 1.6s
156 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
157 -[CV] c1=0.34336652460986966, c2=0.023606219975479584, score=0.677691 - 1.5s
158 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
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160 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
161 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.860074 - 1.5s
162 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
163 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.677691 - 1.7s
164 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
165 -[CV] c1=0.22991065454519655, c2=0.05704963083080379, score=0.883871 - 1.7s
166 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
167 -[CV] c1=0.34336652460986966, c2=0.023606219975479584, score=0.846366 - 1.3s
168 -[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
169 -[CV] c1=0.17002935344175654, c2=0.03048089985747861, score=0.766937 - 1.6s
170 -[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
171 -[CV] c1=0.19372696796129896, c2=0.018101673564889433, score=0.690019 - 1.3s
172 -[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
173 -[CV] c1=0.23396239601478247, c2=0.021554630281339932, score=0.883871 - 1.6s
174 -[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
175 -[CV] c1=1.1131285560759827, c2=0.0789492952007081, score=0.664382 - 1.4s
176 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
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178 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
179 -[CV] c1=0.16521043789445478, c2=0.12734995352729425, score=0.879541 - 1.6s
180 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
181 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.943287 - 1.7s
182 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
183 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.783286 - 1.6s
184 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
185 -[CV] c1=0.22991065454519655, c2=0.05704963083080379, score=0.846366 - 1.7s
186 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
187 -[CV] c1=0.34336652460986966, c2=0.023606219975479584, score=0.695227 - 1.3s
188 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
189 -[CV] c1=0.16521043789445478, c2=0.12734995352729425, score=0.743170 - 1.5s
190 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
191 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.693874 - 1.6s
192 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
193 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.863221 - 1.7s
194 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
195 -[CV] c1=0.22991065454519655, c2=0.05704963083080379, score=0.769218 - 1.6s
196 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
197 -[CV] c1=0.34336652460986966, c2=0.023606219975479584, score=0.878755 - 1.6s
198 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
199 -[CV] c1=0.7316013853643798, c2=0.25017196058094404, score=0.737812 - 1.4s
200 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
201 -[CV] c1=0.7934403590252077, c2=0.010140047052715413, score=0.868659 - 1.8s
202 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
203 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.742545 - 1.7s
204 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
205 -[CV] c1=0.22991065454519655, c2=0.05704963083080379, score=0.879541 - 1.7s
206 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
207 -[CV] c1=0.34336652460986966, c2=0.023606219975479584, score=0.791976 - 1.7s
208 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
209 -[CV] c1=0.16521043789445478, c2=0.12734995352729425, score=0.636866 - 1.4s
210 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
211 -[CV] c1=0.7934403590252077, c2=0.010140047052715413, score=0.909545 - 1.5s
212 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
213 -[CV] c1=1.2484765854262996, c2=0.03066474574094165, score=0.879280 - 1.7s
214 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
215 -[CV] c1=0.22991065454519655, c2=0.05704963083080379, score=0.761026 - 1.8s
216 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
217 -[CV] c1=0.34336652460986966, c2=0.023606219975479584, score=0.879541 - 1.6s
218 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
219 -[CV] c1=0.7316013853643798, c2=0.25017196058094404, score=0.832898 - 1.5s
220 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
221 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.792472 - 1.7s
222 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
223 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.892392 - 1.8s
224 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
225 -[CV] c1=0.22991065454519655, c2=0.05704963083080379, score=0.640002 - 1.5s
226 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
227 -[CV] c1=0.34336652460986966, c2=0.023606219975479584, score=0.900725 - 1.6s
228 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
229 -[CV] c1=0.16521043789445478, c2=0.12734995352729425, score=0.654103 - 1.4s
230 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
231 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.883871 - 1.6s
232 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
233 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.870647 - 1.5s
234 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
235 -[CV] c1=0.22991065454519655, c2=0.05704963083080379, score=0.660529 - 1.8s
236 -[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
237 -[CV] c1=0.34336652460986966, c2=0.023606219975479584, score=0.804911 - 1.5s
238 -[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
239 -[CV] c1=0.14528662487494648, c2=0.20027010511973786, score=0.660149 - 1.3s
240 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
241 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.747948 - 1.6s
242 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
243 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.809792 - 1.7s
244 -[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
245 -[CV] c1=1.1131285560759827, c2=0.0789492952007081, score=0.709002 - 1.6s
246 -[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
247 -[CV] c1=0.13789575918935962, c2=0.21129423093936495, score=0.636866 - 1.3s
248 -[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
249 -[CV] c1=0.14528662487494648, c2=0.20027010511973786, score=0.896702 - 1.6s
250 -[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
251 -[CV] c1=0.19372696796129896, c2=0.018101673564889433, score=0.860074 - 1.6s
252 -[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
253 -[CV] c1=0.23396239601478247, c2=0.021554630281339932, score=0.879541 - 1.8s
254 -[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
255 -[CV] c1=1.1131285560759827, c2=0.0789492952007081, score=0.851866 - 1.3s
256 -[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
257 -[CV] c1=0.13789575918935962, c2=0.21129423093936495, score=0.732991 - 1.4s
258 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
259 -[CV] c1=0.16521043789445478, c2=0.12734995352729425, score=0.832898 - 1.6s
260 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
261 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383, score=0.846366 - 1.6s
262 -[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
263 -[CV] c1=0.5210224789278901, c2=0.006751538594354206, score=0.925309 - 1.5s
264 -[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
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330 -[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
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332 -[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
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334 -[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
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336 -[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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338 -[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
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340 -[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
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342 -[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
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344 -[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
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346 -[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
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348 -[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
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350 -[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
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352 -[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
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354 -[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
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356 -[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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358 -[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
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360 -[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
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362 -[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
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364 -[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
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366 -[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
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368 -[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
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370 -[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
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372 -[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
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374 -[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
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376 -[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
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378 -[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
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380 -[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
381 -[CV] c1=0.4722267453140106, c2=0.001685255428968536, score=0.742545 - 1.7s
382 -[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
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384 -[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
385 -[CV] c1=0.14069682863299926, c2=0.024714016482769777, score=0.788778 - 1.8s
386 -[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
387 -[CV] c1=0.4862974700385636, c2=0.028075320941336974, score=0.783286 - 1.3s
388 -[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
389 -[CV] c1=0.17002935344175654, c2=0.03048089985747861, score=0.771474 - 1.6s
390 -[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
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392 -[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
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394 -[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
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396 -[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
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400 -[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
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402 -[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
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404 -[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
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406 -[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
407 -[CV] c1=0.4862974700385636, c2=0.028075320941336974, score=0.891002 - 1.4s
408 -[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
409 -[CV] c1=0.7316013853643798, c2=0.25017196058094404, score=0.613639 - 1.3s
410 -[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
411 -[CV] c1=0.7934403590252077, c2=0.010140047052715413, score=0.664382 - 1.4s
412 -[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
413 -[CV] c1=1.2484765854262996, c2=0.03066474574094165, score=0.709002 - 1.6s
414 -[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
415 -[CV] c1=1.4620038736037526, c2=0.04868337460924114, score=0.568876 - 1.3s
416 -[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
417 -[CV] c1=0.14069682863299926, c2=0.024714016482769777, score=0.883871 - 1.9s
418 -[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
419 -[CV] c1=0.4862974700385636, c2=0.028075320941336974, score=0.906931 - 1.2s
420 -[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
421 -[CV] c1=0.14528662487494648, c2=0.20027010511973786, score=0.879541 - 1.9s
422 -[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
423 -[CV] c1=0.4722267453140106, c2=0.001685255428968536, score=0.871207 - 1.7s
424 -[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
425 -[CV] c1=1.4620038736037526, c2=0.04868337460924114, score=0.803851 - 1.8s
426 -[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
427 -[CV] c1=0.14069682863299926, c2=0.024714016482769777, score=0.697441 - 1.3s
428 -[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
429 -[CV] c1=0.4862974700385636, c2=0.028075320941336974, score=0.871207 - 1.4s
430 -Training done in: 10.702919s
431 - Saving training model...
432 - Saving training model done in: 0.013511s
433 -*********************************
434 -Prediction done in: 0.037534s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: True True
8 -Report file: _v9
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003941s
15 -{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
16 -{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
17 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
18 -[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
19 -[CV] c1=0.6805169695271499, c2=0.059941860636124, score=0.739174 - 1.1s
20 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
21 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.867500 - 1.2s
22 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
23 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.883871 - 1.2s
24 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
25 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.682045 - 1.3s
26 -[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
27 -[CV] c1=0.3610226719997963, c2=0.029611486118589044, score=0.592237 - 0.8s
28 -[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
29 -[CV] c1=0.0893601644204355, c2=0.024019081127496116, score=0.674776 - 1.0s
30 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
31 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.861398 - 1.1s
32 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
33 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.592237 - 0.9s
34 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
35 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.747150 - 1.4s
36 -[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
37 -[CV] c1=0.3610226719997963, c2=0.029611486118589044, score=0.679766 - 0.8s
38 -[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
39 -[CV] c1=0.0893601644204355, c2=0.024019081127496116, score=0.713945 - 1.1s
40 -[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
41 -[CV] c1=0.2107941425103855, c2=0.07645318409354064, score=0.713945 - 1.2s
42 -[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
43 -[CV] c1=0.43870196113001303, c2=0.10254088863167253, score=0.632439 - 1.0s
44 -[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
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48 -[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
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52 -[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
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58 -[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
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66 -[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
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68 -[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
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82 -[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
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84 -[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
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86 -[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
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88 -[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
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131 -[CV] c1=0.6067183285356851, c2=0.02508677467384688, score=0.860755 - 1.1s
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144 -[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
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148 -[CV] c1=0.1827955499307428, c2=0.002673779161901005 ..................
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150 -[CV] c1=0.010916997872083896, c2=0.01703042309947876 .................
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153 -[CV] c1=0.11923109411090525, c2=0.08712148554319654, score=0.920970 - 1.0s
154 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
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156 -[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
157 -[CV] c1=0.3610226719997963, c2=0.029611486118589044, score=0.721334 - 1.1s
158 -[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
159 -[CV] c1=0.0893601644204355, c2=0.024019081127496116, score=0.866790 - 1.2s
160 -[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
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162 -[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
163 -[CV] c1=0.43870196113001303, c2=0.10254088863167253, score=0.810663 - 1.2s
164 -[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
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166 -[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
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168 -[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
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170 -[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
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172 -[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
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174 -[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
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176 -[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
177 -[CV] c1=0.14547316667964716, c2=0.04275866782811716, score=0.600487 - 1.1s
178 -[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
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180 -[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
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182 -[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
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184 -[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
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186 -[CV] c1=0.005890787510878062, c2=0.06901405430753309 .................
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188 -[CV] c1=0.1827955499307428, c2=0.002673779161901005 ..................
189 -[CV] c1=0.1827955499307428, c2=0.002673779161901005, score=0.641268 - 0.9s
190 -[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
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192 -[CV] c1=0.11923109411090525, c2=0.08712148554319654 ..................
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194 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
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196 -[CV] c1=0.005890787510878062, c2=0.06901405430753309 .................
197 -[CV] c1=0.005890787510878062, c2=0.06901405430753309, score=0.946561 - 1.1s
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201 -[CV] c1=0.010916997872083896, c2=0.01703042309947876, score=0.866790 - 1.2s
202 -[CV] c1=0.11923109411090525, c2=0.08712148554319654 ..................
203 -[CV] c1=0.11923109411090525, c2=0.08712148554319654, score=0.872031 - 1.1s
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210 -[CV] c1=0.010916997872083896, c2=0.01703042309947876 .................
211 -[CV] c1=0.010916997872083896, c2=0.01703042309947876, score=0.858333 - 1.1s
212 -[CV] c1=0.11923109411090525, c2=0.08712148554319654 ..................
213 -[CV] c1=0.11923109411090525, c2=0.08712148554319654, score=0.864349 - 1.1s
214 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
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216 -[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
217 -[CV] c1=0.14547316667964716, c2=0.04275866782811716, score=0.721334 - 1.3s
218 -[CV] c1=0.1827955499307428, c2=0.002673779161901005 ..................
219 -[CV] c1=0.1827955499307428, c2=0.002673779161901005, score=0.674776 - 1.1s
220 -[CV] c1=0.010916997872083896, c2=0.01703042309947876 .................
221 -[CV] c1=0.010916997872083896, c2=0.01703042309947876, score=0.727470 - 1.2s
222 -[CV] c1=0.11923109411090525, c2=0.08712148554319654 ..................
223 -[CV] c1=0.11923109411090525, c2=0.08712148554319654, score=0.652192 - 1.1s
224 -[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
225 -[CV] c1=0.48934294075061485, c2=0.059643580535587194, score=0.899703 - 1.2s
226 -[CV] c1=0.005890787510878062, c2=0.06901405430753309 .................
227 -[CV] c1=0.005890787510878062, c2=0.06901405430753309, score=0.775757 - 1.2s
228 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
229 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.654823 - 1.1s
230 -[CV] c1=0.010916997872083896, c2=0.01703042309947876 .................
231 -[CV] c1=0.010916997872083896, c2=0.01703042309947876, score=0.608985 - 1.0s
232 -[CV] c1=0.11923109411090525, c2=0.08712148554319654 ..................
233 -[CV] c1=0.11923109411090525, c2=0.08712148554319654, score=0.866790 - 1.1s
234 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
235 -[CV] c1=1.5310724688252555, c2=0.007849882070317076, score=0.744499 - 1.0s
236 -[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
237 -[CV] c1=0.6805169695271499, c2=0.059941860636124, score=0.659121 - 1.1s
238 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
239 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.727470 - 1.1s
240 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
241 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.724515 - 1.1s
242 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
243 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.659121 - 1.0s
244 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
245 -[CV] c1=1.5310724688252555, c2=0.007849882070317076, score=0.843581 - 1.0s
246 -[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
247 -[CV] c1=0.3610226719997963, c2=0.029611486118589044, score=0.899703 - 1.3s
248 -[CV] c1=0.1827955499307428, c2=0.002673779161901005 ..................
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250 -[CV] c1=0.010916997872083896, c2=0.01703042309947876 .................
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252 -[CV] c1=0.11923109411090525, c2=0.08712148554319654 ..................
253 -[CV] c1=0.11923109411090525, c2=0.08712148554319654, score=0.608719 - 0.9s
254 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
255 -[CV] c1=1.5310724688252555, c2=0.007849882070317076, score=0.643620 - 1.2s
256 -[CV] c1=0.005890787510878062, c2=0.06901405430753309 .................
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258 -[CV] c1=0.1827955499307428, c2=0.002673779161901005 ..................
259 -[CV] c1=0.1827955499307428, c2=0.002673779161901005, score=0.924594 - 1.2s
260 -[CV] c1=0.010916997872083896, c2=0.01703042309947876 .................
261 -[CV] c1=0.010916997872083896, c2=0.01703042309947876, score=0.895411 - 1.1s
262 -[CV] c1=0.11923109411090525, c2=0.08712148554319654 ..................
263 -[CV] c1=0.11923109411090525, c2=0.08712148554319654, score=0.761019 - 1.1s
264 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
265 -[CV] c1=1.5310724688252555, c2=0.007849882070317076, score=0.831084 - 1.0s
266 -[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
267 -[CV] c1=0.6805169695271499, c2=0.059941860636124, score=0.852821 - 1.1s
268 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
269 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.883871 - 1.1s
270 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
271 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.838429 - 1.1s
272 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
273 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.739174 - 1.1s
274 -[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
275 -[CV] c1=0.06371903845172723, c2=0.09382386151498534, score=0.840539 - 0.9s
276 -[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
277 -[CV] c1=0.14547316667964716, c2=0.04275866782811716, score=0.920970 - 1.1s
278 -[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
279 -[CV] c1=0.7907559657386046, c2=0.04221232955070474, score=0.725767 - 1.1s
280 -[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
281 -[CV] c1=0.6067183285356851, c2=0.02508677467384688, score=0.794740 - 1.1s
282 -[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
283 -[CV] c1=0.33894023669353496, c2=0.021885953440521758, score=0.872249 - 1.3s
284 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
285 -[CV] c1=1.5310724688252555, c2=0.007849882070317076, score=0.639214 - 1.1s
286 -[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
287 -[CV] c1=0.3610226719997963, c2=0.029611486118589044, score=0.764863 - 1.1s
288 -[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
289 -[CV] c1=0.0893601644204355, c2=0.024019081127496116, score=0.779725 - 1.1s
290 -[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
291 -[CV] c1=0.2107941425103855, c2=0.07645318409354064, score=0.730124 - 1.2s
292 -[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
293 -[CV] c1=0.33894023669353496, c2=0.021885953440521758, score=0.721334 - 1.2s
294 -[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
295 -[CV] c1=0.48934294075061485, c2=0.059643580535587194, score=0.848001 - 1.3s
296 -[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
297 -[CV] c1=0.14547316667964716, c2=0.04275866782811716, score=0.906853 - 1.1s
298 -[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
299 -[CV] c1=0.7907559657386046, c2=0.04221232955070474, score=0.912680 - 1.1s
300 -[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
301 -[CV] c1=0.6067183285356851, c2=0.02508677467384688, score=0.883954 - 1.1s
302 -[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
303 -[CV] c1=0.33894023669353496, c2=0.021885953440521758, score=0.899703 - 1.1s
304 -[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
305 -[CV] c1=0.48934294075061485, c2=0.059643580535587194, score=0.919762 - 1.3s
306 -[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
307 -[CV] c1=0.14547316667964716, c2=0.04275866782811716, score=0.848001 - 1.2s
308 -[CV] c1=0.1827955499307428, c2=0.002673779161901005 ..................
309 -[CV] c1=0.1827955499307428, c2=0.002673779161901005, score=0.710539 - 1.3s
310 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
311 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.679766 - 1.1s
312 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
313 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.712255 - 1.1s
314 -[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
315 -[CV] c1=0.06371903845172723, c2=0.09382386151498534, score=0.720311 - 0.9s
316 -[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
317 -[CV] c1=0.14547316667964716, c2=0.04275866782811716, score=0.838429 - 1.0s
318 -[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
319 -[CV] c1=0.7907559657386046, c2=0.04221232955070474, score=0.687750 - 1.3s
320 -[CV] c1=0.010916997872083896, c2=0.01703042309947876 .................
321 -[CV] c1=0.010916997872083896, c2=0.01703042309947876, score=0.935386 - 1.2s
322 -[CV] c1=0.11923109411090525, c2=0.08712148554319654 ..................
323 -[CV] c1=0.11923109411090525, c2=0.08712148554319654, score=0.730124 - 1.1s
324 -[CV] c1=1.5310724688252555, c2=0.007849882070317076 ..................
325 -[CV] c1=1.5310724688252555, c2=0.007849882070317076, score=0.672745 - 1.1s
326 -[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
327 -[CV] c1=0.3610226719997963, c2=0.029611486118589044, score=0.841313 - 1.1s
328 -[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
329 -[CV] c1=0.0893601644204355, c2=0.024019081127496116, score=0.920970 - 1.1s
330 -[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
331 -[CV] c1=0.6067183285356851, c2=0.02508677467384688, score=0.704526 - 1.2s
332 -[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
333 -[CV] c1=0.33894023669353496, c2=0.021885953440521758, score=0.920970 - 1.1s
334 -[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
335 -[CV] c1=0.48934294075061485, c2=0.059643580535587194, score=0.852821 - 1.4s
336 -[CV] c1=0.005890787510878062, c2=0.06901405430753309 .................
337 -[CV] c1=0.005890787510878062, c2=0.06901405430753309, score=0.607039 - 0.9s
338 -[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
339 -[CV] c1=0.7907559657386046, c2=0.04221232955070474, score=0.737619 - 1.1s
340 -[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
341 -[CV] c1=0.6067183285356851, c2=0.02508677467384688, score=0.761818 - 1.1s
342 -[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
343 -[CV] c1=0.43870196113001303, c2=0.10254088863167253, score=0.562376 - 0.9s
344 -[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
345 -[CV] c1=0.4124010091584731, c2=0.03226124445670804, score=0.784950 - 0.9s
346 -[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
347 -[CV] c1=0.06371903845172723, c2=0.09382386151498534, score=0.607039 - 0.7s
348 -[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
349 -[CV] c1=0.6805169695271499, c2=0.059941860636124, score=0.747150 - 1.1s
350 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
351 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.687454 - 1.1s
352 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
353 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.935386 - 1.1s
354 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
355 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.852821 - 1.1s
356 -[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
357 -[CV] c1=0.06371903845172723, c2=0.09382386151498534, score=0.660510 - 0.9s
358 -[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
359 -[CV] c1=0.6805169695271499, c2=0.059941860636124, score=0.912680 - 1.4s
360 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
361 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.608985 - 1.0s
362 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
363 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.923613 - 1.2s
364 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
365 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.878327 - 1.1s
366 -[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
367 -[CV] c1=0.06371903845172723, c2=0.09382386151498534, score=0.775757 - 0.9s
368 -[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
369 -[CV] c1=0.6805169695271499, c2=0.059941860636124, score=0.578486 - 1.1s
370 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
371 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.902145 - 1.2s
372 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
373 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.920970 - 1.3s
374 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
375 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.578486 - 0.9s
376 -[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
377 -[CV] c1=0.06371903845172723, c2=0.09382386151498534, score=0.866790 - 1.0s
378 -[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
379 -[CV] c1=0.6805169695271499, c2=0.059941860636124, score=0.794740 - 1.1s
380 -[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
381 -[CV] c1=0.002248053678487388, c2=0.022468299598165514, score=0.935386 - 1.2s
382 -[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
383 -[CV] c1=0.11105424454358216, c2=0.015741660010216145, score=0.741434 - 1.1s
384 -[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
385 -[CV] c1=0.6648810381927359, c2=0.08001031738332513, score=0.794740 - 1.1s
386 -[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
387 -[CV] c1=0.06371903845172723, c2=0.09382386151498534, score=0.881938 - 1.0s
388 -Training done in: 7.467291s
389 - Saving training model...
390 - Saving training model done in: 0.015227s
391 -*********************************
392 -Prediction done in: 0.026117s
1 +-------------------------------- PARAMETERS --------------------------------
2 +Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 +File with training data set: training-data-set-70.txt
4 +Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 +File with test data set: test-data-set-30.txt
6 +Exclude stop words: False
7 +Levels: True True
8 +Report file: _v11
9 +Exclude symbols: False
10 +-------------------------------- PROCESSING --------------------------------
11 +Reading corpus...
12 + Sentences training data: 286
13 + Sentences test data: 123
14 +Reading corpus done in: 0.003623s
15 +-------------------------------- FEATURES --------------------------------
16 +--------------------------Features Training ---------------------------
17 + 0 1
18 +0 lemma 2
19 +1 postag CD
20 +2 -1:lemma fructose
21 +3 -1:postag NN
22 +4 hUpper False
23 +5 hLower False
24 +6 hGreek False
25 +7 symb False
26 +8 lemma[:1] 2
27 +9 postag[:1] C
28 +10 postag[:2] CD
29 +11 word 2
30 +12 isUpper False
31 +13 isLower False
32 +14 isGreek False
33 +15 isNumber True
34 +16 -1:word fructose
35 +17 -2:lemma Cra
36 +18 -2:postag NNP
37 +--------------------------- FeaturesTest -----------------------------
38 + 0 1
39 +0 lemma delta-arca
40 +1 postag NN
41 +2 -1:lemma _
42 +3 -1:postag NN
43 +4 +1:lemma _
44 +5 +1:postag CD
45 +6 hUpper True
46 +7 hLower True
47 +8 hGreek False
48 +9 symb True
49 +10 lemma[:1] d
50 +11 postag[:1] N
51 +12 lemma[:2] de
52 +13 postag[:2] NN
53 +14 word delta-arcA
54 +15 isUpper False
55 +16 isLower False
56 +17 isGreek False
57 +18 isNumber False
58 +19 -1:word _
59 +20 +1:word _
60 +21 -2:lemma affyexp
61 +22 -2:postag JJ
62 +23 +2:lemma glucose
63 +24 +2:postag NN
64 +Fitting 10 folds for each of 20 candidates, totalling 200 fits
65 +[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
66 +[CV] c1=0.019077332979171517, c2=0.03842571004062146, score=0.886214 - 1.6s
67 +[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
68 +[CV] c1=0.037354859851607435, c2=0.07305354899253944, score=0.877424 - 1.7s
69 +[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
70 +[CV] c1=1.3925811330953486, c2=0.01587323954257908, score=0.917614 - 1.9s
71 +[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
72 +[CV] c1=0.23763693406252395, c2=0.15562360351028884, score=0.901459 - 1.8s
73 +[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
74 +[CV] c1=0.3528158466716618, c2=0.02622785537868205, score=0.917472 - 1.7s
75 +[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
76 +[CV] c1=0.005630188558136274, c2=0.0901354093196231, score=0.886214 - 1.7s
77 +[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
78 +[CV] c1=0.34832253122622947, c2=0.0024260335577202747, score=0.927028 - 2.0s
79 +[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
80 +[CV] c1=1.3925811330953486, c2=0.01587323954257908, score=0.897464 - 1.8s
81 +[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
82 +[CV] c1=0.23763693406252395, c2=0.15562360351028884, score=0.807866 - 2.0s
83 +[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
84 +[CV] c1=0.3528158466716618, c2=0.02622785537868205, score=0.872077 - 1.9s
85 +[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
86 +[CV] c1=0.019077332979171517, c2=0.03842571004062146, score=0.864462 - 1.7s
87 +[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
88 +[CV] c1=0.037354859851607435, c2=0.07305354899253944, score=0.927296 - 1.7s
89 +[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
90 +[CV] c1=1.6782438716438826, c2=0.005852028918477585, score=0.617405 - 1.9s
91 +[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
92 +[CV] c1=1.448745475188601, c2=0.026142389740376516, score=0.777170 - 1.3s
93 +[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
94 +[CV] c1=0.3528158466716618, c2=0.02622785537868205, score=0.819428 - 1.9s
95 +[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
96 +[CV] c1=0.23410168766018233, c2=0.007576332674008764, score=0.826964 - 1.7s
97 +[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
98 +[CV] c1=0.9295470777582396, c2=0.06136448305133849, score=0.857436 - 1.7s
99 +[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
100 +[CV] c1=1.6782438716438826, c2=0.005852028918477585, score=0.759234 - 1.7s
101 +[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
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302 +[CV] c1=0.46546093853678977, c2=0.10881019404335167, score=0.824101 - 1.6s
303 +[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
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305 +[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
306 +[CV] c1=0.05139054695837179, c2=0.0988983229417386, score=0.876720 - 1.7s
307 +[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
308 +[CV] c1=0.42695722657704505, c2=0.061285485086823, score=0.888955 - 1.8s
309 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
310 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885, score=0.871106 - 1.9s
311 +[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
312 +[CV] c1=0.46546093853678977, c2=0.10881019404335167, score=0.950725 - 1.8s
313 +[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
314 +[CV] c1=0.019077332979171517, c2=0.03842571004062146, score=0.871039 - 1.9s
315 +[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
316 +[CV] c1=0.037354859851607435, c2=0.07305354899253944, score=0.834436 - 1.9s
317 +[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
318 +[CV] c1=1.6782438716438826, c2=0.005852028918477585, score=0.912553 - 2.2s
319 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
320 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885, score=0.798097 - 2.2s
321 +[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
322 +[CV] c1=0.46546093853678977, c2=0.10881019404335167, score=0.892309 - 1.7s
323 +[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
324 +[CV] c1=0.23410168766018233, c2=0.007576332674008764, score=0.908709 - 2.0s
325 +[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
326 +[CV] c1=0.05139054695837179, c2=0.0988983229417386, score=0.694284 - 1.7s
327 +[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
328 +[CV] c1=0.42695722657704505, c2=0.061285485086823, score=0.824101 - 1.8s
329 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
330 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885, score=0.877726 - 1.7s
331 +[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
332 +[CV] c1=0.46546093853678977, c2=0.10881019404335167, score=0.702779 - 1.8s
333 +[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
334 +[CV] c1=0.6426016214333032, c2=0.013291072696330009, score=0.816898 - 1.8s
335 +[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
336 +[CV] c1=0.05139054695837179, c2=0.0988983229417386, score=0.855584 - 1.9s
337 +[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
338 +[CV] c1=0.7425928083768661, c2=0.07211893896234671, score=0.818750 - 2.0s
339 +[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
340 +[CV] c1=1.5389567508867608, c2=0.0341172934690459, score=0.897464 - 1.8s
341 +[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
342 +[CV] c1=0.04223966754804299, c2=0.014836666503726496, score=0.875354 - 1.5s
343 +[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
344 +[CV] c1=0.6426016214333032, c2=0.013291072696330009, score=0.818750 - 1.9s
345 +[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
346 +[CV] c1=0.9295470777582396, c2=0.06136448305133849, score=0.908266 - 1.9s
347 +[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
348 +[CV] c1=0.42695722657704505, c2=0.061285485086823, score=0.798342 - 2.1s
349 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
350 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885, score=0.824101 - 2.0s
351 +[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
352 +[CV] c1=0.46546093853678977, c2=0.10881019404335167, score=0.933350 - 1.7s
353 +[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
354 +[CV] c1=0.6426016214333032, c2=0.013291072696330009, score=0.946646 - 1.8s
355 +[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
356 +[CV] c1=0.9295470777582396, c2=0.06136448305133849, score=0.932900 - 2.1s
357 +[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
358 +[CV] c1=0.7425928083768661, c2=0.07211893896234671, score=0.632413 - 1.9s
359 +[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
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361 +[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
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363 +[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
364 +[CV] c1=0.23410168766018233, c2=0.007576332674008764, score=0.708949 - 2.0s
365 +[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
366 +[CV] c1=0.05139054695837179, c2=0.0988983229417386, score=0.844415 - 2.0s
367 +[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
368 +[CV] c1=0.7425928083768661, c2=0.07211893896234671, score=0.862659 - 2.0s
369 +[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
370 +[CV] c1=1.5389567508867608, c2=0.0341172934690459, score=0.912553 - 2.1s
371 +[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
372 +[CV] c1=0.04223966754804299, c2=0.014836666503726496, score=0.864462 - 1.3s
373 +[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
374 +[CV] c1=0.23410168766018233, c2=0.007576332674008764, score=0.916643 - 1.8s
375 +[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
376 +[CV] c1=0.05139054695837179, c2=0.0988983229417386, score=0.950946 - 1.9s
377 +[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
378 +[CV] c1=0.7425928083768661, c2=0.07211893896234671, score=0.936486 - 2.0s
379 +[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
380 +[CV] c1=1.5389567508867608, c2=0.0341172934690459, score=0.759234 - 1.8s
381 +[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
382 +[CV] c1=0.04223966754804299, c2=0.014836666503726496, score=0.909996 - 1.4s
383 +[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
384 +[CV] c1=0.6426016214333032, c2=0.013291072696330009, score=0.843153 - 1.6s
385 +[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
386 +[CV] c1=0.037354859851607435, c2=0.07305354899253944, score=0.694284 - 1.8s
387 +[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
388 +[CV] c1=1.6782438716438826, c2=0.005852028918477585, score=0.750445 - 1.6s
389 +[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
390 +[CV] c1=0.23763693406252395, c2=0.15562360351028884, score=0.701018 - 1.9s
391 +[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
392 +[CV] c1=0.3528158466716618, c2=0.02622785537868205, score=0.813790 - 1.8s
393 +[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
394 +[CV] c1=0.04223966754804299, c2=0.014836666503726496, score=0.939823 - 1.3s
395 +[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
396 +[CV] c1=0.23410168766018233, c2=0.007576332674008764, score=0.921722 - 1.9s
397 +[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
398 +[CV] c1=0.05139054695837179, c2=0.0988983229417386, score=0.945871 - 1.8s
399 +[CV] c1=0.7425928083768661, c2=0.07211893896234671 ...................
400 +[CV] c1=0.7425928083768661, c2=0.07211893896234671, score=0.815896 - 1.9s
401 +[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
402 +[CV] c1=1.5389567508867608, c2=0.0341172934690459, score=0.798512 - 1.8s
403 +[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
404 +[CV] c1=0.04223966754804299, c2=0.014836666503726496, score=0.888272 - 1.5s
405 +[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
406 +[CV] c1=0.019077332979171517, c2=0.03842571004062146, score=0.945871 - 1.8s
407 +[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
408 +[CV] c1=0.9295470777582396, c2=0.06136448305133849, score=0.744355 - 2.1s
409 +[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
410 +[CV] c1=0.42695722657704505, c2=0.061285485086823, score=0.950725 - 2.0s
411 +[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
412 +[CV] c1=1.5389567508867608, c2=0.0341172934690459, score=0.745317 - 2.1s
413 +[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
414 +[CV] c1=0.04223966754804299, c2=0.014836666503726496, score=0.832180 - 1.5s
415 +[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
416 +[CV] c1=0.23410168766018233, c2=0.007576332674008764, score=0.872077 - 1.9s
417 +[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
418 +[CV] c1=0.05139054695837179, c2=0.0988983229417386, score=0.927296 - 1.6s
419 +[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
420 +[CV] c1=0.42695722657704505, c2=0.061285485086823, score=0.923585 - 1.9s
421 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
422 +[CV] c1=0.6285063975967342, c2=0.00047708053019435885, score=0.923585 - 2.0s
423 +[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
424 +[CV] c1=0.04223966754804299, c2=0.014836666503726496, score=0.870571 - 1.7s
425 +Training done in: 12.658946s
426 + Saving training model...
427 + Saving training model done in: 0.013450s
428 +*********************************
429 +Prediction done in: 0.050529s
1 --------------------------------- PARAMETERS --------------------------------
2 -Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
3 -File with training data set: training-data-set-70_v4.txt
4 -Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
5 -File with test data set: test-data-set-30_v4.txt
6 -Exclude stop words: False
7 -Levels: True True
8 -Report file: _v2
9 -Exclude symbols: False
10 --------------------------------- PROCESSING --------------------------------
11 -Reading corpus...
12 - Sentences training data: 283
13 - Sentences test data: 122
14 -Reading corpus done in: 0.003745s
15 --------------------------------- FEATURES --------------------------------
16 ---------------------------Features Training ---------------------------
17 - 0 1
18 -0 lemma 1
19 -1 postag CD
20 -2 -1:lemma pq
21 -3 -1:postag NN
22 -4 hUpper False
23 -5 hLower False
24 -6 hGreek False
25 -7 symb False
26 -8 word[:1] 1
27 -9 word 1
28 -10 isUpper False
29 -11 isLower False
30 -12 isGreek False
31 -13 isNumber True
32 -14 -1:word PQ
33 -15 -2:lemma δsoxs
34 -16 -2:postag NN
35 ---------------------------- FeaturesTest -----------------------------
36 - 0 1
37 -0 lemma delta-fnr
38 -1 postag NN
39 -2 -1:lemma _
40 -3 -1:postag NN
41 -4 +1:lemma _
42 -5 +1:postag CD
43 -6 hUpper False
44 -7 hLower False
45 -8 hGreek False
46 -9 symb True
47 -10 word[:1] d
48 -11 word[:2] de
49 -12 word delta-fnr
50 -13 isUpper False
51 -14 isLower True
52 -15 isGreek False
53 -16 isNumber False
54 -17 -1:word _
55 -18 +1:word _
56 -19 -2:lemma affyexp
57 -20 -2:postag JJ
58 -21 +2:lemma glucose
59 -22 +2:postag NN
60 -Fitting 10 folds for each of 20 candidates, totalling 200 fits
61 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
62 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.860686 - 1.4s
63 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
64 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.856606 - 2.1s
65 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
66 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.860686 - 1.6s
67 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
68 -[CV] c1=0.9049035713403341, c2=0.021741456177008588, score=0.711685 - 1.9s
69 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
70 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.918560 - 2.1s
71 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
72 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.715283 - 1.5s
73 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
74 -[CV] c1=0.3286068152393628, c2=0.10962981701798313, score=0.883499 - 1.9s
75 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
76 -[CV] c1=0.6822425755498431, c2=0.020713938001918012, score=0.724487 - 1.9s
77 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
78 -[CV] c1=0.37575104918065877, c2=0.014068909404949474, score=0.680522 - 1.8s
79 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
80 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.697314 - 1.5s
81 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
82 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.860686 - 1.5s
83 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
84 -[CV] c1=0.3286068152393628, c2=0.10962981701798313, score=0.727640 - 2.1s
85 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
86 -[CV] c1=0.6822425755498431, c2=0.020713938001918012, score=0.871735 - 1.7s
87 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
88 -[CV] c1=0.9049035713403341, c2=0.021741456177008588, score=0.722958 - 1.6s
89 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
90 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.860776 - 1.9s
91 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
92 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.795468 - 1.6s
93 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
94 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.759154 - 1.9s
95 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
96 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.855051 - 1.9s
97 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
98 -[CV] c1=0.9049035713403341, c2=0.021741456177008588, score=0.863709 - 1.9s
99 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
100 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.778562 - 1.8s
101 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
102 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.708096 - 1.3s
103 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
104 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.727640 - 1.9s
105 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
106 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.673283 - 2.1s
107 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
108 -[CV] c1=0.9049035713403341, c2=0.021741456177008588, score=0.845435 - 2.0s
109 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
110 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.847925 - 2.1s
111 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
112 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.621599 - 1.6s
113 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
114 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.717756 - 1.7s
115 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
116 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.795468 - 1.8s
117 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
118 -[CV] c1=0.9049035713403341, c2=0.021741456177008588, score=0.801799 - 2.1s
119 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
120 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.779671 - 1.9s
121 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
122 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.961600 - 1.8s
123 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
124 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.933241 - 2.0s
125 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
126 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.706732 - 1.8s
127 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
128 -[CV] c1=0.9049035713403341, c2=0.021741456177008588, score=0.750626 - 1.9s
129 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
130 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.759154 - 1.9s
131 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
132 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.705910 - 1.5s
133 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
134 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.802981 - 1.8s
135 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
136 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.891699 - 2.0s
137 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
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139 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
140 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.933241 - 2.0s
141 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
142 -[CV] c1=0.1380082549956592, c2=0.015618296578657088, score=0.868519 - 1.8s
143 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
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145 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
146 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.790731 - 2.2s
147 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
148 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.667213 - 1.9s
149 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
150 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.906414 - 1.4s
151 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
152 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.860682 - 2.0s
153 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
154 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.917580 - 2.1s
155 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
156 -[CV] c1=0.9049035713403341, c2=0.021741456177008588, score=0.795856 - 1.9s
157 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
158 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.885638 - 2.0s
159 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
160 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.746316 - 1.8s
161 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
162 -[CV] c1=0.3286068152393628, c2=0.10962981701798313, score=0.705446 - 1.7s
163 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
164 -[CV] c1=0.6822425755498431, c2=0.020713938001918012, score=0.885638 - 1.9s
165 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
166 -[CV] c1=0.37575104918065877, c2=0.014068909404949474, score=0.896573 - 1.9s
167 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
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169 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
170 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.732294 - 1.9s
171 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
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173 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
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175 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
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177 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
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179 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
180 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.691162 - 1.6s
181 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
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183 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
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185 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
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187 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
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189 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
190 -[CV] c1=0.1380082549956592, c2=0.015618296578657088, score=0.680522 - 1.6s
191 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
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193 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
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195 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
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197 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
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199 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
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201 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
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203 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
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205 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
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207 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
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209 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
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211 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
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213 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
214 -[CV] c1=0.6822425755498431, c2=0.020713938001918012, score=0.868519 - 1.9s
215 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
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217 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
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219 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
220 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.818747 - 1.8s
221 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
222 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.790731 - 2.0s
223 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
224 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.940922 - 1.9s
225 -[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
226 -[CV] c1=0.9049035713403341, c2=0.021741456177008588, score=0.925895 - 2.4s
227 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
228 -[CV] c1=0.5180245113660787, c2=0.03601101440244791, score=0.759154 - 1.9s
229 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
230 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.902851 - 1.2s
231 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
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233 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
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235 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
236 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.680522 - 1.6s
237 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
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239 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
240 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.673283 - 1.5s
241 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
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243 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
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245 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
246 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.692874 - 1.6s
247 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
248 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.654653 - 1.6s
249 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
250 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.775820 - 1.5s
251 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
252 -[CV] c1=0.1380082549956592, c2=0.015618296578657088, score=0.906414 - 1.8s
253 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
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255 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
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257 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
258 -[CV] c1=0.8844076483955583, c2=0.11585472431298503, score=0.752420 - 1.9s
259 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
260 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.795468 - 1.5s
261 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
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263 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
264 -[CV] c1=0.3286068152393628, c2=0.10962981701798313, score=0.687710 - 2.0s
265 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
266 -[CV] c1=0.6822425755498431, c2=0.020713938001918012, score=0.660536 - 2.0s
267 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
268 -[CV] c1=0.37575104918065877, c2=0.014068909404949474, score=0.891699 - 2.2s
269 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
270 -[CV] c1=0.5180245113660787, c2=0.03601101440244791, score=0.925895 - 1.9s
271 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
272 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.855051 - 1.8s
273 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
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275 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
276 -[CV] c1=0.6822425755498431, c2=0.020713938001918012, score=0.814637 - 2.0s
277 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
278 -[CV] c1=0.37575104918065877, c2=0.014068909404949474, score=0.790731 - 1.9s
279 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
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281 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
282 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.868519 - 1.9s
283 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
284 -[CV] c1=0.06155533734282551, c2=0.11747794204884306, score=0.775820 - 1.9s
285 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
286 -[CV] c1=0.32267196716974095, c2=0.030929293399615435, score=0.710654 - 1.5s
287 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
288 -[CV] c1=0.8844076483955583, c2=0.11585472431298503, score=0.711685 - 1.9s
289 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
290 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.729114 - 1.8s
291 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
292 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.791847 - 1.9s
293 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
294 -[CV] c1=0.3286068152393628, c2=0.10962981701798313, score=0.868519 - 2.0s
295 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
296 -[CV] c1=0.32267196716974095, c2=0.030929293399615435, score=0.872764 - 2.0s
297 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
298 -[CV] c1=0.8844076483955583, c2=0.11585472431298503, score=0.795856 - 1.8s
299 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
300 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.917580 - 1.6s
301 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
302 -[CV] c1=0.1380082549956592, c2=0.015618296578657088, score=0.885770 - 1.9s
303 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
304 -[CV] c1=0.14146941159261275, c2=0.0623745074286256, score=0.784987 - 1.9s
305 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
306 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.860350 - 1.9s
307 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
308 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.817651 - 1.8s
309 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
310 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.657484 - 1.3s
311 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
312 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.741095 - 1.8s
313 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
314 -[CV] c1=0.49898154231973574, c2=0.00020584758644216306, score=0.906753 - 2.0s
315 -[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
316 -[CV] c1=0.16114579362036052, c2=0.09197634743194505, score=0.760655 - 2.3s
317 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
318 -[CV] c1=0.37575104918065877, c2=0.014068909404949474, score=0.732294 - 2.2s
319 -[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
320 -[CV] c1=0.5180245113660787, c2=0.03601101440244791, score=0.732929 - 2.0s
321 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
322 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.876503 - 2.0s
323 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
324 -[CV] c1=0.3286068152393628, c2=0.10962981701798313, score=0.938643 - 2.1s
325 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
326 -[CV] c1=0.32267196716974095, c2=0.030929293399615435, score=0.775858 - 1.9s
327 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
328 -[CV] c1=0.8844076483955583, c2=0.11585472431298503, score=0.693226 - 2.0s
329 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
330 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.940922 - 1.5s
331 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
332 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.664861 - 1.8s
333 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
334 -[CV] c1=0.3286068152393628, c2=0.10962981701798313, score=0.891699 - 2.2s
335 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
336 -[CV] c1=0.6822425755498431, c2=0.020713938001918012, score=0.932866 - 2.0s
337 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
338 -[CV] c1=0.8844076483955583, c2=0.11585472431298503, score=0.836344 - 2.2s
339 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
340 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.705446 - 1.5s
341 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
342 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.775820 - 2.0s
343 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
344 -[CV] c1=0.14146941159261275, c2=0.0623745074286256, score=0.687710 - 2.2s
345 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
346 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.925895 - 2.1s
347 -[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
348 -[CV] c1=0.603209677420507, c2=0.0025056598967555105, score=0.717098 - 1.9s
349 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
350 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.714899 - 1.1s
351 -[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
352 -[CV] c1=0.08997152792208764, c2=0.004363773952774669, score=0.784018 - 2.1s
353 -[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
354 -[CV] c1=0.3286068152393628, c2=0.10962981701798313, score=0.786699 - 2.1s
355 -[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
356 -[CV] c1=0.6822425755498431, c2=0.020713938001918012, score=0.743357 - 1.8s
357 -[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
358 -[CV] c1=0.37575104918065877, c2=0.014068909404949474, score=0.932315 - 2.1s
359 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
360 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.900313 - 1.9s
361 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
362 -[CV] c1=0.1380082549956592, c2=0.015618296578657088, score=0.746614 - 1.9s
363 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
364 -[CV] c1=0.14146941159261275, c2=0.0623745074286256, score=0.947043 - 1.9s
365 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
366 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.868519 - 1.9s
367 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
368 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.760289 - 1.8s
369 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
370 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.802518 - 1.4s
371 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
372 -[CV] c1=0.1380082549956592, c2=0.015618296578657088, score=0.784987 - 1.9s
373 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
374 -[CV] c1=0.14146941159261275, c2=0.0623745074286256, score=0.765357 - 1.8s
375 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
376 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.885638 - 2.0s
377 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
378 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.776993 - 1.8s
379 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
380 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.880312 - 1.6s
381 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
382 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.784987 - 1.8s
383 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
384 -[CV] c1=0.06155533734282551, c2=0.11747794204884306, score=0.891699 - 1.9s
385 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
386 -[CV] c1=0.32267196716974095, c2=0.030929293399615435, score=0.891699 - 1.9s
387 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
388 -[CV] c1=0.8844076483955583, c2=0.11585472431298503, score=0.801799 - 2.0s
389 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
390 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.855051 - 1.7s
391 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
392 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.977820 - 1.9s
393 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
394 -[CV] c1=0.06155533734282551, c2=0.11747794204884306, score=0.947043 - 1.9s
395 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
396 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.717098 - 2.1s
397 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
398 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.880564 - 2.0s
399 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
400 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.751956 - 1.5s
401 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
402 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.891699 - 2.2s
403 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
404 -[CV] c1=0.06155533734282551, c2=0.11747794204884306, score=0.906414 - 2.0s
405 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
406 -[CV] c1=0.32267196716974095, c2=0.030929293399615435, score=0.868519 - 2.0s
407 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
408 -[CV] c1=0.8844076483955583, c2=0.11585472431298503, score=0.718052 - 1.6s
409 -[CV] c1=0.14485727750148428, c2=0.21618502439248377 ..................
410 -[CV] c1=0.14485727750148428, c2=0.21618502439248377, score=0.891699 - 2.1s
411 -[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
412 -[CV] c1=0.05199276558605893, c2=0.0702365499252205, score=0.940922 - 2.1s
413 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
414 -[CV] c1=0.06155533734282551, c2=0.11747794204884306, score=0.795468 - 1.8s
415 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
416 -[CV] c1=0.32267196716974095, c2=0.030929293399615435, score=0.895764 - 2.1s
417 -[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
418 -[CV] c1=0.8844076483955583, c2=0.11585472431298503, score=0.925895 - 2.0s
419 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
420 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.711685 - 1.6s
421 -[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
422 -[CV] c1=0.1380082549956592, c2=0.015618296578657088, score=0.690217 - 1.6s
423 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
424 -[CV] c1=0.14146941159261275, c2=0.0623745074286256, score=0.906414 - 2.0s
425 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
426 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.860614 - 2.2s
427 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
428 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.717051 - 1.7s
429 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
430 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.863709 - 1.6s
431 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
432 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.906414 - 2.0s
433 -[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
434 -[CV] c1=0.06155533734282551, c2=0.11747794204884306, score=0.855051 - 1.9s
435 -[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
436 -[CV] c1=0.32267196716974095, c2=0.030929293399615435, score=0.925895 - 2.0s
437 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
438 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.699424 - 1.9s
439 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
440 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.821625 - 1.7s
441 -[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
442 -[CV] c1=0.08369291557347798, c2=0.012233988100281703, score=0.908780 - 2.0s
443 -[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
444 -[CV] c1=0.14146941159261275, c2=0.0623745074286256, score=0.732294 - 2.2s
445 -[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
446 -[CV] c1=0.5149952083751863, c2=0.020547420013119894, score=0.791382 - 1.9s
447 -[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
448 -[CV] c1=1.1812306284364236, c2=0.008430514440727933, score=0.827582 - 1.9s
449 -[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
450 -[CV] c1=0.8585868277805841, c2=0.018563372539478897, score=0.795856 - 1.7s
451 -Training done in: 12.580321s
452 - Saving training model...
453 - Saving training model done in: 0.013719s
454 -*********************************
455 -Prediction done in: 0.043038s
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.008401850714357223, 'c2': 0.010433611834050949}
5 -best CV score:0.8001659242959697
6 -model size: 0.10M
7 -
8 -Flat F1: 0.8047780251190458
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.897 0.912 0.904 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.780 0.742 0.760 62
20 - Anti 1.000 0.667 0.800 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.867 0.802 0.833 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.869 0.684 0.765 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.866 0.762 0.805 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.023468
32 -OD -> OD 5.987741
33 -Anti -> Anti 5.339561
34 -O -> O 5.206576
35 -Temp -> Temp 5.181595
36 -Med -> Med 5.180925
37 -Air -> Air 4.646819
38 -Gversion -> Gversion 4.293932
39 -Gtype -> Gtype 4.243250
40 -Phase -> Phase 4.214400
41 -Supp -> Supp 4.068489
42 -Technique -> Technique 3.260803
43 -pH -> pH 2.779994
44 -O -> Supp 1.733365
45 -Substrain -> Gtype 1.597482
46 -O -> Technique 1.105926
47 -Gtype -> Supp 1.074709
48 -O -> Gtype 0.988353
49 -Technique -> Air 0.947990
50 -O -> Anti 0.752151
51 -O -> Temp 0.715991
52 -Gtype -> pH 0.687911
53 -O -> Strain 0.484049
54 -Air -> O 0.435475
55 -Gtype -> Air 0.237417
56 -O -> pH 0.237401
57 -O -> Gversion 0.212779
58 -O -> Vess 0.076820
59 -O -> Phase 0.037554
60 -pH -> Gversion -0.000018
61 -OD -> Strain -0.003457
62 -Phase -> Strain -0.004908
63 -Air -> Vess -0.005394
64 -Phase -> Gversion -0.014599
65 -Gtype -> Agit -0.016123
66 -Gversion -> Med -0.016983
67 -Vess -> O -0.017867
68 -Gtype -> Strain -0.043341
69 -Anti -> Gversion -0.044629
70 -Agit -> Air -0.049411
71 -Gversion -> Anti -0.055390
72 -OD -> pH -0.057387
73 -Gtype -> Vess -0.065585
74 -Substrain -> Supp -0.071178
75 -Agit -> Supp -0.075952
76 -Phase -> O -0.085482
77 -Air -> Substrain -0.092852
78 -Air -> Agit -0.094494
79 -pH -> OD -0.094754
80 -Strain -> OD -0.101112
81 -
82 -
83 -Top unlikely transitions:
84 -Med -> Technique -0.617122
85 -Anti -> Gtype -0.648491
86 -Technique -> Supp -0.653349
87 -Air -> Gtype -0.674312
88 -Phase -> Supp -0.687180
89 -Supp -> pH -0.691310
90 -OD -> Temp -0.720203
91 -Phase -> Med -0.735659
92 -OD -> Technique -0.736152
93 -Gtype -> Gversion -0.736973
94 -Gtype -> Technique -0.792645
95 -Supp -> Vess -0.796725
96 -Gversion -> Air -0.836299
97 -Air -> Temp -0.858957
98 -Temp -> Med -0.902701
99 -Air -> Phase -0.915814
100 -Supp -> O -0.968464
101 -Supp -> Gversion -0.977110
102 -Med -> Air -1.000282
103 -Supp -> Temp -1.033968
104 -Agit -> O -1.058024
105 -Supp -> OD -1.067605
106 -OD -> Supp -1.103342
107 -Phase -> Technique -1.118669
108 -Med -> Anti -1.133071
109 -Anti -> OD -1.138727
110 -Gtype -> Med -1.277127
111 -Air -> Supp -1.287339
112 -Gtype -> Phase -1.342335
113 -OD -> Med -1.360718
114 -Supp -> Gtype -1.375229
115 -Supp -> Phase -1.381910
116 -OD -> Gtype -1.386571
117 -Supp -> Anti -1.412562
118 -Air -> Med -1.437236
119 -OD -> O -1.444132
120 -Gtype -> OD -1.484604
121 -Supp -> Technique -1.559328
122 -Substrain -> O -1.575494
123 -O -> Air -1.706096
124 -Gtype -> Anti -1.722995
125 -Supp -> Air -1.758624
126 -Technique -> Gtype -1.763985
127 -Technique -> pH -1.821163
128 -Technique -> OD -1.868841
129 -OD -> Air -2.015499
130 -Med -> Supp -2.311994
131 -Air -> OD -2.334329
132 -Supp -> Med -2.339867
133 -Phase -> OD -3.142146
134 -
135 -
136 -Top positive:
137 -9.100852 Phase b'lemma:stationary'
138 -8.999666 O b'lemma:_'
139 -7.748243 O b'lemma:1'
140 -7.006071 Supp b'lemma:Iron'
141 -6.641579 O b'lemma:2'
142 -6.624553 Strain b'lemma:k-12'
143 -6.534879 Air b'lemma:anaerobic'
144 -6.384186 Technique b'lemma:ChIP-exo'
145 -6.173586 Phase b'lemma:mid-log'
146 -6.148502 Technique b'lemma:chipseq'
147 -6.098091 Air b'lemma:aerobic'
148 -6.023461 O b'lemma:3'
149 -6.014984 O b'lemma:rpob'
150 -5.860186 Air b'-1:lemma:ChIP-Seq'
151 -5.802538 Supp b'lemma:pq'
152 -5.638935 O b'-1:lemma:tag'
153 -5.602314 O b'lemma:rep1'
154 -5.589299 Gtype b'lemma:flag-tag'
155 -5.589299 Gtype b'-1:lemma:c-terminal'
156 -5.581884 O b'lemma:Custom'
157 -5.540635 Gtype b'lemma:\xce\xb4cra'
158 -5.474812 Gtype b'lemma:arca8myc'
159 -5.435564 Gversion b'lemma:asm584v2'
160 -5.394282 O b'lemma:rep2'
161 -5.304494 Supp b'lemma:nh4cl'
162 -5.296910 Supp b'lemma:nitrate'
163 -5.214813 O b'lemma:Cra'
164 -5.213416 O b'lemma:rep3'
165 -5.212603 Supp b'lemma:acetate'
166 -5.118628 Supp b'lemma:glucose'
167 -5.066237 Gtype b'lemma:wt'
168 -5.033217 Substrain b'lemma:mg1655'
169 -4.964764 Gtype b'lemma:fnr8myc'
170 -4.937549 Med b'lemma:MOPS'
171 -4.932561 Gtype b'lemma:delta-arca'
172 -4.932143 O b'-1:lemma:0.3-0.35'
173 -4.874040 Med b'lemma:LB'
174 -4.818460 O b'lemma:b'
175 -4.732064 Technique b'lemma:rna-seq'
176 -4.724853 Supp b'lemma:no3'
177 -4.706345 Air b'lemma:Aerobic'
178 -4.654200 Supp b'+1:lemma:Deficient'
179 -4.633561 Supp b'+1:lemma:\xc2\xb5m'
180 -4.585571 Supp b'-1:lemma:Cra'
181 -4.563109 O b'lemma:a'
182 -4.553217 Anti b'lemma:none'
183 -4.530685 O b'lemma:\xcf\x8332'
184 -4.515755 O b'lemma:with'
185 -4.479081 Gtype b'-1:lemma:\xe2\x88\x86'
186 -4.475079 Supp b'lemma:Fe'
187 -4.452629 Technique b'lemma:chip-seq'
188 -4.444236 O b'-1:lemma:Aerobic'
189 -4.435460 Anti b'lemma:seqa'
190 -4.292325 O b'lemma:.'
191 -4.292325 O b'postag:.'
192 -4.273737 O b'+1:postag:RB'
193 -4.252089 Gtype b'lemma:delta-fnr'
194 -4.231472 Med b'lemma:lb'
195 -4.224780 O b'-1:lemma:ChIP-exo'
196 -4.206346 Supp b'lemma:rifampicin'
197 -4.199432 Supp b'lemma:dpd'
198 -4.196830 Technique b'lemma:rnaseq'
199 -4.150761 Gversion b'lemma:chip-seq'
200 -4.119365 O b'lemma:CEL'
201 -4.091076 Supp b'+1:lemma:1'
202 -4.009950 O b'+1:lemma:od600'
203 -3.985436 Gversion b'lemma:nc'
204 -3.944251 O b'postag::'
205 -3.932450 Supp b'lemma:arginine'
206 -3.929084 OD b'lemma:od600'
207 -3.904034 O b'postag:IN'
208 -3.892475 OD b'lemma:od450'
209 -3.890673 O b'-1:lemma:glucose'
210 -3.863795 Strain b'+1:lemma:substr'
211 -3.821365 O b'lemma:chip-arca'
212 -3.806189 Med b'+1:lemma:0.4'
213 -3.785919 Gtype b'lemma:type'
214 -3.769177 Gtype b'lemma:\xce\xb4fur'
215 -3.757933 O b'lemma:-'
216 -3.738083 O b'lemma:at'
217 -3.718639 O b'lemma:s'
218 -3.712990 Vess b'lemma:flask'
219 -3.712990 Vess b'-1:lemma:warm'
220 -3.710102 Supp b'lemma:fructose'
221 -3.662732 Anti b'lemma:anti-myc'
222 -3.626865 O b'lemma:ompr'
223 -3.624215 O b'lemma:affyexp'
224 -3.616354 OD b'+1:lemma:stationary'
225 -3.602114 O b'lemma:oxyr'
226 -3.576976 O b'-1:lemma:lb'
227 -3.569370 Gtype b'lemma:\xce\xb4soxs'
228 -3.553173 O b'-1:lemma:anaerobic'
229 -3.551741 Supp b'-1:lemma:+'
230 -3.536448 Supp b'+1:lemma:2'
231 -3.514973 Supp b'lemma:nacl'
232 -3.503853 Supp b'+1:lemma:_'
233 -3.482883 Air b'lemma:Anaerobic'
234 -3.480740 O b'lemma:2-3'
235 -3.480105 Gtype b'lemma:WT'
236 -3.474757 Gtype b'lemma:wild-type'
237 -3.469456 O b'lemma:argr'
238 -3.457060 Med b'+1:lemma:2.0'
239 -3.419049 O b'lemma:for'
240 -3.379644 pH b'lemma:ph5'
241 -3.379644 pH b'+1:lemma:.5'
242 -3.367140 O b'postag:VBN'
243 -3.356569 Gtype b'lemma:\xce\xb4ompr'
244 -3.317528 Med b'lemma:m63'
245 -3.306615 Supp b'lemma:Leu'
246 -3.296772 Supp b'lemma:Adenine'
247 -3.296739 Air b'postag:RB'
248 -3.294576 Gtype b'lemma:nsrr'
249 -3.286258 O b'+1:lemma:chip-seq'
250 -3.282887 O b'lemma:purr'
251 -3.266319 Air b'lemma:anerobically'
252 -3.218805 Gtype b'lemma:\xe2\x88\x86'
253 -3.190285 Med b'+1:lemma:minimal'
254 -3.188756 Gtype b'+1:lemma:type'
255 -3.170208 Gtype b'+1:lemma:with'
256 -3.161736 O b'-1:lemma:type'
257 -3.148922 O b'-1:lemma:stpa'
258 -3.133657 Gversion b'lemma:u00096'
259 -3.133657 Gversion b'+1:lemma:.2'
260 -3.125085 Gversion b'lemma:.2'
261 -3.125085 Gversion b'-1:lemma:u00096'
262 -3.118643 Med b'-1:lemma:ml'
263 -3.117225 Gtype b'lemma:deltaseqa'
264 -3.117225 Gtype b'-1:lemma:old'
265 -3.112128 O b'lemma:pt7'
266 -3.102115 O b'lemma:Lrp'
267 -3.099621 Technique b'lemma:ChIP-Seq'
268 -3.081419 Air b'lemma:anaerobically'
269 -3.067625 O b'lemma:or'
270 -3.063004 Gversion b'lemma:000913'
271 -3.052833 O b'lemma:Fur'
272 -3.018143 Gtype b'lemma:pk4854'
273 -3.011617 O b'lemma:soxs'
274 -3.011617 O b'lemma:soxr'
275 -3.000132 Gtype b'+1:lemma:pq'
276 -2.985754 Gtype b'-1:lemma:ptac'
277 -2.973552 Temp b'lemma:43'
278 -2.963324 Gtype b'-1:lemma:rpob'
279 -2.958448 Temp b'lemma:\xc2\xb0c'
280 -2.953047 Gtype b'+1:lemma:flagtag'
281 -2.940589 Temp b'-1:lemma:43'
282 -2.931670 Air b'-1:lemma:-'
283 -2.908980 O b'+1:lemma:pq'
284 -2.898571 O b'+1:lemma:o.d.'
285 -2.897413 Phase b'+1:lemma:for'
286 -2.889124 Supp b'+1:lemma:deficient'
287 -2.883315 Technique b'-1:lemma:IP'
288 -2.862356 Med b'postag:NNP'
289 -2.855084 Gtype b'lemma:dfnr'
290 -2.854348 O b'-1:lemma:min'
291 -2.825991 Gtype b'lemma:\xce\xb4oxyr'
292 -2.825899 Substrain b'+1:lemma:phtpg'
293 -2.805567 Technique b'+1:lemma:chip-exo'
294 -2.802057 Phase b'+1:lemma:phase'
295 -2.795215 Gtype b'lemma:\xce\xb4soxr'
296 -2.789107 Gversion b'-1:lemma:nc'
297 -2.785366 Gtype b'lemma:ptac'
298 -2.776048 Temp b'-1:lemma:37'
299 -2.774544 O b'lemma:chip-fnr'
300 -2.770176 O b'lemma:chip'
301 -2.760772 Temp b'lemma:37'
302 -2.745440 O b'-1:lemma:dpd'
303 -2.743110 Technique b'-1:lemma:input'
304 -2.730665 Air b'+1:lemma:at'
305 -2.727900 Anti b'lemma:anti-rpos'
306 -2.727268 O b'+1:lemma:43'
307 -2.717795 Supp b'lemma:iptg'
308 -2.713876 O b'-1:lemma:0.3'
309 -2.687853 Gtype b'+1:lemma:aerobic'
310 -2.619262 OD b'-1:lemma:~'
311 -2.616842 Temp b'+1:lemma:\xc2\xb0c'
312 -2.608331 Gtype b'+1:lemma:ph5'
313 -2.591172 Gtype b'lemma:flagtag'
314 -2.589296 Med b'lemma:L'
315 -2.589296 Med b'+1:lemma:broth'
316 -2.584541 Phase b'-1:lemma:until'
317 -2.584059 Gtype b'+1:lemma:knock-out'
318 -2.575608 O b'-1:lemma:nh4cl'
319 -2.574656 Technique b'-1:lemma:chip-exo'
320 -2.564254 Med b'lemma:glucose'
321 -2.556390 Gversion b'lemma:_'
322 -2.554626 Air b'-1:lemma:_'
323 -2.549785 O b'postag:SYM'
324 -2.549729 O b'+1:lemma:mid-log'
325 -2.543869 Air b'-1:lemma:phase'
326 -2.541328 O b'lemma:A'
327 -2.537440 Gtype b'-1:lemma:_'
328 -2.525410 Supp b'lemma:leucine'
329 -2.522615 O b'lemma:lrp'
330 -2.522036 Gtype b'-1:lemma:express'
331 -2.521629 O b'-1:lemma:\xc2\xb0c'
332 -2.520010 O b'lemma:csir'
333 -2.520010 O b'lemma:ntrc'
334 -2.474244 Anti b'+1:lemma:antibody'
335 -2.461694 Supp b'+1:lemma:leucine'
336 -2.454280 O b'lemma:genotype/variation'
337 -
338 -
339 -Top negative:
340 --0.120022 Gtype b'-1:postag:,'
341 --0.120523 O b'-1:lemma:in'
342 --0.122664 O b'+1:lemma:sample'
343 --0.127328 O b'+1:lemma:mm'
344 --0.133270 OD b'+1:postag:CD'
345 --0.138198 O b'-1:lemma:affinity'
346 --0.142281 O b'lemma:paraquat'
347 --0.145257 O b'+1:lemma:-rrb-'
348 --0.146006 Supp b'lemma:2'
349 --0.150887 Anti b'-1:postag:NN'
350 --0.154225 Gtype b'lemma:_'
351 --0.158596 Gtype b'+1:postag:NNS'
352 --0.161604 O b'-1:postag:IN'
353 --0.163779 Gtype b'+1:lemma:b'
354 --0.166301 O b'-1:lemma:chip-exo'
355 --0.167220 O b'-1:lemma:of'
356 --0.171664 O b'-1:lemma:-lrb-'
357 --0.180434 Gversion b'+1:postag:NN'
358 --0.192357 O b'lemma:o2'
359 --0.202260 O b'lemma:e.'
360 --0.206741 Gtype b'+1:lemma:a'
361 --0.208788 O b'+1:postag:-RRB-'
362 --0.212004 O b'-1:lemma:e.'
363 --0.218110 O b'-1:postag:-LRB-'
364 --0.235338 O b'+1:lemma:antibody'
365 --0.236328 O b'+1:lemma:b'
366 --0.239367 Anti b'+1:postag:JJ'
367 --0.249593 Gtype b'-1:lemma:mg1655'
368 --0.249870 Supp b'-1:postag:NNP'
369 --0.251500 O b'+1:lemma:delta'
370 --0.252232 Supp b'+1:postag:IN'
371 --0.256537 O b'-1:lemma:20'
372 --0.258317 O b'lemma:grow'
373 --0.269042 O b'lemma:medium'
374 --0.273182 Temp b'-1:postag:IN'
375 --0.274173 Gtype b'-1:postag:CD'
376 --0.280038 O b'lemma:8'
377 --0.280993 O b'lemma:n2'
378 --0.288611 Supp b'-1:lemma:-'
379 --0.293962 Gtype b'lemma:ompr'
380 --0.301245 Strain b'+1:postag:NN'
381 --0.303251 Med b'-1:lemma:MOPS'
382 --0.306188 O b'-1:lemma:0.1'
383 --0.306847 O b'-1:lemma:n2'
384 --0.308913 O b'+1:lemma:0.4'
385 --0.314484 Temp b'postag:JJ'
386 --0.318718 Med b'+1:postag:IN'
387 --0.318797 Gtype b'postag:NNS'
388 --0.319631 Supp b'+1:lemma:glucose'
389 --0.321045 O b'lemma:m63'
390 --0.324374 O b'lemma:aerobically'
391 --0.325816 O b'lemma:30'
392 --0.326188 Med b'-1:postag:CD'
393 --0.329836 Phase b'-1:lemma:at'
394 --0.332152 O b'+1:postag:VB'
395 --0.332842 Med b'postag:CD'
396 --0.334256 O b'lemma:co2'
397 --0.334810 O b'lemma:minimal'
398 --0.342218 O b'+1:lemma:minimal'
399 --0.349745 Gtype b'+1:lemma:2'
400 --0.351934 Supp b'lemma:and'
401 --0.354493 O b'-1:lemma:minimal'
402 --0.358012 O b'lemma:mg1655'
403 --0.358237 O b'+1:lemma:.'
404 --0.358237 O b'+1:postag:.'
405 --0.363596 O b'-1:lemma:rna'
406 --0.370839 O b'+1:lemma:2.0'
407 --0.375043 Supp b'-1:postag:NN'
408 --0.376200 O b'-1:lemma:with'
409 --0.392061 O b'+1:lemma:cell'
410 --0.395304 O b'-1:lemma:g/l'
411 --0.395511 Technique b'-1:lemma::'
412 --0.397546 O b'+1:lemma:shake'
413 --0.401170 O b'lemma:mg/ml'
414 --0.401170 O b'-1:lemma:150'
415 --0.409541 O b'-1:lemma:um'
416 --0.409541 O b'+1:lemma:paraquat'
417 --0.409762 O b'+1:lemma:from'
418 --0.419746 O b'+1:lemma:300'
419 --0.421010 O b'lemma:\xc2\xb0c'
420 --0.434499 O b'lemma:of'
421 --0.436286 O b'postag:RB'
422 --0.439656 Med b'+1:postag:NN'
423 --0.444355 O b'+1:lemma:dissolve'
424 --0.452235 O b'+1:lemma:until'
425 --0.455261 O b'lemma:nacl'
426 --0.456077 O b'lemma:glucose'
427 --0.463464 O b'-1:lemma:grow'
428 --0.463968 O b'-1:lemma:fresh'
429 --0.464076 Phase b'-1:postag:NN'
430 --0.486872 O b'-1:lemma:rifampicin'
431 --0.523137 O b'+1:postag:IN'
432 --0.525151 Technique b'-1:postag::'
433 --0.531783 O b'+1:lemma:phase'
434 --0.538887 OD b'+1:postag:NN'
435 --0.555616 O b'+1:lemma:or'
436 --0.565115 O b'+1:lemma:strain'
437 --0.566606 O b'lemma:od600'
438 --0.578470 Gtype b'-1:postag:SYM'
439 --0.578637 OD b'lemma:-lrb-'
440 --0.601008 Med b'+1:postag:NNS'
441 --0.607701 Med b'postag:-LRB-'
442 --0.612346 O b'-1:lemma:od600'
443 --0.613297 O b'+1:lemma:%'
444 --0.632846 O b'lemma:dissolve'
445 --0.636917 O b'-1:lemma:cra'
446 --0.637702 O b'+1:lemma:_'
447 --0.645606 pH b'postag:NN'
448 --0.660680 Supp b'postag:CC'
449 --0.661544 O b'lemma:phase'
450 --0.663541 O b'-1:lemma:co2'
451 --0.666296 Temp b'-1:lemma:\xc2\xb0c'
452 --0.668061 Temp b'postag:NN'
453 --0.677959 O b'-1:lemma:from'
454 --0.689244 Air b'-1:postag:NNP'
455 --0.689646 OD b'postag:-LRB-'
456 --0.695039 O b'-1:lemma:30'
457 --0.695571 Anti b'+1:lemma:anti-fur'
458 --0.716001 O b'-1:lemma:~'
459 --0.731399 O b'lemma:150'
460 --0.731399 O b'+1:lemma:mg/ml'
461 --0.739656 Gtype b'+1:lemma:\xe2\x88\x86'
462 --0.759740 Supp b'+1:postag:VBN'
463 --0.763772 O b'+1:lemma:Aerobic'
464 --0.766890 O b'-1:lemma:\xe2\x88\x86'
465 --0.766971 O b'-1:lemma:mid-log'
466 --0.768804 OD b'+1:lemma:and'
467 --0.768894 O b'+1:lemma:\xc2\xb0c'
468 --0.776396 Med b'lemma:-lrb-'
469 --0.781865 Supp b'+1:lemma:rifampicin'
470 --0.809383 O b'-1:lemma:until'
471 --0.873765 Med b'-1:postag:IN'
472 --0.887188 O b'-1:lemma:0.2'
473 --0.914214 OD b'+1:postag:CC'
474 --0.937224 O b'+1:lemma:c'
475 --0.951430 O b'+1:lemma:arginine'
476 --0.975038 O b'lemma:20'
477 --0.984860 O b'lemma:dpd'
478 --0.995326 Gtype b'-1:postag:DT'
479 --0.997365 O b'lemma:mid-log'
480 --1.001839 O b'-1:lemma:1'
481 --1.007082 Phase b'-1:postag:JJ'
482 --1.016639 O b'+1:postag:NNS'
483 --1.024920 O b'lemma:k-12'
484 --1.035792 Gtype b'lemma:delta'
485 --1.035978 O b'lemma:anaerobically'
486 --1.046001 O b'lemma:media'
487 --1.073102 O b'+1:lemma:fecl2'
488 --1.102636 Temp b'+1:lemma:to'
489 --1.102636 Temp b'+1:postag:TO'
490 --1.121716 Supp b'+1:lemma:acetate'
491 --1.138292 O b'+1:lemma:supplement'
492 --1.168057 O b'lemma:purify'
493 --1.184745 O b'lemma:anaerobic'
494 --1.205475 O b'+1:lemma:rep1'
495 --1.215530 O b'lemma:2h'
496 --1.215530 O b'-1:lemma:additional'
497 --1.234334 Air b'-1:postag:JJ'
498 --1.241734 O b'+1:lemma:0.3'
499 --1.301983 O b'-1:lemma:dissolve'
500 --1.301983 O b'+1:lemma:methanol'
501 --1.303550 O b'lemma:0.3'
502 --1.345097 O b'lemma:0.1'
503 --1.379870 Supp b'-1:postag:VBG'
504 --1.382375 O b'+1:lemma:at'
505 --1.396032 O b'lemma:\xe2\x88\x86'
506 --1.417143 O b'+1:lemma:in'
507 --1.417204 O b'lemma:0.2'
508 --1.503850 OD b'postag:JJ'
509 --1.525722 O b'lemma:\xce\xb4fur'
510 --1.542072 Air b'postag:NN'
511 --1.579787 O b'lemma:37'
512 --1.621701 O b'-1:lemma:ml'
513 --1.630192 O b'-1:lemma:sample'
514 --1.655725 O b'-1:lemma:rpob'
515 --1.681294 O b'+1:postag:VBG'
516 --1.700082 Air b'+1:postag:JJ'
517 --1.700251 O b'lemma:fecl2'
518 --1.715116 O b'-1:postag:VBG'
519 --1.721605 O b'lemma:wt'
520 --1.755559 O b'-1:lemma:IP'
521 --1.757192 O b'-1:postag::'
522 --1.825748 O b'+1:lemma:g/l'
523 --1.826698 Supp b'-1:lemma:%'
524 --1.900808 O b'-1:lemma:ompr'
525 --1.900850 Supp b'postag:JJ'
526 --2.012610 O b'lemma:methanol'
527 --2.081277 Anti b'postag:NNP'
528 --2.159396 O b'-1:lemma:nsrr'
529 --2.166881 O b'postag:VBP'
530 --2.270620 O b'lemma:rifampicin'
531 --2.391350 O b'-1:lemma:2'
532 --2.579475 O b'+1:lemma:2'
533 --2.672474 O b'-1:lemma:37'
534 --2.981970 O b'+1:lemma:1'
535 --3.081557 O b'+1:lemma:hour'
536 --3.094094 O b'+1:lemma:+'
537 --3.525755 Phase b'postag:JJ'
538 --3.662675 O b'-1:lemma:_'
539 --4.650283 O b'-1:lemma::'
540 -
1 +********** TRAINING AND TESTING REPORT **********
2 +Training file: training-data-set-70.txt
3 +
4 +best params:{'c1': 0.20934163148847484, 'c2': 5.972574594521125e-05}
5 +best CV score:0.8647885676297223
6 +model size: 0.05M
7 +
8 +Flat F1: 0.7568876974674016
9 + precision recall f1-score support
10 +
11 + OD 1.000 0.818 0.900 22
12 + pH 1.000 1.000 1.000 8
13 + Technique 0.955 0.913 0.933 23
14 + Med 1.000 0.925 0.961 53
15 + Temp 1.000 0.690 0.816 29
16 + Vess 1.000 1.000 1.000 1
17 + Agit 0.000 0.000 0.000 0
18 + Phase 0.882 1.000 0.938 15
19 + Air 0.543 0.362 0.435 69
20 + Anti 0.786 1.000 0.880 11
21 + Strain 0.000 0.000 0.000 1
22 + Gtype 0.863 0.812 0.836 85
23 + Substrain 0.000 0.000 0.000 0
24 + Supp 0.607 0.784 0.684 134
25 + Gversion 0.000 0.000 0.000 0
26 +
27 +avg / total 0.774 0.758 0.757 451
28 +
29 +
30 +Top likely transitions:
31 +Temp -> Temp 6.372271
32 +Agit -> Agit 6.336087
33 +Med -> Med 5.775362
34 +Supp -> Supp 5.599916
35 +OD -> OD 5.514939
36 +Anti -> Anti 5.400862
37 +Phase -> Phase 5.214849
38 +Air -> Air 4.870530
39 +Gtype -> Gtype 4.826805
40 +O -> O 4.601602
41 +Gversion -> Gversion 4.343416
42 +Technique -> Technique 4.055366
43 +pH -> pH 3.102886
44 +Substrain -> Gtype 1.934887
45 +Air -> O 1.597978
46 +O -> Supp 1.582569
47 +Gtype -> Supp 1.508336
48 +O -> Technique 1.406325
49 +O -> Gtype 1.205559
50 +O -> Temp 0.833133
51 +Supp -> O 0.751090
52 +O -> Phase 0.676762
53 +Temp -> O 0.670412
54 +Gtype -> Air 0.616010
55 +Med -> O 0.606543
56 +O -> Anti 0.311020
57 +Technique -> Air 0.225375
58 +OD -> O 0.192356
59 +O -> Med 0.168459
60 +Phase -> O 0.168068
61 +O -> Gversion 0.143784
62 +O -> pH 0.078839
63 +O -> OD 0.075883
64 +Strain -> O 0.069008
65 +Gtype -> Med -0.229150
66 +Gtype -> O -0.660221
67 +O -> Air -0.746238
68 +Substrain -> O -0.760215
69 +Phase -> OD -0.885028
70 +Technique -> Gtype -1.154393
71 +Med -> Supp -1.787447
72 +
73 +
74 +Top unlikely transitions:
75 +Temp -> Temp 6.372271
76 +Agit -> Agit 6.336087
77 +Med -> Med 5.775362
78 +Supp -> Supp 5.599916
79 +OD -> OD 5.514939
80 +Anti -> Anti 5.400862
81 +Phase -> Phase 5.214849
82 +Air -> Air 4.870530
83 +Gtype -> Gtype 4.826805
84 +O -> O 4.601602
85 +Gversion -> Gversion 4.343416
86 +Technique -> Technique 4.055366
87 +pH -> pH 3.102886
88 +Substrain -> Gtype 1.934887
89 +Air -> O 1.597978
90 +O -> Supp 1.582569
91 +Gtype -> Supp 1.508336
92 +O -> Technique 1.406325
93 +O -> Gtype 1.205559
94 +O -> Temp 0.833133
95 +Supp -> O 0.751090
96 +O -> Phase 0.676762
97 +Temp -> O 0.670412
98 +Gtype -> Air 0.616010
99 +Med -> O 0.606543
100 +O -> Anti 0.311020
101 +Technique -> Air 0.225375
102 +OD -> O 0.192356
103 +O -> Med 0.168459
104 +Phase -> O 0.168068
105 +O -> Gversion 0.143784
106 +O -> pH 0.078839
107 +O -> OD 0.075883
108 +Strain -> O 0.069008
109 +Gtype -> Med -0.229150
110 +Gtype -> O -0.660221
111 +O -> Air -0.746238
112 +Substrain -> O -0.760215
113 +Phase -> OD -0.885028
114 +Technique -> Gtype -1.154393
115 +Med -> Supp -1.787447
116 +
117 +
118 +Top positive:
119 +10.190054 Supp b'lemma:Iron'
120 +9.112733 O b'lemma:_'
121 +7.880021 Air b'lemma:anaerobic'
122 +7.549281 Technique b'lemma:ChIP-exo'
123 +7.465093 Strain b'+1:lemma:substr'
124 +7.422565 Med b'lemma:MOPS'
125 +7.415432 Phase b'lemma:exponential'
126 +7.415432 Phase b'lemma:stationary'
127 +7.398082 Air b'-1:lemma:ChIP-Seq'
128 +7.166683 O b'lemma:2'
129 +7.146221 O b'lemma:-'
130 +7.132564 Supp b'lemma:pq'
131 +6.977885 Air b'lemma:aerobic'
132 +6.744626 Gtype b'lemma:wt'
133 +6.631092 Phase b'lemma:mid-log'
134 +6.560555 O b'lemma:1'
135 +6.447344 Technique b'lemma:chipseq'
136 +6.389162 Gtype b'lemma:\xce\xb4cra'
137 +6.371591 Gversion b'lemma:asm584v2'
138 +6.280253 Supp b'+1:lemma:\xc2\xb5m'
139 +6.224426 O b'lemma:3'
140 +6.224046 O b'-1:lemma:tag'
141 +6.202217 Air b'lemma:Aerobic'
142 +6.046396 O b'lemma:rpob'
143 +5.857469 Gversion b'lemma:nc'
144 +5.848042 O b'lemma:Custom'
145 +5.738285 Gtype b'lemma:wild-type'
146 +5.702974 O b'lemma:Cra'
147 +5.644004 O b'lemma:b'
148 +5.533358 Gtype b'lemma:flag-tag'
149 +5.533358 Gtype b'-1:lemma:c-terminal'
150 +5.521522 O b'lemma:a'
151 +5.328505 Gtype b'lemma:type'
152 +5.276884 Supp b'lemma:nacl'
153 +5.252181 O b'-1:lemma:ChIP-exo'
154 +5.206802 Gtype b'+1:lemma:ph5'
155 +5.150774 Technique b'lemma:ChIP-Seq'
156 +5.068213 O b'postag:IN'
157 +5.035817 O b'lemma:rep1'
158 +4.983308 Vess b'lemma:flask'
159 +4.983308 Vess b'-1:lemma:warm'
160 +4.943797 O b'lemma:rep3'
161 +4.854929 Supp b'-1:lemma:Cra'
162 +4.845807 Gtype b'lemma:\xe2\x88\x86'
163 +4.794055 Gtype b'+1:lemma:type'
164 +4.645526 Gtype b'lemma:arca8myc'
165 +4.620794 Gtype b'lemma:\xce\xb4fur'
166 +4.559495 O b'lemma:\xcf\x8332'
167 +4.549068 O b'-1:lemma:type'
168 +4.420072 Supp b'lemma:rifampicin'
169 +4.386336 Technique b'lemma:rna-seq'
170 +4.375116 Supp b'lemma:acetate'
171 +4.337376 O b'lemma:ompr'
172 +4.249331 O b'postag:CC'
173 +4.232009 Supp b'lemma:nitrate'
174 +4.189729 Supp b'lemma:glucose'
175 +4.169856 Substrain b'lemma:mg1655'
176 +4.152149 Gtype b'lemma:dfnr'
177 +4.143746 Supp b'lemma:nh4cl'
178 +4.056334 O b'+1:lemma:pq'
179 +4.052385 Gtype b'lemma:pk4854'
180 +4.037199 Gtype b'lemma:fnr8myc'
181 +3.985929 Anti b'lemma:none'
182 +3.957986 Gtype b'lemma:delta-fnr'
183 +3.954172 Med b'lemma:lb'
184 +3.939606 Supp b'-1:lemma:+'
185 +3.935266 Technique b'lemma:chip-seq'
186 +3.929436 O b'postag:VBN'
187 +3.908650 Med b'-1:lemma:ml'
188 +3.884593 Gversion b'-1:lemma:nc'
189 +3.878464 Anti b'lemma:\xcf\x8332'
190 +3.863072 O b'lemma:.'
191 +3.863072 O b'postag:.'
192 +3.860626 O b'lemma:chip'
193 +3.854556 Technique b'lemma:rnaseq'
194 +3.854116 O b'postag::'
195 +3.783932 Agit b'+1:lemma:rpm'
196 +3.781020 Gtype b'lemma:\xce\xb4ompr'
197 +3.721025 Air b'-1:lemma:-'
198 +3.718911 Agit b'lemma:rpm'
199 +3.658315 O b'-1:lemma:glucose'
200 +3.650822 Gtype b'-1:lemma:\xe2\x88\x86'
201 +3.626592 Gtype b'lemma:nsrr'
202 +3.625435 Supp b'-1:lemma:with'
203 +3.621959 Med b'+1:lemma:0.4'
204 +3.534472 Gtype b'lemma:\xce\xb4soxr'
205 +3.534031 Supp b'lemma:no3'
206 +3.532340 O b'-1:lemma:0.3'
207 +3.529130 Temp b'-1:lemma:sample'
208 +3.523066 O b'lemma:with'
209 +3.479777 OD b'lemma:od450'
210 +3.451557 Gtype b'lemma:delta-arca'
211 +3.421135 Anti b'lemma:seqa'
212 +3.408004 O b'lemma:rep2'
213 +3.394045 O b'-1:lemma:Aerobic'
214 +3.391719 Gversion b'lemma:chip-seq'
215 +3.391021 Supp b'lemma:dpd'
216 +3.352795 O b'-1:lemma:lb'
217 +3.334642 Technique b'-1:lemma:IP'
218 +3.303675 O b'-1:lemma:0.3-0.35'
219 +3.272998 Air b'lemma:anaerobically'
220 +3.245394 Supp b'lemma:Leu'
221 +3.235692 Supp b'lemma:Fe'
222 +3.223774 Technique b'-1:lemma:chip-exo'
223 +3.209091 Air b'lemma:aerobically'
224 +3.198219 O b'postag:VBG'
225 +3.170084 O b'lemma:harbor'
226 +3.168019 Temp b'-1:lemma:43'
227 +3.163951 Supp b'lemma:arginine'
228 +3.160003 Gtype b'+1:lemma:pq'
229 +3.153015 Anti b'+1:lemma:antibody'
230 +3.115121 Strain b'lemma:k-12'
231 +3.074034 Technique b'+1:lemma:chip-exo'
232 +3.071794 Air b'postag:RB'
233 +3.069425 Substrain b'lemma:mg1655star'
234 +3.062133 Supp b'lemma:Adenine'
235 +3.060892 Air b'lemma:anaeroibc'
236 +3.056193 Temp b'-1:lemma:\xcf\x8332'
237 +3.042361 Supp b'+1:lemma:mm'
238 +3.019482 Gtype b'-1:lemma:ptac'
239 +2.998564 O b'-1:lemma:into'
240 +2.994519 pH b'lemma:5.5'
241 +2.973677 Gversion b'lemma:.2'
242 +2.973677 Gversion b'-1:lemma:u00096'
243 +2.973445 O b'-1:lemma:\xc2\xb0c'
244 +2.958977 Med b'lemma:media'
245 +2.930356 O b'+1:lemma:chip-seq'
246 +2.896285 Gtype b'+1:lemma:with'
247 +2.895621 Gtype b'-1:lemma:rpob'
248 +2.894434 Gtype b'+1:lemma:flagtag'
249 +2.893824 O b'lemma:CEL'
250 +2.871221 O b'+1:lemma:arca-8myc'
251 +2.854072 Temp b'+1:lemma:in'
252 +2.819779 Gtype b'-1:lemma:delta'
253 +2.816913 O b'+1:lemma:250'
254 +2.810671 O b'+1:lemma:od600'
255 +2.799953 O b'+1:lemma:mid-log'
256 +2.791088 Supp b'-1:lemma:vol'
257 +2.782754 Gversion b'lemma:u00096'
258 +2.782754 Gversion b'+1:lemma:.2'
259 +2.762169 O b'lemma:ml'
260 +2.714953 O b'+1:postag:NNP'
261 +2.698964 Gtype b'lemma:\xce\xb4oxyr'
262 +2.673462 Gtype b'-1:postag:VBG'
263 +2.672861 Med b'lemma:L'
264 +2.672861 Med b'+1:lemma:broth'
265 +2.665253 O b'+1:lemma:acetate'
266 +2.647014 Phase b'-1:lemma:mid-log'
267 +2.641349 Med b'lemma:m63'
268 +2.626973 Substrain b'+1:lemma:phtpg'
269 +2.622910 Gversion b'lemma:000913'
270 +2.605384 O b'lemma::'
271 +2.594999 pH b'+1:postag:CD'
272 +2.538219 O b'lemma:s'
273 +2.537207 Med b'lemma:broth'
274 +2.537207 Med b'-1:lemma:L'
275 +2.527821 pH b'lemma:ph5'
276 +2.527821 pH b'+1:lemma:.5'
277 +2.515586 O b'+1:lemma:coli'
278 +2.509864 Supp b'+1:lemma:1'
279 +2.508452 Med b'-1:lemma:fresh'
280 +2.494059 Supp b'lemma:fructose'
281 +2.475120 Temp b'lemma:43'
282 +2.463892 O b'-1:lemma:rpm'
283 +2.434009 Anti b'lemma:anti-myc'
284 +2.426928 O b'+1:postag:RB'
285 +2.422956 Gtype b'+1:lemma:_'
286 +2.396151 Med b'+1:lemma:2.0'
287 +2.362312 O b'lemma:condition'
288 +2.343697 O b'+1:lemma:or'
289 +2.310123 Med b'-1:lemma:glucose'
290 +2.304110 Temp b'lemma:\xc2\xb0c'
291 +2.250756 Gtype b'+1:postag::'
292 +2.243158 Med b'lemma:minimal'
293 +2.236131 Temp b'-1:lemma:37'
294 +2.232349 Temp b'+1:lemma:\xc2\xb0c'
295 +2.215545 Gtype b'lemma:deltaseqa'
296 +2.215545 Gtype b'-1:lemma:old'
297 +2.168823 O b'postag:NNS'
298 +2.142782 pH b'+1:lemma:5.5'
299 +2.133425 O b'lemma:at'
300 +2.127108 Gtype b'-1:lemma:factor'
301 +2.118652 O b'lemma:agitation'
302 +2.100263 Med b'+1:lemma:minimal'
303 +2.099378 Supp b'+1:lemma:min'
304 +2.099095 Phase b'lemma:phase'
305 +2.087589 Supp b'+1:lemma:and'
306 +2.072277 O b'+1:lemma:sparging'
307 +2.066002 Supp b'+1:lemma:Deficient'
308 +2.054354 O b'+1:lemma:anti-fur'
309 +2.053062 O b'lemma:genotype/variation'
310 +2.041875 O b'-1:lemma:l1'
311 +2.039194 Gtype b'-1:lemma::'
312 +2.031026 Supp b'-1:lemma:\xc2\xb5m'
313 +2.010199 O b'postag:DT'
314 +2.007491 O b'lemma:culture'
315 +2.000485 O b'postag:VBD'
316 +1.989764 OD b'lemma:0.3-0.35'
317 +1.982940 Supp b'-1:lemma:sodium'
318 +1.980905 Gversion b'postag:CD'
319 +
320 +
321 +Top negative:
322 +0.039807 OD b'+1:postag:,'
323 +0.039185 O b'lemma:um'
324 +0.035254 O b'+1:postag:JJ'
325 +0.030051 O b'+1:postag:SYM'
326 +0.027873 Supp b'-1:lemma:m'
327 +0.025396 O b"lemma:'s"
328 +0.025396 O b'postag:POS'
329 +0.025396 O b'-1:lemma:manufacturer'
330 +0.025396 O b'+1:lemma:instruction'
331 +0.024333 Supp b'-1:lemma:rifampicin'
332 +0.023672 O b'+1:lemma:more'
333 +0.023672 O b'+1:postag:JJR'
334 +0.017097 O b'lemma:final'
335 +0.014163 O b'+1:lemma:_'
336 +0.013275 O b'lemma:mm'
337 +0.012005 Anti b'lemma:subunit'
338 +0.012005 Anti b'+1:lemma:\xce\xb2'
339 +0.003898 Gtype b'lemma:Fur'
340 +0.002851 Gtype b'+1:postag:NNP'
341 +0.002190 O b'lemma:%'
342 +0.001946 Gtype b'lemma:transcription'
343 +0.001946 Gtype b'+1:lemma:factor'
344 +0.001569 O b'postag:VBZ'
345 +0.001233 O b'lemma:short'
346 +0.001233 O b'+1:lemma:rnase'
347 +0.000698 Air b'-1:lemma:anaerobically'
348 +0.000218 Med b'+1:postag:VBG'
349 +0.000187 Temp b'-1:lemma:control'
350 +0.000185 Gversion b'-1:lemma::'
351 +0.000177 Phase b'-1:postag::'
352 +0.000113 Supp b'+1:postag:RB'
353 +0.000102 O b'+1:lemma:37'
354 +0.000083 Supp b'lemma:ph'
355 +0.000058 Phase b'+1:lemma:.'
356 +0.000058 Phase b'+1:postag:.'
357 +0.000058 Supp b'-1:lemma:ph'
358 +0.000040 O b'-1:lemma:m63'
359 +0.000031 Gtype b'+1:lemma:,'
360 +0.000031 Gtype b'+1:postag:,'
361 +0.000023 O b'lemma:IP'
362 +0.000019 Supp b'lemma:300'
363 +0.000019 Supp b'+1:lemma:\xc2\xb5l'
364 +0.000009 Temp b'lemma:sample'
365 +0.000007 Temp b'-1:lemma:see'
366 +0.000007 Supp b'lemma:feso4'
367 +0.000004 O b'lemma:acetate'
368 +0.000002 O b'lemma:1:500'
369 +0.000002 O b'-1:lemma:back'
370 +0.000001 Temp b'lemma:control'
371 +-0.000014 O b'+1:lemma:7.6'
372 +-0.000065 O b'lemma:aerobic'
373 +-0.000130 O b'-1:lemma:rpob'
374 +-0.000160 Temp b'postag:JJ'
375 +-0.000216 O b'+1:lemma:contain'
376 +-0.000303 O b'-1:lemma:minimal'
377 +-0.000303 O b'+1:lemma:of'
378 +-0.000650 O b'+1:lemma:95'
379 +-0.002197 O b'-1:lemma:m'
380 +-0.002284 O b'-1:postag:JJ'
381 +-0.002326 O b'+1:lemma:,'
382 +-0.002326 O b'+1:postag:,'
383 +-0.003392 Gtype b'+1:postag:NN'
384 +-0.004717 O b'+1:lemma:fnr'
385 +-0.005411 Gversion b'+1:postag:NN'
386 +-0.005829 Air b'-1:postag:VBN'
387 +-0.010227 Supp b'+1:lemma:of'
388 +-0.011686 O b'+1:lemma:~'
389 +-0.011760 Gtype b'+1:postag:CD'
390 +-0.011855 O b'-1:lemma:5'
391 +-0.012174 O b'-1:lemma:.'
392 +-0.012174 O b'-1:postag:.'
393 +-0.014528 O b'lemma:20'
394 +-0.016459 Agit b'postag:NN'
395 +-0.020390 Technique b'-1:lemma::'
396 +-0.022295 O b'+1:lemma:-lrb-'
397 +-0.023051 O b'lemma:od600'
398 +-0.027871 Gtype b'postag:VBG'
399 +-0.033411 O b'-1:postag:-RRB-'
400 +-0.035506 O b'lemma:m63'
401 +-0.038491 Supp b'-1:lemma:10'
402 +-0.043161 O b'+1:lemma:%'
403 +-0.051673 Gtype b'-1:postag:NN'
404 +-0.053797 Supp b'lemma:mm'
405 +-0.055546 Air b'+1:postag:CD'
406 +-0.061075 O b'lemma:1m'
407 +-0.068387 O b'+1:lemma:for'
408 +-0.069911 O b'+1:lemma:-rrb-'
409 +-0.075578 O b'-1:lemma:37'
410 +-0.091100 O b'-1:lemma:of'
411 +-0.094169 O b'-1:lemma:until'
412 +-0.099146 Supp b'postag:CD'
413 +-0.114939 O b'+1:lemma:ph'
414 +-0.122454 O b'lemma:wt'
415 +-0.126051 O b'-1:postag:DT'
416 +-0.132413 Anti b'+1:postag:JJ'
417 +-0.132521 O b'-1:lemma:iptg'
418 +-0.138791 O b'-1:lemma:from'
419 +-0.142787 Supp b'+1:postag:-RRB-'
420 +-0.148089 Gtype b'postag:CD'
421 +-0.160312 O b'-1:lemma:-lrb-'
422 +-0.163006 O b'+1:postag:-LRB-'
423 +-0.163639 O b'lemma:medium'
424 +-0.171523 Supp b'+1:lemma:fructose'
425 +-0.175650 Air b'postag:CD'
426 +-0.176789 Gtype b'-1:lemma:mg1655'
427 +-0.209413 Supp b'lemma:10'
428 +-0.229904 Agit b'-1:postag:NN'
429 +-0.233855 Supp b'postag:NN'
430 +-0.254205 Supp b'-1:lemma:dpd'
431 +-0.270474 O b'-1:lemma:\xe2\x88\x86'
432 +-0.322402 O b'-1:lemma:1m'
433 +-0.327143 Supp b'postag:CC'
434 +-0.327477 O b'lemma:aerobically'
435 +-0.334210 Med b'-1:postag:CD'
436 +-0.337947 O b'lemma:mid-log'
437 +-0.351998 O b'lemma:minimal'
438 +-0.358452 Phase b'-1:lemma:at'
439 +-0.378720 O b'-1:lemma:final'
440 +-0.390763 Supp b'+1:lemma:dpd'
441 +-0.395432 Med b'postag:CD'
442 +-0.398943 O b'lemma:37'
443 +-0.413061 O b'+1:lemma:+'
444 +-0.428486 Gtype b'+1:lemma:-lrb-'
445 +-0.435167 O b'lemma:\xce\xb4fur'
446 +-0.445119 O b'-1:lemma:delta'
447 +-0.454315 O b'+1:lemma:.'
448 +-0.454315 O b'+1:postag:.'
449 +-0.455581 Supp b'-1:lemma:-lrb-'
450 +-0.463177 Phase b'+1:postag:NN'
451 +-0.463568 Med b'+1:postag:NN'
452 +-0.470619 Supp b'+1:postag:VBN'
453 +-0.474915 O b'-1:lemma:sample'
454 +-0.477379 Med b'-1:postag:NN'
455 +-0.481602 O b'lemma:nitrogen'
456 +-0.484766 O b'lemma:ph'
457 +-0.504002 O b'-1:postag:-LRB-'
458 +-0.509161 Supp b'-1:postag:-LRB-'
459 +-0.510610 Air b'-1:lemma:or'
460 +-0.519487 O b'+1:lemma:supplement'
461 +-0.524200 O b'-1:lemma:n2'
462 +-0.543542 O b'+1:postag:IN'
463 +-0.594418 pH b'postag:NN'
464 +-0.615404 O b'-1:postag:IN'
465 +-0.619607 O b'-1:lemma:cra'
466 +-0.656333 O b'-1:lemma:mm'
467 +-0.688334 O b'+1:postag:-RRB-'
468 +-0.710435 O b'-1:lemma:ml'
469 +-0.716844 O b'lemma:anaerobically'
470 +-0.730927 O b'+1:lemma:until'
471 +-0.747298 O b'lemma:media'
472 +-0.754688 O b'+1:lemma:mm'
473 +-0.768772 Med b'-1:postag:IN'
474 +-0.775892 Supp b'+1:lemma:acetate'
475 +-0.788215 Technique b'-1:postag::'
476 +-0.802700 O b'-1:lemma:co2'
477 +-0.820146 O b'lemma:methanol'
478 +-0.863797 Supp b'-1:postag:NNP'
479 +-0.897516 O b'+1:lemma:at'
480 +-0.907339 O b'+1:lemma:2.0'
481 +-0.918505 O b'-1:postag::'
482 +-0.945238 O b'-1:lemma:dissolve'
483 +-0.945238 O b'+1:lemma:methanol'
484 +-0.959379 Supp b'+1:lemma:rifampicin'
485 +-0.986744 O b'-1:lemma:nsrr'
486 +-0.993158 O b'+1:lemma:g/l'
487 +-1.104395 O b'lemma:2h'
488 +-1.104395 O b'-1:lemma:additional'
489 +-1.107657 O b'+1:lemma:1m'
490 +-1.131265 O b'+1:postag:VBG'
491 +-1.178961 O b'lemma:of'
492 +-1.201973 O b'-1:lemma:fresh'
493 +-1.209225 O b'postag:VBP'
494 +-1.212055 O b'-1:lemma:ph'
495 +-1.241153 Phase b'-1:postag:JJ'
496 +-1.329472 O b'lemma:30'
497 +-1.335303 Temp b'postag:NN'
498 +-1.335403 Supp b'+1:lemma:-lrb-'
499 +-1.347076 O b'-1:lemma:IP'
500 +-1.360555 Air b'+1:postag:JJ'
501 +-1.373057 Supp b'+1:postag:-LRB-'
502 +-1.494837 O b'-1:lemma:30'
503 +-1.531593 Anti b'postag:NNP'
504 +-1.575468 Phase b'postag:JJ'
505 +-1.599957 Temp b'+1:postag:IN'
506 +-1.732683 Air b'postag:NN'
507 +-1.747609 OD b'+1:postag:NN'
508 +-1.793039 O b'lemma:rifampicin'
509 +-1.853309 Supp b'postag:JJ'
510 +-1.930986 O b'+1:lemma:1'
511 +-1.993172 Supp b'+1:lemma:,'
512 +-1.993172 Supp b'+1:postag:,'
513 +-2.085464 O b'-1:lemma:2'
514 +-2.086023 O b'+1:lemma:in'
515 +-2.172547 O b'lemma:0.3'
516 +-2.181747 O b'-1:postag:VBG'
517 +-2.236719 O b'-1:lemma:1'
518 +-2.380060 O b'-1:lemma:vol'
519 +-2.454507 O b'+1:lemma:2'
520 +-4.266439 O b'-1:lemma:_'
521 +-4.856613 O b'-1:lemma::'
522 +
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.014516456694382724, 'c2': 0.020326963729101803}
5 -best CV score:0.7978697547192418
6 -model size: 0.10M
7 -
8 -Flat F1: 0.7980283470747447
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.897 0.912 0.904 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.667 0.800 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.862 0.764 0.810 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.869 0.684 0.765 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.861 0.754 0.798 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 5.560370
32 -Med -> Med 5.323219
33 -Agit -> Agit 5.320147
34 -Anti -> Anti 5.296542
35 -Temp -> Temp 5.103287
36 -O -> O 4.922938
37 -Air -> Air 4.793927
38 -Gversion -> Gversion 4.409724
39 -Phase -> Phase 4.282790
40 -Gtype -> Gtype 4.185033
41 -Supp -> Supp 3.873567
42 -Technique -> Technique 3.092187
43 -pH -> pH 2.533873
44 -Substrain -> Gtype 2.083775
45 -O -> Supp 1.586928
46 -Gtype -> Supp 1.409951
47 -O -> Technique 1.210201
48 -Air -> O 1.150012
49 -O -> Gtype 1.137322
50 -Technique -> Air 0.988159
51 -O -> Temp 0.874873
52 -Gtype -> pH 0.834090
53 -O -> Anti 0.676973
54 -Gtype -> Air 0.351268
55 -O -> pH 0.312385
56 -O -> Gversion 0.250755
57 -O -> Strain 0.242825
58 -Med -> O 0.156921
59 -Phase -> O 0.156793
60 -O -> Vess 0.116805
61 -Strain -> O 0.014803
62 -Phase -> Anti -0.000003
63 -O -> Med -0.000752
64 -Temp -> O -0.003264
65 -Anti -> Gversion -0.005246
66 -Substrain -> OD -0.006112
67 -Anti -> O -0.012910
68 -Vess -> Temp -0.013445
69 -Gtype -> Strain -0.014292
70 -Gtype -> Agit -0.018808
71 -Agit -> Air -0.019198
72 -pH -> Gversion -0.019841
73 -Gtype -> Vess -0.027646
74 -Anti -> pH -0.041855
75 -Supp -> Substrain -0.048654
76 -pH -> O -0.051317
77 -pH -> Temp -0.051548
78 -OD -> Strain -0.053471
79 -Technique -> Phase -0.059693
80 -Air -> Anti -0.065992
81 -
82 -
83 -Top unlikely transitions:
84 -Gversion -> Technique -0.391299
85 -Gversion -> Supp -0.406688
86 -Technique -> Gversion -0.428288
87 -Supp -> Vess -0.430488
88 -Phase -> Supp -0.437798
89 -Technique -> O -0.448599
90 -Air -> Gtype -0.476159
91 -Anti -> Gtype -0.500852
92 -Supp -> pH -0.583991
93 -Air -> Temp -0.602302
94 -OD -> Anti -0.617350
95 -Gversion -> Air -0.617810
96 -OD -> Technique -0.621252
97 -Gtype -> Phase -0.623518
98 -Gtype -> Technique -0.650072
99 -OD -> Supp -0.671572
100 -Technique -> Supp -0.688870
101 -Supp -> Phase -0.709665
102 -Air -> Med -0.773311
103 -Med -> Air -0.783002
104 -Gtype -> Gversion -0.797279
105 -Anti -> OD -0.803027
106 -Supp -> Temp -0.806667
107 -OD -> Temp -0.831917
108 -Gtype -> Med -0.857691
109 -Supp -> Anti -0.870891
110 -Supp -> Gversion -0.871973
111 -Phase -> Technique -0.889830
112 -Air -> Supp -0.929944
113 -OD -> Med -0.949017
114 -Temp -> Med -0.966397
115 -Agit -> O -1.011105
116 -Gtype -> Anti -1.040477
117 -Supp -> Gtype -1.040776
118 -Supp -> Technique -1.044847
119 -Supp -> OD -1.045914
120 -OD -> O -1.090042
121 -O -> Air -1.160281
122 -OD -> Air -1.213400
123 -OD -> Gtype -1.220713
124 -Supp -> Air -1.227062
125 -Air -> OD -1.334679
126 -Technique -> Gtype -1.446717
127 -Substrain -> O -1.450017
128 -Gtype -> OD -1.452352
129 -Supp -> Med -1.509084
130 -Technique -> pH -1.527185
131 -Technique -> OD -1.622827
132 -Med -> Supp -2.072342
133 -Phase -> OD -2.635203
134 -
135 -
136 -Top positive:
137 -7.689893 O b'lemma:_'
138 -6.547225 O b'lemma:1'
139 -6.266708 Phase b'lemma:stationary'
140 -6.090095 Supp b'lemma:Iron'
141 -5.988669 Air b'lemma:anaerobic'
142 -5.820969 O b'lemma:2'
143 -5.673994 Strain b'lemma:k-12'
144 -5.616058 Technique b'lemma:ChIP-exo'
145 -5.566871 Technique b'lemma:chipseq'
146 -5.425819 O b'lemma:rpob'
147 -5.405712 Air b'lemma:aerobic'
148 -5.246162 Phase b'lemma:mid-log'
149 -5.241102 O b'lemma:3'
150 -5.223694 Supp b'lemma:pq'
151 -4.895058 Gtype b'lemma:arca8myc'
152 -4.866546 O b'lemma:rep1'
153 -4.849967 Gtype b'lemma:flag-tag'
154 -4.849967 Gtype b'-1:lemma:c-terminal'
155 -4.824569 Supp b'lemma:nh4cl'
156 -4.797323 Gtype b'lemma:\xce\xb4cra'
157 -4.775172 Gversion b'lemma:asm584v2'
158 -4.709551 O b'lemma:Cra'
159 -4.640113 O b'lemma:rep2'
160 -4.639482 Supp b'lemma:glucose'
161 -4.557425 Air b'-1:lemma:ChIP-Seq'
162 -4.515191 O b'-1:lemma:tag'
163 -4.493134 Substrain b'lemma:mg1655'
164 -4.481774 O b'lemma:rep3'
165 -4.480956 Med b'lemma:MOPS'
166 -4.471922 Gtype b'lemma:wt'
167 -4.376044 Supp b'lemma:acetate'
168 -4.334523 Med b'lemma:lb'
169 -4.283076 Supp b'+1:lemma:\xc2\xb5m'
170 -4.262932 Supp b'lemma:nitrate'
171 -4.214237 Gtype b'lemma:delta-arca'
172 -4.182534 Med b'lemma:LB'
173 -4.133282 Supp b'lemma:no3'
174 -4.105821 Technique b'lemma:rna-seq'
175 -4.070487 Gtype b'lemma:fnr8myc'
176 -4.070471 Air b'lemma:Aerobic'
177 -4.038314 O b'-1:lemma:Aerobic'
178 -4.015333 Anti b'lemma:none'
179 -3.997371 O b'lemma:b'
180 -3.963707 O b'postag:IN'
181 -3.955535 O b'lemma:a'
182 -3.955270 Gtype b'-1:lemma:\xe2\x88\x86'
183 -3.924171 Supp b'lemma:Fe'
184 -3.902126 Anti b'lemma:seqa'
185 -3.896361 O b'lemma:\xcf\x8332'
186 -3.864684 Technique b'lemma:chip-seq'
187 -3.813831 Technique b'lemma:rnaseq'
188 -3.720604 Supp b'-1:lemma:Cra'
189 -3.706354 O b'lemma:.'
190 -3.706354 O b'postag:.'
191 -3.645774 Gtype b'lemma:delta-fnr'
192 -3.637816 O b'+1:postag:RB'
193 -3.621220 Supp b'lemma:dpd'
194 -3.613509 O b'lemma:CEL'
195 -3.579889 O b'postag::'
196 -3.569191 Supp b'+1:lemma:Deficient'
197 -3.564359 O b'-1:lemma:ChIP-exo'
198 -3.554295 Gversion b'lemma:chip-seq'
199 -3.542155 Supp b'lemma:rifampicin'
200 -3.526053 Supp b'lemma:fructose'
201 -3.521805 O b'lemma:Custom'
202 -3.473156 OD b'lemma:od450'
203 -3.342102 Air b'postag:RB'
204 -3.326021 Gtype b'+1:lemma:with'
205 -3.297006 O b'lemma:with'
206 -3.288934 Med b'lemma:m63'
207 -3.287331 Supp b'lemma:arginine'
208 -3.278166 Supp b'+1:lemma:1'
209 -3.240003 Med b'+1:lemma:0.4'
210 -3.218381 O b'lemma:-'
211 -3.216059 Gtype b'lemma:type'
212 -3.202503 Gtype b'lemma:\xce\xb4fur'
213 -3.194189 Gtype b'+1:lemma:type'
214 -3.193082 O b'-1:lemma:0.3-0.35'
215 -3.189850 OD b'lemma:od600'
216 -3.166033 O b'-1:lemma:glucose'
217 -3.165613 O b'lemma:chip-arca'
218 -3.154829 Vess b'lemma:flask'
219 -3.154829 Vess b'-1:lemma:warm'
220 -3.153229 O b'lemma:oxyr'
221 -3.147911 Supp b'-1:lemma:+'
222 -3.129038 Anti b'lemma:anti-myc'
223 -3.109625 O b'lemma:s'
224 -3.097715 Gtype b'lemma:\xe2\x88\x86'
225 -3.093620 O b'lemma:ompr'
226 -3.084476 O b'lemma:affyexp'
227 -3.081752 Gtype b'lemma:wild-type'
228 -3.079295 Gversion b'lemma:nc'
229 -3.078281 Temp b'lemma:\xc2\xb0c'
230 -3.063891 Gtype b'lemma:WT'
231 -3.052218 pH b'lemma:ph5'
232 -3.052218 pH b'+1:lemma:.5'
233 -3.037788 O b'+1:lemma:anti-fur'
234 -3.014541 Gtype b'lemma:\xce\xb4soxs'
235 -3.011193 O b'+1:lemma:od600'
236 -3.008729 O b'lemma:argr'
237 -3.008102 O b'-1:lemma:lb'
238 -2.997116 Strain b'+1:lemma:substr'
239 -2.984041 Supp b'+1:lemma:hour'
240 -2.972494 O b'-1:lemma:anaerobic'
241 -2.971809 O b'+1:lemma:mid-log'
242 -2.955837 Gtype b'lemma:nsrr'
243 -2.926831 O b'lemma:purr'
244 -2.916380 Gversion b'lemma:.2'
245 -2.916380 Gversion b'-1:lemma:u00096'
246 -2.905573 Air b'lemma:Anaerobic'
247 -2.889288 O b'postag:VBN'
248 -2.860540 O b'-1:lemma:stpa'
249 -2.860204 Gversion b'lemma:u00096'
250 -2.860204 Gversion b'+1:lemma:.2'
251 -2.852943 Gtype b'lemma:\xce\xb4ompr'
252 -2.843988 Technique b'lemma:ChIP-Seq'
253 -2.824246 O b'+1:lemma:pq'
254 -2.822786 Supp b'+1:lemma:2'
255 -2.803844 Supp b'lemma:Leu'
256 -2.775354 O b'lemma:or'
257 -2.765101 O b'lemma:for'
258 -2.762328 Gversion b'lemma:000913'
259 -2.728995 Supp b'+1:lemma:_'
260 -2.717013 Gtype b'lemma:ptac'
261 -2.710470 Supp b'lemma:nacl'
262 -2.700499 Gversion b'-1:lemma:nc'
263 -2.693007 O b'lemma:Lrp'
264 -2.666936 Supp b'lemma:Adenine'
265 -2.666749 Gtype b'lemma:deltaseqa'
266 -2.666749 Gtype b'-1:lemma:old'
267 -2.666456 Technique b'-1:lemma:IP'
268 -2.657018 Gtype b'-1:lemma:ptac'
269 -2.656609 O b'+1:lemma:chip-seq'
270 -2.651756 Phase b'lemma:phase'
271 -2.645047 Med b'+1:lemma:2.0'
272 -2.635317 O b'lemma:at'
273 -2.634819 O b'-1:lemma:type'
274 -2.630111 Temp b'-1:lemma:37'
275 -2.603214 Gtype b'-1:lemma:rpob'
276 -2.591068 Phase b'+1:lemma:for'
277 -2.583108 O b'lemma:soxs'
278 -2.583108 O b'lemma:soxr'
279 -2.582233 Med b'+1:lemma:minimal'
280 -2.581503 OD b'+1:lemma:stationary'
281 -2.578479 Gtype b'+1:lemma:pq'
282 -2.546464 O b'lemma:Fur'
283 -2.517595 O b'postag:SYM'
284 -2.510648 Gtype b'+1:lemma:flagtag'
285 -2.478430 Gtype b'lemma:pk4854'
286 -2.476858 O b'lemma:chip'
287 -2.476469 Temp b'lemma:43'
288 -2.467259 Anti b'+1:lemma:antibody'
289 -2.464347 Gtype b'lemma:\xce\xb4oxyr'
290 -2.456036 Technique b'-1:lemma:input'
291 -2.439409 Air b'lemma:anerobically'
292 -2.439013 Supp b'lemma:iptg'
293 -2.427281 Phase b'-1:lemma:until'
294 -2.422079 O b'lemma:pt7'
295 -2.420462 Gtype b'lemma:\xce\xb4soxr'
296 -2.412058 O b'+1:lemma:o.d.'
297 -2.408051 Gtype b'+1:lemma:aerobic'
298 -2.394275 O b'lemma:2-3'
299 -2.382935 Air b'+1:lemma:at'
300 -2.372931 Technique b'-1:lemma:chip-exo'
301 -2.369521 Anti b'lemma:anti-rpos'
302 -2.363747 Substrain b'+1:lemma:phtpg'
303 -2.362943 O b'lemma:chip-fnr'
304 -2.354731 Med b'-1:lemma:ml'
305 -2.334266 Temp b'-1:lemma:43'
306 -2.309210 Gtype b'-1:lemma:nsrr'
307 -2.303678 Med b'postag:NNP'
308 -2.285357 O b'+1:lemma:43'
309 -2.282215 Air b'-1:lemma:-'
310 -2.273224 Gversion b'+1:lemma:000913'
311 -2.271839 Air b'-1:postag::'
312 -2.266287 Technique b'+1:lemma:chip-exo'
313 -2.264396 Med b'lemma:L'
314 -2.264396 Med b'+1:lemma:broth'
315 -2.262410 Air b'lemma:anaerobically'
316 -2.203015 Gtype b'lemma:dfnr'
317 -2.189315 pH b'lemma:.5'
318 -2.189315 pH b'-1:lemma:ph5'
319 -2.188404 Med b'lemma:glucose'
320 -2.187878 Gtype b'-1:lemma:_'
321 -2.186093 O b'postag:CC'
322 -2.181846 Vess b'-1:postag:VBN'
323 -2.178752 O b'-1:lemma:0.3'
324 -2.171387 O b'lemma:culture'
325 -2.168119 Gtype b'+1:lemma:ph5'
326 -2.151683 Gtype b'lemma:flagtag'
327 -2.151117 Supp b'+1:lemma:respiratory'
328 -2.148355 Technique b'postag:NNP'
329 -2.143403 Supp b'+1:lemma:leucine'
330 -2.130979 O b'lemma:A'
331 -2.126486 O b'-1:lemma:dpd'
332 -2.125151 O b'lemma:genotype/variation'
333 -2.124402 Air b'-1:lemma:_'
334 -2.119304 Gtype b'-1:lemma:express'
335 -2.116025 O b'-1:lemma:\xc2\xb0c'
336 -2.113245 Med b'-1:lemma:LB'
337 -
338 -
339 -Top negative:
340 --0.149474 O b'-1:lemma:150'
341 --0.156324 Supp b'+1:lemma:glucose'
342 --0.166525 O b'+1:lemma:or'
343 --0.166657 Gtype b'+1:lemma:cra'
344 --0.169192 Air b'postag:CD'
345 --0.171249 O b'-1:lemma:delta'
346 --0.175879 Gtype b'lemma:ompr'
347 --0.178610 O b'-1:lemma:-lrb-'
348 --0.179471 O b'+1:lemma:mm'
349 --0.183332 O b'lemma:e.'
350 --0.187133 O b'lemma:paraquat'
351 --0.187912 O b'-1:lemma:purify'
352 --0.190418 O b'-1:lemma:of'
353 --0.193237 O b'-1:lemma:the'
354 --0.196917 Gtype b'-1:lemma:,'
355 --0.196917 Gtype b'-1:postag:,'
356 --0.207686 O b'-1:postag:VBP'
357 --0.211483 Gtype b'-1:lemma:-lrb-'
358 --0.212783 O b'lemma:aerobically'
359 --0.213130 O b'-1:lemma:e.'
360 --0.215721 O b'+1:postag:-RRB-'
361 --0.215839 Supp b'+1:postag:IN'
362 --0.218911 Supp b'lemma:and'
363 --0.223065 Med b'+1:lemma:media'
364 --0.225231 Gtype b'lemma:control'
365 --0.230542 Supp b'-1:postag:NN'
366 --0.230830 O b'-1:postag:-LRB-'
367 --0.235271 Gtype b'-1:lemma:mg1655'
368 --0.251142 Med b'-1:postag:NN'
369 --0.251447 Temp b'-1:postag:IN'
370 --0.253195 O b'+1:lemma:from'
371 --0.254622 Gtype b'postag:CD'
372 --0.254892 O b'lemma:lb'
373 --0.256765 O b'-1:lemma:300'
374 --0.260131 Gtype b'+1:lemma:a'
375 --0.260302 Med b'-1:postag:CD'
376 --0.260618 O b'+1:lemma:antibody'
377 --0.264891 O b'lemma:m63'
378 --0.266272 O b'+1:lemma:.'
379 --0.266272 O b'+1:postag:.'
380 --0.266629 O b'-1:lemma:with'
381 --0.268778 Med b'-1:lemma:MOPS'
382 --0.269344 Phase b'-1:lemma:at'
383 --0.269854 Gtype b'+1:lemma:2'
384 --0.272035 Gtype b'postag:NNS'
385 --0.274858 O b'-1:lemma:minimal'
386 --0.277854 O b'lemma:n2'
387 --0.278065 O b'lemma:grow'
388 --0.278999 O b'lemma:8'
389 --0.281569 Med b'+1:postag:NNS'
390 --0.293395 O b'lemma:minimal'
391 --0.295919 O b'-1:lemma:mm'
392 --0.305450 Gtype b'+1:lemma:b'
393 --0.305852 Gtype b'+1:postag:NNS'
394 --0.307660 Supp b'postag:CC'
395 --0.307762 Technique b'-1:lemma::'
396 --0.307991 OD b'+1:lemma:in'
397 --0.317047 O b'-1:lemma:rna'
398 --0.320066 O b'lemma:co2'
399 --0.325889 O b'+1:lemma:0.4'
400 --0.328270 O b'+1:lemma:-lcb-'
401 --0.339366 O b'-1:lemma:n2'
402 --0.341156 Temp b'postag:JJ'
403 --0.344639 Gtype b'lemma:_'
404 --0.356368 Gtype b'-1:postag:CD'
405 --0.357550 O b'lemma:30'
406 --0.367269 O b'postag:RB'
407 --0.374575 O b'-1:lemma:0.1'
408 --0.377633 O b'+1:postag:IN'
409 --0.390722 O b'+1:lemma:delta'
410 --0.393066 O b'-1:lemma:iptg'
411 --0.393438 O b'-1:lemma:20'
412 --0.397913 Technique b'-1:postag::'
413 --0.402618 O b'-1:lemma:chip-exo'
414 --0.404112 O b'-1:lemma:grow'
415 --0.409921 Anti b'+1:postag:JJ'
416 --0.417260 O b'-1:lemma:g/l'
417 --0.428925 O b'lemma:glucose'
418 --0.432215 Med b'+1:postag:IN'
419 --0.434983 OD b'+1:postag:NN'
420 --0.441704 O b'+1:lemma:phase'
421 --0.446493 O b'+1:lemma:shake'
422 --0.450617 O b'-1:lemma:30'
423 --0.457886 O b'+1:lemma:%'
424 --0.468431 OD b'+1:postag:CC'
425 --0.468469 O b'lemma:of'
426 --0.472653 O b'+1:lemma:cell'
427 --0.473701 Temp b'-1:lemma:\xc2\xb0c'
428 --0.476616 O b'-1:lemma:cra'
429 --0.480503 O b'+1:lemma:dissolve'
430 --0.480603 Med b'lemma:-lrb-'
431 --0.484800 OD b'+1:lemma:and'
432 --0.485490 O b'+1:lemma:_'
433 --0.489193 O b'-1:lemma:affinity'
434 --0.501511 O b'+1:lemma:strain'
435 --0.503046 O b'lemma:\xc2\xb0c'
436 --0.519614 O b'+1:lemma:until'
437 --0.520710 O b'lemma:nacl'
438 --0.522191 Gtype b'+1:lemma:\xe2\x88\x86'
439 --0.533499 Med b'postag:CD'
440 --0.534388 O b'-1:lemma:um'
441 --0.534388 O b'+1:lemma:paraquat'
442 --0.534863 pH b'postag:NN'
443 --0.548817 O b'+1:lemma:300'
444 --0.557597 O b'-1:lemma:o2'
445 --0.560591 O b'-1:lemma:mid-log'
446 --0.563679 O b'-1:lemma:rifampicin'
447 --0.578432 O b'lemma:phase'
448 --0.584471 O b'-1:lemma:from'
449 --0.585725 Air b'-1:lemma:or'
450 --0.594033 O b'-1:lemma:fresh'
451 --0.597339 Med b'postag:-LRB-'
452 --0.604705 OD b'lemma:-lrb-'
453 --0.615198 O b'-1:lemma:od600'
454 --0.623443 Supp b'+1:postag:VBN'
455 --0.646640 O b'+1:lemma:Aerobic'
456 --0.653308 O b'+1:lemma:b'
457 --0.657858 Supp b'-1:postag:VBG'
458 --0.666631 Gtype b'-1:postag:SYM'
459 --0.704110 OD b'postag:-LRB-'
460 --0.706773 Gtype b'-1:postag:DT'
461 --0.707294 O b'lemma:mg1655'
462 --0.715679 Supp b'+1:lemma:rifampicin'
463 --0.720336 O b'lemma:dissolve'
464 --0.723788 O b'+1:lemma:c'
465 --0.727949 O b'+1:lemma:rep1'
466 --0.753817 O b'lemma:150'
467 --0.753817 O b'+1:lemma:mg/ml'
468 --0.778468 O b'+1:lemma:arginine'
469 --0.780795 O b'lemma:purify'
470 --0.809568 Med b'-1:postag:IN'
471 --0.813987 O b'+1:postag:NNS'
472 --0.838649 Temp b'+1:lemma:to'
473 --0.838649 Temp b'+1:postag:TO'
474 --0.849944 Temp b'postag:NN'
475 --0.860992 O b'+1:lemma:\xc2\xb0c'
476 --0.865219 O b'-1:lemma:1'
477 --0.874261 O b'-1:lemma:\xe2\x88\x86'
478 --0.881565 O b'-1:lemma:~'
479 --0.915657 Supp b'-1:lemma:%'
480 --0.928703 Anti b'+1:lemma:anti-fur'
481 --0.960297 O b'lemma:20'
482 --0.970042 O b'+1:lemma:0.3'
483 --0.979767 O b'lemma:anaerobically'
484 --0.987659 O b'-1:lemma:co2'
485 --0.993540 O b'-1:lemma:0.2'
486 --0.993726 OD b'postag:JJ'
487 --1.006779 O b'lemma:dpd'
488 --1.009452 O b'lemma:mid-log'
489 --1.021860 O b'-1:lemma:until'
490 --1.039817 Air b'-1:postag:JJ'
491 --1.045265 O b'lemma:od600'
492 --1.056795 O b'lemma:media'
493 --1.088631 O b'+1:lemma:fecl2'
494 --1.105343 O b'lemma:anaerobic'
495 --1.112271 O b'lemma:0.2'
496 --1.113717 O b'lemma:0.3'
497 --1.126838 O b'lemma:\xe2\x88\x86'
498 --1.130388 O b'lemma:0.1'
499 --1.131645 O b'+1:lemma:supplement'
500 --1.150779 O b'lemma:fecl2'
501 --1.165447 Phase b'-1:postag:JJ'
502 --1.167544 Supp b'+1:lemma:acetate'
503 --1.170520 Gtype b'lemma:delta'
504 --1.179414 O b'-1:lemma:dissolve'
505 --1.179414 O b'+1:lemma:methanol'
506 --1.248724 O b'lemma:2h'
507 --1.248724 O b'-1:lemma:additional'
508 --1.254425 O b'+1:lemma:in'
509 --1.288356 O b'+1:postag:VBG'
510 --1.296222 O b'+1:lemma:at'
511 --1.331987 O b'+1:lemma:g/l'
512 --1.341740 O b'-1:lemma:sample'
513 --1.346196 O b'-1:postag:VBG'
514 --1.378677 O b'lemma:\xce\xb4fur'
515 --1.510150 O b'-1:lemma:ml'
516 --1.524262 O b'-1:lemma:ompr'
517 --1.555514 Air b'postag:NN'
518 --1.598034 O b'-1:postag::'
519 --1.620081 O b'-1:lemma:rpob'
520 --1.620254 O b'lemma:k-12'
521 --1.654660 Supp b'postag:JJ'
522 --1.689276 O b'-1:lemma:37'
523 --1.759178 Anti b'postag:NNP'
524 --1.772606 Air b'+1:postag:JJ'
525 --1.784898 O b'-1:lemma:nsrr'
526 --1.793413 O b'lemma:37'
527 --1.813616 O b'lemma:wt'
528 --1.828954 O b'postag:VBP'
529 --1.829052 O b'lemma:methanol'
530 --1.928972 O b'-1:lemma:IP'
531 --1.940994 Phase b'postag:JJ'
532 --1.956302 O b'lemma:rifampicin'
533 --1.960859 O b'+1:lemma:hour'
534 --2.041737 O b'-1:lemma:2'
535 --2.306261 O b'+1:lemma:2'
536 --2.397974 O b'+1:lemma:+'
537 --2.892885 O b'+1:lemma:1'
538 --3.539807 O b'-1:lemma:_'
539 --3.548713 O b'-1:lemma::'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.17443878436909793, 'c2': 0.025545309300829405}
5 -best CV score:0.8013809966284335
6 -model size: 0.07M
7 -
8 -Flat F1: 0.7888604569464981
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.889 0.842 0.865 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.444 0.615 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.863 0.774 0.816 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.865 0.662 0.750 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.876 0.735 0.789 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.306877
32 -OD -> OD 6.147632
33 -Temp -> Temp 5.545039
34 -Anti -> Anti 5.171893
35 -Med -> Med 5.147638
36 -Air -> Air 4.902392
37 -Phase -> Phase 4.459229
38 -O -> O 4.458501
39 -Gtype -> Gtype 4.423121
40 -Gversion -> Gversion 4.364069
41 -Supp -> Supp 4.020395
42 -Technique -> Technique 3.591576
43 -O -> Supp 2.031115
44 -Gtype -> Supp 1.883986
45 -pH -> pH 1.853329
46 -Air -> O 1.713991
47 -Substrain -> Gtype 1.583252
48 -O -> Gtype 1.310027
49 -O -> Technique 1.273208
50 -O -> Anti 0.815027
51 -Technique -> Air 0.812634
52 -O -> Temp 0.731105
53 -Med -> O 0.704800
54 -Temp -> O 0.557160
55 -Gtype -> pH 0.523657
56 -O -> Gversion 0.472268
57 -Supp -> O 0.279601
58 -Gtype -> Air 0.238299
59 -Phase -> O 0.228824
60 -OD -> Phase 0.203194
61 -O -> Med 0.116408
62 -O -> Phase 0.053144
63 -O -> OD 0.051079
64 -O -> Strain 0.044893
65 -Anti -> O 0.000291
66 -Supp -> OD -0.000005
67 -Anti -> OD -0.000026
68 -Technique -> O -0.000302
69 -Supp -> Technique -0.017197
70 -Gtype -> Gversion -0.044939
71 -Gtype -> O -0.049058
72 -Supp -> Gversion -0.122184
73 -Supp -> Gtype -0.141890
74 -Technique -> OD -0.217801
75 -OD -> Med -0.233349
76 -Gtype -> Med -0.266427
77 -OD -> Gtype -0.270554
78 -OD -> Air -0.350613
79 -Supp -> Air -0.370520
80 -Gtype -> Anti -0.385968
81 -
82 -
83 -Top unlikely transitions:
84 -Supp -> Supp 4.020395
85 -Technique -> Technique 3.591576
86 -O -> Supp 2.031115
87 -Gtype -> Supp 1.883986
88 -pH -> pH 1.853329
89 -Air -> O 1.713991
90 -Substrain -> Gtype 1.583252
91 -O -> Gtype 1.310027
92 -O -> Technique 1.273208
93 -O -> Anti 0.815027
94 -Technique -> Air 0.812634
95 -O -> Temp 0.731105
96 -Med -> O 0.704800
97 -Temp -> O 0.557160
98 -Gtype -> pH 0.523657
99 -O -> Gversion 0.472268
100 -Supp -> O 0.279601
101 -Gtype -> Air 0.238299
102 -Phase -> O 0.228824
103 -OD -> Phase 0.203194
104 -O -> Med 0.116408
105 -O -> Phase 0.053144
106 -O -> OD 0.051079
107 -O -> Strain 0.044893
108 -Anti -> O 0.000291
109 -Supp -> OD -0.000005
110 -Anti -> OD -0.000026
111 -Technique -> O -0.000302
112 -Supp -> Technique -0.017197
113 -Gtype -> Gversion -0.044939
114 -Gtype -> O -0.049058
115 -Supp -> Gversion -0.122184
116 -Supp -> Gtype -0.141890
117 -Technique -> OD -0.217801
118 -OD -> Med -0.233349
119 -Gtype -> Med -0.266427
120 -OD -> Gtype -0.270554
121 -OD -> Air -0.350613
122 -Supp -> Air -0.370520
123 -Gtype -> Anti -0.385968
124 -OD -> O -0.418172
125 -Technique -> pH -0.477927
126 -Technique -> Gtype -0.483798
127 -Agit -> O -0.566238
128 -Gtype -> OD -0.640169
129 -O -> Air -0.714813
130 -Substrain -> O -0.787403
131 -Supp -> Med -1.021657
132 -Med -> Supp -1.114839
133 -Phase -> OD -1.698506
134 -
135 -
136 -Top positive:
137 -7.703197 O b'lemma:_'
138 -6.586493 O b'lemma:1'
139 -6.452806 Supp b'lemma:Iron'
140 -6.361401 Air b'lemma:anaerobic'
141 -5.975656 Air b'lemma:aerobic'
142 -5.920948 Technique b'lemma:ChIP-exo'
143 -5.738728 Strain b'lemma:k-12'
144 -5.658145 Phase b'lemma:stationary'
145 -5.415422 O b'lemma:2'
146 -5.410677 O b'lemma:rpob'
147 -5.181966 Technique b'lemma:chipseq'
148 -5.121249 Air b'-1:lemma:ChIP-Seq'
149 -5.109143 Phase b'lemma:mid-log'
150 -5.088706 O b'lemma:3'
151 -4.962756 Supp b'lemma:nitrate'
152 -4.946743 Supp b'lemma:pq'
153 -4.905311 O b'postag:IN'
154 -4.838793 Substrain b'lemma:mg1655'
155 -4.488840 Gtype b'lemma:flag-tag'
156 -4.488840 Gtype b'-1:lemma:c-terminal'
157 -4.477738 Gversion b'lemma:asm584v2'
158 -4.418207 O b'lemma:rep1'
159 -4.390936 Supp b'lemma:nh4cl'
160 -4.364183 Gtype b'-1:lemma:\xe2\x88\x86'
161 -4.354227 Gtype b'lemma:\xce\xb4cra'
162 -4.193812 Air b'lemma:Aerobic'
163 -4.171274 Supp b'lemma:glucose'
164 -4.140212 O b'lemma:\xcf\x8332'
165 -4.133873 Supp b'+1:lemma:\xc2\xb5m'
166 -4.133709 O b'lemma:rep2'
167 -4.094915 Med b'lemma:MOPS'
168 -4.091880 O b'postag::'
169 -4.082369 O b'-1:lemma:tag'
170 -4.079739 Med b'lemma:lb'
171 -4.056839 OD b'lemma:od600'
172 -4.039045 Gtype b'lemma:wt'
173 -3.989316 O b'lemma:Cra'
174 -3.968660 Gtype b'lemma:arca8myc'
175 -3.943132 O b'lemma:rep3'
176 -3.855516 Gversion b'lemma:nc'
177 -3.813109 Med b'lemma:LB'
178 -3.805010 O b'-1:lemma:ChIP-exo'
179 -3.780222 O b'lemma:b'
180 -3.776136 O b'lemma:a'
181 -3.762332 Gtype b'lemma:type'
182 -3.692897 Technique b'lemma:ChIP-Seq'
183 -3.685963 Technique b'lemma:rna-seq'
184 -3.608750 Supp b'lemma:Fe'
185 -3.602563 Gtype b'lemma:delta-arca'
186 -3.582946 O b'lemma:Custom'
187 -3.480469 Supp b'lemma:acetate'
188 -3.448871 Gversion b'-1:lemma:nc'
189 -3.444218 Supp b'lemma:no3'
190 -3.437906 O b'lemma:.'
191 -3.437906 O b'postag:.'
192 -3.437516 Technique b'lemma:chip-seq'
193 -3.389135 Supp b'lemma:rifampicin'
194 -3.386406 Gtype b'lemma:fnr8myc'
195 -3.384496 Gtype b'+1:lemma:type'
196 -3.339808 OD b'lemma:od450'
197 -3.322726 Gtype b'lemma:\xe2\x88\x86'
198 -3.304027 Technique b'lemma:rnaseq'
199 -3.256257 O b'+1:lemma:od600'
200 -3.186356 Anti b'lemma:none'
201 -3.181887 Supp b'lemma:dpd'
202 -3.055580 O b'-1:lemma:0.3-0.35'
203 -3.054658 Gtype b'lemma:nsrr'
204 -3.030442 Gtype b'lemma:\xce\xb4fur'
205 -3.025184 Vess b'lemma:flask'
206 -3.025184 Vess b'-1:lemma:warm'
207 -3.015874 O b'lemma:-'
208 -3.009573 Gtype b'lemma:delta-fnr'
209 -2.998130 Supp b'lemma:fructose'
210 -2.988910 O b'lemma:CEL'
211 -2.974937 pH b'lemma:ph5'
212 -2.974937 pH b'+1:lemma:.5'
213 -2.972759 Anti b'+1:lemma:antibody'
214 -2.954856 Med b'+1:lemma:0.4'
215 -2.925179 O b'-1:lemma:Aerobic'
216 -2.879985 O b'+1:postag:RB'
217 -2.865018 Med b'lemma:m63'
218 -2.859747 Gtype b'-1:lemma:ptac'
219 -2.825574 Supp b'lemma:arginine'
220 -2.824511 Technique b'-1:lemma:IP'
221 -2.817298 O b'postag:VBN'
222 -2.813172 Anti b'lemma:seqa'
223 -2.812406 Temp b'-1:lemma:sample'
224 -2.763158 Gtype b'+1:lemma:with'
225 -2.754310 Temp b'lemma:\xc2\xb0c'
226 -2.723063 Supp b'+1:lemma:1'
227 -2.675834 O b'-1:lemma:type'
228 -2.671720 Gversion b'lemma:chip-seq'
229 -2.653537 Supp b'+1:lemma:2'
230 -2.650378 Air b'postag:RB'
231 -2.631712 Gversion b'lemma:u00096'
232 -2.631712 Gversion b'+1:lemma:.2'
233 -2.616863 Supp b'-1:lemma:Cra'
234 -2.615297 O b'-1:lemma:glucose'
235 -2.613954 O b'postag:CC'
236 -2.589956 Gtype b'-1:lemma:rpob'
237 -2.582195 O b'lemma:with'
238 -2.540802 Gversion b'lemma:000913'
239 -2.539352 Gversion b'lemma:.2'
240 -2.539352 Gversion b'-1:lemma:u00096'
241 -2.503419 O b'lemma:chip'
242 -2.502065 Gtype b'lemma:wild-type'
243 -2.487392 Technique b'+1:lemma:chip-exo'
244 -2.444920 Supp b'+1:lemma:_'
245 -2.434479 O b'-1:lemma:anaerobic'
246 -2.420671 Gtype b'+1:lemma:flagtag'
247 -2.395183 Anti b'lemma:anti-myc'
248 -2.385218 Strain b'+1:lemma:substr'
249 -2.376772 Technique b'-1:lemma:chip-exo'
250 -2.348313 pH b'lemma:.5'
251 -2.348313 pH b'-1:lemma:ph5'
252 -2.334952 O b'lemma:s'
253 -2.334641 OD b'+1:lemma:stationary'
254 -2.330137 O b'-1:lemma:lb'
255 -2.298914 Air b'lemma:anaerobically'
256 -2.282617 Supp b'+1:lemma:Deficient'
257 -2.277510 Med b'+1:lemma:minimal'
258 -2.269747 Gtype b'+1:lemma:ph5'
259 -2.257564 Gtype b'+1:lemma:pq'
260 -2.256911 Temp b'-1:lemma:\xcf\x8332'
261 -2.250901 O b'lemma:oxyr'
262 -2.238383 Gtype b'lemma:\xce\xb4ompr'
263 -2.232015 Gtype b'lemma:\xce\xb4soxs'
264 -2.222768 O b'lemma:or'
265 -2.220103 Supp b'-1:lemma:+'
266 -2.219418 Anti b'lemma:anti-rpos'
267 -2.194736 Supp b'+1:lemma:hour'
268 -2.194499 Temp b'-1:lemma:43'
269 -2.187158 O b'postag:VBG'
270 -2.177204 pH b'+1:postag:CD'
271 -2.177114 Supp b'-1:lemma:\xc2\xb5m'
272 -2.151093 Supp b'lemma:nacl'
273 -2.140203 O b'postag:DT'
274 -2.133179 O b'+1:lemma:pq'
275 -2.131891 O b'-1:lemma:stpa'
276 -2.130575 O b'lemma:affyexp'
277 -2.104996 Temp b'lemma:43'
278 -2.103942 O b'+1:lemma:o.d.'
279 -2.096381 O b'lemma:for'
280 -2.062239 O b'-1:lemma:l1'
281 -2.059181 O b'-1:lemma:\xc2\xb0c'
282 -2.056904 O b'lemma:chip-arca'
283 -2.042964 Gtype b'+1:lemma:_'
284 -2.037784 Air b'-1:lemma:-'
285 -2.033829 Supp b'lemma:20'
286 -2.033283 Med b'+1:lemma:2.0'
287 -2.030340 Air b'lemma:Anaerobic'
288 -2.025461 O b'lemma:culture'
289 -2.007866 O b'+1:postag:NNP'
290 -2.002694 Supp b'lemma:Leu'
291 -1.992014 O b'lemma:Lrp'
292 -1.990572 O b'+1:lemma:anti-fur'
293 -1.987491 O b'lemma:ompr'
294 -1.985226 Temp b'lemma:37'
295 -1.981458 Temp b'+1:lemma:\xc2\xb0c'
296 -1.954050 Technique b'-1:lemma:input'
297 -1.939671 Air b'-1:lemma:co2'
298 -1.933847 Gtype b'lemma:deltaseqa'
299 -1.933847 Gtype b'-1:lemma:old'
300 -1.924772 O b'+1:lemma:chip-seq'
301 -1.922580 O b'lemma:Fur'
302 -1.920444 Med b'-1:lemma:ml'
303 -1.908513 Gtype b'lemma:ptac'
304 -1.905616 Supp b'lemma:iptg'
305 -1.905043 Temp b'-1:lemma:37'
306 -1.897096 Med b'lemma:glucose'
307 -1.886045 O b'+1:lemma:mid-log'
308 -1.880944 Supp b'lemma:Adenine'
309 -1.871549 Med b'lemma:media'
310 -1.869057 Gtype b'lemma:pk4854'
311 -1.858978 Med b'lemma:L'
312 -1.858978 Med b'+1:lemma:broth'
313 -1.849089 O b'postag:SYM'
314 -1.839128 Supp b'lemma:0.2'
315 -1.838608 Gtype b'lemma:WT'
316 -1.834443 Gtype b'+1:lemma:aerobic'
317 -1.824894 Supp b'-1:lemma:with'
318 -1.808905 O b'+1:lemma:43'
319 -1.792132 O b'lemma:argr'
320 -1.790393 Substrain b'+1:lemma:phtpg'
321 -1.786085 Phase b'-1:lemma:mid-log'
322 -1.783387 Technique b'+1:lemma:rna-seq'
323 -1.774887 Med b'+1:lemma:g/l'
324 -1.773397 Gtype b'-1:lemma:nsrr'
325 -1.771235 Med b'+1:lemma:+'
326 -1.769899 Med b'postag:NNP'
327 -1.769535 Supp b'-1:lemma:mm'
328 -1.763683 Air b'-1:postag:CD'
329 -1.752886 OD b'-1:lemma:~'
330 -1.749965 O b'-1:lemma:0.3'
331 -1.744858 O b'lemma:at'
332 -1.740916 Supp b'lemma:methanol'
333 -1.740449 O b'lemma:purr'
334 -1.740138 Technique b'-1:lemma:_'
335 -1.740075 Med b'lemma:broth'
336 -1.740075 Med b'-1:lemma:L'
337 -
338 -
339 -Top negative:
340 -0.000364 O b'+1:lemma:70'
341 -0.000332 O b'lemma:fresh'
342 -0.000294 O b'postag:VBZ'
343 -0.000275 OD b'+1:lemma::'
344 -0.000231 O b'-1:lemma:medium'
345 -0.000175 Supp b'-1:postag:NN'
346 -0.000167 Gtype b'-1:lemma:hn'
347 -0.000124 O b'lemma:coli'
348 -0.000118 OD b'+1:lemma:0.15'
349 -0.000060 Agit b'+1:postag:VBG'
350 -0.000056 Gversion b'-1:lemma:the'
351 -0.000042 O b'+1:lemma:harvest'
352 -0.000028 Med b'-1:lemma:2'
353 -0.000027 O b'lemma:w0002'
354 -0.000026 Anti b'-1:postag:NN'
355 -0.000024 O b'lemma:50'
356 -0.000023 O b'-1:lemma:with'
357 -0.000023 Supp b'lemma:hour'
358 -0.000022 Gversion b'-1:postag:DT'
359 -0.000013 Supp b'-1:lemma:10'
360 -0.000010 Substrain b'postag:NN'
361 -0.000009 Med b'lemma:-rrb-'
362 -0.000009 Gtype b'lemma:the'
363 -0.000009 O b'+1:lemma:um'
364 -0.000007 Med b'postag:-RRB-'
365 -0.000004 Gtype b'-1:lemma:cra'
366 --0.000007 Med b'+1:postag:NNS'
367 --0.000009 O b'+1:lemma:aerobically'
368 --0.000017 O b'-1:lemma:until'
369 --0.000027 O b'lemma:mg/ml'
370 --0.000027 O b'-1:lemma:150'
371 --0.000033 O b'+1:lemma:phase'
372 --0.000034 OD b'postag:NNS'
373 --0.000193 Gversion b'-1:postag:NN'
374 --0.000221 O b'lemma:glucose'
375 --0.000434 O b'lemma:purify'
376 --0.000743 O b'+1:lemma:grow'
377 --0.000794 O b'lemma:\xc2\xb0c'
378 --0.000895 O b'+1:lemma:mg1655'
379 --0.001880 O b'+1:lemma:n2'
380 --0.003127 O b'-1:lemma:20'
381 --0.003470 Gtype b'-1:postag:NN'
382 --0.003555 Temp b'-1:lemma:\xc2\xb0c'
383 --0.003698 OD b'+1:lemma:0.4'
384 --0.003819 Gtype b'+1:postag:NNS'
385 --0.003979 OD b'-1:postag:DT'
386 --0.004093 Air b'-1:lemma:anaerobically'
387 --0.005847 OD b'lemma:~'
388 --0.007703 OD b'+1:lemma:-lrb-'
389 --0.008413 OD b'+1:lemma:~'
390 --0.010004 OD b'+1:lemma:and'
391 --0.011677 Air b'+1:lemma:-lrb-'
392 --0.015840 OD b'+1:postag:NNS'
393 --0.022634 Air b'+1:postag:-LRB-'
394 --0.022941 O b'lemma:m63'
395 --0.024873 OD b'+1:postag:CD'
396 --0.025582 O b'lemma:dpd'
397 --0.030490 Supp b'+1:postag:VBN'
398 --0.041555 Air b'-1:postag:CC'
399 --0.047125 Supp b'+1:lemma:-rrb-'
400 --0.048162 Phase b'-1:postag:NN'
401 --0.048198 Air b'-1:lemma:70'
402 --0.056727 O b'+1:lemma:rep1'
403 --0.061184 O b'-1:lemma:-lrb-'
404 --0.062123 O b'lemma:e.'
405 --0.067649 O b'-1:lemma:mid-log'
406 --0.079172 O b'-1:lemma:e.'
407 --0.079999 Med b'-1:postag:IN'
408 --0.081811 Air b'postag:CC'
409 --0.082914 Supp b'+1:postag:-RRB-'
410 --0.084681 OD b'postag:JJ'
411 --0.087207 O b'-1:lemma:,'
412 --0.087207 O b'-1:postag:,'
413 --0.091606 O b'-1:lemma:from'
414 --0.094097 Air b'postag:CD'
415 --0.094790 O b'-1:lemma:o2'
416 --0.098442 Gtype b'-1:postag:SYM'
417 --0.101371 O b'lemma:30'
418 --0.102952 O b'-1:lemma:30'
419 --0.104458 Med b'-1:postag:NN'
420 --0.104966 O b'-1:postag:VBN'
421 --0.106487 OD b'+1:postag:-LRB-'
422 --0.115379 O b'-1:lemma:0.1'
423 --0.123943 Gtype b'postag:CD'
424 --0.125483 O b'lemma:n2'
425 --0.128182 O b'+1:lemma:5'
426 --0.130795 Air b'-1:lemma:or'
427 --0.131840 O b'lemma:co2'
428 --0.131841 Supp b'lemma:and'
429 --0.133586 O b'-1:lemma:g/l'
430 --0.139512 Phase b'-1:lemma:at'
431 --0.139664 O b'+1:lemma:300'
432 --0.140814 Gtype b'-1:postag:CD'
433 --0.148051 Temp b'postag:JJ'
434 --0.148722 O b'-1:lemma:n2'
435 --0.151800 Phase b'+1:postag:NN'
436 --0.154097 O b'+1:lemma:shake'
437 --0.157668 O b'-1:lemma:rifampicin'
438 --0.160737 Supp b'postag:CC'
439 --0.163938 Technique b'-1:lemma::'
440 --0.192959 Med b'postag:CD'
441 --0.196077 Gversion b'+1:postag:NN'
442 --0.197347 Med b'+1:postag:IN'
443 --0.198353 O b'-1:lemma:the'
444 --0.210857 O b'+1:lemma:.'
445 --0.210857 O b'+1:postag:.'
446 --0.212158 O b'-1:postag:IN'
447 --0.224946 Anti b'+1:postag:JJ'
448 --0.229079 O b'lemma:lb'
449 --0.229762 O b'-1:lemma:iptg'
450 --0.230713 O b'-1:lemma:0.2'
451 --0.230962 O b'lemma:k-12'
452 --0.231370 O b'-1:lemma:of'
453 --0.233847 O b'lemma:150'
454 --0.233847 O b'+1:lemma:mg/ml'
455 --0.235755 O b'+1:lemma:\xc2\xb0c'
456 --0.239301 O b'+1:lemma:until'
457 --0.241454 O b'+1:lemma:-rrb-'
458 --0.291406 Med b'+1:postag:NN'
459 --0.300667 O b'-1:lemma:1'
460 --0.301872 O b'-1:postag:-LRB-'
461 --0.304883 Phase b'-1:postag:JJ'
462 --0.316741 O b'+1:lemma:arginine'
463 --0.323570 O b'-1:lemma:cra'
464 --0.324550 pH b'postag:NN'
465 --0.337342 O b'lemma:\xe2\x88\x86'
466 --0.341398 Anti b'+1:lemma:anti-fur'
467 --0.348116 O b'+1:postag:IN'
468 --0.392002 O b'+1:lemma:%'
469 --0.397249 O b'lemma:phase'
470 --0.397709 O b'lemma:anaerobic'
471 --0.418316 O b'+1:postag:-RRB-'
472 --0.425489 O b'lemma:dissolve'
473 --0.429358 O b'+1:lemma:0.3'
474 --0.434377 Supp b'-1:lemma:%'
475 --0.452106 Temp b'+1:lemma:to'
476 --0.452106 Temp b'+1:postag:TO'
477 --0.459401 Phase b'postag:JJ'
478 --0.481800 O b'+1:lemma:c'
479 --0.510217 O b'lemma:\xce\xb4fur'
480 --0.512490 O b'+1:lemma:fecl2'
481 --0.514242 O b'-1:lemma:od600'
482 --0.519690 O b'-1:lemma:ml'
483 --0.534845 O b'lemma:media'
484 --0.543546 O b'+1:postag:NNS'
485 --0.552477 O b'lemma:20'
486 --0.554174 O b'lemma:0.3'
487 --0.554563 O b'postag:VBP'
488 --0.558858 Supp b'+1:lemma:rifampicin'
489 --0.584166 O b'-1:lemma:rpob'
490 --0.595632 OD b'+1:lemma:of'
491 --0.601347 OD b'lemma:-lrb-'
492 --0.606330 O b'-1:lemma:~'
493 --0.609828 Air b'-1:postag:JJ'
494 --0.617562 O b'+1:lemma:cell'
495 --0.628406 O b'-1:lemma:sample'
496 --0.648795 O b'-1:lemma:co2'
497 --0.650443 Supp b'+1:lemma:acetate'
498 --0.661394 O b'lemma:anaerobically'
499 --0.661739 Technique b'-1:postag::'
500 --0.694556 Temp b'postag:NN'
501 --0.699281 O b'+1:postag:VBG'
502 --0.806053 O b'-1:lemma:grow'
503 --0.835270 OD b'postag:-LRB-'
504 --0.843540 O b'lemma:fecl2'
505 --0.844938 O b'lemma:2h'
506 --0.844938 O b'-1:lemma:additional'
507 --0.860246 O b'lemma:0.2'
508 --0.918603 O b'lemma:0.1'
509 --0.919972 OD b'+1:postag:NN'
510 --0.923722 O b'lemma:od600'
511 --0.997956 O b'lemma:37'
512 --1.049790 O b'+1:lemma:supplement'
513 --1.054918 O b'-1:lemma:dissolve'
514 --1.054918 O b'+1:lemma:methanol'
515 --1.059657 O b'lemma:of'
516 --1.079576 O b'+1:lemma:g/l'
517 --1.102935 O b'-1:postag:VBG'
518 --1.103027 O b'lemma:mid-log'
519 --1.131823 O b'-1:lemma:37'
520 --1.134618 O b'-1:postag::'
521 --1.186603 O b'-1:lemma:ompr'
522 --1.219384 O b'+1:lemma:hour'
523 --1.220567 O b'+1:lemma:+'
524 --1.256620 O b'+1:lemma:at'
525 --1.304576 O b'+1:lemma:in'
526 --1.348770 O b'lemma:rifampicin'
527 --1.369043 O b'lemma:wt'
528 --1.372537 Supp b'postag:JJ'
529 --1.416841 O b'lemma:methanol'
530 --1.441519 Air b'postag:NN'
531 --1.482367 Air b'+1:postag:JJ'
532 --1.497730 Anti b'postag:NNP'
533 --1.498466 O b'-1:lemma:nsrr'
534 --1.531484 O b'-1:lemma:IP'
535 --2.013157 O b'+1:lemma:2'
536 --2.053762 O b'-1:lemma:2'
537 --2.424183 O b'+1:lemma:1'
538 --3.562427 O b'-1:lemma::'
539 --3.910745 O b'-1:lemma:_'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.036962186699730476, 'c2': 0.0007197340103941715}
5 -best CV score:0.8049563498270011
6 -model size: 0.08M
7 -
8 -Flat F1: 0.8014090034358301
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.803 0.860 0.831 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.920 0.742 0.821 62
20 - Anti 1.000 0.444 0.615 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.878 0.811 0.843 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.830 0.684 0.750 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.880 0.754 0.801 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 7.652221
32 -Anti -> Anti 6.905048
33 -OD -> OD 6.644654
34 -Temp -> Temp 6.392371
35 -Med -> Med 5.897259
36 -Gtype -> Gtype 5.885016
37 -Gversion -> Gversion 5.871628
38 -Phase -> Phase 5.642567
39 -Air -> Air 5.394223
40 -O -> O 5.148014
41 -Technique -> Technique 4.714602
42 -Supp -> Supp 4.403242
43 -pH -> pH 2.882239
44 -Substrain -> Gtype 1.688067
45 -Gtype -> Supp 1.322012
46 -O -> Supp 1.067852
47 -O -> Technique 0.764618
48 -O -> Gtype 0.648760
49 -O -> Phase 0.314348
50 -O -> Anti 0.311802
51 -Air -> O 0.261909
52 -O -> Vess 0.047068
53 -Technique -> Air 0.046094
54 -Gtype -> pH 0.025742
55 -O -> Gversion 0.014285
56 -Strain -> O -0.000027
57 -OD -> Gtype -0.000088
58 -Med -> O -0.009150
59 -pH -> O -0.021922
60 -O -> Agit -0.054019
61 -Phase -> Air -0.057034
62 -Supp -> Gversion -0.109041
63 -Phase -> pH -0.126867
64 -Phase -> Supp -0.149179
65 -Gtype -> Anti -0.177305
66 -Gtype -> Phase -0.275685
67 -Supp -> Temp -0.301687
68 -O -> OD -0.348061
69 -Air -> Phase -0.353316
70 -Gtype -> Med -0.401859
71 -Gtype -> O -0.403896
72 -Supp -> OD -0.422683
73 -OD -> Phase -0.428221
74 -Technique -> O -0.452620
75 -Technique -> pH -0.467777
76 -Supp -> Phase -0.485969
77 -Supp -> Gtype -0.488284
78 -OD -> Temp -0.615341
79 -Supp -> Anti -0.639507
80 -Phase -> O -0.706192
81 -
82 -
83 -Top unlikely transitions:
84 -Gtype -> pH 0.025742
85 -O -> Gversion 0.014285
86 -Strain -> O -0.000027
87 -OD -> Gtype -0.000088
88 -Med -> O -0.009150
89 -pH -> O -0.021922
90 -O -> Agit -0.054019
91 -Phase -> Air -0.057034
92 -Supp -> Gversion -0.109041
93 -Phase -> pH -0.126867
94 -Phase -> Supp -0.149179
95 -Gtype -> Anti -0.177305
96 -Gtype -> Phase -0.275685
97 -Supp -> Temp -0.301687
98 -O -> OD -0.348061
99 -Air -> Phase -0.353316
100 -Gtype -> Med -0.401859
101 -Gtype -> O -0.403896
102 -Supp -> OD -0.422683
103 -OD -> Phase -0.428221
104 -Technique -> O -0.452620
105 -Technique -> pH -0.467777
106 -Supp -> Phase -0.485969
107 -Supp -> Gtype -0.488284
108 -OD -> Temp -0.615341
109 -Supp -> Anti -0.639507
110 -Phase -> O -0.706192
111 -Anti -> OD -0.844857
112 -Phase -> Med -0.902223
113 -O -> Med -0.935765
114 -OD -> Supp -0.978463
115 -Supp -> O -1.084719
116 -Agit -> O -1.097714
117 -OD -> Air -1.126328
118 -Air -> Med -1.132598
119 -Gtype -> OD -1.139180
120 -Supp -> Technique -1.250739
121 -Technique -> Gtype -1.250976
122 -Air -> OD -1.277975
123 -O -> Air -1.291423
124 -Air -> Supp -1.303586
125 -Supp -> Air -1.334582
126 -Temp -> Med -1.516161
127 -OD -> Med -1.658158
128 -OD -> O -1.907052
129 -Technique -> OD -1.926078
130 -Substrain -> O -2.266894
131 -Med -> Supp -2.671557
132 -Supp -> Med -2.793078
133 -Phase -> OD -4.004033
134 -
135 -
136 -Top positive:
137 -14.736732 Supp b'lemma:Iron'
138 -14.465018 Phase b'lemma:stationary'
139 -11.931234 Air b'lemma:anaerobic'
140 -11.755072 O b'lemma:_'
141 -11.500878 Air b'lemma:aerobic'
142 -10.776302 O b'lemma:Custom'
143 -9.977404 Med b'lemma:MOPS'
144 -9.507368 O b'lemma:1'
145 -9.383805 O b'lemma:rpob'
146 -9.319544 Technique b'lemma:ChIP-exo'
147 -9.016782 Supp b'lemma:nitrate'
148 -8.629834 OD b'+1:lemma:stationary'
149 -8.582738 Technique b'lemma:chipseq'
150 -8.331021 Strain b'lemma:k-12'
151 -8.185729 Supp b'lemma:pq'
152 -8.108336 Air b'lemma:Aerobic'
153 -8.081666 O b'-1:lemma:tag'
154 -7.987196 Gtype b'lemma:flag-tag'
155 -7.987196 Gtype b'-1:lemma:c-terminal'
156 -7.969290 O b'lemma:\xcf\x8332'
157 -7.864454 Air b'-1:lemma:ChIP-Seq'
158 -7.779218 Phase b'lemma:mid-log'
159 -7.699581 Technique b'lemma:ChIP-Seq'
160 -7.693879 Gtype b'lemma:\xce\xb4cra'
161 -7.488490 O b'lemma:2'
162 -7.378100 Gversion b'lemma:asm584v2'
163 -7.205543 O b'lemma:3'
164 -7.115380 O b'lemma:b'
165 -7.043756 Med b'lemma:LB'
166 -6.950209 O b'lemma:for'
167 -6.905886 O b'lemma:rep1'
168 -6.892700 O b'lemma:rep2'
169 -6.829683 O b'-1:lemma:ChIP-exo'
170 -6.826037 Gtype b'lemma:arca8myc'
171 -6.814538 OD b'lemma:od450'
172 -6.663495 O b'postag::'
173 -6.587073 Supp b'-1:lemma:Cra'
174 -6.555197 Supp b'+1:lemma:\xc2\xb5m'
175 -6.542596 Gtype b'lemma:delta-arca'
176 -6.493295 O b'lemma:rep3'
177 -6.402654 Gtype b'lemma:fnr8myc'
178 -6.392757 Gtype b'lemma:type'
179 -6.351940 O b'-1:lemma:0.3-0.35'
180 -6.347501 Supp b'lemma:Fe'
181 -6.273476 O b'lemma:Cra'
182 -6.182315 Gtype b'lemma:delta-fnr'
183 -6.177522 Substrain b'lemma:mg1655'
184 -6.170615 Air b'lemma:Anaerobic'
185 -6.113701 O b'lemma:with'
186 -5.936854 O b'-1:lemma:Aerobic'
187 -5.932249 Technique b'lemma:rnaseq'
188 -5.914672 O b'lemma:a'
189 -5.800356 Gtype b'-1:lemma:\xe2\x88\x86'
190 -5.783221 O b'lemma:chip'
191 -5.753480 Technique b'lemma:rna-seq'
192 -5.693444 Supp b'lemma:rifampicin'
193 -5.670336 Gtype b'lemma:\xce\xb4fur'
194 -5.653053 Supp b'lemma:nh4cl'
195 -5.619758 Gtype b'lemma:nsrr'
196 -5.548861 Gversion b'lemma:nc'
197 -5.511691 O b'-1:lemma:anaerobic'
198 -5.500216 Supp b'lemma:no3'
199 -5.430117 Anti b'lemma:none'
200 -5.416869 Gtype b'lemma:wt'
201 -5.398199 O b'+1:lemma:chip-seq'
202 -5.372251 Strain b'+1:lemma:substr'
203 -5.367205 Supp b'lemma:glucose'
204 -5.288350 Supp b'lemma:arginine'
205 -5.224904 O b'+1:lemma:sparging'
206 -5.195289 Gtype b'-1:lemma:rpob'
207 -5.120201 O b'+1:lemma:od600'
208 -5.119304 Anti b'lemma:seqa'
209 -5.065756 O b'lemma:.'
210 -5.065756 O b'postag:.'
211 -4.958683 O b'+1:postag:RB'
212 -4.957995 Supp b'-1:lemma:+'
213 -4.942087 Anti b'lemma:anti-rpos'
214 -4.940685 O b'-1:lemma:type'
215 -4.936711 Temp b'-1:lemma:\xcf\x8332'
216 -4.912250 Gtype b'+1:lemma:ph5'
217 -4.895200 Med b'lemma:lb'
218 -4.815819 Gtype b'-1:lemma:ptac'
219 -4.811978 O b'lemma:2-3'
220 -4.810818 O b'-1:lemma:glucose'
221 -4.792895 Supp b'lemma:Leu'
222 -4.733669 O b'-1:lemma:0.3'
223 -4.703956 Supp b'+1:lemma:hour'
224 -4.701672 Anti b'lemma:anti-myc'
225 -4.688605 Gtype b'+1:lemma:type'
226 -4.685195 Technique b'+1:lemma:chip-exo'
227 -4.663539 Gtype b'lemma:\xce\xb4ompr'
228 -4.630196 O b'lemma:at'
229 -4.627640 OD b'lemma:od600'
230 -4.627504 Gversion b'-1:lemma:nc'
231 -4.614675 O b'lemma:ompr'
232 -4.580496 O b'lemma:oxyr'
233 -4.534418 Gtype b'lemma:WT'
234 -4.489105 Air b'lemma:anerobically'
235 -4.453615 Med b'+1:lemma:0.4'
236 -4.449035 Vess b'lemma:flask'
237 -4.449035 Vess b'-1:lemma:warm'
238 -4.421452 Technique b'lemma:chip-seq'
239 -4.387313 Gtype b'lemma:pk4854'
240 -4.372903 Technique b'-1:lemma:input'
241 -4.333388 Supp b'+1:lemma:1'
242 -4.325171 pH b'lemma:ph5'
243 -4.325171 pH b'+1:lemma:.5'
244 -4.293581 O b'-1:lemma:dpd'
245 -4.280002 Air b'lemma:anaerobically'
246 -4.273687 Supp b'lemma:Adenine'
247 -4.255972 Temp b'-1:lemma:37'
248 -4.227681 Supp b'lemma:acetate'
249 -4.213628 O b'lemma:chip-arca'
250 -4.212847 Technique b'-1:lemma:IP'
251 -4.207389 Med b'+1:lemma:contain'
252 -4.195958 O b'lemma:s'
253 -4.194941 Supp b'lemma:fructose'
254 -4.188294 O b'postag:IN'
255 -4.148814 O b'postag:VBN'
256 -4.113823 O b'lemma:CEL'
257 -4.077959 O b'lemma:argr'
258 -4.042281 Supp b'lemma:dpd'
259 -3.997796 Gversion b'lemma:chip-seq'
260 -3.996937 Med b'-1:lemma:complete'
261 -3.979910 O b'lemma:or'
262 -3.977533 Supp b'lemma:iptg'
263 -3.966804 Gtype b'+1:lemma:pq'
264 -3.958145 Gtype b'lemma:\xe2\x88\x86'
265 -3.955065 Med b'+1:lemma:2.0'
266 -3.950822 Gtype b'lemma:wild-type'
267 -3.949211 O b'lemma:soxs'
268 -3.949211 O b'lemma:soxr'
269 -3.941119 Med b'lemma:m63'
270 -3.931242 Substrain b'+1:lemma:phtpg'
271 -3.927386 O b'+1:lemma:o.d.'
272 -3.916508 Gtype b'lemma:deltaseqa'
273 -3.916508 Gtype b'-1:lemma:old'
274 -3.914220 Gtype b'lemma:\xce\xb4soxs'
275 -3.907586 O b'lemma:purr'
276 -3.892156 Gtype b'-1:lemma:phtpg'
277 -3.890329 Gtype b'lemma:ptac'
278 -3.850631 Gversion b'lemma:000913'
279 -3.838063 O b'+1:lemma:pq'
280 -3.814358 Med b'-1:lemma:ml'
281 -3.787653 Gtype b'lemma:dfnr'
282 -3.771572 Temp b'-1:lemma:sample'
283 -3.744540 Supp b'+1:lemma:2'
284 -3.742952 Supp b'+1:lemma:and'
285 -3.728733 Gversion b'lemma:u00096'
286 -3.728733 Gversion b'+1:lemma:.2'
287 -3.711200 O b'-1:lemma:lb'
288 -3.705509 O b'lemma:-'
289 -3.691676 Gtype b'+1:lemma:flagtag'
290 -3.674793 Gversion b'lemma:.2'
291 -3.674793 Gversion b'-1:lemma:u00096'
292 -3.653013 Supp b'lemma:nacl'
293 -3.643673 Phase b'lemma:exponentially'
294 -3.585772 Technique b'+1:lemma:rna-seq'
295 -3.575806 O b'postag:DT'
296 -3.570513 OD b'-1:lemma:about'
297 -3.563376 Phase b'+1:lemma:for'
298 -3.528626 O b'-1:lemma:\xc2\xb0c'
299 -3.519471 Supp b'-1:lemma:\xc2\xb5m'
300 -3.512500 Temp b'lemma:\xc2\xb0c'
301 -3.492555 Med b'lemma:L'
302 -3.492555 Med b'+1:lemma:broth'
303 -3.475007 Phase b'-1:lemma:until'
304 -3.468148 Anti b'+1:lemma:antibody'
305 -3.443352 Gtype b'+1:lemma:knock-out'
306 -3.428406 O b'lemma:pt7'
307 -3.424672 O b'lemma:delta'
308 -3.402918 Temp b'-1:lemma:43'
309 -3.373540 OD b'lemma:0.3'
310 -3.365163 O b'+1:postag:VBP'
311 -3.352185 Gtype b'lemma:\xce\xb4soxr'
312 -3.346484 O b'-1:lemma:min'
313 -3.328874 O b'lemma:affyexp'
314 -3.326810 Gtype b'-1:lemma:ptrc'
315 -3.318952 Med b'-1:lemma:LB'
316 -3.316906 Gtype b'lemma:\xce\xb4oxyr'
317 -3.293421 O b'lemma:Fur'
318 -3.287509 Gtype b'lemma:soxs-8myc'
319 -3.287509 Gtype b'lemma:soxr-8myc'
320 -3.284962 O b'-1:lemma:one'
321 -3.281320 Supp b'+1:lemma:_'
322 -3.258770 OD b'lemma:0.35'
323 -3.241590 Med b'+1:lemma:minimal'
324 -3.241148 Temp b'lemma:37'
325 -3.196351 O b'+1:postag:NNP'
326 -3.162352 Supp b'lemma:leucine'
327 -3.132572 Supp b'lemma:methanol'
328 -3.118836 Supp b'+1:lemma:iptg'
329 -3.117955 O b'lemma:Lrp'
330 -3.114567 O b'-1:lemma:l1'
331 -3.104623 Technique b'-1:lemma:chip-exo'
332 -3.095609 Temp b'lemma:43'
333 -3.070949 Gtype b'lemma:purr-8myc'
334 -3.038562 O b'lemma:chip-fnr'
335 -3.038302 Temp b'-1:lemma:degree'
336 -2.983839 O b'+1:lemma:0.2'
337 -
338 -
339 -Top negative:
340 --0.001880 O b'-1:lemma:20'
341 --0.002666 O b'lemma:k-12'
342 --0.002968 O b'+1:lemma:min'
343 --0.003084 Med b'lemma:-lrb-'
344 --0.003121 Med b'postag:-LRB-'
345 --0.004653 O b'-1:lemma:iptg'
346 --0.004849 O b'-1:lemma:at'
347 --0.005085 O b'+1:postag:CD'
348 --0.007587 O b'-1:lemma:cra'
349 --0.010544 O b'+1:lemma:95'
350 --0.011683 O b'lemma:m63'
351 --0.012501 O b'lemma:medium'
352 --0.012898 OD b'-1:postag:DT'
353 --0.013161 O b'+1:lemma:25'
354 --0.013797 Gtype b'postag::'
355 --0.013997 Agit b'-1:postag:NN'
356 --0.014419 Anti b'+1:postag:JJ'
357 --0.015431 Supp b'-1:postag:DT'
358 --0.019000 O b'-1:lemma:30'
359 --0.019225 O b'+1:lemma:shake'
360 --0.020830 OD b'-1:lemma:a'
361 --0.025221 Air b'-1:postag:NNP'
362 --0.025592 Anti b'postag:NN'
363 --0.028086 Gtype b'-1:lemma:,'
364 --0.028086 Gtype b'-1:postag:,'
365 --0.031137 Gtype b'-1:postag:JJ'
366 --0.040614 O b'-1:lemma:mm'
367 --0.041284 O b'+1:lemma:-rrb-'
368 --0.042740 O b'lemma:cell'
369 --0.043305 Air b'-1:postag:CC'
370 --0.043495 O b'+1:lemma:300'
371 --0.051111 Med b'-1:postag:NN'
372 --0.055942 Phase b'+1:postag:NN'
373 --0.059007 O b'-1:lemma:-lrb-'
374 --0.059506 O b'-1:lemma:until'
375 --0.060593 O b'lemma:purify'
376 --0.062294 Med b'-1:lemma:m63'
377 --0.063502 Med b'+1:postag:CC'
378 --0.064443 Med b'+1:postag:NNS'
379 --0.065194 O b'lemma:30'
380 --0.067235 O b'+1:lemma:antibody'
381 --0.068873 O b'+1:lemma:arginine'
382 --0.074074 Anti b'+1:lemma:anti-fur'
383 --0.074512 Supp b'-1:lemma:the'
384 --0.075699 Agit b'postag:NN'
385 --0.076342 OD b'postag:JJ'
386 --0.081383 O b'lemma:mg/ml'
387 --0.081383 O b'-1:lemma:150'
388 --0.083167 O b'+1:lemma:mm'
389 --0.084553 OD b'+1:postag:CD'
390 --0.088239 O b'+1:lemma:5'
391 --0.092963 O b'lemma:o2'
392 --0.102549 O b'+1:lemma:0.4'
393 --0.103355 Air b'-1:lemma:95'
394 --0.106456 Supp b'-1:postag:NNP'
395 --0.108567 O b'-1:lemma:of'
396 --0.115119 Gversion b'-1:postag:NN'
397 --0.120133 O b'lemma:aerobically'
398 --0.120470 Gtype b'-1:postag:NN'
399 --0.120546 O b'+1:lemma:or'
400 --0.120740 O b'+1:lemma:culture'
401 --0.127755 Supp b'-1:postag:NN'
402 --0.129556 Supp b'-1:lemma:-'
403 --0.133917 O b'-1:postag:-LRB-'
404 --0.134138 Supp b'-1:postag:VBG'
405 --0.138473 O b'-1:lemma:fresh'
406 --0.140719 O b'-1:postag:IN'
407 --0.142122 O b'lemma:mg1655'
408 --0.143719 OD b'+1:lemma:0.4'
409 --0.143799 O b'lemma:grow'
410 --0.148543 O b'-1:lemma:with'
411 --0.150394 Air b'-1:lemma:or'
412 --0.152699 Air b'postag:CD'
413 --0.159127 O b'-1:lemma:o2'
414 --0.164529 Anti b'-1:postag:NN'
415 --0.167167 Supp b'+1:postag:IN'
416 --0.171276 Technique b'-1:postag::'
417 --0.171821 O b'-1:lemma:n2'
418 --0.176160 Gtype b'+1:lemma:-'
419 --0.194927 O b'-1:lemma:IP'
420 --0.195160 O b'lemma:n2'
421 --0.198789 Phase b'lemma:pahse'
422 --0.201995 O b'lemma:e.'
423 --0.205638 Supp b'lemma:and'
424 --0.207287 O b'-1:lemma:from'
425 --0.208015 O b'lemma:minimal'
426 --0.210261 Technique b'-1:lemma::'
427 --0.212191 Med b'+1:postag:IN'
428 --0.217993 O b'lemma:co2'
429 --0.228390 O b'-1:lemma:e.'
430 --0.232055 O b'-1:lemma:delta'
431 --0.235967 O b'lemma:anaerobic'
432 --0.240188 Gtype b'+1:lemma:\xe2\x88\x86'
433 --0.252858 Air b'+1:postag:NN'
434 --0.253575 O b'lemma:\xce\xb4fur'
435 --0.255267 O b'+1:lemma:until'
436 --0.278004 OD b'+1:lemma:and'
437 --0.279260 Strain b'postag:NN'
438 --0.290950 Phase b'+1:lemma:pahse'
439 --0.303132 O b'+1:postag:-RRB-'
440 --0.303655 O b'-1:lemma:0.1'
441 --0.306332 O b'lemma:lb'
442 --0.321340 Strain b'+1:postag:NN'
443 --0.322047 O b'-1:lemma:um'
444 --0.322047 O b'+1:lemma:paraquat'
445 --0.322249 O b'-1:postag:VBN'
446 --0.349326 O b'lemma:\xc2\xb0c'
447 --0.361160 O b'-1:lemma:od600'
448 --0.367243 OD b'+1:postag:CC'
449 --0.370391 O b'+1:postag:IN'
450 --0.371202 O b'+1:lemma:cell'
451 --0.376309 Gtype b'postag:CD'
452 --0.379638 O b'lemma:glucose'
453 --0.391908 Med b'postag:CD'
454 --0.423766 Phase b'-1:lemma:at'
455 --0.429012 O b'-1:lemma:rifampicin'
456 --0.467242 O b'lemma:phase'
457 --0.467472 O b'+1:lemma:phase'
458 --0.475017 O b'postag:RB'
459 --0.477051 Temp b'postag:NN'
460 --0.488107 O b'+1:lemma:.'
461 --0.488107 O b'+1:postag:.'
462 --0.490917 pH b'postag:NN'
463 --0.497406 Supp b'+1:lemma:rifampicin'
464 --0.508914 OD b'+1:postag:NN'
465 --0.512657 O b'+1:lemma:minimal'
466 --0.519173 O b'-1:lemma:0.2'
467 --0.530979 O b'lemma:od600'
468 --0.533526 O b'-1:lemma:ml'
469 --0.543008 O b'-1:lemma:grow'
470 --0.578806 O b'+1:lemma:\xc2\xb0c'
471 --0.598896 O b'+1:lemma:%'
472 --0.630328 Anti b'postag:NNP'
473 --0.634341 O b'+1:postag:NNS'
474 --0.638897 O b'lemma:anaerobically'
475 --0.646464 Med b'+1:postag:NN'
476 --0.654278 O b'lemma:dissolve'
477 --0.657625 O b'+1:lemma:0.3'
478 --0.663655 O b'-1:lemma:~'
479 --0.667007 O b'+1:lemma:c'
480 --0.671527 OD b'lemma:-lrb-'
481 --0.695001 Supp b'+1:lemma:acetate'
482 --0.719232 Supp b'+1:postag:VBN'
483 --0.736651 OD b'postag:-LRB-'
484 --0.748690 O b'lemma:150'
485 --0.748690 O b'+1:lemma:mg/ml'
486 --0.748744 O b'-1:lemma:mid-log'
487 --0.757228 O b'lemma:of'
488 --0.765669 O b'lemma:0.3'
489 --0.775445 Phase b'-1:postag:NN'
490 --0.785838 O b'+1:lemma:_'
491 --0.836798 O b'+1:lemma:+'
492 --0.838706 O b'lemma:media'
493 --0.850667 Temp b'+1:lemma:to'
494 --0.850667 Temp b'+1:postag:TO'
495 --0.853884 O b'lemma:20'
496 --0.858396 O b'+1:lemma:fecl2'
497 --0.888463 O b'-1:lemma:37'
498 --0.889531 O b'+1:postag:VBG'
499 --0.894578 Supp b'postag:CC'
500 --0.921012 O b'-1:lemma:sample'
501 --0.924636 O b'-1:lemma:rpob'
502 --0.961486 O b'-1:lemma:dissolve'
503 --0.961486 O b'+1:lemma:methanol'
504 --0.968540 O b'+1:lemma:g/l'
505 --0.990992 O b'-1:lemma:co2'
506 --1.021480 Air b'postag:NN'
507 --1.067624 O b'postag:VBP'
508 --1.081123 O b'lemma:37'
509 --1.089911 O b'lemma:0.2'
510 --1.170615 O b'-1:postag:VBG'
511 --1.208578 Med b'-1:postag:IN'
512 --1.244210 O b'lemma:dpd'
513 --1.275258 Gversion b'+1:postag:NN'
514 --1.294393 O b'+1:lemma:in'
515 --1.403685 O b'-1:postag::'
516 --1.414702 O b'-1:lemma:nsrr'
517 --1.415899 O b'+1:lemma:supplement'
518 --1.418323 O b'lemma:fecl2'
519 --1.446252 O b'lemma:2h'
520 --1.446252 O b'-1:lemma:additional'
521 --1.614291 Air b'-1:postag:JJ'
522 --1.668024 Phase b'-1:postag:JJ'
523 --1.735170 O b'+1:lemma:at'
524 --1.739701 Air b'+1:postag:JJ'
525 --1.761325 O b'lemma:0.1'
526 --1.911105 O b'lemma:wt'
527 --1.984681 O b'-1:lemma:ompr'
528 --1.985595 O b'lemma:mid-log'
529 --2.042857 Supp b'postag:JJ'
530 --2.130120 Supp b'-1:lemma:%'
531 --2.172496 O b'+1:lemma:hour'
532 --2.277278 O b'lemma:rifampicin'
533 --2.459658 O b'-1:lemma:2'
534 --2.504857 O b'lemma:methanol'
535 --2.599172 O b'+1:lemma:2'
536 --3.335267 O b'+1:lemma:1'
537 --4.632191 O b'-1:lemma:_'
538 --4.728214 Phase b'postag:JJ'
539 --5.510009 O b'-1:lemma::'
540 -
1 +********** TRAINING AND TESTING REPORT **********
2 +Training file: training-data-set-70.txt
3 +
4 +best params:{'c1': 0.09054223875215395, 'c2': 0.0023518182968725273}
5 +best CV score:0.8689308276485085
6 +model size: 0.08M
7 +
8 +Flat F1: 0.7754340877116509
9 + precision recall f1-score support
10 +
11 + OD 1.000 0.818 0.900 22
12 + pH 1.000 1.000 1.000 8
13 + Technique 1.000 0.913 0.955 23
14 + Med 1.000 0.943 0.971 53
15 + Temp 1.000 0.690 0.816 29
16 + Vess 1.000 1.000 1.000 1
17 + Agit 0.000 0.000 0.000 0
18 + Phase 0.882 1.000 0.938 15
19 + Air 0.543 0.362 0.435 69
20 + Anti 1.000 1.000 1.000 11
21 + Strain 0.000 0.000 0.000 1
22 + Gtype 0.868 0.776 0.820 85
23 + Substrain 0.000 0.000 0.000 0
24 + Supp 0.700 0.784 0.739 134
25 + Gversion 0.000 0.000 0.000 0
26 +
27 +avg / total 0.810 0.754 0.775 451
28 +
29 +
30 +Top likely transitions:
31 +Agit -> Agit 7.626632
32 +Temp -> Temp 7.045132
33 +Supp -> Supp 6.489590
34 +Med -> Med 6.142134
35 +Anti -> Anti 5.984670
36 +Phase -> Phase 5.518817
37 +OD -> OD 5.345555
38 +Gtype -> Gtype 5.176791
39 +Gversion -> Gversion 5.166638
40 +Air -> Air 4.592159
41 +O -> O 4.393244
42 +pH -> pH 3.826126
43 +Technique -> Technique 3.732727
44 +O -> Supp 1.143221
45 +O -> Technique 0.922279
46 +Air -> O 0.769652
47 +Substrain -> Gtype 0.641263
48 +O -> Gtype 0.629642
49 +Gtype -> Supp 0.604798
50 +O -> Temp 0.290538
51 +O -> Phase 0.232866
52 +Temp -> O 0.222973
53 +Supp -> O 0.152297
54 +Gtype -> Air 0.133118
55 +Phase -> O 0.090499
56 +O -> Anti 0.049867
57 +Strain -> O 0.017575
58 +Phase -> Air 0.001750
59 +O -> pH 0.000507
60 +Med -> O 0.000355
61 +pH -> O 0.000352
62 +Air -> Agit -0.001348
63 +Phase -> OD -0.008421
64 +Air -> Supp -0.050545
65 +Agit -> Air -0.052125
66 +Anti -> O -0.059732
67 +OD -> O -0.120587
68 +Technique -> pH -0.229765
69 +O -> Med -0.258685
70 +Technique -> OD -0.288848
71 +Air -> Phase -0.339706
72 +O -> OD -0.391929
73 +Gtype -> Med -0.529268
74 +Air -> Temp -0.898446
75 +Supp -> Med -0.919358
76 +Technique -> O -1.026211
77 +OD -> Air -1.149284
78 +O -> Air -1.334781
79 +Gtype -> O -1.407268
80 +Med -> Supp -1.495850
81 +
82 +
83 +Top unlikely transitions:
84 +Temp -> Temp 7.045132
85 +Supp -> Supp 6.489590
86 +Med -> Med 6.142134
87 +Anti -> Anti 5.984670
88 +Phase -> Phase 5.518817
89 +OD -> OD 5.345555
90 +Gtype -> Gtype 5.176791
91 +Gversion -> Gversion 5.166638
92 +Air -> Air 4.592159
93 +O -> O 4.393244
94 +pH -> pH 3.826126
95 +Technique -> Technique 3.732727
96 +O -> Supp 1.143221
97 +O -> Technique 0.922279
98 +Air -> O 0.769652
99 +Substrain -> Gtype 0.641263
100 +O -> Gtype 0.629642
101 +Gtype -> Supp 0.604798
102 +O -> Temp 0.290538
103 +O -> Phase 0.232866
104 +Temp -> O 0.222973
105 +Supp -> O 0.152297
106 +Gtype -> Air 0.133118
107 +Phase -> O 0.090499
108 +O -> Anti 0.049867
109 +Strain -> O 0.017575
110 +Phase -> Air 0.001750
111 +O -> pH 0.000507
112 +Med -> O 0.000355
113 +pH -> O 0.000352
114 +Air -> Agit -0.001348
115 +Phase -> OD -0.008421
116 +Air -> Supp -0.050545
117 +Agit -> Air -0.052125
118 +Anti -> O -0.059732
119 +OD -> O -0.120587
120 +Technique -> pH -0.229765
121 +O -> Med -0.258685
122 +Technique -> OD -0.288848
123 +Air -> Phase -0.339706
124 +O -> OD -0.391929
125 +Gtype -> Med -0.529268
126 +Air -> Temp -0.898446
127 +Supp -> Med -0.919358
128 +Technique -> O -1.026211
129 +OD -> Air -1.149284
130 +O -> Air -1.334781
131 +Gtype -> O -1.407268
132 +Med -> Supp -1.495850
133 +Substrain -> O -2.598977
134 +
135 +
136 +Top positive:
137 +10.185301 Technique b'lemma[:2]:Ch'
138 +8.021086 O b'-1:lemma:tag'
139 +6.996653 Gtype b'lemma[:1]:\xce\xb4'
140 +6.769097 O b'lemma:2'
141 +6.193177 O b'lemma:1'
142 +6.092689 Air b'lemma:anaerobic'
143 +5.980202 Phase b'lemma:stationary'
144 +5.955259 Supp b'+1:lemma:\xc2\xb5m'
145 +5.876491 O b'lemma:3'
146 +5.874142 O b'lemma:with'
147 +5.804642 O b'lemma:-'
148 +5.578233 Supp b'lemma:Iron'
149 +5.578233 Supp b'lemma[:2]:Ir'
150 +5.487985 O b'lemma[:2]:re'
151 +5.341246 Temp b'+1:lemma:in'
152 +5.328334 Supp b'-1:lemma:Cra'
153 +5.243720 Strain b'+1:lemma:substr'
154 +5.241759 Phase b'lemma:mid-log'
155 +5.207769 Substrain b'lemma[:2]:mg'
156 +5.202431 O b'lemma:b'
157 +5.093704 Supp b'-1:lemma:+'
158 +4.978877 Supp b'-1:lemma:vol'
159 +4.960498 O b'lemma:_'
160 +4.960498 O b'lemma[:1]:_'
161 +4.785889 Gtype b'-1:lemma:\xe2\x88\x86'
162 +4.773191 Technique b'lemma:chipseq'
163 +4.718733 O b'-1:lemma:lb'
164 +4.679807 O b'lemma:a'
165 +4.628908 Gversion b'-1:lemma:nc'
166 +4.467825 O b'+1:lemma:pq'
167 +4.445709 Air b'-1:lemma:ChIP-Seq'
168 +4.378030 O b'-1:lemma:glucose'
169 +4.329558 Air b'lemma[:2]:ae'
170 +4.328211 O b'lemma:rpob'
171 +4.198740 O b'lemma:delta'
172 +4.173979 Med b'-1:lemma:ml'
173 +4.095801 Supp b'lemma:acetate'
174 +4.022526 O b'lemma:Custom'
175 +4.022526 O b'lemma[:2]:Cu'
176 +4.014705 O b'-1:lemma:0.3'
177 +4.002057 Supp b'-1:lemma:with'
178 +3.969838 Med b'+1:lemma:0.4'
179 +3.874806 Supp b'lemma:pq'
180 +3.874806 Supp b'lemma[:2]:pq'
181 +3.827929 Gtype b'lemma:type'
182 +3.827929 Gtype b'lemma[:2]:ty'
183 +3.798612 O b'lemma:chip'
184 +3.738737 Supp b'lemma:arginine'
185 +3.738664 O b'lemma:ompr'
186 +3.673537 Med b'+1:lemma:2.0'
187 +3.658221 Agit b'+1:lemma:rpm'
188 +3.493765 O b'-1:lemma:into'
189 +3.452810 Air b'lemma:Aerobic'
190 +3.452810 Air b'lemma[:2]:Ae'
191 +3.452043 Temp b'-1:lemma:\xcf\x8332'
192 +3.425411 Temp b'-1:lemma:sample'
193 +3.422615 Gversion b'lemma:chip-seq'
194 +3.364562 Gtype b'lemma:fnr8myc'
195 +3.351216 O b'-1:lemma:type'
196 +3.349721 Gtype b'lemma:arca8myc'
197 +3.319200 O b'+1:lemma:od600'
198 +3.296763 Gtype b'lemma[:2]:pk'
199 +3.278704 O b'-1:lemma:Aerobic'
200 +3.266869 O b'+1:lemma:mid-log'
201 +3.263095 Gtype b'lemma[:2]:cr'
202 +3.249020 Supp b'lemma:rifampicin'
203 +3.239748 O b'+1:lemma:sparging'
204 +3.237458 Supp b'lemma[:2]:ri'
205 +3.210269 O b'-1:lemma:0.3-0.35'
206 +3.205436 Technique b'lemma[:2]:rn'
207 +3.180683 O b'lemma[:1]:h'
208 +3.156042 Phase b'lemma[:2]:ex'
209 +3.140201 Air b'lemma:aerobic'
210 +3.137123 O b'+1:lemma:250'
211 +3.129608 Anti b'lemma[:2]:an'
212 +3.121981 Supp b'-1:lemma:final'
213 +3.117574 O b'lemma[:2]:ge'
214 +3.100954 Air b'-1:lemma:-'
215 +3.095232 Technique b'-1:lemma:input'
216 +3.095018 Med b'-1:lemma:fresh'
217 +3.052910 O b'lemma:.'
218 +3.052910 O b'postag:.'
219 +3.052910 O b'postag[:1]:.'
220 +3.041093 Technique b'lemma[:2]:ch'
221 +3.027376 Supp b'+1:lemma:1'
222 +3.017384 Phase b'lemma:exponential'
223 +3.011507 Gtype b'lemma[:1]:W'
224 +3.000727 Supp b'lemma[:2]:gl'
225 +3.000345 Med b'lemma:MOPS'
226 +3.000345 Med b'lemma[:1]:M'
227 +3.000345 Med b'lemma[:2]:MO'
228 +2.946850 Anti b'lemma:none'
229 +2.913481 Supp b'lemma:fructose'
230 +2.906897 Gtype b'lemma:flag-tag'
231 +2.906897 Gtype b'-1:lemma:c-terminal'
232 +2.891578 Phase b'-1:lemma:until'
233 +2.885138 O b'lemma:n'
234 +2.870143 O b'+1:lemma:43'
235 +2.866970 O b'+1:postag:RB'
236 +2.866043 Gtype b'+1:lemma::'
237 +2.843685 O b'postag::'
238 +2.843685 O b'postag[:1]::'
239 +2.823299 Air b'lemma[:2]:an'
240 +2.803059 Gtype b'lemma[:1]:w'
241 +2.801040 Gtype b'lemma[:2]:de'
242 +2.793153 Gtype b'+1:lemma:flagtag'
243 +2.782454 Gversion b'lemma:asm584v2'
244 +2.771209 Gversion b'lemma[:2]:as'
245 +2.728848 O b'+1:postag:NNP'
246 +2.710278 O b'-1:lemma:ChIP-exo'
247 +2.685529 O b'+1:lemma:or'
248 +2.672360 Med b'lemma:broth'
249 +2.672360 Med b'-1:lemma:L'
250 +2.672360 Med b'lemma[:2]:br'
251 +2.653066 Gtype b'lemma:nsrr'
252 +2.653066 Gtype b'lemma[:2]:ns'
253 +2.644949 Gtype b'lemma:wt'
254 +2.644949 Gtype b'lemma[:2]:wt'
255 +2.643481 O b'+1:lemma:acetate'
256 +2.640438 Gtype b'lemma[:2]:ar'
257 +2.625663 Gversion b'lemma:nc'
258 +2.625663 Gversion b'lemma[:2]:nc'
259 +2.605563 Anti b'+1:lemma:antibody'
260 +2.591652 Technique b'-1:lemma:chip-exo'
261 +2.575198 O b'lemma[:2]:fo'
262 +2.565649 Gtype b'-1:lemma:vector'
263 +2.556891 Gtype b'-1:postag:VBG'
264 +2.531858 Substrain b'+1:lemma:phtpg'
265 +2.530034 O b'lemma:0.4'
266 +2.515928 OD b'lemma:od450'
267 +2.506637 O b'lemma[:1]:C'
268 +2.500720 Supp b'lemma:sodium'
269 +2.401085 O b'+1:lemma:coli'
270 +2.393881 Supp b'+1:lemma:phosphate'
271 +2.376464 O b'-1:postag:NNS'
272 +2.374397 Temp b'-1:lemma:43'
273 +2.366322 Supp b'+1:lemma:_'
274 +2.344507 Supp b'lemma[:2]:ni'
275 +2.318294 O b'lemma[:2]:Cr'
276 +2.313838 O b'lemma[:2]:om'
277 +2.312761 O b'-1:lemma:anaerobic'
278 +2.297530 Gtype b'-1:lemma:rpob'
279 +2.286218 O b'-1:lemma:phase'
280 +2.285928 Gversion b'lemma[:2]:00'
281 +2.270036 Supp b'lemma:iptg'
282 +2.264276 Supp b'lemma[:1]:I'
283 +2.248929 O b'+1:lemma:30'
284 +2.245626 O b'lemma:oxyr'
285 +2.240334 O b'lemma:Cra'
286 +2.237370 Gtype b'-1:lemma:_'
287 +2.220905 Med b'lemma:L'
288 +2.220905 Med b'+1:lemma:broth'
289 +2.217317 Supp b'lemma:nacl'
290 +2.217317 Supp b'lemma[:2]:na'
291 +2.191402 Temp b'lemma:43'
292 +2.191402 Temp b'lemma[:2]:43'
293 +2.169633 Supp b'lemma:Fe'
294 +2.169633 Supp b'lemma[:2]:Fe'
295 +2.169099 pH b'lemma[:2]:ph'
296 +2.167053 O b'lemma:ml'
297 +2.167053 O b'lemma[:2]:ml'
298 +2.163570 Gtype b'lemma:dfnr'
299 +2.163570 Gtype b'lemma[:2]:df'
300 +2.115282 OD b'lemma[:1]:o'
301 +2.113233 OD b'lemma:0.3-0.35'
302 +2.096796 Supp b'lemma:no3'
303 +2.092494 O b'-1:lemma:aerobically'
304 +2.080983 Phase b'lemma[:1]:e'
305 +2.077238 Anti b'-1:lemma::'
306 +2.069956 O b'lemma[:2]:ha'
307 +2.068054 Supp b'lemma:dpd'
308 +2.068054 Supp b'lemma[:2]:dp'
309 +2.065958 Supp b'lemma[:2]:ac'
310 +2.065024 Gtype b'+1:lemma:type'
311 +2.034166 O b'+1:lemma:nitrate'
312 +2.033879 Gtype b'lemma[:1]:f'
313 +2.029691 Gtype b'-1:lemma:knock-out'
314 +2.028831 pH b'+1:postag:CD'
315 +2.022928 Gtype b'+1:lemma:_'
316 +1.993507 Supp b'lemma:Leu'
317 +1.993507 Supp b'lemma[:2]:Le'
318 +1.979381 O b'-1:lemma:stpa'
319 +1.969036 Technique b'lemma[:1]:C'
320 +1.953152 Technique b'+1:lemma:chip-exo'
321 +1.940011 Air b'+1:postag:IN'
322 +1.924352 Supp b'lemma[:2]:30'
323 +1.903191 O b'lemma:purr'
324 +1.902904 Air b'lemma[:1]:a'
325 +1.895935 O b'lemma:A'
326 +1.889757 Gtype b'+1:lemma:with'
327 +1.884874 O b'+1:lemma:dfnr'
328 +1.875072 Supp b'-1:lemma:30'
329 +1.870747 Supp b'-1:lemma::'
330 +1.864656 Technique b'-1:lemma:rna-seq'
331 +1.858198 Gtype b'lemma[:1]:t'
332 +1.836001 O b'lemma[:2]:in'
333 +1.821777 pH b'lemma:ph5'
334 +1.821777 pH b'+1:lemma:.5'
335 +1.813827 Supp b'lemma:Adenine'
336 +1.813827 Supp b'lemma[:2]:Ad'
337 +
338 +
339 +Top negative:
340 +-0.122503 O b'+1:lemma:vol'
341 +-0.122503 O b'lemma[:2]:1/'
342 +-0.125682 Supp b'+1:postag:NNS'
343 +-0.128364 O b'lemma[:1]:5'
344 +-0.128783 Med b'postag[:1]:C'
345 +-0.131277 Supp b'postag:CD'
346 +-0.131277 Supp b'postag[:2]:CD'
347 +-0.131348 Supp b'-1:postag::'
348 +-0.133721 Gtype b'lemma:-lrb-'
349 +-0.135824 Phase b'lemma[:2]:pa'
350 +-0.136598 O b'lemma:grow'
351 +-0.140727 Air b'+1:lemma:-lrb-'
352 +-0.148264 O b'lemma:ph'
353 +-0.150736 O b'+1:lemma:ph'
354 +-0.159027 O b'+1:postag:CD'
355 +-0.160597 OD b'+1:lemma:0.4'
356 +-0.165913 O b'+1:lemma:phosphate'
357 +-0.169625 Air b'-1:postag:CC'
358 +-0.171481 OD b'postag[:1]:N'
359 +-0.171481 OD b'postag[:2]:NN'
360 +-0.171501 O b'lemma:1m'
361 +-0.171501 O b'lemma[:2]:1m'
362 +-0.176117 Supp b'-1:lemma:.'
363 +-0.176117 Supp b'-1:postag:.'
364 +-0.177236 Temp b'postag[:1]:N'
365 +-0.177236 Temp b'postag[:2]:NN'
366 +-0.184780 Supp b'+1:postag:-RRB-'
367 +-0.189482 Gversion b'+1:postag:NN'
368 +-0.191580 O b'+1:lemma:1/100'
369 +-0.194798 Med b'lemma[:1]:c'
370 +-0.201698 Gtype b'+1:postag:CD'
371 +-0.208826 O b'lemma:150'
372 +-0.208826 O b'+1:lemma:mg/ml'
373 +-0.208826 O b'lemma[:2]:15'
374 +-0.209680 O b'+1:lemma:supplement'
375 +-0.211723 O b'lemma[:1]:p'
376 +-0.211762 O b'-1:lemma:g/l'
377 +-0.218211 O b'lemma:30'
378 +-0.218501 Temp b'-1:lemma:\xc2\xb0c'
379 +-0.223383 O b'lemma:7.6'
380 +-0.223383 O b'+1:lemma:;'
381 +-0.223383 O b'lemma[:2]:7.'
382 +-0.230315 O b'-1:postag:-LRB-'
383 +-0.234210 Air b'-1:postag:VBN'
384 +-0.234317 Air b'+1:postag:-LRB-'
385 +-0.238132 O b'lemma:\xe2\x88\x86'
386 +-0.238132 O b'lemma[:1]:\xe2\x88\x86'
387 +-0.239813 O b'lemma[:2]:20'
388 +-0.243759 Supp b'lemma[:2]:ph'
389 +-0.268591 O b'-1:lemma:-lrb-'
390 +-0.273129 O b'+1:lemma:.'
391 +-0.273129 O b'+1:postag:.'
392 +-0.274515 Gtype b'-1:postag:NN'
393 +-0.276640 O b'lemma:aerobic'
394 +-0.280353 pH b'postag[:1]:N'
395 +-0.280353 pH b'postag[:2]:NN'
396 +-0.281176 O b'+1:lemma:co2'
397 +-0.284309 OD b'hUpper'
398 +-0.284309 OD b'hLower'
399 +-0.299607 O b'+1:lemma:rep2'
400 +-0.305286 Supp b'+1:postag::'
401 +-0.305442 O b'-1:lemma:1m'
402 +-0.307656 O b'lemma[:2]:an'
403 +-0.311346 Supp b'lemma[:1]:s'
404 +-0.313198 O b'-1:lemma:IP'
405 +-0.327309 O b'+1:lemma:1m'
406 +-0.328461 Med b'+1:postag:NN'
407 +-0.331739 Supp b'-1:lemma:dpd'
408 +-0.332765 O b'-1:lemma:n2'
409 +-0.333171 Supp b'postag[:1]:C'
410 +-0.334484 O b'+1:lemma:-rrb-'
411 +-0.335881 Technique b'postag:NN'
412 +-0.336835 Supp b'-1:lemma:%'
413 +-0.343844 O b'lemma:37'
414 +-0.343844 O b'lemma[:2]:37'
415 +-0.352890 O b'lemma:co2'
416 +-0.366891 O b'-1:lemma:rpob'
417 +-0.372918 O b'-1:lemma:of'
418 +-0.379129 O b'lemma[:1]:k'
419 +-0.385300 Supp b'lemma:10'
420 +-0.411833 O b'lemma[:2]:od'
421 +-0.414482 O b'lemma:20'
422 +-0.419047 Supp b'-1:lemma:-lrb-'
423 +-0.423807 Air b'postag:NN'
424 +-0.429435 O b'lemma:anaerobically'
425 +-0.430690 Med b'-1:postag:NN'
426 +-0.435460 Gtype b'postag[:1]:V'
427 +-0.435460 Gtype b'postag[:2]:VB'
428 +-0.436108 O b'-1:lemma:with'
429 +-0.436725 Supp b'postag:JJ'
430 +-0.448963 O b'-1:lemma:from'
431 +-0.449583 Supp b'postag[:1]:J'
432 +-0.449583 Supp b'postag[:2]:JJ'
433 +-0.452505 O b'lemma:wt'
434 +-0.452505 O b'lemma[:2]:wt'
435 +-0.456297 Med b'+1:postag:IN'
436 +-0.460912 O b'lemma:of'
437 +-0.460912 O b'lemma[:2]:of'
438 +-0.464084 O b'lemma[:2]:ph'
439 +-0.476123 Phase b'+1:postag:NN'
440 +-0.478646 O b'-1:lemma:37'
441 +-0.479822 O b'lemma[:2]:mg'
442 +-0.490640 O b'lemma:glucose'
443 +-0.494749 O b'-1:lemma:mm'
444 +-0.513617 O b'+1:postag:IN'
445 +-0.520527 O b'+1:lemma:2.0'
446 +-0.524819 Phase b'+1:lemma:pahse'
447 +-0.528372 O b'lemma:media'
448 +-0.534673 Temp b'postag:NN'
449 +-0.544692 Air b'-1:lemma:or'
450 +-0.551287 Air b'-1:postag:JJ'
451 +-0.559988 O b'-1:lemma:\xe2\x88\x86'
452 +-0.572775 Air b'+1:postag:JJ'
453 +-0.575164 O b'+1:postag:VBG'
454 +-0.579204 Air b'postag[:1]:N'
455 +-0.579204 Air b'postag[:2]:NN'
456 +-0.579634 Supp b'+1:lemma:fructose'
457 +-0.613266 O b'lemma[:2]:ae'
458 +-0.626767 Anti b'symb'
459 +-0.633791 Med b'+1:postag:NNS'
460 +-0.643773 O b'+1:lemma:+'
461 +-0.653623 O b'lemma[:2]:me'
462 +-0.686630 O b'-1:lemma:delta'
463 +-0.691758 Phase b'postag[:1]:J'
464 +-0.691758 Phase b'postag[:2]:JJ'
465 +-0.695582 Gtype b'lemma[:1]:c'
466 +-0.707615 Agit b'symb'
467 +-0.710847 O b'lemma[:1]:n'
468 +-0.719133 O b'lemma:mid-log'
469 +-0.720783 O b'lemma[:2]:0.'
470 +-0.727230 O b'lemma:0.3'
471 +-0.730648 Supp b'-1:postag:-LRB-'
472 +-0.737779 Gtype b'lemma[:1]:r'
473 +-0.743565 Med b'-1:postag:CD'
474 +-0.750347 O b'+1:lemma:for'
475 +-0.760505 Air b'symb'
476 +-0.775646 O b'lemma[:2]:30'
477 +-0.777433 O b'lemma:2h'
478 +-0.777433 O b'-1:lemma:additional'
479 +-0.777433 O b'lemma[:2]:2h'
480 +-0.811526 O b'-1:lemma:final'
481 +-0.812240 O b'lemma[:1]:0'
482 +-0.816482 Gtype b'-1:lemma:-lrb-'
483 +-0.821802 O b'-1:lemma:30'
484 +-0.824390 O b'lemma[:2]:gl'
485 +-0.845131 Supp b'lemma[:1]:a'
486 +-0.845884 O b'lemma:methanol'
487 +-0.854110 Technique b'-1:postag::'
488 +-0.866570 O b'+1:lemma:until'
489 +-0.885272 Supp b'+1:lemma:rifampicin'
490 +-0.885699 O b'-1:lemma:nsrr'
491 +-0.888698 O b'-1:lemma:cra'
492 +-0.904476 O b'+1:lemma:at'
493 +-0.932299 Med b'symb'
494 +-0.942332 O b'-1:lemma:co2'
495 +-0.962304 O b'+1:lemma:g/l'
496 +-0.962951 O b'+1:lemma:mm'
497 +-0.972177 O b'lemma:soxs-8myc'
498 +-0.976305 O b'-1:lemma:dissolve'
499 +-0.976305 O b'+1:lemma:methanol'
500 +-1.026438 O b'lemma[:2]:ar'
501 +-1.071623 Gtype b'lemma[:1]:a'
502 +-1.074211 Gtype b'+1:lemma:-rrb-'
503 +-1.085129 Phase b'postag:JJ'
504 +-1.096666 O b'-1:lemma:ph'
505 +-1.111621 Supp b'-1:postag:NNP'
506 +-1.112692 Phase b'hUpper'
507 +-1.112692 Phase b'hLower'
508 +-1.151925 Anti b'postag:NNP'
509 +-1.166449 Supp b'symb'
510 +-1.186999 Phase b'-1:postag:JJ'
511 +-1.188170 O b'-1:lemma:until'
512 +-1.246650 Agit b'hUpper'
513 +-1.246650 Agit b'hLower'
514 +-1.262971 O b'+1:lemma:in'
515 +-1.269087 O b'-1:lemma:ml'
516 +-1.380405 OD b'+1:postag:NN'
517 +-1.438101 Supp b'+1:postag:VBN'
518 +-1.535115 Supp b'hGreek'
519 +-1.573856 Supp b'+1:lemma:-lrb-'
520 +-1.599754 Supp b'+1:postag:-LRB-'
521 +-1.625658 O b'-1:postag:VBG'
522 +-1.641325 O b'-1:postag::'
523 +-1.657440 O b'lemma[:2]:ri'
524 +-1.696650 O b'-1:lemma:1'
525 +-1.882679 O b'+1:lemma:1'
526 +-1.947502 O b'lemma:rifampicin'
527 +-2.109295 O b'-1:lemma:sample'
528 +-2.179742 O b'-1:lemma:fresh'
529 +-2.704413 Supp b'+1:lemma:,'
530 +-2.704413 Supp b'+1:postag:,'
531 +-2.995590 Supp b'lemma[:1]:c'
532 +-3.044999 O b'+1:lemma:2'
533 +-3.183494 O b'lemma[:2]:fl'
534 +-3.486906 O b'-1:lemma:vol'
535 +-3.568659 O b'-1:lemma:2'
536 +-3.575405 Temp b'+1:postag:IN'
537 +-4.334558 O b'postag:VBP'
538 +-5.276604 O b'-1:lemma:_'
539 +-5.933765 O b'-1:lemma::'
540 +
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.12822074735920433, 'c2': 0.028255623123597452}
5 -best CV score:0.8237380408677073
6 -model size: 0.08M
7 -
8 -Flat F1: 0.8193415910917898
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 1.000 0.909 0.952 22
14 - Med 0.898 0.930 0.914 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.810 0.758 0.783 62
20 - Anti 1.000 0.667 0.800 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.927 0.840 0.881 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.883 0.669 0.762 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.889 0.771 0.819 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.565409
32 -OD -> OD 6.231734
33 -Temp -> Temp 5.402921
34 -Med -> Med 5.359382
35 -Anti -> Anti 5.104770
36 -O -> O 4.742896
37 -Air -> Air 4.719911
38 -Supp -> Supp 4.287498
39 -Phase -> Phase 4.241142
40 -Gtype -> Gtype 4.089050
41 -Gversion -> Gversion 4.032429
42 -Technique -> Technique 3.850995
43 -pH -> pH 1.963947
44 -O -> Supp 1.603550
45 -Air -> O 1.398467
46 -O -> Technique 1.240044
47 -Substrain -> Gtype 1.119453
48 -O -> Gtype 0.875238
49 -Gtype -> Supp 0.858295
50 -O -> Temp 0.596269
51 -Phase -> O 0.564175
52 -O -> Anti 0.517085
53 -Med -> O 0.386943
54 -Supp -> O 0.353705
55 -O -> Gversion 0.348096
56 -Temp -> O 0.185839
57 -OD -> Phase 0.161408
58 -Technique -> Air 0.128857
59 -O -> pH 0.118475
60 -O -> Strain 0.096954
61 -O -> Med 0.052178
62 -Anti -> O 0.009171
63 -O -> Phase 0.000467
64 -O -> OD -0.005897
65 -Phase -> Technique -0.012764
66 -Supp -> Temp -0.013683
67 -Technique -> Gtype -0.021909
68 -Supp -> OD -0.033848
69 -Phase -> Air -0.069264
70 -Supp -> Air -0.090838
71 -Gtype -> Technique -0.113048
72 -Gtype -> Gversion -0.157086
73 -Gtype -> Phase -0.202957
74 -Technique -> pH -0.208178
75 -Gtype -> O -0.210311
76 -OD -> Gtype -0.231184
77 -Air -> Supp -0.257429
78 -Technique -> OD -0.285302
79 -Technique -> O -0.341935
80 -Supp -> Gversion -0.342115
81 -
82 -
83 -Top unlikely transitions:
84 -Air -> O 1.398467
85 -O -> Technique 1.240044
86 -Substrain -> Gtype 1.119453
87 -O -> Gtype 0.875238
88 -Gtype -> Supp 0.858295
89 -O -> Temp 0.596269
90 -Phase -> O 0.564175
91 -O -> Anti 0.517085
92 -Med -> O 0.386943
93 -Supp -> O 0.353705
94 -O -> Gversion 0.348096
95 -Temp -> O 0.185839
96 -OD -> Phase 0.161408
97 -Technique -> Air 0.128857
98 -O -> pH 0.118475
99 -O -> Strain 0.096954
100 -O -> Med 0.052178
101 -Anti -> O 0.009171
102 -O -> Phase 0.000467
103 -O -> OD -0.005897
104 -Phase -> Technique -0.012764
105 -Supp -> Temp -0.013683
106 -Technique -> Gtype -0.021909
107 -Supp -> OD -0.033848
108 -Phase -> Air -0.069264
109 -Supp -> Air -0.090838
110 -Gtype -> Technique -0.113048
111 -Gtype -> Gversion -0.157086
112 -Gtype -> Phase -0.202957
113 -Technique -> pH -0.208178
114 -Gtype -> O -0.210311
115 -OD -> Gtype -0.231184
116 -Air -> Supp -0.257429
117 -Technique -> OD -0.285302
118 -Technique -> O -0.341935
119 -Supp -> Gversion -0.342115
120 -Gtype -> Med -0.344684
121 -Supp -> Gtype -0.358479
122 -Air -> Temp -0.449831
123 -OD -> O -0.500326
124 -Gtype -> Anti -0.517041
125 -Agit -> O -0.543034
126 -O -> Air -0.641599
127 -Phase -> OD -0.787199
128 -OD -> Air -0.831209
129 -Supp -> Technique -0.892537
130 -Supp -> Med -0.914717
131 -Gtype -> OD -0.923871
132 -Substrain -> O -0.971193
133 -Med -> Supp -1.319670
134 -
135 -
136 -Top positive:
137 -6.042889 O b'lemma:1'
138 -5.378037 O b'lemma:2'
139 -4.814602 O b'word[:2]:re'
140 -4.742997 O b'lemma:3'
141 -4.604194 Air b'word[:2]:Ae'
142 -4.582747 O b'-1:lemma:tag'
143 -4.358279 Technique b'word[:2]:Ch'
144 -4.152239 Air b'lemma:anaerobic'
145 -4.066499 O b'lemma:a'
146 -4.065258 O b'lemma:_'
147 -4.065258 O b'word[:1]:_'
148 -4.064588 O b'postag:IN'
149 -3.716431 O b'postag::'
150 -3.606992 Gtype b'word[:2]:Fl'
151 -3.524792 Phase b'lemma:mid-log'
152 -3.467339 Gtype b'lemma:arca8myc'
153 -3.410721 O b'lemma:with'
154 -3.368507 Phase b'lemma:stationary'
155 -3.359342 Gtype b'word[:1]:\xce\x94'
156 -3.271176 O b'+1:lemma:od600'
157 -3.232433 Gtype b'-1:lemma:\xe2\x88\x86'
158 -3.205920 Med b'word[:2]:LB'
159 -3.145263 O b'lemma:.'
160 -3.145263 O b'postag:.'
161 -3.128776 Supp b'+1:lemma:\xc2\xb5m'
162 -3.096928 O b'-1:lemma:Aerobic'
163 -3.056649 O b'word[:1]:S'
164 -3.049272 O b'word[:2]:ge'
165 -2.996386 O b'postag:VBN'
166 -2.992231 O b'word[:2]:Rp'
167 -2.901111 Supp b'lemma:Iron'
168 -2.901111 Supp b'word[:2]:Ir'
169 -2.888425 Supp b'lemma:arginine'
170 -2.815369 Supp b'word[:1]:I'
171 -2.784841 Supp b'lemma:nitrate'
172 -2.784841 Supp b'word[:2]:ni'
173 -2.775372 Med b'word[:1]:M'
174 -2.760314 Air b'-1:lemma:ChIP-Seq'
175 -2.752516 Supp b'-1:lemma:Cra'
176 -2.738888 O b'lemma:delta'
177 -2.690700 Anti b'+1:lemma:antibody'
178 -2.680938 Technique b'word[:2]:RN'
179 -2.640855 O b'-1:lemma:0.3-0.35'
180 -2.630147 O b'word[:2]:Cu'
181 -2.628890 O b'word[:2]:Cr'
182 -2.628035 Supp b'+1:lemma:1'
183 -2.611639 Air b'word[:2]:An'
184 -2.563252 Supp b'+1:lemma:2'
185 -2.537665 Gtype b'word[:2]:cr'
186 -2.505368 Air b'word[:1]:A'
187 -2.488531 O b'word[:1]:G'
188 -2.467070 O b'+1:postag:RB'
189 -2.451239 O b'lemma:argr'
190 -2.433577 Gtype b'lemma:flag-tag'
191 -2.433577 Gtype b'-1:lemma:c-terminal'
192 -2.391502 O b'word[:1]:B'
193 -2.376551 O b'+1:lemma:pq'
194 -2.369827 O b'lemma:-'
195 -2.356850 O b'lemma:A'
196 -2.330843 O b'postag:CC'
197 -2.301360 Med b'word[:1]:L'
198 -2.282908 Gtype b'word[:1]:d'
199 -2.281497 O b'+1:lemma:mid-log'
200 -2.281275 O b'+1:lemma:o.d.'
201 -2.274064 O b'-1:lemma:glucose'
202 -2.272588 Gversion b'-1:lemma:nc'
203 -2.261134 Supp b'lemma:pq'
204 -2.261134 Supp b'word[:2]:PQ'
205 -2.254663 O b'word[:2]:ch'
206 -2.242812 O b'lemma:at'
207 -2.229584 O b'-1:lemma:lb'
208 -2.216086 Gtype b'-1:lemma:_'
209 -2.208080 O b'-1:lemma:anaerobic'
210 -2.203650 Gtype b'lemma:type'
211 -2.203650 Gtype b'word[:2]:ty'
212 -2.188456 Med b'lemma:MOPS'
213 -2.188456 Med b'word[:2]:MO'
214 -2.154914 OD b'word[:1]:O'
215 -2.150169 Supp b'-1:lemma:+'
216 -2.148437 Supp b'+1:lemma:hour'
217 -2.145965 O b'lemma:purr'
218 -2.130562 Strain b'lemma:k-12'
219 -2.130562 Strain b'word[:2]:K-'
220 -2.128273 Gversion b'lemma:chip-seq'
221 -2.124653 Gversion b'lemma:asm584v2'
222 -2.124653 Gversion b'word[:2]:AS'
223 -2.114191 Supp b'word[:2]:mg'
224 -2.079751 Gtype b'lemma:wt'
225 -2.079618 Strain b'word[:1]:K'
226 -2.074663 O b'lemma:rpob'
227 -2.068933 OD b'+1:lemma:stationary'
228 -2.065663 Gversion b'word[:2]:00'
229 -2.061985 O b'lemma:b'
230 -2.056038 Temp b'-1:lemma:sample'
231 -2.053114 Phase b'word[:2]:st'
232 -2.043604 O b'postag:DT'
233 -2.037822 O b'word[:2]:Lr'
234 -2.022730 Gtype b'lemma:nsrr'
235 -2.022730 Gtype b'word[:2]:Ns'
236 -2.021608 Temp b'-1:lemma:\xcf\x8332'
237 -2.002870 Gversion b'lemma:nc'
238 -2.002870 Gversion b'word[:2]:NC'
239 -1.998257 Supp b'lemma:fructose'
240 -1.989806 OD b'word[:2]:OD'
241 -1.984624 O b'word[:2]:fo'
242 -1.983155 Med b'+1:lemma:0.4'
243 -1.978931 Air b'postag:RB'
244 -1.970422 O b'lemma:\xcf\x8332'
245 -1.970422 O b'word[:1]:\xcf\x83'
246 -1.970422 O b'word[:2]:\xcf\x833'
247 -1.968991 Substrain b'lemma:mg1655'
248 -1.968991 Substrain b'word[:2]:MG'
249 -1.949696 O b'lemma:Custom'
250 -1.942668 pH b'lemma:ph5'
251 -1.942668 pH b'+1:lemma:.5'
252 -1.942559 O b'-1:lemma:type'
253 -1.939421 Gtype b'word[:1]:W'
254 -1.927720 O b'lemma:0.4'
255 -1.918769 Air b'lemma:aerobic'
256 -1.911973 Supp b'lemma:rifampicin'
257 -1.899971 Supp b'word[:2]:ri'
258 -1.892762 O b'-1:lemma:stpa'
259 -1.891369 Supp b'word[:2]:gl'
260 -1.883496 Vess b'lemma:flask'
261 -1.883496 Vess b'-1:lemma:warm'
262 -1.883496 Vess b'word[:2]:fl'
263 -1.866473 Gtype b'+1:lemma:type'
264 -1.858048 Gtype b'hGreek'
265 -1.846301 Substrain b'word[:1]:M'
266 -1.843289 Gtype b'+1:lemma:flagtag'
267 -1.839432 Supp b'-1:lemma:with'
268 -1.808519 Anti b'word[:2]:an'
269 -1.796182 Supp b'word[:2]:Fe'
270 -1.770222 Air b'-1:lemma:co2'
271 -1.757419 O b'+1:postag:NNP'
272 -1.756260 Supp b'lemma:acetate'
273 -1.756125 Air b'-1:lemma:phase'
274 -1.744786 Supp b'word[:1]:2'
275 -1.742628 Temp b'lemma:43'
276 -1.742628 Temp b'word[:2]:43'
277 -1.737898 Technique b'lemma:ChIP-exo'
278 -1.733503 Gtype b'lemma:fnr8myc'
279 -1.733503 Gtype b'word[:2]:Fn'
280 -1.717668 O b'+1:lemma:chip-seq'
281 -1.717668 O b'word[:2]:In'
282 -1.711566 Supp b'+1:lemma:_'
283 -1.706442 O b'+1:lemma:anerobically'
284 -1.702869 Temp b'-1:lemma:43'
285 -1.697874 O b'word[:1]:E'
286 -1.679257 O b'+1:lemma:nacl'
287 -1.676751 Temp b'word[:1]:3'
288 -1.674101 Strain b'+1:lemma:substr'
289 -1.668117 Gtype b'+1:lemma::'
290 -1.662871 Gtype b'-1:lemma:rpob'
291 -1.659272 Phase b'+1:lemma:for'
292 -1.658740 Med b'+1:lemma:-lrb-'
293 -1.653292 Supp b'lemma:nacl'
294 -1.645217 Med b'+1:postag:-LRB-'
295 -1.644387 Phase b'-1:lemma:until'
296 -1.633923 Supp b'word[:2]:0.'
297 -1.631245 O b'word[:2]:Om'
298 -1.629217 O b'-1:lemma:\xc2\xb0c'
299 -1.609945 O b'lemma:antibody'
300 -1.602620 O b'word[:2]:Pu'
301 -1.596753 Supp b'word[:2]:ac'
302 -1.589715 Gtype b'word[:2]:so'
303 -1.579402 Supp b'+1:postag:CC'
304 -1.576836 Med b'+1:lemma:supplement'
305 -1.575982 Gtype b'-1:postag:VBG'
306 -1.572483 Supp b'lemma:nh4cl'
307 -1.572483 Supp b'word[:2]:NH'
308 -1.571642 Gtype b'lemma:\xe2\x88\x86'
309 -1.571642 Gtype b'word[:1]:\xe2\x88\x86'
310 -1.541168 Air b'+1:lemma:at'
311 -1.539300 O b'-1:lemma:dpd'
312 -1.538899 Technique b'lemma:rnaseq'
313 -1.524271 pH b'+1:postag:CD'
314 -1.521425 O b'lemma:oxyr'
315 -1.521425 O b'word[:2]:Ox'
316 -1.520812 Supp b'word[:1]:\xc2\xb5'
317 -1.518532 pH b'lemma:.5'
318 -1.518532 pH b'-1:lemma:ph5'
319 -1.518532 pH b'word[:2]:.5'
320 -1.516502 O b'+1:postag::'
321 -1.513634 Temp b'+1:lemma:\xc2\xb0c'
322 -1.512169 Supp b'+1:lemma:and'
323 -1.512098 Gtype b'-1:lemma:ptac'
324 -1.512061 O b'word[:1]:C'
325 -1.511111 Supp b'word[:1]:1'
326 -1.508414 O b'postag:VBG'
327 -1.489242 Med b'postag:NNP'
328 -1.476047 O b'-1:lemma:0.3'
329 -1.472256 Air b'word[:2]:an'
330 -1.471863 Air b'-1:lemma:_'
331 -1.463959 O b'word[:1]:c'
332 -1.460284 O b'lemma:for'
333 -1.457885 Gtype b'+1:lemma:with'
334 -1.450344 Gversion b'word[:2]:Ch'
335 -1.449241 O b'word[:2]:or'
336 -1.445626 Gversion b'lemma:.2'
337 -
338 -
339 -Top negative:
340 --0.086688 Air b'symb'
341 --0.087278 O b'+1:postag:JJ'
342 --0.088979 O b'lemma:0.1'
343 --0.090012 Gtype b'lemma:,'
344 --0.090012 Gtype b'postag:,'
345 --0.090760 O b'word[:1]:M'
346 --0.091539 O b'-1:lemma:g/l'
347 --0.092936 Gtype b'word[:1]:,'
348 --0.093150 O b'word[:1]:p'
349 --0.094182 Phase b'-1:postag:JJ'
350 --0.096715 O b'lemma:e.'
351 --0.096913 O b'-1:postag:IN'
352 --0.097475 Gtype b'-1:lemma:mg1655'
353 --0.097915 Gtype b'+1:lemma:cra'
354 --0.098266 Supp b'-1:postag:NN'
355 --0.099523 Gtype b'+1:lemma:-rrb-'
356 --0.101642 OD b'+1:lemma:0.4'
357 --0.103503 Gversion b'-1:postag:NN'
358 --0.104284 Technique b'-1:lemma::'
359 --0.107474 Air b'-1:postag:CC'
360 --0.107802 Supp b'+1:lemma:dpd'
361 --0.109425 O b'lemma:k-12'
362 --0.109425 O b'word[:2]:K-'
363 --0.109862 Gtype b'-1:postag:SYM'
364 --0.110589 O b'-1:lemma:n2'
365 --0.116375 Med b'postag:NN'
366 --0.118693 O b'lemma:o2'
367 --0.118693 O b'word[:2]:O2'
368 --0.124126 O b'word[:1]:g'
369 --0.128725 O b'-1:lemma:e.'
370 --0.131057 O b'-1:postag:VBN'
371 --0.134797 Supp b'-1:postag:NNP'
372 --0.134945 Vess b'hUpper'
373 --0.134945 Vess b'hLower'
374 --0.141446 O b'lemma:\xc2\xb0c'
375 --0.141446 O b'word[:1]:\xc2\xb0'
376 --0.141446 O b'word[:2]:\xc2\xb0C'
377 --0.148538 O b'-1:lemma:mm'
378 --0.150981 O b'word[:2]:cr'
379 --0.154676 OD b'postag:IN'
380 --0.155036 O b'word[:2]:LB'
381 --0.160269 O b'-1:lemma:o2'
382 --0.172623 O b'word[:2]:20'
383 --0.179442 O b'+1:lemma:fecl2'
384 --0.180162 O b'+1:lemma:or'
385 --0.181662 Supp b'-1:postag:VBG'
386 --0.183004 Air b'postag:CC'
387 --0.184330 O b'+1:lemma:_'
388 --0.190642 Gtype b'+1:postag:CD'
389 --0.193285 Phase b'-1:lemma:at'
390 --0.196188 O b'lemma:od600'
391 --0.197981 O b'-1:postag:-LRB-'
392 --0.201396 pH b'postag:NN'
393 --0.204068 O b'lemma:co2'
394 --0.204068 O b'word[:2]:CO'
395 --0.204520 Supp b'+1:lemma:acetate'
396 --0.206835 O b'+1:lemma:delta'
397 --0.210712 O b'word[:2]:gl'
398 --0.213914 O b'-1:lemma:0.2'
399 --0.219505 O b'+1:lemma:300'
400 --0.223188 O b'word[:2]:de'
401 --0.223436 Gtype b'-1:postag:NN'
402 --0.224373 O b'-1:lemma:the'
403 --0.225222 OD b'postag:-LRB-'
404 --0.225222 OD b'word[:2]:-L'
405 --0.226307 OD b'lemma:-lrb-'
406 --0.227748 O b'+1:lemma:dissolve'
407 --0.230155 Med b'+1:postag:NN'
408 --0.234353 Air b'-1:lemma:or'
409 --0.235996 Gtype b'word[:1]:A'
410 --0.238857 Gtype b'+1:lemma:-lrb-'
411 --0.240915 O b'+1:lemma:-lcb-'
412 --0.245779 O b'+1:lemma:%'
413 --0.254436 O b'+1:lemma:.'
414 --0.254436 O b'+1:postag:.'
415 --0.256154 O b'-1:lemma:od600'
416 --0.258786 Supp b'lemma:2'
417 --0.267133 O b'lemma:dpd'
418 --0.267133 O b'word[:2]:DP'
419 --0.268311 Temp b'-1:lemma:\xc2\xb0c'
420 --0.268819 O b'lemma:dissolve'
421 --0.269284 O b'+1:lemma:minimal'
422 --0.273587 O b'-1:lemma:um'
423 --0.273587 O b'+1:lemma:paraquat'
424 --0.283755 O b'+1:lemma:until'
425 --0.290161 O b'word[:2]:30'
426 --0.295390 Supp b'+1:postag:VBN'
427 --0.301685 Anti b'+1:lemma:anti-fur'
428 --0.310527 Med b'-1:postag:NN'
429 --0.313589 O b'+1:lemma:arginine'
430 --0.329477 Temp b'postag:NN'
431 --0.330016 Gtype b'word[:1]:g'
432 --0.331259 O b'lemma:150'
433 --0.331259 O b'+1:lemma:mg/ml'
434 --0.331259 O b'word[:2]:15'
435 --0.343722 O b'+1:lemma:antibody'
436 --0.345190 O b'+1:lemma:rep1'
437 --0.346985 O b'word[:2]:mg'
438 --0.352336 O b'-1:lemma:until'
439 --0.352901 O b'lemma:\xe2\x88\x86'
440 --0.352901 O b'word[:1]:\xe2\x88\x86'
441 --0.368005 OD b'+1:postag:CD'
442 --0.374288 O b'word[:2]:OD'
443 --0.379040 Technique b'-1:postag::'
444 --0.379664 O b'word[:1]:K'
445 --0.381633 Gtype b'-1:lemma:,'
446 --0.381633 Gtype b'-1:postag:,'
447 --0.382431 O b'+1:postag:CD'
448 --0.395128 O b'lemma:of'
449 --0.395128 O b'word[:2]:of'
450 --0.403132 O b'+1:lemma:-rrb-'
451 --0.408197 O b'-1:lemma:1'
452 --0.409223 Agit b'symb'
453 --0.412681 O b'+1:lemma:c'
454 --0.421053 O b'word[:2]:me'
455 --0.422060 O b'lemma:2h'
456 --0.422060 O b'-1:lemma:additional'
457 --0.422060 O b'word[:2]:2h'
458 --0.432550 O b'+1:lemma:\xc2\xb0c'
459 --0.442411 O b'-1:lemma:ml'
460 --0.474987 O b'lemma:20'
461 --0.493548 Agit b'hUpper'
462 --0.493548 Agit b'hLower'
463 --0.497447 O b'-1:lemma:grow'
464 --0.508442 O b'+1:postag:-RRB-'
465 --0.511400 O b'lemma:anaerobic'
466 --0.515457 O b'lemma:37'
467 --0.515457 O b'word[:2]:37'
468 --0.516266 Anti b'+1:postag:JJ'
469 --0.527188 Supp b'+1:lemma:rifampicin'
470 --0.529171 O b'lemma:anaerobically'
471 --0.542987 O b'word[:2]:ce'
472 --0.545817 O b'word[:2]:Fe'
473 --0.550246 OD b'+1:postag:NN'
474 --0.555017 O b'-1:lemma:\xe2\x88\x86'
475 --0.585692 O b'word[:2]:ri'
476 --0.590663 O b'+1:lemma:cell'
477 --0.598318 O b'word[:1]:F'
478 --0.602384 Temp b'+1:lemma:to'
479 --0.602384 Temp b'+1:postag:TO'
480 --0.630497 O b'-1:lemma:ompr'
481 --0.651154 O b'+1:postag:IN'
482 --0.657357 Air b'+1:postag:JJ'
483 --0.662332 O b'+1:postag:NNS'
484 --0.671056 O b'-1:lemma:cra'
485 --0.677411 O b'postag:RB'
486 --0.683285 O b'postag:VBP'
487 --0.704946 Anti b'postag:NNP'
488 --0.717280 Med b'+1:postag:IN'
489 --0.747461 Phase b'hUpper'
490 --0.747461 Phase b'hLower'
491 --0.771466 Supp b'postag:CD'
492 --0.774933 O b'word[:1]:N'
493 --0.784937 Med b'symb'
494 --0.797919 O b'word[:2]:0.'
495 --0.823981 O b'word[:1]:d'
496 --0.834163 O b'lemma:methanol'
497 --0.845016 Supp b'word[:2]:an'
498 --0.863890 Temp b'hGreek'
499 --0.887768 O b'+1:lemma:supplement'
500 --0.891809 O b'lemma:mid-log'
501 --0.932608 O b'-1:lemma:dissolve'
502 --0.932608 O b'+1:lemma:methanol'
503 --0.938549 Supp b'-1:lemma:%'
504 --0.941138 O b'+1:lemma:at'
505 --0.941437 O b'+1:postag:VBG'
506 --0.966149 O b'-1:lemma:IP'
507 --0.967650 O b'lemma:rifampicin'
508 --0.971114 O b'word[:1]:0'
509 --1.027819 Supp b'word[:1]:C'
510 --1.038642 O b'-1:lemma:co2'
511 --1.053342 O b'-1:lemma:sample'
512 --1.074523 O b'-1:lemma:37'
513 --1.082863 O b'lemma:wt'
514 --1.085639 O b'word[:1]:\xce\x94'
515 --1.088972 O b'+1:lemma:+'
516 --1.101307 O b'-1:lemma:rpob'
517 --1.101534 Gtype b'lemma:delta'
518 --1.131224 O b'-1:postag:VBG'
519 --1.200680 O b'+1:lemma:g/l'
520 --1.209964 O b'-1:lemma:nsrr'
521 --1.223269 Gtype b'word[:1]:C'
522 --1.236557 Air b'-1:postag:JJ'
523 --1.342495 O b'+1:lemma:in'
524 --1.418170 Air b'postag:NN'
525 --1.475103 Technique b'postag:NN'
526 --1.489457 Supp b'postag:JJ'
527 --1.565345 Phase b'postag:JJ'
528 --1.566076 O b'word[:1]:P'
529 --1.602127 Supp b'hGreek'
530 --1.627987 O b'+1:lemma:hour'
531 --1.632857 O b'-1:postag::'
532 --1.709919 O b'word[:2]:Ch'
533 --1.721470 Supp b'symb'
534 --2.064654 O b'+1:lemma:2'
535 --2.235497 O b'-1:lemma:2'
536 --2.286957 OD b'word[:1]:-'
537 --2.535031 O b'+1:lemma:1'
538 --3.735809 O b'-1:lemma:_'
539 --3.940448 O b'-1:lemma::'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.016463867524667154, 'c2': 0.009787977090088149}
5 -best CV score:0.8002661257453753
6 -model size: 0.09M
7 -
8 -Flat F1: 0.7993777341659613
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.812 0.912 0.860 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.667 0.800 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.865 0.783 0.822 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.877 0.684 0.769 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.870 0.758 0.799 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.618554
32 -OD -> OD 6.046990
33 -Med -> Med 5.731787
34 -Anti -> Anti 5.560967
35 -Temp -> Temp 5.475319
36 -O -> O 5.246611
37 -Air -> Air 5.069288
38 -Gversion -> Gversion 4.782679
39 -Phase -> Phase 4.419771
40 -Gtype -> Gtype 4.416987
41 -Supp -> Supp 4.342876
42 -Technique -> Technique 3.476989
43 -pH -> pH 2.858102
44 -Substrain -> Gtype 1.991185
45 -O -> Supp 1.682496
46 -O -> Technique 1.282752
47 -Gtype -> Supp 1.102213
48 -O -> Temp 1.095977
49 -O -> Gtype 1.088815
50 -Technique -> Air 0.953696
51 -Air -> O 0.896546
52 -Gtype -> pH 0.886031
53 -O -> Anti 0.734178
54 -O -> Strain 0.608646
55 -Gtype -> Air 0.454671
56 -O -> Gversion 0.272689
57 -O -> Vess 0.158893
58 -O -> pH 0.140174
59 -Med -> O 0.029214
60 -Phase -> O 0.002020
61 -O -> Agit -0.000006
62 -Anti -> Med -0.000156
63 -Gversion -> Temp -0.000292
64 -Temp -> O -0.000334
65 -Gtype -> Substrain -0.000924
66 -Agit -> OD -0.002021
67 -Strain -> Supp -0.005596
68 -Temp -> OD -0.020991
69 -O -> Phase -0.034932
70 -Med -> Technique -0.051093
71 -Med -> Gtype -0.075674
72 -Gtype -> Temp -0.095825
73 -Gversion -> Gtype -0.096016
74 -OD -> Phase -0.103930
75 -Air -> Technique -0.110545
76 -Gversion -> Technique -0.112689
77 -Phase -> Temp -0.112941
78 -O -> Med -0.122397
79 -Gversion -> OD -0.151378
80 -OD -> Anti -0.154828
81 -
82 -
83 -Top unlikely transitions:
84 -Gtype -> O -0.318325
85 -Phase -> pH -0.345234
86 -Air -> Gtype -0.347582
87 -Phase -> Air -0.350325
88 -Supp -> O -0.358385
89 -Phase -> Gtype -0.365635
90 -Gversion -> Air -0.381458
91 -Technique -> O -0.390564
92 -Phase -> Med -0.406160
93 -Phase -> Supp -0.460254
94 -Technique -> Supp -0.517689
95 -Med -> Air -0.551360
96 -Anti -> Gtype -0.565812
97 -Gtype -> Technique -0.566337
98 -Air -> Phase -0.631229
99 -OD -> Supp -0.647555
100 -Air -> Temp -0.656794
101 -Supp -> Gversion -0.715756
102 -Supp -> Phase -0.716453
103 -Gtype -> Gversion -0.757530
104 -OD -> Temp -0.788537
105 -Gtype -> Phase -0.824421
106 -Supp -> Gtype -0.884540
107 -Supp -> OD -0.900562
108 -Supp -> Anti -0.903053
109 -Phase -> Technique -0.906097
110 -Anti -> OD -0.909132
111 -O -> Air -0.914911
112 -Agit -> O -0.935018
113 -Gtype -> Med -0.944769
114 -OD -> Gtype -0.960373
115 -OD -> Air -0.960499
116 -Supp -> Temp -0.978389
117 -OD -> Med -1.056468
118 -Supp -> Technique -1.067708
119 -Supp -> Air -1.075407
120 -Temp -> Med -1.177952
121 -Air -> Med -1.190708
122 -Air -> Supp -1.204177
123 -OD -> O -1.212915
124 -Gtype -> Anti -1.370912
125 -Gtype -> OD -1.436838
126 -Air -> OD -1.503021
127 -Technique -> pH -1.506307
128 -Technique -> Gtype -1.536980
129 -Substrain -> O -1.668439
130 -Technique -> OD -1.715161
131 -Supp -> Med -1.733906
132 -Med -> Supp -2.443927
133 -Phase -> OD -3.131759
134 -
135 -
136 -Top positive:
137 -9.305065 O b'lemma:_'
138 -8.732993 Phase b'lemma:stationary'
139 -7.760917 O b'lemma:1'
140 -7.168896 Supp b'lemma:Iron'
141 -7.028020 Phase b'lemma:mid-log'
142 -6.779175 Air b'lemma:aerobic'
143 -6.665098 O b'lemma:2'
144 -6.423370 O b'lemma:rpob'
145 -6.362007 Technique b'lemma:chipseq'
146 -6.331838 Air b'lemma:anaerobic'
147 -6.325395 Strain b'lemma:k-12'
148 -6.235497 Technique b'lemma:ChIP-exo'
149 -6.089690 O b'lemma:3'
150 -5.978696 O b'-1:lemma:tag'
151 -5.761282 Supp b'lemma:pq'
152 -5.719069 Air b'-1:lemma:ChIP-Seq'
153 -5.577060 O b'lemma:Cra'
154 -5.510085 O b'lemma:rep1'
155 -5.467485 Med b'lemma:MOPS'
156 -5.467177 Gtype b'lemma:flag-tag'
157 -5.467177 Gtype b'-1:lemma:c-terminal'
158 -5.453183 O b'lemma:rep2'
159 -5.426293 Gtype b'lemma:\xce\xb4cra'
160 -5.397017 Gversion b'lemma:asm584v2'
161 -5.390386 Supp b'lemma:nitrate'
162 -5.341842 Supp b'lemma:nh4cl'
163 -5.337281 Gtype b'lemma:arca8myc'
164 -5.304554 O b'lemma:rep3'
165 -5.196226 Supp b'lemma:glucose'
166 -5.117424 Substrain b'lemma:mg1655'
167 -5.026581 Air b'lemma:Aerobic'
168 -4.803005 Med b'lemma:lb'
169 -4.772452 Gtype b'lemma:wt'
170 -4.771894 Supp b'lemma:acetate'
171 -4.766600 Supp b'lemma:no3'
172 -4.729731 Gtype b'lemma:delta-arca'
173 -4.713097 Technique b'lemma:rna-seq'
174 -4.682193 O b'lemma:b'
175 -4.655495 O b'-1:lemma:ChIP-exo'
176 -4.654042 O b'lemma:Custom'
177 -4.608813 O b'lemma:\xcf\x8332'
178 -4.600330 Med b'lemma:LB'
179 -4.589780 Anti b'lemma:none'
180 -4.569387 O b'-1:lemma:Aerobic'
181 -4.552809 Supp b'lemma:Fe'
182 -4.549722 Gtype b'lemma:fnr8myc'
183 -4.469111 O b'lemma:a'
184 -4.442862 Supp b'+1:lemma:\xc2\xb5m'
185 -4.411648 Anti b'lemma:seqa'
186 -4.399167 Technique b'lemma:chip-seq'
187 -4.385270 O b'lemma:with'
188 -4.372699 O b'-1:lemma:0.3-0.35'
189 -4.269887 Supp b'+1:lemma:Deficient'
190 -4.261397 Supp b'lemma:fructose'
191 -4.249331 O b'lemma:.'
192 -4.249331 O b'postag:.'
193 -4.242020 Gtype b'-1:lemma:\xe2\x88\x86'
194 -4.234560 Supp b'lemma:rifampicin'
195 -4.204294 Supp b'-1:lemma:Cra'
196 -4.144998 Technique b'lemma:rnaseq'
197 -4.131518 O b'-1:lemma:glucose'
198 -4.112814 O b'lemma:CEL'
199 -4.104546 Gtype b'lemma:delta-fnr'
200 -4.079795 Supp b'+1:lemma:1'
201 -4.079552 O b'postag::'
202 -4.058149 Gversion b'lemma:chip-seq'
203 -4.037325 O b'lemma:for'
204 -4.034489 Supp b'lemma:dpd'
205 -4.010338 Strain b'+1:lemma:substr'
206 -3.921894 Supp b'lemma:arginine'
207 -3.871845 Med b'lemma:m63'
208 -3.869832 O b'lemma:-'
209 -3.804951 OD b'lemma:od450'
210 -3.804811 OD b'lemma:od600'
211 -3.798413 Gtype b'+1:lemma:type'
212 -3.780914 Supp b'+1:lemma:2'
213 -3.777061 O b'lemma:oxyr'
214 -3.772675 Gtype b'lemma:nsrr'
215 -3.768154 O b'postag:IN'
216 -3.745620 O b'-1:lemma:0.3'
217 -3.739942 O b'-1:lemma:lb'
218 -3.716105 O b'+1:postag:RB'
219 -3.704808 O b'lemma:ompr'
220 -3.699123 Gtype b'lemma:\xce\xb4fur'
221 -3.679821 O b'-1:lemma:anaerobic'
222 -3.674972 Gtype b'lemma:WT'
223 -3.633705 Med b'+1:lemma:0.4'
224 -3.613670 O b'lemma:chip-arca'
225 -3.584593 Anti b'lemma:anti-myc'
226 -3.583514 Gtype b'+1:lemma:with'
227 -3.582395 Gtype b'lemma:type'
228 -3.580941 Gversion b'lemma:nc'
229 -3.569260 Vess b'lemma:flask'
230 -3.569260 Vess b'-1:lemma:warm'
231 -3.558952 Gtype b'lemma:\xce\xb4soxs'
232 -3.551122 O b'+1:lemma:od600'
233 -3.521427 OD b'+1:lemma:stationary'
234 -3.499509 Gtype b'lemma:\xe2\x88\x86'
235 -3.497229 O b'lemma:s'
236 -3.444243 O b'lemma:affyexp'
237 -3.441867 O b'lemma:at'
238 -3.432521 O b'lemma:argr'
239 -3.430692 O b'lemma:2-3'
240 -3.429569 O b'lemma:or'
241 -3.420226 pH b'lemma:ph5'
242 -3.420226 pH b'+1:lemma:.5'
243 -3.329303 Supp b'+1:lemma:_'
244 -3.325338 Air b'lemma:anerobically'
245 -3.313930 Phase b'+1:lemma:for'
246 -3.313428 Air b'lemma:Anaerobic'
247 -3.306548 Gtype b'lemma:\xce\xb4ompr'
248 -3.295126 Gversion b'lemma:u00096'
249 -3.295126 Gversion b'+1:lemma:.2'
250 -3.293291 O b'lemma:purr'
251 -3.280062 O b'postag:VBN'
252 -3.276907 Med b'+1:lemma:minimal'
253 -3.266429 Gversion b'lemma:.2'
254 -3.266429 Gversion b'-1:lemma:u00096'
255 -3.204837 Technique b'lemma:ChIP-Seq'
256 -3.195028 Supp b'lemma:Leu'
257 -3.194814 Air b'postag:RB'
258 -3.190453 Gtype b'lemma:wild-type'
259 -3.189580 Gversion b'lemma:000913'
260 -3.165016 O b'+1:lemma:o.d.'
261 -3.164940 O b'-1:lemma:stpa'
262 -3.152706 Gtype b'-1:lemma:ptac'
263 -3.148350 Supp b'-1:lemma:+'
264 -3.129438 Gversion b'-1:lemma:nc'
265 -3.118509 Supp b'lemma:nacl'
266 -3.114692 O b'lemma:Lrp'
267 -3.092621 Supp b'lemma:Adenine'
268 -3.091939 O b'lemma:soxs'
269 -3.091939 O b'lemma:soxr'
270 -3.077192 O b'-1:lemma:type'
271 -3.075201 Gtype b'lemma:pk4854'
272 -3.057817 Med b'+1:lemma:2.0'
273 -3.055002 Gtype b'lemma:deltaseqa'
274 -3.055002 Gtype b'-1:lemma:old'
275 -3.024702 Temp b'lemma:\xc2\xb0c'
276 -3.023864 Gtype b'lemma:\xce\xb4soxr'
277 -3.009504 Technique b'-1:lemma:chip-exo'
278 -2.999113 O b'+1:lemma:chip-seq'
279 -2.997979 Gtype b'lemma:\xce\xb4oxyr'
280 -2.994098 O b'+1:lemma:pq'
281 -2.988197 Technique b'-1:lemma:IP'
282 -2.978971 Gtype b'+1:lemma:flagtag'
283 -2.950109 Gtype b'+1:lemma:pq'
284 -2.932317 O b'lemma:Fur'
285 -2.930678 Temp b'lemma:43'
286 -2.927639 Supp b'+1:lemma:hour'
287 -2.912329 Technique b'-1:lemma:input'
288 -2.909510 Gtype b'lemma:ptac'
289 -2.890332 O b'+1:lemma:mid-log'
290 -2.887693 Anti b'+1:lemma:antibody'
291 -2.861197 Phase b'-1:lemma:until'
292 -2.834560 O b'lemma:pt7'
293 -2.813666 Temp b'-1:lemma:43'
294 -2.812461 Med b'-1:lemma:LB'
295 -2.807067 O b'+1:lemma:anti-fur'
296 -2.805769 Med b'lemma:glucose'
297 -2.792580 Med b'postag:NNP'
298 -2.791499 Substrain b'+1:lemma:phtpg'
299 -2.780205 Anti b'lemma:anti-rpos'
300 -2.775436 O b'lemma:chip'
301 -2.773005 Air b'lemma:anaerobically'
302 -2.745128 Technique b'+1:lemma:chip-exo'
303 -2.707884 Temp b'-1:lemma:37'
304 -2.695840 Gtype b'-1:lemma:rpob'
305 -2.695400 O b'lemma:A'
306 -2.688169 Gtype b'+1:lemma:aerobic'
307 -2.675347 O b'-1:lemma:media'
308 -2.666679 Gversion b'lemma:_'
309 -2.657459 O b'lemma:chip-fnr'
310 -2.651315 O b'+1:lemma:sparging'
311 -2.632748 Air b'-1:lemma:-'
312 -2.627781 Med b'-1:lemma:ml'
313 -2.615678 Temp b'lemma:37'
314 -2.605568 Supp b'lemma:iptg'
315 -2.594624 O b'postag:SYM'
316 -2.562170 Med b'lemma:L'
317 -2.562170 Med b'+1:lemma:broth'
318 -2.557929 Air b'-1:lemma:anerobically'
319 -2.557567 Supp b'lemma:methanol'
320 -2.541889 Air b'+1:lemma:at'
321 -2.532330 pH b'lemma:.5'
322 -2.532330 pH b'-1:lemma:ph5'
323 -2.504689 Gtype b'lemma:dfnr'
324 -2.502393 Supp b'lemma:leucine'
325 -2.498877 O b'+1:postag:NNP'
326 -2.497838 O b'lemma:culture'
327 -2.494675 Supp b'+1:lemma:leucine'
328 -2.484413 Med b'+1:lemma:-lrb-'
329 -2.481062 Technique b'postag:NNP'
330 -2.479247 O b'lemma:genotype/variation'
331 -2.478491 O b'lemma:delta'
332 -2.475426 Gtype b'lemma:soxs-8myc'
333 -2.475426 Gtype b'lemma:soxr-8myc'
334 -2.462314 Temp b'-1:lemma:\xcf\x8332'
335 -2.420303 O b'-1:lemma:min'
336 -2.407878 O b'-1:lemma:\xc2\xb0c'
337 -
338 -
339 -Top negative:
340 --0.078472 Gtype b'-1:lemma:,'
341 --0.078472 Gtype b'-1:postag:,'
342 --0.082841 Gtype b'+1:lemma:cra'
343 --0.082999 O b'-1:postag:IN'
344 --0.084148 O b'+1:lemma:sample'
345 --0.086745 Air b'-1:lemma:-rrb-'
346 --0.089656 O b'-1:lemma:delta'
347 --0.090120 Supp b'+1:lemma:glucose'
348 --0.094631 Med b'+1:lemma:media'
349 --0.096766 OD b'+1:postag:CD'
350 --0.101591 Anti b'+1:postag:JJ'
351 --0.105414 Air b'postag:CD'
352 --0.106119 O b'+1:lemma:5'
353 --0.106327 O b'lemma:glucose'
354 --0.106774 O b'-1:lemma:300'
355 --0.110381 O b'+1:lemma:strain'
356 --0.115429 OD b'+1:lemma:mid-log'
357 --0.116504 O b'-1:lemma:o2'
358 --0.116849 O b'lemma:8'
359 --0.117115 Air b'-1:postag:-RRB-'
360 --0.131943 O b'-1:postag:VBP'
361 --0.140837 O b'+1:lemma:-rrb-'
362 --0.145581 O b'lemma:o2'
363 --0.145602 Med b'-1:postag:NN'
364 --0.148797 Gtype b'+1:lemma:a'
365 --0.149824 O b'+1:lemma:antibody'
366 --0.155765 OD b'+1:lemma:0.4'
367 --0.160857 O b'-1:lemma:Fe'
368 --0.165249 Supp b'-1:postag:NN'
369 --0.176258 O b'lemma:n2'
370 --0.179426 Gtype b'-1:postag:DT'
371 --0.190182 O b'lemma:nacl'
372 --0.190914 O b'lemma:paraquat'
373 --0.199978 O b'-1:lemma:affinity'
374 --0.202133 Phase b'lemma:pahse'
375 --0.206981 O b'-1:lemma:-lrb-'
376 --0.209922 O b'-1:lemma:purify'
377 --0.212225 O b'-1:lemma:e.'
378 --0.214834 Phase b'-1:lemma:at'
379 --0.215972 O b'lemma:grow'
380 --0.220853 O b'+1:postag:-RRB-'
381 --0.233967 O b'+1:lemma:0.4'
382 --0.234246 O b'lemma:m63'
383 --0.234336 O b'+1:lemma:delta'
384 --0.236935 O b'-1:lemma:iptg'
385 --0.237356 Supp b'-1:lemma:-'
386 --0.238564 Temp b'-1:postag:IN'
387 --0.241298 O b'lemma:lb'
388 --0.252180 Air b'-1:lemma:or'
389 --0.259409 Gtype b'-1:postag:CD'
390 --0.263557 Gtype b'postag:CD'
391 --0.263957 O b'lemma:e.'
392 --0.273851 O b'+1:lemma:-lcb-'
393 --0.277750 Supp b'-1:lemma:and'
394 --0.279144 O b'-1:lemma:um'
395 --0.279144 O b'+1:lemma:paraquat'
396 --0.282397 O b'-1:postag:-LRB-'
397 --0.283298 Supp b'+1:postag:IN'
398 --0.287914 Gtype b'+1:postag:NNS'
399 --0.295366 O b'lemma:co2'
400 --0.297637 Med b'+1:postag:NNS'
401 --0.299889 Med b'-1:lemma:MOPS'
402 --0.302541 O b'lemma:aerobically'
403 --0.306345 Supp b'lemma:and'
404 --0.309099 O b'-1:lemma:n2'
405 --0.312324 Gversion b'+1:postag:NN'
406 --0.315967 O b'-1:lemma:g/l'
407 --0.323765 O b'+1:lemma:or'
408 --0.331216 O b'-1:lemma:20'
409 --0.334167 O b'-1:lemma:30'
410 --0.344013 O b'+1:lemma:cell'
411 --0.344949 O b'postag:RB'
412 --0.346100 O b'lemma:of'
413 --0.352206 Temp b'-1:lemma:\xc2\xb0c'
414 --0.355150 OD b'postag:JJ'
415 --0.358507 O b'+1:lemma:from'
416 --0.364055 O b'+1:lemma:shake'
417 --0.367716 O b'lemma:minimal'
418 --0.372888 Gtype b'postag:NNS'
419 --0.374545 O b'+1:lemma:.'
420 --0.374545 O b'+1:postag:.'
421 --0.376161 pH b'postag:NN'
422 --0.376856 O b'-1:lemma:minimal'
423 --0.379126 Phase b'-1:postag:JJ'
424 --0.380474 O b'lemma:mg1655'
425 --0.388065 Technique b'-1:lemma::'
426 --0.398201 O b'+1:postag:IN'
427 --0.405322 O b'+1:lemma:minimal'
428 --0.424455 O b'lemma:30'
429 --0.427384 O b'+1:lemma:until'
430 --0.436028 O b'-1:lemma:fresh'
431 --0.460571 O b'-1:lemma:from'
432 --0.465690 O b'-1:lemma:grow'
433 --0.476082 O b'lemma:\xc2\xb0c'
434 --0.479886 O b'+1:lemma:b'
435 --0.490814 OD b'+1:postag:NN'
436 --0.494543 Med b'+1:postag:IN'
437 --0.502282 O b'-1:lemma:0.1'
438 --0.522523 O b'+1:lemma:%'
439 --0.524523 Supp b'+1:postag:VBN'
440 --0.531557 O b'+1:lemma:c'
441 --0.538489 O b'+1:lemma:_'
442 --0.550066 OD b'lemma:-lrb-'
443 --0.556057 Med b'+1:postag:NN'
444 --0.559263 O b'-1:lemma:with'
445 --0.566146 O b'+1:lemma:300'
446 --0.569839 O b'-1:lemma:od600'
447 --0.574777 O b'-1:lemma:rifampicin'
448 --0.580814 O b'-1:lemma:~'
449 --0.580908 O b'lemma:phase'
450 --0.595586 O b'-1:lemma:co2'
451 --0.603665 O b'+1:lemma:dissolve'
452 --0.610355 O b'lemma:k-12'
453 --0.623982 O b'-1:lemma:mid-log'
454 --0.633959 Med b'postag:CD'
455 --0.640260 O b'+1:lemma:Aerobic'
456 --0.655574 OD b'postag:-LRB-'
457 --0.666724 Technique b'-1:postag::'
458 --0.670459 O b'lemma:od600'
459 --0.673345 OD b'+1:lemma:and'
460 --0.674316 Temp b'postag:NN'
461 --0.676209 Gtype b'lemma:delta'
462 --0.694986 Gtype b'-1:postag:SYM'
463 --0.708935 Gtype b'+1:lemma:\xe2\x88\x86'
464 --0.723413 O b'+1:lemma:phase'
465 --0.728416 O b'-1:lemma:cra'
466 --0.739107 O b'lemma:dissolve'
467 --0.745574 Med b'lemma:-lrb-'
468 --0.748120 O b'-1:lemma:1'
469 --0.779677 Med b'postag:-LRB-'
470 --0.783075 Supp b'-1:postag:VBG'
471 --0.805015 Supp b'+1:lemma:rifampicin'
472 --0.822331 O b'lemma:mid-log'
473 --0.826614 O b'+1:lemma:\xc2\xb0c'
474 --0.828084 O b'-1:lemma:\xe2\x88\x86'
475 --0.834813 O b'lemma:150'
476 --0.834813 O b'+1:lemma:mg/ml'
477 --0.847218 O b'+1:lemma:arginine'
478 --0.850600 O b'lemma:purify'
479 --0.856637 O b'+1:lemma:rep1'
480 --0.863375 Supp b'postag:CC'
481 --0.911226 O b'+1:lemma:0.3'
482 --0.939105 OD b'+1:postag:CC'
483 --0.955944 Air b'-1:postag:JJ'
484 --0.962224 O b'lemma:media'
485 --0.965799 O b'-1:lemma:0.2'
486 --0.969028 O b'lemma:anaerobically'
487 --0.984393 Supp b'+1:lemma:acetate'
488 --0.986157 O b'lemma:20'
489 --0.994939 O b'+1:postag:NNS'
490 --1.003238 O b'lemma:\xe2\x88\x86'
491 --1.020262 O b'lemma:dpd'
492 --1.021474 O b'+1:postag:VBG'
493 --1.023814 O b'-1:lemma:until'
494 --1.028655 Temp b'+1:lemma:to'
495 --1.028655 Temp b'+1:postag:TO'
496 --1.034923 O b'+1:lemma:fecl2'
497 --1.048621 O b'+1:lemma:in'
498 --1.093228 Anti b'+1:lemma:anti-fur'
499 --1.117750 O b'+1:lemma:supplement'
500 --1.118079 O b'-1:lemma:dissolve'
501 --1.118079 O b'+1:lemma:methanol'
502 --1.153383 Med b'-1:postag:IN'
503 --1.161827 O b'lemma:0.1'
504 --1.240288 O b'lemma:0.2'
505 --1.240360 O b'lemma:0.3'
506 --1.281903 O b'-1:lemma:ml'
507 --1.331319 O b'lemma:\xce\xb4fur'
508 --1.347884 O b'lemma:2h'
509 --1.347884 O b'-1:lemma:additional'
510 --1.412330 O b'lemma:fecl2'
511 --1.425201 O b'lemma:anaerobic'
512 --1.445822 O b'+1:lemma:at'
513 --1.482178 Air b'+1:postag:JJ'
514 --1.484222 O b'-1:lemma:sample'
515 --1.563764 Supp b'-1:lemma:%'
516 --1.568716 O b'+1:lemma:g/l'
517 --1.573165 O b'-1:postag:VBG'
518 --1.579364 Air b'postag:NN'
519 --1.717872 O b'-1:lemma:IP'
520 --1.738726 O b'postag:VBP'
521 --1.761183 Supp b'postag:JJ'
522 --1.765703 O b'lemma:wt'
523 --1.767819 O b'lemma:37'
524 --1.807701 O b'-1:postag::'
525 --1.827545 O b'lemma:rifampicin'
526 --1.961081 Anti b'postag:NNP'
527 --2.001886 O b'-1:lemma:ompr'
528 --2.126948 O b'-1:lemma:nsrr'
529 --2.271346 O b'-1:lemma:rpob'
530 --2.333080 O b'lemma:methanol'
531 --2.336287 O b'-1:lemma:37'
532 --2.381339 O b'-1:lemma:2'
533 --2.515516 O b'+1:lemma:2'
534 --2.555444 O b'+1:lemma:hour'
535 --2.633630 O b'+1:lemma:+'
536 --2.844080 Phase b'postag:JJ'
537 --3.202166 O b'+1:lemma:1'
538 --3.918526 O b'-1:lemma:_'
539 --4.322819 O b'-1:lemma::'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.15010361345548673, 'c2': 5.707111790479162e-05}
5 -best CV score:0.797496608146535
6 -model size: 0.06M
7 -
8 -Flat F1: 0.7827228028395358
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.803 0.860 0.831 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.780 0.742 0.760 62
20 - Anti 0.571 0.444 0.500 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.857 0.792 0.824 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.810 0.691 0.746 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.828 0.752 0.783 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 7.341089
32 -OD -> OD 6.495857
33 -Anti -> Anti 6.092589
34 -Med -> Med 6.071567
35 -Temp -> Temp 5.874329
36 -Air -> Air 5.660813
37 -Gtype -> Gtype 5.201158
38 -Phase -> Phase 5.016982
39 -Gversion -> Gversion 4.915266
40 -O -> O 4.868094
41 -Technique -> Technique 4.801722
42 -Supp -> Supp 4.049658
43 -pH -> pH 2.237488
44 -Substrain -> Gtype 1.851589
45 -O -> Technique 1.624886
46 -O -> Supp 1.553107
47 -Gtype -> Supp 1.547690
48 -Air -> O 1.440675
49 -O -> Gtype 1.359381
50 -O -> Anti 0.638902
51 -Technique -> Air 0.616017
52 -Med -> O 0.445325
53 -O -> Temp 0.344531
54 -O -> Gversion 0.281572
55 -Temp -> O 0.271329
56 -O -> Med 0.092068
57 -Phase -> O 0.061858
58 -Gtype -> pH 0.046191
59 -Anti -> O 0.018884
60 -Gtype -> Air 0.007955
61 -O -> OD -0.012110
62 -OD -> Med -0.056297
63 -Technique -> O -0.194680
64 -Gtype -> Anti -0.249294
65 -Supp -> O -0.300903
66 -Gtype -> O -0.529562
67 -Agit -> O -0.538328
68 -OD -> O -0.737964
69 -Supp -> Med -0.744059
70 -Gtype -> OD -0.843006
71 -O -> Air -0.935708
72 -Substrain -> O -1.186882
73 -Phase -> OD -1.409016
74 -Med -> Supp -2.610420
75 -
76 -
77 -Top unlikely transitions:
78 -Agit -> Agit 7.341089
79 -OD -> OD 6.495857
80 -Anti -> Anti 6.092589
81 -Med -> Med 6.071567
82 -Temp -> Temp 5.874329
83 -Air -> Air 5.660813
84 -Gtype -> Gtype 5.201158
85 -Phase -> Phase 5.016982
86 -Gversion -> Gversion 4.915266
87 -O -> O 4.868094
88 -Technique -> Technique 4.801722
89 -Supp -> Supp 4.049658
90 -pH -> pH 2.237488
91 -Substrain -> Gtype 1.851589
92 -O -> Technique 1.624886
93 -O -> Supp 1.553107
94 -Gtype -> Supp 1.547690
95 -Air -> O 1.440675
96 -O -> Gtype 1.359381
97 -O -> Anti 0.638902
98 -Technique -> Air 0.616017
99 -Med -> O 0.445325
100 -O -> Temp 0.344531
101 -O -> Gversion 0.281572
102 -Temp -> O 0.271329
103 -O -> Med 0.092068
104 -Phase -> O 0.061858
105 -Gtype -> pH 0.046191
106 -Anti -> O 0.018884
107 -Gtype -> Air 0.007955
108 -O -> OD -0.012110
109 -OD -> Med -0.056297
110 -Technique -> O -0.194680
111 -Gtype -> Anti -0.249294
112 -Supp -> O -0.300903
113 -Gtype -> O -0.529562
114 -Agit -> O -0.538328
115 -OD -> O -0.737964
116 -Supp -> Med -0.744059
117 -Gtype -> OD -0.843006
118 -O -> Air -0.935708
119 -Substrain -> O -1.186882
120 -Phase -> OD -1.409016
121 -Med -> Supp -2.610420
122 -
123 -
124 -Top positive:
125 -14.131694 Supp b'lemma:Iron'
126 -10.668753 Phase b'lemma:stationary'
127 -9.969031 O b'lemma:_'
128 -9.952965 Air b'lemma:anaerobic'
129 -9.573463 Air b'lemma:aerobic'
130 -9.006576 Supp b'lemma:nitrate'
131 -8.765618 Med b'lemma:MOPS'
132 -8.630149 Air b'-1:lemma:ChIP-Seq'
133 -8.541642 O b'lemma:1'
134 -8.103189 Technique b'lemma:ChIP-exo'
135 -8.056769 Strain b'lemma:k-12'
136 -7.747915 Phase b'lemma:mid-log'
137 -7.630132 O b'lemma:Custom'
138 -7.452221 O b'-1:lemma:ChIP-exo'
139 -7.430108 O b'lemma:rpob'
140 -7.256881 O b'-1:lemma:tag'
141 -7.192950 O b'lemma:\xcf\x8332'
142 -7.181976 Gversion b'-1:lemma:nc'
143 -6.998365 Gversion b'lemma:asm584v2'
144 -6.702349 Technique b'lemma:chipseq'
145 -6.548039 Supp b'lemma:pq'
146 -6.424562 O b'lemma:2'
147 -6.390388 Gtype b'lemma:\xce\xb4cra'
148 -6.379061 Air b'lemma:Aerobic'
149 -6.327455 Substrain b'lemma:mg1655'
150 -6.271147 O b'lemma:3'
151 -6.216371 O b'lemma:rep1'
152 -6.036273 Gtype b'lemma:type'
153 -5.982713 Gtype b'lemma:flag-tag'
154 -5.982713 Gtype b'-1:lemma:c-terminal'
155 -5.978106 O b'lemma:rep2'
156 -5.928876 Supp b'+1:lemma:\xc2\xb5m'
157 -5.927978 O b'lemma:rep3'
158 -5.711298 OD b'lemma:od600'
159 -5.700340 Gversion b'lemma:nc'
160 -5.674933 Med b'lemma:LB'
161 -5.635847 O b'lemma:b'
162 -5.491319 Supp b'lemma:rifampicin'
163 -5.340763 OD b'lemma:od450'
164 -5.280658 Supp b'lemma:nh4cl'
165 -5.236869 O b'postag::'
166 -5.185016 O b'postag:IN'
167 -5.179346 O b'lemma:a'
168 -5.171656 O b'lemma:Cra'
169 -5.156885 Supp b'lemma:glucose'
170 -5.045265 Gtype b'-1:lemma:\xe2\x88\x86'
171 -5.014858 Technique b'lemma:rna-seq'
172 -5.004572 Supp b'lemma:Fe'
173 -4.986002 Anti b'lemma:none'
174 -4.960380 OD b'+1:lemma:stationary'
175 -4.954569 Gtype b'lemma:wt'
176 -4.846980 O b'-1:lemma:0.3'
177 -4.808425 O b'-1:lemma:0.3-0.35'
178 -4.735890 Supp b'lemma:arginine'
179 -4.724865 Gtype b'lemma:arca8myc'
180 -4.722199 O b'lemma:or'
181 -4.712517 Gtype b'lemma:delta-arca'
182 -4.694670 Med b'lemma:lb'
183 -4.665780 Supp b'lemma:acetate'
184 -4.592959 O b'-1:lemma:Aerobic'
185 -4.582847 Supp b'lemma:dpd'
186 -4.579677 Anti b'lemma:seqa'
187 -4.553469 Technique b'lemma:ChIP-Seq'
188 -4.524775 Gtype b'lemma:fnr8myc'
189 -4.512285 Gtype b'lemma:\xce\xb4fur'
190 -4.453319 Supp b'lemma:fructose'
191 -4.385121 Vess b'lemma:flask'
192 -4.385121 Vess b'-1:lemma:warm'
193 -4.362610 Gtype b'+1:lemma:type'
194 -4.241639 Technique b'lemma:chip-seq'
195 -4.222711 O b'lemma:-'
196 -4.122116 Technique b'+1:lemma:chip-exo'
197 -4.119390 O b'lemma:.'
198 -4.119390 O b'postag:.'
199 -4.094206 Anti b'lemma:anti-myc'
200 -4.064301 Gtype b'+1:lemma:ph5'
201 -4.047658 O b'+1:lemma:od600'
202 -4.033297 Temp b'-1:lemma:sample'
203 -4.027077 Temp b'-1:lemma:\xcf\x8332'
204 -3.988494 Supp b'lemma:no3'
205 -3.987819 Gtype b'lemma:delta-fnr'
206 -3.965541 Technique b'lemma:rnaseq'
207 -3.901419 Gtype b'lemma:wild-type'
208 -3.858758 Gtype b'lemma:nsrr'
209 -3.839972 O b'-1:lemma:anaerobic'
210 -3.809743 O b'lemma:chip'
211 -3.768275 Gtype b'-1:lemma:rpob'
212 -3.759291 O b'+1:postag:NNP'
213 -3.753503 Technique b'-1:lemma:IP'
214 -3.744094 Gtype b'-1:lemma:ptac'
215 -3.724227 O b'-1:lemma:type'
216 -3.681895 Gtype b'+1:lemma:flagtag'
217 -3.671930 Anti b'lemma:anti-rpos'
218 -3.640672 O b'postag:VBN'
219 -3.635571 Supp b'-1:lemma:+'
220 -3.615075 Gversion b'lemma:chip-seq'
221 -3.609485 Supp b'+1:lemma:1'
222 -3.603583 Gtype b'lemma:\xe2\x88\x86'
223 -3.583908 Gversion b'lemma:u00096'
224 -3.583908 Gversion b'+1:lemma:.2'
225 -3.578924 Supp b'lemma:methanol'
226 -3.558572 O b'+1:postag:RB'
227 -3.531371 O b'lemma:CEL'
228 -3.519433 Med b'+1:lemma:0.4'
229 -3.514351 Supp b'lemma:iptg'
230 -3.492482 pH b'lemma:ph5'
231 -3.492482 pH b'+1:lemma:.5'
232 -3.478227 O b'lemma:for'
233 -3.447690 O b'-1:lemma:glucose'
234 -3.435499 O b'lemma:oxyr'
235 -3.435413 Anti b'+1:lemma:antibody'
236 -3.406205 Med b'lemma:m63'
237 -3.361046 O b'lemma:s'
238 -3.340573 Gtype b'lemma:\xce\xb4ompr'
239 -3.334851 Supp b'-1:lemma:\xc2\xb5m'
240 -3.300340 O b'lemma:with'
241 -3.267870 Supp b'-1:lemma:Cra'
242 -3.225692 Supp b'+1:lemma:2'
243 -3.198663 Supp b'lemma:nacl'
244 -3.197021 Air b'lemma:anaerobically'
245 -3.140248 Strain b'+1:lemma:substr'
246 -3.081035 O b'lemma:ompr'
247 -3.072833 Supp b'+1:lemma:hour'
248 -3.032040 Supp b'+1:lemma:_'
249 -3.019379 Gtype b'+1:lemma:with'
250 -3.003302 Gtype b'lemma:pk4854'
251 -2.949430 Gtype b'+1:lemma:pq'
252 -2.942687 Supp b'lemma:Leu'
253 -2.920502 Med b'-1:lemma:ml'
254 -2.911185 Temp b'-1:lemma:37'
255 -2.907442 O b'+1:lemma:chip-seq'
256 -2.901178 Gversion b'lemma:.2'
257 -2.901178 Gversion b'-1:lemma:u00096'
258 -2.895104 Med b'+1:lemma:2.0'
259 -2.847883 Technique b'-1:lemma:chip-exo'
260 -2.841679 Air b'lemma:anerobically'
261 -2.787857 OD b'-1:lemma:about'
262 -2.786869 O b'lemma:at'
263 -2.783750 Supp b'lemma:20'
264 -2.722669 pH b'lemma:.5'
265 -2.722669 pH b'-1:lemma:ph5'
266 -2.714038 Air b'-1:lemma:-'
267 -2.712647 Technique b'+1:lemma:rna-seq'
268 -2.694003 O b'postag:DT'
269 -2.684568 O b'lemma:soxs'
270 -2.684568 O b'lemma:soxr'
271 -2.665698 Med b'+1:lemma:minimal'
272 -2.649710 O b'+1:lemma:o.d.'
273 -2.645351 O b'+1:lemma:sparging'
274 -2.643627 Gtype b'lemma:\xce\xb4soxs'
275 -2.641818 Med b'lemma:media'
276 -2.594213 Gtype b'-1:lemma:phtpg'
277 -2.579796 Gtype b'-1:lemma:nsrr'
278 -2.565558 O b'lemma:condition'
279 -2.564623 Gtype b'lemma:deltaseqa'
280 -2.564623 Gtype b'-1:lemma:old'
281 -2.553746 Substrain b'+1:lemma:phtpg'
282 -2.552012 O b'postag:VBG'
283 -2.519921 O b'+1:lemma:pq'
284 -2.506331 O b'-1:lemma:lb'
285 -2.497453 OD b'lemma:0.3'
286 -2.462504 O b'+1:lemma:acetate'
287 -2.438317 O b'-1:lemma:stpa'
288 -2.438025 Supp b'+1:lemma:iptg'
289 -2.427624 Supp b'+1:lemma:and'
290 -2.425953 Med b'+1:lemma:g/l'
291 -2.424623 Supp b'lemma:Adenine'
292 -2.400881 Technique b'-1:lemma:input'
293 -2.375136 O b'-1:lemma:media'
294 -2.359950 Supp b'lemma:0.2'
295 -2.343865 Med b'+1:lemma:supplement'
296 -2.341893 O b'-1:lemma:l1'
297 -2.334122 O b'lemma:culture'
298 -2.293428 Temp b'lemma:\xc2\xb0c'
299 -2.283387 Gversion b'lemma:000913'
300 -2.277001 Temp b'lemma:37'
301 -2.270319 Temp b'lemma:43'
302 -2.267164 Gversion b'postag:CD'
303 -2.265729 Supp b'lemma:0.1'
304 -2.263323 Gtype b'-1:lemma:vector'
305 -2.252869 O b'lemma:chip-arca'
306 -2.246589 O b'-1:lemma:dpd'
307 -2.245090 Gtype b'lemma:ptac'
308 -2.239134 Med b'lemma:L'
309 -2.239134 Med b'+1:lemma:broth'
310 -2.238728 Gtype b'+1:lemma:_'
311 -2.225573 Temp b'-1:lemma:43'
312 -2.222881 O b'+1:postag:VBP'
313 -2.192564 OD b'-1:lemma:~'
314 -2.185774 Air b'postag:RB'
315 -2.184138 Phase b'-1:lemma:mid-log'
316 -2.182400 Phase b'-1:lemma:until'
317 -2.180459 Med b'lemma:broth'
318 -2.180459 Med b'-1:lemma:L'
319 -2.178459 Gtype b'lemma:\xce\xb4oxyr'
320 -2.172998 Med b'lemma:glucose'
321 -2.081891 Supp b'-1:lemma:with'
322 -2.081163 O b'lemma:Lrp'
323 -2.056042 Supp b'lemma:of'
324 -2.054403 O b'+1:lemma:rifampicin'
325 -
326 -
327 -Top negative:
328 -0.004444 OD b'+1:lemma:~'
329 -0.002512 O b'+1:lemma:media'
330 -0.002348 Technique b'-1:postag:NNP'
331 -0.001954 Anti b'-1:lemma:monoclonal'
332 -0.001373 Supp b'lemma:250'
333 -0.001330 O b'+1:lemma:n2'
334 -0.001020 OD b'-1:lemma:cell'
335 -0.000979 Air b'lemma:70'
336 -0.000779 Gtype b'-1:lemma:of'
337 -0.000613 Agit b'+1:lemma:at'
338 -0.000612 OD b'-1:postag:VBN'
339 -0.000570 Anti b'-1:postag:NN'
340 -0.000562 OD b'+1:postag:VBN'
341 -0.000343 OD b'postag:VBN'
342 -0.000250 Supp b'lemma:feso4'
343 -0.000211 Supp b'lemma:um'
344 -0.000200 O b'lemma:harvest'
345 -0.000172 Supp b'-1:lemma:250'
346 -0.000169 O b'+1:lemma:harvest'
347 -0.000161 O b'+1:lemma:minute'
348 -0.000152 O b'+1:lemma:rna'
349 -0.000142 Gtype b'lemma:input'
350 -0.000138 Gtype b'lemma:mutant'
351 -0.000125 Gtype b'lemma:-rcb-'
352 -0.000110 Gtype b'postag::'
353 -0.000080 Phase b'-1:postag:IN'
354 -0.000061 Phase b'+1:lemma:aerobically'
355 -0.000056 OD b'postag:IN'
356 -0.000055 Phase b'+1:postag:RB'
357 -0.000045 Supp b'lemma:2'
358 -0.000036 OD b'+1:lemma:mid-log'
359 -0.000020 O b'-1:lemma:m9'
360 -0.000015 Supp b'lemma:\xc2\xb5m'
361 -0.000013 Supp b'-1:lemma:10'
362 -0.000012 O b'+1:postag:SYM'
363 -0.000012 Med b'-1:lemma:g/l'
364 -0.000011 O b'+1:lemma:min'
365 --0.000010 O b'-1:lemma:g/l'
366 --0.000013 O b'lemma:cell'
367 --0.000022 O b'-1:lemma:1'
368 --0.000023 O b'+1:lemma:mm'
369 --0.000025 O b'+1:lemma:medium'
370 --0.000054 Gtype b'+1:lemma:2'
371 --0.000084 O b'lemma:10'
372 --0.000087 OD b'-1:postag:DT'
373 --0.000166 Gtype b'postag:CD'
374 --0.000166 O b'+1:lemma:rep1'
375 --0.000189 O b'-1:lemma:um'
376 --0.000189 O b'+1:lemma:paraquat'
377 --0.000301 O b'lemma:m63'
378 --0.000348 OD b'+1:postag:NNS'
379 --0.000501 OD b'+1:postag:-LRB-'
380 --0.001014 O b'lemma:lb'
381 --0.001025 O b'+1:lemma:300'
382 --0.001085 O b'+1:lemma:minimal'
383 --0.001319 O b'+1:lemma:phase'
384 --0.001982 O b'+1:lemma:fnr'
385 --0.002311 O b'+1:lemma:grow'
386 --0.003075 O b'+1:lemma:until'
387 --0.003743 O b'+1:lemma:0.3'
388 --0.004269 O b'lemma:grow'
389 --0.004318 O b'+1:lemma:0.4'
390 --0.005882 O b'+1:lemma:25'
391 --0.005961 O b'-1:lemma:,'
392 --0.005961 O b'-1:postag:,'
393 --0.006723 O b'-1:lemma:n2'
394 --0.006973 Air b'-1:lemma:and'
395 --0.007306 Supp b'-1:lemma:for'
396 --0.007868 O b'lemma:5'
397 --0.011921 O b'lemma:95'
398 --0.012399 O b'-1:lemma:95'
399 --0.015125 O b'+1:lemma:antibody'
400 --0.018199 O b'lemma:25'
401 --0.020534 OD b'-1:lemma:a'
402 --0.021998 O b'-1:lemma:25'
403 --0.024040 OD b'+1:lemma:and'
404 --0.027503 O b'-1:lemma:70'
405 --0.030355 Air b'postag:CC'
406 --0.031431 O b'-1:postag:VBN'
407 --0.034243 OD b'+1:postag:CD'
408 --0.035178 O b'-1:lemma:mm'
409 --0.037036 Air b'-1:lemma:aerobically'
410 --0.044409 O b'-1:lemma:-lrb-'
411 --0.045497 O b'-1:lemma:\xe2\x88\x86'
412 --0.053514 O b'+1:lemma:o2'
413 --0.057056 pH b'postag:NN'
414 --0.059321 O b'lemma:e.'
415 --0.060480 O b'+1:lemma:arginine'
416 --0.064459 O b'-1:lemma:0.1'
417 --0.065478 O b'lemma:o2'
418 --0.086735 O b'-1:postag:IN'
419 --0.088151 Supp b'postag:CC'
420 --0.090770 O b'+1:lemma:5'
421 --0.090829 Med b'+1:postag:NNS'
422 --0.097005 O b'-1:lemma:e.'
423 --0.102356 O b'-1:lemma:from'
424 --0.105701 O b'-1:lemma:rifampicin'
425 --0.107290 Supp b'lemma:and'
426 --0.111321 Gtype b'+1:postag:IN'
427 --0.122840 O b'+1:lemma:-rrb-'
428 --0.131840 O b'-1:lemma:mid-log'
429 --0.136836 OD b'+1:postag:CC'
430 --0.145723 O b'-1:postag:-LRB-'
431 --0.146980 O b'-1:lemma:o2'
432 --0.156899 O b'-1:lemma:of'
433 --0.167701 Phase b'-1:lemma:at'
434 --0.175342 Anti b'+1:postag:JJ'
435 --0.183517 OD b'+1:postag:NN'
436 --0.190021 O b'-1:lemma:30'
437 --0.208806 Temp b'postag:NN'
438 --0.208824 Temp b'postag:JJ'
439 --0.215629 O b'lemma:co2'
440 --0.221546 Air b'-1:lemma:or'
441 --0.241850 O b'lemma:\xe2\x88\x86'
442 --0.242801 Technique b'-1:lemma::'
443 --0.243926 Supp b'+1:postag:VBN'
444 --0.244243 O b'lemma:30'
445 --0.246547 Med b'-1:postag:IN'
446 --0.268422 O b'-1:lemma:ml'
447 --0.274527 Med b'+1:postag:IN'
448 --0.289790 O b'+1:postag:IN'
449 --0.291195 O b'+1:postag:-RRB-'
450 --0.293140 Med b'+1:postag:NN'
451 --0.299342 O b'lemma:phase'
452 --0.302946 O b'+1:postag:NNS'
453 --0.306118 O b'+1:lemma:.'
454 --0.306118 O b'+1:postag:.'
455 --0.308929 Gtype b'-1:postag:NN'
456 --0.317569 Air b'-1:postag:CC'
457 --0.323438 Phase b'-1:postag:NN'
458 --0.327100 O b'-1:lemma:cra'
459 --0.329119 Med b'-1:postag:NN'
460 --0.343139 O b'+1:lemma:+'
461 --0.359236 O b'+1:lemma:%'
462 --0.360527 Air b'postag:CD'
463 --0.364000 O b'lemma:0.3'
464 --0.365750 O b'lemma:aerobically'
465 --0.415947 O b'-1:lemma:sample'
466 --0.429967 O b'-1:lemma:od600'
467 --0.455391 O b'lemma:dissolve'
468 --0.463970 O b'postag:RB'
469 --0.467344 Technique b'-1:postag::'
470 --0.494024 Temp b'+1:lemma:to'
471 --0.494024 Temp b'+1:postag:TO'
472 --0.508881 O b'-1:lemma:rpob'
473 --0.523986 O b'lemma:media'
474 --0.535749 Air b'-1:postag:JJ'
475 --0.551274 O b'lemma:anaerobically'
476 --0.552430 Phase b'+1:postag:NN'
477 --0.564731 O b'lemma:20'
478 --0.567109 O b'-1:lemma:0.2'
479 --0.605741 O b'-1:lemma:grow'
480 --0.649536 O b'lemma:0.2'
481 --0.661223 Supp b'+1:lemma:rifampicin'
482 --0.663522 O b'-1:lemma:37'
483 --0.665065 O b'+1:lemma:fecl2'
484 --0.666478 Phase b'-1:postag:JJ'
485 --0.681434 O b'lemma:od600'
486 --0.706506 Temp b'-1:lemma:\xc2\xb0c'
487 --0.709880 O b'+1:lemma:\xc2\xb0c'
488 --0.721412 O b'-1:lemma:~'
489 --0.727136 Supp b'+1:lemma:acetate'
490 --0.743650 O b'lemma:of'
491 --0.759091 O b'lemma:37'
492 --0.796823 OD b'lemma:-lrb-'
493 --0.837874 O b'-1:postag:VBG'
494 --0.842130 O b'+1:lemma:supplement'
495 --0.871087 O b'+1:postag:VBG'
496 --0.919085 O b'-1:postag::'
497 --0.932643 O b'lemma:0.1'
498 --0.946063 O b'+1:lemma:cell'
499 --0.951793 O b'lemma:mid-log'
500 --0.985731 OD b'postag:-LRB-'
501 --1.000812 O b'-1:lemma:dissolve'
502 --1.000812 O b'+1:lemma:methanol'
503 --1.091362 Supp b'-1:lemma:%'
504 --1.092178 O b'lemma:rifampicin'
505 --1.111288 O b'-1:lemma:IP'
506 --1.125339 O b'lemma:fecl2'
507 --1.126515 O b'-1:lemma:co2'
508 --1.133055 O b'lemma:2h'
509 --1.133055 O b'-1:lemma:additional'
510 --1.239727 O b'+1:lemma:g/l'
511 --1.309169 Air b'+1:postag:JJ'
512 --1.364763 O b'+1:lemma:at'
513 --1.408904 Anti b'postag:NNP'
514 --1.492174 O b'lemma:wt'
515 --1.496119 O b'-1:lemma:nsrr'
516 --1.510760 O b'lemma:methanol'
517 --1.588382 O b'+1:lemma:hour'
518 --1.669770 Air b'postag:NN'
519 --1.787096 O b'+1:lemma:in'
520 --1.897543 O b'-1:lemma:ompr'
521 --1.915892 Supp b'postag:JJ'
522 --2.106107 O b'-1:lemma:2'
523 --2.456830 O b'+1:lemma:2'
524 --2.489947 Phase b'postag:JJ'
525 --2.935122 O b'+1:lemma:1'
526 --4.717358 O b'-1:lemma::'
527 --4.976926 O b'-1:lemma:_'
528 -
1 +********** TRAINING AND TESTING REPORT **********
2 +Training file: training-data-set-70.txt
3 +
4 +best params:{'c1': 0.11486416926458794, 'c2': 0.02680674100354409}
5 +best CV score:0.8644252350498997
6 +model size: 0.12M
7 +
8 +Flat F1: 0.7889552451646998
9 + precision recall f1-score support
10 +
11 + OD 1.000 0.818 0.900 22
12 + pH 1.000 1.000 1.000 8
13 + Technique 0.955 0.913 0.933 23
14 + Med 1.000 0.943 0.971 53
15 + Temp 1.000 0.690 0.816 29
16 + Vess 1.000 1.000 1.000 1
17 + Agit 0.000 0.000 0.000 0
18 + Phase 0.875 0.933 0.903 15
19 + Air 0.556 0.362 0.439 69
20 + Anti 0.579 1.000 0.733 11
21 + Strain 0.000 0.000 0.000 1
22 + Gtype 0.877 0.753 0.810 85
23 + Substrain 0.000 0.000 0.000 0
24 + Supp 0.848 0.791 0.819 134
25 + Gversion 0.000 0.000 0.000 0
26 +
27 +avg / total 0.845 0.749 0.789 451
28 +
29 +
30 +Top likely transitions:
31 +Temp -> Temp 5.434090
32 +Agit -> Agit 5.083855
33 +Anti -> Anti 5.066839
34 +OD -> OD 4.944534
35 +Supp -> Supp 4.921053
36 +Med -> Med 4.814443
37 +Gtype -> Gtype 4.724645
38 +Gversion -> Gversion 4.371417
39 +O -> O 4.134917
40 +Phase -> Phase 4.076535
41 +Air -> Air 4.013049
42 +Technique -> Technique 3.791769
43 +pH -> pH 2.691203
44 +Substrain -> Gtype 1.373548
45 +Gtype -> Supp 1.262860
46 +O -> Gtype 1.231509
47 +O -> Technique 1.057715
48 +O -> Supp 0.927276
49 +Air -> O 0.926745
50 +Gtype -> pH 0.675182
51 +Gtype -> Air 0.618804
52 +Technique -> Air 0.558242
53 +Supp -> O 0.412087
54 +Temp -> O 0.355896
55 +O -> Temp 0.211297
56 +Med -> O 0.203763
57 +O -> Anti 0.188101
58 +Strain -> O 0.110948
59 +O -> Phase 0.067802
60 +O -> OD 0.026887
61 +Phase -> O -0.000033
62 +OD -> O -0.000624
63 +O -> Agit -0.005237
64 +Anti -> O -0.013260
65 +Technique -> OD -0.015560
66 +Supp -> Air -0.017152
67 +Air -> Supp -0.041258
68 +Technique -> O -0.086710
69 +Agit -> O -0.090919
70 +Air -> Med -0.201293
71 +O -> Med -0.213366
72 +Air -> Phase -0.347298
73 +Air -> Temp -0.357907
74 +Phase -> Supp -0.382883
75 +OD -> Air -0.397558
76 +Phase -> OD -0.415065
77 +Gtype -> Anti -0.434583
78 +Gtype -> Med -0.515634
79 +Technique -> pH -0.532638
80 +Gtype -> O -0.589161
81 +
82 +
83 +Top unlikely transitions:
84 +Med -> Med 4.814443
85 +Gtype -> Gtype 4.724645
86 +Gversion -> Gversion 4.371417
87 +O -> O 4.134917
88 +Phase -> Phase 4.076535
89 +Air -> Air 4.013049
90 +Technique -> Technique 3.791769
91 +pH -> pH 2.691203
92 +Substrain -> Gtype 1.373548
93 +Gtype -> Supp 1.262860
94 +O -> Gtype 1.231509
95 +O -> Technique 1.057715
96 +O -> Supp 0.927276
97 +Air -> O 0.926745
98 +Gtype -> pH 0.675182
99 +Gtype -> Air 0.618804
100 +Technique -> Air 0.558242
101 +Supp -> O 0.412087
102 +Temp -> O 0.355896
103 +O -> Temp 0.211297
104 +Med -> O 0.203763
105 +O -> Anti 0.188101
106 +Strain -> O 0.110948
107 +O -> Phase 0.067802
108 +O -> OD 0.026887
109 +Phase -> O -0.000033
110 +OD -> O -0.000624
111 +O -> Agit -0.005237
112 +Anti -> O -0.013260
113 +Technique -> OD -0.015560
114 +Supp -> Air -0.017152
115 +Air -> Supp -0.041258
116 +Technique -> O -0.086710
117 +Agit -> O -0.090919
118 +Air -> Med -0.201293
119 +O -> Med -0.213366
120 +Air -> Phase -0.347298
121 +Air -> Temp -0.357907
122 +Phase -> Supp -0.382883
123 +OD -> Air -0.397558
124 +Phase -> OD -0.415065
125 +Gtype -> Anti -0.434583
126 +Gtype -> Med -0.515634
127 +Technique -> pH -0.532638
128 +Gtype -> O -0.589161
129 +O -> Air -0.833200
130 +Supp -> Med -0.863491
131 +Technique -> Gtype -0.999961
132 +Substrain -> O -1.154679
133 +Med -> Supp -1.746454
134 +
135 +
136 +Top positive:
137 +5.242070 Air b'word:Aerobic'
138 +4.810824 O b'lemma:_'
139 +4.810824 O b'word:_'
140 +4.702604 Air b'lemma:anaerobic'
141 +4.379183 O b'word:Cra'
142 +3.811896 Technique b'word:ChIP-Seq'
143 +3.692913 Gtype b'lemma:wild-type'
144 +3.658772 Air b'postag:RB'
145 +3.551778 O b'postag:IN'
146 +3.496331 O b'-1:lemma:ChIP-exo'
147 +3.382322 Gtype b'lemma:wt'
148 +3.353140 O b'postag::'
149 +3.300897 Air b'word:Anaerobic'
150 +3.260825 Technique b'lemma:ChIP-exo'
151 +3.157424 Technique b'word:ChIP-exo'
152 +3.138715 Supp b'lemma:Iron'
153 +3.138715 Supp b'word:Iron'
154 +3.138715 Supp b'+1:word:Deficient'
155 +3.135138 Gtype b'word:WT'
156 +3.125987 Technique b'word:ChIPSeq'
157 +3.117161 Supp b'lemma:nh4cl'
158 +3.113447 Supp b'lemma:pq'
159 +3.113447 Supp b'word:PQ'
160 +3.089898 O b'lemma:2'
161 +3.089898 O b'word:2'
162 +2.955558 Technique b'lemma:rna-seq'
163 +2.907748 Supp b'-1:word:Cra'
164 +2.858859 O b'lemma:-'
165 +2.858859 O b'word:-'
166 +2.779905 O b'lemma:1'
167 +2.779905 O b'word:1'
168 +2.749191 O b'postag:CC'
169 +2.719373 O b'lemma:rpob'
170 +2.719373 O b'word:RpoB'
171 +2.681464 O b'lemma:3'
172 +2.681464 O b'word:3'
173 +2.680679 Gversion b'lemma:asm584v2'
174 +2.680679 Gversion b'word:ASM584v2'
175 +2.675651 Phase b'lemma:mid-log'
176 +2.675651 Phase b'word:mid-log'
177 +2.644118 O b'lemma:chip'
178 +2.643576 Strain b'+1:lemma:substr'
179 +2.643576 Strain b'+1:word:substr'
180 +2.573762 Gtype b'lemma:\xce\xb4cra'
181 +2.570718 Gtype b'word:\xce\x94cra'
182 +2.569025 Med b'lemma:MOPS'
183 +2.569025 Med b'word:MOPS'
184 +2.564545 Supp b'+1:lemma:\xc2\xb5m'
185 +2.564545 Supp b'+1:word:\xc2\xb5M'
186 +2.540412 O b'lemma:.'
187 +2.540412 O b'postag:.'
188 +2.540412 O b'word:.'
189 +2.523030 O b'-1:word:tag'
190 +2.521842 Gtype b'lemma:type'
191 +2.521842 Gtype b'word:type'
192 +2.501449 Technique b'lemma:chipseq'
193 +2.486934 O b'lemma:Custom'
194 +2.486934 O b'word:Custom'
195 +2.456959 Gtype b'+1:lemma:type'
196 +2.456959 Gtype b'+1:word:type'
197 +2.442001 O b'lemma:a'
198 +2.306156 Phase b'lemma:exponential'
199 +2.306156 Phase b'word:exponential'
200 +2.306156 Phase b'lemma:stationary'
201 +2.306156 Phase b'word:stationary'
202 +2.278404 O b'-1:lemma:tag'
203 +2.248178 O b'lemma:b'
204 +2.248178 O b'word:B'
205 +2.236935 Air b'word:anaerobic'
206 +2.220325 Supp b'lemma:arginine'
207 +2.200862 pH b'+1:postag:CD'
208 +2.198724 Supp b'lemma:glucose'
209 +2.198724 Supp b'word:glucose'
210 +2.169027 O b'+1:postag:RB'
211 +2.146306 Supp b'lemma:nacl'
212 +2.146306 Supp b'word:NaCl'
213 +2.141305 O b'lemma:ompr'
214 +2.141305 O b'word:OmpR'
215 +2.134893 Gtype b'lemma:flag-tag'
216 +2.134893 Gtype b'-1:lemma:c-terminal'
217 +2.134893 Gtype b'word:Flag-tag'
218 +2.134893 Gtype b'-1:word:C-terminal'
219 +2.115770 Gversion b'lemma:nc'
220 +2.115770 Gversion b'word:NC'
221 +2.102355 Substrain b'lemma:mg1655'
222 +2.102355 Substrain b'word:MG1655'
223 +2.096735 O b'+1:lemma:pq'
224 +2.096735 O b'+1:word:PQ'
225 +2.076016 Gtype b'postag:-LRB-'
226 +2.067392 O b'-1:word:Aerobic'
227 +2.067015 Gtype b'lemma:delta-fnr'
228 +2.067015 Gtype b'word:delta-fnr'
229 +2.020747 O b'word:A'
230 +2.011558 Supp b'lemma:rifampicin'
231 +2.011558 Supp b'word:rifampicin'
232 +2.009828 Technique b'lemma:rnaseq'
233 +2.009828 Technique b'word:RNASeq'
234 +1.995883 O b'+1:postag:NNP'
235 +1.979049 Gtype b'-1:postag:VBG'
236 +1.964073 O b'+1:word:were'
237 +1.938262 O b'lemma:rep1'
238 +1.938262 O b'word:rep1'
239 +1.933374 Supp b'lemma:acetate'
240 +1.933374 Supp b'word:acetate'
241 +1.929172 O b'postag:VBN'
242 +1.923161 Strain b'lemma:k-12'
243 +1.923161 Strain b'word:K-12'
244 +1.913934 Technique b'-1:lemma:chip-exo'
245 +1.905918 O b'lemma:rep3'
246 +1.905918 O b'word:rep3'
247 +1.902460 Gtype b'-1:lemma:\xe2\x88\x86'
248 +1.902460 Gtype b'-1:word:\xe2\x88\x86'
249 +1.888089 Supp b'lemma:nitrate'
250 +1.888089 Supp b'word:nitrate'
251 +1.880361 Supp b'-1:lemma:with'
252 +1.880361 Supp b'-1:word:with'
253 +1.879119 O b'+1:word:ChIP-Seq'
254 +1.873439 Gtype b'lemma:\xe2\x88\x86'
255 +1.873439 Gtype b'word:\xe2\x88\x86'
256 +1.869636 O b'-1:lemma:lb'
257 +1.869636 O b'-1:word:LB'
258 +1.865650 Gversion b'-1:lemma:nc'
259 +1.865650 Gversion b'-1:word:NC'
260 +1.865606 Gtype b'lemma:arca8myc'
261 +1.865606 Gtype b'word:ArcA8myc'
262 +1.864036 Agit b'+1:lemma:rpm'
263 +1.864036 Agit b'+1:word:rpm'
264 +1.856334 Agit b'lemma:rpm'
265 +1.856334 Agit b'word:rpm'
266 +1.839596 Anti b'lemma:seqa'
267 +1.839596 Anti b'word:SeqA'
268 +1.836163 Supp b'-1:postag:CC'
269 +1.835200 O b'lemma:with'
270 +1.835200 O b'word:with'
271 +1.814125 O b'lemma:culture'
272 +1.811651 Supp b'-1:lemma:Cra'
273 +1.792538 Air b'-1:lemma:ChIP-Seq'
274 +1.792538 Air b'-1:word:ChIP-Seq'
275 +1.768358 Air b'lemma:aerobic'
276 +1.762953 O b'isLower'
277 +1.736496 Gtype b'word:cra'
278 +1.714381 Gversion b'word:ChIP-Seq'
279 +1.710946 Air b'-1:postag::'
280 +1.709986 Gtype b'postag:NN'
281 +1.698044 O b'lemma:at'
282 +1.695726 Gtype b'lemma:\xce\xb4soxr'
283 +1.695726 Gtype b'word:\xce\x94soxR'
284 +1.678182 Vess b'lemma:flask'
285 +1.678182 Vess b'-1:lemma:warm'
286 +1.678182 Vess b'word:flask'
287 +1.678182 Vess b'-1:word:warmed'
288 +1.674493 Gtype b'lemma:pk4854'
289 +1.674493 Gtype b'word:PK4854'
290 +1.651636 Anti b'lemma:none'
291 +1.651636 Anti b'word:none'
292 +1.644746 O b'-1:lemma:0.3'
293 +1.644746 O b'-1:word:0.3'
294 +1.636558 Supp b'lemma:no3'
295 +1.636558 Supp b'word:NO3'
296 +1.624682 Gtype b'+1:postag::'
297 +1.623664 Phase b'-1:lemma:mid-log'
298 +1.623664 Phase b'-1:word:mid-log'
299 +1.618042 Supp b'lemma:dpd'
300 +1.618042 Supp b'word:DPD'
301 +1.614435 Gtype b'lemma:\xce\xb4fur'
302 +1.614435 Gtype b'word:\xce\x94fur'
303 +1.613699 Gtype b'+1:lemma:ph5'
304 +1.613699 Gtype b'+1:word:pH5'
305 +1.607121 Gversion b'lemma:chip-seq'
306 +1.597322 Anti b'lemma:\xcf\x8332'
307 +1.597322 Anti b'word:\xcf\x8332'
308 +1.592709 O b'lemma:Cra'
309 +1.582551 Med b'lemma:lb'
310 +1.582551 Med b'word:LB'
311 +1.568363 Supp b'-1:lemma:vol'
312 +1.568363 Supp b'-1:word:vol'
313 +1.559468 Air b'lemma:Aerobic'
314 +1.556342 Technique b'word:RNA-Seq'
315 +1.553167 Med b'-1:lemma:ml'
316 +1.553167 Med b'-1:word:ml'
317 +1.553041 Med b'+1:lemma:0.4'
318 +1.553041 Med b'+1:word:0.4'
319 +1.551077 Supp b'lemma:Leu'
320 +1.551077 Supp b'word:Leu'
321 +1.543969 Air b'lemma:anaerobically'
322 +1.543969 Air b'word:anaerobically'
323 +1.543172 O b'lemma::'
324 +1.543172 O b'word::'
325 +1.540510 Anti b'+1:lemma:antibody'
326 +1.540510 Anti b'+1:word:antibody'
327 +1.537669 Air b'lemma:anaeroibc'
328 +1.537669 Air b'word:Anaeroibc'
329 +1.525613 OD b'-1:postag:IN'
330 +1.524837 Supp b'lemma:Fe'
331 +1.524837 Supp b'word:Fe'
332 +1.524330 Gtype b'postag:-RRB-'
333 +1.516209 O b'-1:lemma:glucose'
334 +1.516209 O b'-1:word:glucose'
335 +1.504553 Gtype b'+1:lemma:with'
336 +1.504553 Gtype b'+1:word:with'
337 +
338 +
339 +Top negative:
340 +-0.149499 Anti b'+1:word:anti-Fur'
341 +-0.152520 O b'+1:lemma:95'
342 +-0.152520 O b'+1:word:95'
343 +-0.156326 Supp b'+1:lemma:dpd'
344 +-0.156326 Supp b'+1:word:DPD'
345 +-0.162658 Supp b'lemma:10'
346 +-0.162658 Supp b'word:10'
347 +-0.163808 O b'+1:lemma:for'
348 +-0.165890 Phase b'+1:postag:NN'
349 +-0.166827 O b'-1:lemma:dfnr'
350 +-0.166827 O b'-1:word:dFNR'
351 +-0.171844 O b'+1:word:was'
352 +-0.175747 O b'-1:lemma:of'
353 +-0.175747 O b'-1:word:of'
354 +-0.193766 O b'-1:word:from'
355 +-0.208529 O b'-1:lemma:1m'
356 +-0.208529 O b'-1:word:1M'
357 +-0.210506 Air b'isLower'
358 +-0.210844 Technique b'-1:postag::'
359 +-0.216830 O b'+1:lemma:.'
360 +-0.216830 O b'+1:postag:.'
361 +-0.216830 O b'+1:word:.'
362 +-0.223522 O b'-1:lemma:final'
363 +-0.223522 O b'-1:word:final'
364 +-0.223753 Med b'-1:postag:CD'
365 +-0.233131 O b'-1:postag:JJ'
366 +-0.239249 OD b'isNumber'
367 +-0.243733 O b'lemma:20'
368 +-0.243733 O b'word:20'
369 +-0.246275 Air b'-1:postag:CC'
370 +-0.247467 O b'lemma:k-12'
371 +-0.247467 O b'word:K-12'
372 +-0.265976 O b'lemma:glucose'
373 +-0.265976 O b'word:glucose'
374 +-0.271369 O b'+1:word:C'
375 +-0.274901 O b'-1:lemma:the'
376 +-0.284581 O b'-1:word:the'
377 +-0.284785 O b'+1:lemma:supplement'
378 +-0.284785 O b'+1:word:supplemented'
379 +-0.285764 pH b'postag:NN'
380 +-0.293864 pH b'isUpper'
381 +-0.308118 Air b'-1:lemma:or'
382 +-0.308118 Air b'-1:word:or'
383 +-0.310139 Gtype b'-1:postag:CD'
384 +-0.322263 Supp b'postag:CC'
385 +-0.324104 O b'-1:lemma:cra'
386 +-0.328286 O b'lemma:37'
387 +-0.328286 O b'word:37'
388 +-0.330168 O b'word:ChIP-exo'
389 +-0.334656 O b'-1:lemma:37'
390 +-0.334656 O b'-1:word:37'
391 +-0.340095 Anti b'isUpper'
392 +-0.342430 O b'-1:lemma:n2'
393 +-0.342430 O b'-1:word:N2'
394 +-0.348188 O b'-1:lemma:mm'
395 +-0.348188 O b'-1:word:mM'
396 +-0.350821 Supp b'+1:lemma:fructose'
397 +-0.350821 Supp b'+1:word:fructose'
398 +-0.352833 O b'+1:postag:IN'
399 +-0.355440 O b'-1:postag:-LRB-'
400 +-0.358948 O b'+1:postag:-LRB-'
401 +-0.368508 O b'lemma:fructose'
402 +-0.368508 O b'word:fructose'
403 +-0.369578 Gtype b'+1:postag:CD'
404 +-0.370939 O b'lemma:aerobically'
405 +-0.370939 O b'word:aerobically'
406 +-0.372723 O b'lemma:\xce\xb4fur'
407 +-0.372723 O b'word:\xce\x94fur'
408 +-0.374885 Supp b'+1:lemma:acetate'
409 +-0.374885 Supp b'+1:word:acetate'
410 +-0.383718 O b'-1:lemma:ph'
411 +-0.383718 O b'-1:word:pH'
412 +-0.388799 O b'-1:lemma:rpob'
413 +-0.388799 O b'-1:word:RpoB'
414 +-0.388879 O b'word:cells'
415 +-0.392268 Supp b'-1:lemma:-lrb-'
416 +-0.392268 Supp b'-1:word:-LRB-'
417 +-0.394884 O b'+1:postag:-RRB-'
418 +-0.401778 O b'lemma:minimal'
419 +-0.401778 O b'word:minimal'
420 +-0.405443 O b'+1:lemma:2.0'
421 +-0.405443 O b'+1:word:2.0'
422 +-0.409365 O b'lemma:medium'
423 +-0.409365 O b'word:medium'
424 +-0.416217 O b'-1:lemma:until'
425 +-0.416217 O b'-1:word:until'
426 +-0.422801 O b'+1:lemma:until'
427 +-0.422801 O b'+1:word:until'
428 +-0.422973 O b'lemma:nitrate'
429 +-0.422973 O b'word:nitrate'
430 +-0.424570 O b'-1:lemma:co2'
431 +-0.424570 O b'-1:word:CO2'
432 +-0.426175 Supp b'-1:postag:-LRB-'
433 +-0.430390 O b'-1:lemma:dissolve'
434 +-0.430390 O b'+1:lemma:methanol'
435 +-0.430390 O b'-1:word:dissolved'
436 +-0.430390 O b'+1:word:methanol'
437 +-0.431326 O b'-1:lemma:chip-exo'
438 +-0.434536 Med b'-1:postag:NN'
439 +-0.437879 Supp b'+1:lemma:nacl'
440 +-0.437879 Supp b'+1:word:NaCl'
441 +-0.438271 Gtype b'+1:lemma:-lrb-'
442 +-0.438271 Gtype b'+1:word:-LRB-'
443 +-0.517777 O b'lemma:0.3'
444 +-0.517777 O b'word:0.3'
445 +-0.554787 O b'+1:lemma:+'
446 +-0.554787 O b'+1:word:+'
447 +-0.556538 Med b'+1:postag:IN'
448 +-0.560443 Med b'-1:postag:IN'
449 +-0.564073 Phase b'isUpper'
450 +-0.567749 O b'lemma:mid-log'
451 +-0.567749 O b'word:mid-log'
452 +-0.569865 O b'+1:lemma:mm'
453 +-0.569865 O b'+1:word:mM'
454 +-0.574929 O b'+1:lemma:at'
455 +-0.574929 O b'+1:word:at'
456 +-0.576720 O b'lemma:methanol'
457 +-0.576720 O b'word:methanol'
458 +-0.582128 O b'-1:lemma:\xe2\x88\x86'
459 +-0.582128 O b'-1:word:\xe2\x88\x86'
460 +-0.586115 O b'lemma:anaerobically'
461 +-0.586115 O b'word:anaerobically'
462 +-0.586317 pH b'isLower'
463 +-0.602158 O b'lemma:30'
464 +-0.602158 O b'word:30'
465 +-0.604997 O b'+1:lemma:g/l'
466 +-0.604997 O b'+1:word:g/L'
467 +-0.607721 O b'+1:lemma:1m'
468 +-0.607721 O b'+1:word:1M'
469 +-0.633619 O b'-1:postag:IN'
470 +-0.635683 O b'-1:lemma:30'
471 +-0.635683 O b'-1:word:30'
472 +-0.637769 O b'-1:lemma:ml'
473 +-0.637769 O b'-1:word:ml'
474 +-0.669793 Air b'postag:NN'
475 +-0.682250 O b'+1:word:ChIP-exo'
476 +-0.688742 O b'lemma:of'
477 +-0.688742 O b'word:of'
478 +-0.712089 Air b'+1:postag:JJ'
479 +-0.712952 O b'-1:lemma:1'
480 +-0.712952 O b'-1:word:1'
481 +-0.726205 O b'lemma:2h'
482 +-0.726205 O b'-1:lemma:additional'
483 +-0.726205 O b'word:2h'
484 +-0.726205 O b'-1:word:additional'
485 +-0.727554 O b'-1:postag::'
486 +-0.740726 O b'-1:lemma:nsrr'
487 +-0.740726 O b'-1:word:NsrR'
488 +-0.747068 Temp b'postag:NN'
489 +-0.802318 O b'lemma:nitrogen'
490 +-0.802318 O b'word:nitrogen'
491 +-0.820825 Supp b'+1:postag:VBN'
492 +-0.826345 O b'lemma:media'
493 +-0.826345 O b'word:media'
494 +-0.827286 O b'-1:lemma:2'
495 +-0.827286 O b'-1:word:2'
496 +-0.831918 O b'-1:lemma:IP'
497 +-0.831918 O b'-1:word:IP'
498 +-0.838607 O b'-1:lemma:fresh'
499 +-0.838607 O b'-1:word:fresh'
500 +-0.854504 O b'lemma:wt'
501 +-0.854588 Supp b'-1:postag:NNP'
502 +-0.874101 O b'postag:RB'
503 +-0.937975 Agit b'isUpper'
504 +-0.956352 O b'+1:lemma:in'
505 +-0.956352 O b'+1:word:in'
506 +-0.979766 O b'+1:lemma:1'
507 +-0.979766 O b'+1:word:1'
508 +-0.982287 Gtype b'isLower'
509 +-0.999251 Technique b'isNumber'
510 +-1.074766 O b'postag:VBP'
511 +-1.110753 Gtype b'isUpper'
512 +-1.116498 O b'+1:postag:VBG'
513 +-1.181571 Supp b'+1:postag:-LRB-'
514 +-1.192346 O b'-1:lemma:sample'
515 +-1.216569 Supp b'+1:lemma:-lrb-'
516 +-1.216569 Supp b'+1:word:-LRB-'
517 +-1.249356 Technique b'isLower'
518 +-1.267812 O b'+1:lemma:2'
519 +-1.267812 O b'+1:word:2'
520 +-1.275807 O b'lemma:rifampicin'
521 +-1.275807 O b'word:rifampicin'
522 +-1.320279 Gtype b'isNumber'
523 +-1.328236 Gversion b'isLower'
524 +-1.369132 O b'-1:lemma:vol'
525 +-1.369132 O b'-1:word:vol'
526 +-1.376089 Supp b'+1:lemma:,'
527 +-1.376089 Supp b'+1:postag:,'
528 +-1.376089 Supp b'+1:word:,'
529 +-1.376957 Phase b'postag:JJ'
530 +-1.401753 OD b'+1:postag:NN'
531 +-1.485274 Anti b'postag:NNP'
532 +-1.787019 Supp b'postag:JJ'
533 +-1.891720 Temp b'+1:postag:IN'
534 +-2.179250 O b'-1:lemma:_'
535 +-2.179250 O b'-1:word:_'
536 +-2.181717 Phase b'-1:postag:JJ'
537 +-2.190768 O b'-1:postag:VBG'
538 +-2.226803 O b'-1:lemma::'
539 +-2.226803 O b'-1:word::'
540 +
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.07999002423801141, 'c2': 0.000868661924339573}
5 -best CV score:0.8083684694714717
6 -model size: 0.12M
7 -
8 -Flat F1: 0.797188910586862
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.878 0.754 0.811 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 1.000 0.742 0.852 62
20 - Anti 0.571 0.444 0.500 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.842 0.802 0.821 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.819 0.699 0.754 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.880 0.744 0.797 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.851914
32 -Temp -> Temp 6.755805
33 -Anti -> Anti 6.408411
34 -OD -> OD 6.070648
35 -Med -> Med 5.592163
36 -Gtype -> Gtype 5.552172
37 -Gversion -> Gversion 5.270252
38 -Air -> Air 4.673888
39 -Supp -> Supp 4.485002
40 -Phase -> Phase 4.276420
41 -O -> O 4.272212
42 -Technique -> Technique 3.801130
43 -pH -> pH 2.239489
44 -Gtype -> Supp 1.797612
45 -O -> Gtype 1.020757
46 -O -> Technique 0.845864
47 -O -> Supp 0.684262
48 -O -> Anti 0.542673
49 -Substrain -> Gtype 0.423988
50 -Technique -> Air 0.409033
51 -O -> Temp 0.245701
52 -Med -> O 0.105696
53 -O -> Gversion 0.000171
54 -Gtype -> pH 0.000014
55 -Technique -> OD -0.019259
56 -Vess -> O -0.025654
57 -pH -> O -0.063409
58 -Air -> OD -0.082675
59 -Air -> Temp -0.095090
60 -Air -> O -0.133376
61 -Supp -> OD -0.159102
62 -Anti -> O -0.247448
63 -OD -> Air -0.261699
64 -Gtype -> Med -0.274175
65 -OD -> Gtype -0.277593
66 -Strain -> O -0.369145
67 -Phase -> Air -0.387062
68 -O -> Phase -0.394932
69 -Phase -> O -0.493736
70 -Supp -> O -0.534752
71 -Air -> Phase -0.600512
72 -Supp -> Air -0.640514
73 -OD -> Med -0.713090
74 -Technique -> O -0.754114
75 -Technique -> Gtype -0.754511
76 -O -> OD -0.776176
77 -O -> Med -0.780627
78 -Gtype -> O -0.801612
79 -Gtype -> OD -0.934362
80 -Air -> Med -1.257535
81 -
82 -
83 -Top unlikely transitions:
84 -Supp -> Supp 4.485002
85 -Phase -> Phase 4.276420
86 -O -> O 4.272212
87 -Technique -> Technique 3.801130
88 -pH -> pH 2.239489
89 -Gtype -> Supp 1.797612
90 -O -> Gtype 1.020757
91 -O -> Technique 0.845864
92 -O -> Supp 0.684262
93 -O -> Anti 0.542673
94 -Substrain -> Gtype 0.423988
95 -Technique -> Air 0.409033
96 -O -> Temp 0.245701
97 -Med -> O 0.105696
98 -O -> Gversion 0.000171
99 -Gtype -> pH 0.000014
100 -Technique -> OD -0.019259
101 -Vess -> O -0.025654
102 -pH -> O -0.063409
103 -Air -> OD -0.082675
104 -Air -> Temp -0.095090
105 -Air -> O -0.133376
106 -Supp -> OD -0.159102
107 -Anti -> O -0.247448
108 -OD -> Air -0.261699
109 -Gtype -> Med -0.274175
110 -OD -> Gtype -0.277593
111 -Strain -> O -0.369145
112 -Phase -> Air -0.387062
113 -O -> Phase -0.394932
114 -Phase -> O -0.493736
115 -Supp -> O -0.534752
116 -Air -> Phase -0.600512
117 -Supp -> Air -0.640514
118 -OD -> Med -0.713090
119 -Technique -> O -0.754114
120 -Technique -> Gtype -0.754511
121 -O -> OD -0.776176
122 -O -> Med -0.780627
123 -Gtype -> O -0.801612
124 -Gtype -> OD -0.934362
125 -Air -> Med -1.257535
126 -Gtype -> Anti -1.262843
127 -OD -> O -1.377165
128 -Supp -> Med -1.741716
129 -Agit -> O -1.885756
130 -Substrain -> O -1.895216
131 -Med -> Supp -2.409765
132 -O -> Air -2.508634
133 -Phase -> OD -2.584465
134 -
135 -
136 -Top positive:
137 -11.849885 Air b'word:Aerobic'
138 -7.837435 Air b'lemma:anaerobic'
139 -7.665723 O b'word:Cra'
140 -7.042313 Air b'word:Anaerobic'
141 -6.037970 O b'lemma:_'
142 -6.037970 O b'word:_'
143 -5.584218 O b'postag::'
144 -5.431231 O b'-1:lemma:ChIP-exo'
145 -5.349382 Med b'lemma:MOPS'
146 -5.349382 Med b'word:MOPS'
147 -5.289872 Technique b'word:ChIP-Seq'
148 -5.021757 Supp b'lemma:nh4cl'
149 -4.898148 O b'lemma:Custom'
150 -4.898148 O b'word:Custom'
151 -4.861257 Phase b'lemma:stationary'
152 -4.861257 Phase b'word:stationary'
153 -4.814387 Technique b'lemma:rna-seq'
154 -4.799463 Technique b'word:ChIPSeq'
155 -4.773443 Supp b'lemma:nitrate'
156 -4.773443 Supp b'word:nitrate'
157 -4.681396 O b'+1:postag:RB'
158 -4.678066 Supp b'-1:word:Cra'
159 -4.674952 Technique b'word:ChIP-exo'
160 -4.673460 O b'lemma:rpob'
161 -4.673460 O b'word:RpoB'
162 -4.632286 Med b'word:LB'
163 -4.272192 Supp b'lemma:pq'
164 -4.272192 Supp b'word:PQ'
165 -4.216477 Supp b'lemma:arginine'
166 -4.158847 O b'lemma:1'
167 -4.158847 O b'word:1'
168 -4.061171 Gtype b'lemma:wild-type'
169 -4.017592 O b'lemma:chip'
170 -3.861964 OD b'+1:lemma:stationary'
171 -3.861964 OD b'+1:word:stationary'
172 -3.805796 O b'-1:lemma:tag'
173 -3.744431 O b'-1:word:Aerobic'
174 -3.714272 Supp b'lemma:Iron'
175 -3.714272 Supp b'word:Iron'
176 -3.714272 Supp b'+1:word:Deficient'
177 -3.713062 Strain b'lemma:k-12'
178 -3.713062 Strain b'word:K-12'
179 -3.708676 Technique b'lemma:ChIP-exo'
180 -3.655103 O b'lemma:at'
181 -3.537057 Air b'postag:RB'
182 -3.506119 Gversion b'lemma:asm584v2'
183 -3.506119 Gversion b'word:ASM584v2'
184 -3.457008 O b'-1:word:Anaerobic'
185 -3.440372 O b'lemma:for'
186 -3.381566 Gversion b'lemma:chip-seq'
187 -3.373670 Gtype b'lemma:delta-fnr'
188 -3.373670 Gtype b'word:delta-fnr'
189 -3.345890 O b'lemma:a'
190 -3.268014 Gversion b'-1:lemma:nc'
191 -3.268014 Gversion b'-1:word:NC'
192 -3.225995 Air b'word:anaerobic'
193 -3.223526 Substrain b'lemma:mg1655'
194 -3.223526 Substrain b'word:MG1655'
195 -3.207086 O b'word:Lrp'
196 -3.199909 Gversion b'lemma:nc'
197 -3.199909 Gversion b'word:NC'
198 -3.184836 O b'lemma:2'
199 -3.184836 O b'word:2'
200 -3.184258 O b'-1:word:tag'
201 -3.161968 Gtype b'lemma:type'
202 -3.161968 Gtype b'word:type'
203 -3.129124 O b'lemma:.'
204 -3.129124 O b'postag:.'
205 -3.129124 O b'word:.'
206 -3.035046 O b'lemma:2-3'
207 -3.035046 O b'word:2-3'
208 -3.031993 Gtype b'lemma:\xce\xb4cra'
209 -3.023750 Gtype b'word:\xce\x94cra'
210 -3.015053 O b'-1:lemma:lb'
211 -2.985389 O b'postag:IN'
212 -2.963040 O b'+1:word:ChIP-Seq'
213 -2.954499 Gtype b'-1:lemma:\xe2\x88\x86'
214 -2.954499 Gtype b'-1:word:\xe2\x88\x86'
215 -2.921032 Gtype b'lemma:flag-tag'
216 -2.921032 Gtype b'-1:lemma:c-terminal'
217 -2.921032 Gtype b'word:Flag-tag'
218 -2.921032 Gtype b'-1:word:C-terminal'
219 -2.914388 O b'lemma:3'
220 -2.914388 O b'word:3'
221 -2.889633 Supp b'+1:lemma:\xc2\xb5m'
222 -2.889633 Supp b'+1:word:\xc2\xb5M'
223 -2.855964 Technique b'-1:lemma:chip-exo'
224 -2.841382 Temp b'-1:word:sample'
225 -2.838133 Med b'lemma:LB'
226 -2.837407 Gtype b'lemma:wt'
227 -2.815709 Phase b'lemma:mid-log'
228 -2.815709 Phase b'word:mid-log'
229 -2.815078 O b'word:OmpR'
230 -2.800233 Temp b'-1:lemma:sample'
231 -2.743118 Anti b'lemma:seqa'
232 -2.743118 Anti b'word:SeqA'
233 -2.738947 Gtype b'lemma:arca8myc'
234 -2.738947 Gtype b'word:ArcA8myc'
235 -2.734940 Supp b'lemma:rifampicin'
236 -2.734940 Supp b'word:rifampicin'
237 -2.713912 Technique b'lemma:rnaseq'
238 -2.713912 Technique b'word:RNASeq'
239 -2.676140 O b'+1:postag:NNP'
240 -2.668046 Gtype b'postag:-RRB-'
241 -2.666708 O b'lemma:rep1'
242 -2.666708 O b'word:rep1'
243 -2.639615 O b'word:for'
244 -2.628763 O b'lemma:with'
245 -2.628763 O b'word:with'
246 -2.602495 O b'lemma:b'
247 -2.602495 O b'word:B'
248 -2.600005 O b'+1:postag:VBP'
249 -2.593478 Supp b'+1:word:hours'
250 -2.586011 Technique b'lemma:chipseq'
251 -2.559150 Strain b'+1:lemma:substr'
252 -2.559150 Strain b'+1:word:substr'
253 -2.527855 Supp b'lemma:no3'
254 -2.527855 Supp b'word:NO3'
255 -2.521274 O b'lemma:-'
256 -2.521274 O b'word:-'
257 -2.481893 O b'lemma:rep3'
258 -2.481893 O b'word:rep3'
259 -2.477491 Gtype b'word:WT'
260 -2.457514 Gtype b'+1:lemma:type'
261 -2.457514 Gtype b'+1:word:type'
262 -2.445177 Supp b'lemma:Fe'
263 -2.445177 Supp b'word:Fe'
264 -2.387444 O b'lemma:rep2'
265 -2.387444 O b'word:rep2'
266 -2.380978 OD b'lemma:od600'
267 -2.380978 OD b'word:OD600'
268 -2.377956 Anti b'lemma:anti-rpos'
269 -2.377956 Anti b'word:anti-RpoS'
270 -2.363736 O b'lemma:oxyr'
271 -2.363736 O b'word:OxyR'
272 -2.360999 Anti b'lemma:none'
273 -2.360999 Anti b'word:none'
274 -2.343495 Gtype b'word:wt'
275 -2.342659 Supp b'lemma:dpd'
276 -2.342659 Supp b'word:DPD'
277 -2.334798 Gtype b'lemma:\xce\xb4ompr'
278 -2.334798 Gtype b'word:\xce\x94ompR'
279 -2.303303 O b'-1:lemma:0.3'
280 -2.303303 O b'-1:word:0.3'
281 -2.262158 O b'lemma:\xcf\x8332'
282 -2.262158 O b'word:\xcf\x8332'
283 -2.249986 O b'word:A'
284 -2.245441 Vess b'lemma:flask'
285 -2.245441 Vess b'-1:lemma:warm'
286 -2.245441 Vess b'word:flask'
287 -2.245441 Vess b'-1:word:warmed'
288 -2.238883 O b'+1:lemma:od600'
289 -2.238883 O b'+1:word:OD600'
290 -2.225888 O b'postag:DT'
291 -2.181011 O b'-1:lemma:0.3-0.35'
292 -2.181011 O b'-1:word:0.3-0.35'
293 -2.166240 O b'lemma:or'
294 -2.166240 O b'word:or'
295 -2.155012 Supp b'lemma:acetate'
296 -2.155012 Supp b'word:acetate'
297 -2.153135 OD b'lemma:od450'
298 -2.153135 OD b'word:OD450'
299 -2.153135 OD b'-1:word:At'
300 -2.131868 Supp b'lemma:glucose'
301 -2.131868 Supp b'word:glucose'
302 -2.127183 Anti b'+1:lemma:antibody'
303 -2.127183 Anti b'+1:word:antibody'
304 -2.127102 O b'lemma:culture'
305 -2.121306 Med b'+1:lemma:0.4'
306 -2.121306 Med b'+1:word:0.4'
307 -2.104976 Anti b'lemma:anti-myc'
308 -2.104976 Anti b'word:anti-myc'
309 -2.090073 Supp b'lemma:iptg'
310 -2.090073 Supp b'word:IPTG'
311 -2.088014 O b'lemma:chip-fnr'
312 -2.088014 O b'word:chip-Fnr'
313 -2.087065 Gtype b'lemma:nsrr'
314 -2.087065 Gtype b'word:NsrR'
315 -2.069607 O b'+1:postag::'
316 -2.049162 Phase b'-1:word:growing'
317 -2.041081 Gversion b'word:ChIP-Seq'
318 -2.034077 O b'-1:word:fnr'
319 -2.027233 Gtype b'+1:postag::'
320 -2.026441 Gtype b'postag:JJ'
321 -2.012468 O b'postag:VBN'
322 -2.003087 O b'lemma:soxs'
323 -2.003087 O b'word:SoxS'
324 -2.003087 O b'lemma:soxr'
325 -2.003087 O b'word:SoxR'
326 -1.984406 O b'+1:lemma:o.d.'
327 -1.984406 O b'+1:word:O.D.'
328 -1.975363 OD b'+1:postag:JJ'
329 -1.968960 Air b'-1:lemma:ChIP-Seq'
330 -1.968960 Air b'-1:word:ChIP-Seq'
331 -1.963497 Gtype b'lemma:pk4854'
332 -1.963497 Gtype b'word:PK4854'
333 -1.957953 Gtype b'word:cra'
334 -1.957254 Air b'lemma:anerobically'
335 -1.957254 Air b'word:anerobically'
336 -1.954863 O b'+1:lemma:pq'
337 -
338 -
339 -Top negative:
340 --0.090059 O b'-1:lemma:e.'
341 --0.092645 O b'+1:postag:-RRB-'
342 --0.095582 O b'-1:word:the'
343 --0.095914 O b'+1:lemma:minimal'
344 --0.095914 O b'+1:word:minimal'
345 --0.096813 Strain b'postag:NN'
346 --0.100844 O b'word:LB'
347 --0.102252 O b'lemma:anaerobic'
348 --0.106574 OD b'+1:postag:CC'
349 --0.107348 Air b'+1:postag:NN'
350 --0.107934 O b'-1:word:grown'
351 --0.108595 Supp b'-1:postag:VBG'
352 --0.108740 pH b'postag:NN'
353 --0.112315 O b'-1:lemma:ml'
354 --0.112801 O b'+1:lemma:rep1'
355 --0.112801 O b'+1:word:rep1'
356 --0.112908 O b'-1:lemma:od600'
357 --0.112908 O b'-1:word:OD600'
358 --0.115106 Air b'-1:postag:CC'
359 --0.115496 O b'lemma:co2'
360 --0.115496 O b'word:CO2'
361 --0.122244 O b'-1:lemma:the'
362 --0.124640 O b'-1:lemma:~'
363 --0.124640 O b'-1:word:~'
364 --0.127544 OD b'+1:lemma:and'
365 --0.127544 OD b'+1:word:and'
366 --0.129259 O b'-1:lemma:-lrb-'
367 --0.129259 O b'-1:word:-LRB-'
368 --0.133618 O b'+1:lemma:_'
369 --0.133618 O b'+1:word:_'
370 --0.135372 O b'+1:lemma:\xc2\xb0c'
371 --0.135372 O b'+1:word:\xc2\xb0C'
372 --0.136841 Technique b'isNumber'
373 --0.139019 O b'lemma:30'
374 --0.139019 O b'word:30'
375 --0.139199 Phase b'-1:postag:NN'
376 --0.149458 O b'+1:lemma:5'
377 --0.149458 O b'+1:word:5'
378 --0.151250 OD b'postag:JJ'
379 --0.152851 Supp b'+1:lemma:acetate'
380 --0.152851 Supp b'+1:word:acetate'
381 --0.156762 O b'+1:lemma:.'
382 --0.156762 O b'+1:postag:.'
383 --0.156762 O b'+1:word:.'
384 --0.158764 O b'-1:postag:-LRB-'
385 --0.161868 Gversion b'-1:postag:NN'
386 --0.163014 pH b'isLower'
387 --0.167779 O b'-1:lemma:30'
388 --0.167779 O b'-1:word:30'
389 --0.171168 O b'lemma:150'
390 --0.171168 O b'+1:lemma:mg/ml'
391 --0.171168 O b'word:150'
392 --0.171168 O b'+1:word:mg/mL'
393 --0.176143 O b'lemma:0.3'
394 --0.176143 O b'word:0.3'
395 --0.187819 O b'lemma:aerobically'
396 --0.187819 O b'word:aerobically'
397 --0.198962 O b'word:hours'
398 --0.212759 Med b'+1:postag:NNS'
399 --0.224619 Gtype b'-1:postag:SYM'
400 --0.228665 O b'lemma:fecl2'
401 --0.228665 O b'word:FeCl2'
402 --0.233718 O b'+1:lemma:or'
403 --0.233718 O b'+1:word:or'
404 --0.234368 O b'lemma:e.'
405 --0.236980 O b'lemma:dissolve'
406 --0.236980 O b'word:dissolved'
407 --0.241256 Supp b'+1:lemma:rifampicin'
408 --0.241256 Supp b'+1:word:rifampicin'
409 --0.241793 O b'-1:word:ml'
410 --0.242844 O b'-1:lemma:mid-log'
411 --0.242844 O b'-1:word:mid-log'
412 --0.244892 O b'-1:lemma:o2'
413 --0.244892 O b'-1:word:O2'
414 --0.250659 O b'-1:lemma:0.2'
415 --0.250659 O b'-1:word:0.2'
416 --0.257587 Air b'-1:postag:JJ'
417 --0.275537 O b'+1:postag:IN'
418 --0.276339 Agit b'isUpper'
419 --0.288029 O b'lemma:minimal'
420 --0.288029 O b'word:minimal'
421 --0.288682 O b'lemma:0.2'
422 --0.288682 O b'word:0.2'
423 --0.295170 O b'+1:lemma:%'
424 --0.295170 O b'+1:word:%'
425 --0.312769 Supp b'+1:postag:IN'
426 --0.314136 O b'lemma:of'
427 --0.314136 O b'word:of'
428 --0.316019 O b'lemma:phase'
429 --0.316019 O b'word:phase'
430 --0.317543 O b'-1:lemma:rpob'
431 --0.317543 O b'-1:word:RpoB'
432 --0.352099 O b'lemma:0.1'
433 --0.352099 O b'word:0.1'
434 --0.354536 O b'-1:lemma:grow'
435 --0.355121 O b'+1:postag:NNS'
436 --0.360104 O b'lemma:dpd'
437 --0.360104 O b'word:DPD'
438 --0.361422 Med b'postag:CD'
439 --0.374440 Air b'+1:postag:JJ'
440 --0.374640 O b'+1:lemma:c'
441 --0.386040 O b'lemma:medium'
442 --0.386040 O b'word:medium'
443 --0.425432 OD b'+1:postag:NN'
444 --0.433655 Med b'+1:postag:NN'
445 --0.442754 Supp b'-1:postag:NNP'
446 --0.444075 O b'-1:postag:IN'
447 --0.462977 O b'-1:lemma:IP'
448 --0.462977 O b'-1:word:IP'
449 --0.473099 O b'lemma:od600'
450 --0.473099 O b'word:OD600'
451 --0.475947 Supp b'-1:lemma:%'
452 --0.475947 Supp b'-1:word:%'
453 --0.478194 Supp b'+1:postag:VBN'
454 --0.493813 O b'-1:lemma:dissolve'
455 --0.493813 O b'+1:lemma:methanol'
456 --0.493813 O b'-1:word:dissolved'
457 --0.493813 O b'+1:word:methanol'
458 --0.496860 Temp b'+1:lemma:to'
459 --0.496860 Temp b'+1:postag:TO'
460 --0.496860 Temp b'+1:word:to'
461 --0.499631 O b'word:WT'
462 --0.513610 Temp b'postag:NN'
463 --0.514977 O b'lemma:glucose'
464 --0.514977 O b'word:glucose'
465 --0.536212 OD b'lemma:-lrb-'
466 --0.536212 OD b'word:-LRB-'
467 --0.551562 O b'lemma:media'
468 --0.551562 O b'word:media'
469 --0.560747 O b'+1:lemma:fecl2'
470 --0.560747 O b'+1:word:FeCl2'
471 --0.568774 O b'-1:lemma:co2'
472 --0.568774 O b'-1:word:CO2'
473 --0.570589 O b'lemma:20'
474 --0.570589 O b'word:20'
475 --0.601473 O b'-1:lemma:37'
476 --0.601473 O b'-1:word:37'
477 --0.606741 O b'+1:word:ChIP-exo'
478 --0.613813 O b'+1:lemma:g/l'
479 --0.613813 O b'+1:word:g/L'
480 --0.619083 OD b'postag:-LRB-'
481 --0.649236 O b'+1:word:C'
482 --0.665832 O b'+1:lemma:supplement'
483 --0.665832 O b'+1:word:supplemented'
484 --0.674327 O b'lemma:37'
485 --0.674327 O b'word:37'
486 --0.686899 O b'lemma:2h'
487 --0.686899 O b'-1:lemma:additional'
488 --0.686899 O b'word:2h'
489 --0.686899 O b'-1:word:additional'
490 --0.702076 O b'+1:lemma:in'
491 --0.702076 O b'+1:word:in'
492 --0.720953 Med b'-1:postag:NN'
493 --0.734913 Med b'+1:postag:IN'
494 --0.738740 O b'postag:RB'
495 --0.780009 Supp b'-1:postag:NN'
496 --0.812687 Phase b'-1:postag:JJ'
497 --0.862547 O b'+1:lemma:at'
498 --0.862547 O b'+1:word:at'
499 --0.884705 O b'lemma:anaerobically'
500 --0.884705 O b'word:anaerobically'
501 --0.954289 O b'lemma:rifampicin'
502 --0.954289 O b'word:rifampicin'
503 --0.975364 O b'+1:lemma:hour'
504 --0.985559 O b'-1:lemma:nsrr'
505 --0.985559 O b'-1:word:NsrR'
506 --0.997260 O b'-1:postag::'
507 --1.064484 O b'+1:lemma:2'
508 --1.064484 O b'+1:word:2'
509 --1.067361 O b'+1:postag:VBG'
510 --1.084453 Temp b'isLower'
511 --1.090676 Technique b'isLower'
512 --1.096556 Air b'postag:NN'
513 --1.130890 O b'-1:postag:VBG'
514 --1.137066 O b'lemma:methanol'
515 --1.137066 O b'word:methanol'
516 --1.146647 Med b'-1:postag:IN'
517 --1.273126 Gtype b'isUpper'
518 --1.333154 OD b'isNumber'
519 --1.341950 Anti b'postag:NNP'
520 --1.346674 O b'lemma:wt'
521 --1.359316 O b'-1:lemma:2'
522 --1.359316 O b'-1:word:2'
523 --1.393623 O b'lemma:mid-log'
524 --1.393623 O b'word:mid-log'
525 --1.528613 Supp b'postag:CC'
526 --1.536721 O b'-1:lemma:ompr'
527 --1.544831 O b'+1:lemma:1'
528 --1.544831 O b'+1:word:1'
529 --1.748788 Gtype b'isLower'
530 --2.010239 O b'+1:word:hours'
531 --2.214812 Gversion b'isLower'
532 --2.235984 O b'-1:lemma:_'
533 --2.235984 O b'-1:word:_'
534 --2.367089 Supp b'postag:JJ'
535 --2.519281 O b'-1:lemma::'
536 --2.519281 O b'-1:word::'
537 --2.594531 O b'word:cells'
538 --3.006120 Gtype b'isNumber'
539 --3.055847 Phase b'postag:JJ'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.3568772328262357, 'c2': 0.03679897833962741}
5 -best CV score:0.7912405713814187
6 -model size: 0.06M
7 -
8 -Flat F1: 0.7675992381773036
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.800 0.842 0.821 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.789 0.882 19
19 - Air 0.780 0.742 0.760 62
20 - Anti 0.800 0.444 0.571 9
21 - Strain 0.000 0.000 0.000 1
22 - Gtype 0.845 0.774 0.808 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.806 0.640 0.713 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.842 0.723 0.768 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 5.955565
32 -Agit -> Agit 5.919199
33 -Temp -> Temp 5.457223
34 -Med -> Med 5.142852
35 -Anti -> Anti 5.096560
36 -Air -> Air 4.785647
37 -Gtype -> Gtype 4.265020
38 -O -> O 4.167033
39 -Gversion -> Gversion 4.096654
40 -Supp -> Supp 4.095690
41 -Phase -> Phase 4.087605
42 -Technique -> Technique 3.540826
43 -O -> Supp 2.079503
44 -Gtype -> Supp 1.995901
45 -Air -> O 1.832886
46 -pH -> pH 1.823851
47 -Substrain -> Gtype 1.407319
48 -O -> Gtype 1.287017
49 -O -> Technique 1.257508
50 -O -> Anti 0.872529
51 -Technique -> Air 0.856385
52 -O -> Temp 0.849337
53 -Med -> O 0.823339
54 -OD -> Phase 0.567936
55 -Supp -> O 0.535077
56 -O -> Gversion 0.454745
57 -Temp -> O 0.378011
58 -O -> Med 0.340773
59 -Phase -> O 0.256163
60 -Gtype -> Air 0.217223
61 -Gtype -> pH 0.173493
62 -O -> Phase 0.079173
63 -O -> Strain 0.031985
64 -Supp -> Air -0.000004
65 -Gtype -> Anti -0.020854
66 -Gtype -> Gversion -0.026214
67 -Technique -> Gtype -0.122709
68 -OD -> O -0.164948
69 -Technique -> pH -0.215348
70 -Supp -> Med -0.427866
71 -O -> Air -0.523868
72 -Agit -> O -0.572132
73 -Substrain -> O -0.707348
74 -Gtype -> OD -0.819099
75 -Med -> Supp -0.863239
76 -Phase -> OD -0.994549
77 -
78 -
79 -Top unlikely transitions:
80 -OD -> OD 5.955565
81 -Agit -> Agit 5.919199
82 -Temp -> Temp 5.457223
83 -Med -> Med 5.142852
84 -Anti -> Anti 5.096560
85 -Air -> Air 4.785647
86 -Gtype -> Gtype 4.265020
87 -O -> O 4.167033
88 -Gversion -> Gversion 4.096654
89 -Supp -> Supp 4.095690
90 -Phase -> Phase 4.087605
91 -Technique -> Technique 3.540826
92 -O -> Supp 2.079503
93 -Gtype -> Supp 1.995901
94 -Air -> O 1.832886
95 -pH -> pH 1.823851
96 -Substrain -> Gtype 1.407319
97 -O -> Gtype 1.287017
98 -O -> Technique 1.257508
99 -O -> Anti 0.872529
100 -Technique -> Air 0.856385
101 -O -> Temp 0.849337
102 -Med -> O 0.823339
103 -OD -> Phase 0.567936
104 -Supp -> O 0.535077
105 -O -> Gversion 0.454745
106 -Temp -> O 0.378011
107 -O -> Med 0.340773
108 -Phase -> O 0.256163
109 -Gtype -> Air 0.217223
110 -Gtype -> pH 0.173493
111 -O -> Phase 0.079173
112 -O -> Strain 0.031985
113 -Supp -> Air -0.000004
114 -Gtype -> Anti -0.020854
115 -Gtype -> Gversion -0.026214
116 -Technique -> Gtype -0.122709
117 -OD -> O -0.164948
118 -Technique -> pH -0.215348
119 -Supp -> Med -0.427866
120 -O -> Air -0.523868
121 -Agit -> O -0.572132
122 -Substrain -> O -0.707348
123 -Gtype -> OD -0.819099
124 -Med -> Supp -0.863239
125 -Phase -> OD -0.994549
126 -
127 -
128 -Top positive:
129 -7.311391 O b'lemma:_'
130 -6.386213 O b'lemma:1'
131 -5.942659 Air b'lemma:anaerobic'
132 -5.902775 Supp b'lemma:Iron'
133 -5.497006 Strain b'lemma:k-12'
134 -5.443070 Air b'lemma:aerobic'
135 -5.417956 Technique b'lemma:ChIP-exo'
136 -5.360099 O b'lemma:2'
137 -4.972296 Phase b'lemma:mid-log'
138 -4.783538 O b'postag:IN'
139 -4.776370 Supp b'lemma:nitrate'
140 -4.762645 O b'lemma:rpob'
141 -4.691195 Air b'-1:lemma:ChIP-Seq'
142 -4.618875 O b'lemma:3'
143 -4.601053 Substrain b'lemma:mg1655'
144 -4.462226 Technique b'lemma:chipseq'
145 -4.387311 Phase b'lemma:stationary'
146 -4.222036 OD b'lemma:od600'
147 -4.073562 Gtype b'+1:lemma:type'
148 -4.057916 Supp b'lemma:pq'
149 -3.985864 Supp b'lemma:nh4cl'
150 -3.972087 Gtype b'lemma:\xce\xb4cra'
151 -3.961883 Air b'lemma:Aerobic'
152 -3.882824 O b'postag::'
153 -3.851044 Gtype b'lemma:type'
154 -3.817888 Gtype b'-1:lemma:\xe2\x88\x86'
155 -3.749284 Gtype b'lemma:flag-tag'
156 -3.749284 Gtype b'-1:lemma:c-terminal'
157 -3.742652 Gtype b'lemma:wt'
158 -3.740216 Med b'lemma:lb'
159 -3.740189 Supp b'lemma:glucose'
160 -3.732373 O b'lemma:rep1'
161 -3.722079 O b'lemma:b'
162 -3.685687 Gversion b'lemma:asm584v2'
163 -3.675629 Gversion b'lemma:nc'
164 -3.658421 Supp b'+1:lemma:\xc2\xb5m'
165 -3.453987 O b'lemma:a'
166 -3.428380 O b'lemma:rep2'
167 -3.424503 Med b'lemma:LB'
168 -3.414190 Gtype b'lemma:arca8myc'
169 -3.403980 O b'-1:lemma:ChIP-exo'
170 -3.303023 Med b'lemma:MOPS'
171 -3.265948 Technique b'lemma:rna-seq'
172 -3.251521 Technique b'lemma:ChIP-Seq'
173 -3.210550 O b'lemma:\xcf\x8332'
174 -3.209996 O b'lemma:Cra'
175 -3.119550 O b'postag:VBN'
176 -3.109382 Gtype b'lemma:delta-arca'
177 -3.070896 O b'lemma:.'
178 -3.070896 O b'postag:.'
179 -3.047834 Technique b'lemma:chip-seq'
180 -3.046544 Gtype b'lemma:\xe2\x88\x86'
181 -3.018451 Supp b'lemma:Fe'
182 -3.007680 Supp b'lemma:acetate'
183 -2.972749 Air b'postag:RB'
184 -2.971413 O b'-1:lemma:tag'
185 -2.959092 Med b'+1:lemma:0.4'
186 -2.947878 O b'lemma:rep3'
187 -2.936895 Gtype b'lemma:fnr8myc'
188 -2.934222 Anti b'+1:lemma:antibody'
189 -2.898737 Supp b'lemma:no3'
190 -2.896406 O b'lemma:Custom'
191 -2.856337 O b'postag:CC'
192 -2.850328 Technique b'-1:lemma:IP'
193 -2.848169 Temp b'lemma:\xc2\xb0c'
194 -2.841904 Supp b'lemma:fructose'
195 -2.805619 Technique b'lemma:rnaseq'
196 -2.779984 Gtype b'lemma:nsrr'
197 -2.746209 O b'+1:lemma:od600'
198 -2.719832 Supp b'lemma:rifampicin'
199 -2.673293 O b'-1:lemma:Aerobic'
200 -2.634726 Vess b'lemma:flask'
201 -2.634726 Vess b'-1:lemma:warm'
202 -2.632998 Supp b'+1:lemma:1'
203 -2.627950 pH b'lemma:ph5'
204 -2.627950 pH b'+1:lemma:.5'
205 -2.584412 Gtype b'lemma:\xce\xb4fur'
206 -2.580319 OD b'lemma:od450'
207 -2.506717 Gtype b'+1:lemma:with'
208 -2.487258 Supp b'lemma:dpd'
209 -2.454806 Supp b'+1:lemma:2'
210 -2.450355 Gversion b'-1:lemma:nc'
211 -2.405914 O b'lemma:-'
212 -2.403636 Supp b'lemma:arginine'
213 -2.402149 O b'-1:lemma:type'
214 -2.392360 Gtype b'lemma:delta-fnr'
215 -2.374469 O b'-1:lemma:0.3-0.35'
216 -2.367275 Gversion b'lemma:000913'
217 -2.362681 O b'lemma:CEL'
218 -2.349730 Gversion b'lemma:u00096'
219 -2.349730 Gversion b'+1:lemma:.2'
220 -2.344881 Gtype b'+1:lemma:ph5'
221 -2.330556 Temp b'-1:lemma:sample'
222 -2.315441 Med b'lemma:m63'
223 -2.315022 O b'postag:DT'
224 -2.300074 Gtype b'+1:lemma:pq'
225 -2.267250 Gtype b'-1:lemma:rpob'
226 -2.265036 Anti b'lemma:none'
227 -2.258989 O b'-1:lemma:glucose'
228 -2.231273 Med b'+1:lemma:minimal'
229 -2.224003 O b'+1:postag:RB'
230 -2.220750 Med b'lemma:media'
231 -2.206396 Gtype b'lemma:wild-type'
232 -2.185276 Gtype b'+1:lemma:flagtag'
233 -2.172170 Temp b'-1:lemma:\xcf\x8332'
234 -2.170608 Gversion b'lemma:.2'
235 -2.170608 Gversion b'-1:lemma:u00096'
236 -2.168316 O b'lemma:chip'
237 -2.140388 pH b'lemma:.5'
238 -2.140388 pH b'-1:lemma:ph5'
239 -2.092729 Technique b'-1:lemma:chip-exo'
240 -2.092406 O b'postag:VBG'
241 -2.091643 Supp b'+1:lemma:_'
242 -2.084452 Gtype b'-1:lemma:ptac'
243 -2.084202 Strain b'+1:lemma:substr'
244 -2.037782 O b'+1:postag:NNP'
245 -2.036707 O b'lemma:with'
246 -2.020481 Anti b'lemma:seqa'
247 -2.017889 O b'lemma:affyexp'
248 -2.016765 O b'+1:lemma:pq'
249 -2.014069 Supp b'-1:lemma:\xc2\xb5m'
250 -2.007497 OD b'+1:lemma:stationary'
251 -2.005510 O b'lemma:s'
252 -1.992269 O b'-1:lemma:l1'
253 -1.979839 Supp b'-1:lemma:with'
254 -1.950746 Med b'+1:lemma:2.0'
255 -1.943075 Supp b'lemma:nacl'
256 -1.939615 O b'lemma:or'
257 -1.934384 O b'-1:lemma:\xc2\xb0c'
258 -1.924238 Gversion b'lemma:chip-seq'
259 -1.912397 Air b'-1:lemma:-'
260 -1.907041 O b'-1:lemma:anaerobic'
261 -1.897746 Supp b'lemma:20'
262 -1.889218 Gtype b'+1:lemma:_'
263 -1.887958 Phase b'-1:lemma:mid-log'
264 -1.881451 Technique b'+1:lemma:chip-exo'
265 -1.878291 Temp b'-1:lemma:43'
266 -1.855251 pH b'+1:postag:CD'
267 -1.845211 Gversion b'lemma:_'
268 -1.834481 Gtype b'lemma:\xce\xb4ompr'
269 -1.833194 O b'-1:lemma:0.3'
270 -1.819503 O b'postag:VBD'
271 -1.794552 Supp b'-1:lemma:Cra'
272 -1.789484 Temp b'lemma:43'
273 -1.773482 Supp b'lemma:iptg'
274 -1.756704 O b'lemma:culture'
275 -1.754791 Temp b'+1:lemma:\xc2\xb0c'
276 -1.743371 Technique b'-1:lemma:1'
277 -1.741538 Temp b'lemma:37'
278 -1.722498 Air b'lemma:anaerobically'
279 -1.719157 O b'-1:lemma:lb'
280 -1.715507 Air b'-1:lemma:co2'
281 -1.702741 Med b'-1:lemma:glucose'
282 -1.692405 Med b'lemma:L'
283 -1.692405 Med b'+1:lemma:broth'
284 -1.691874 Med b'+1:lemma:supplement'
285 -1.691307 OD b'-1:lemma:~'
286 -1.683838 Supp b'lemma:Leu'
287 -1.682972 O b'lemma:genotype/variation'
288 -1.676442 Gtype b'lemma:ptac'
289 -1.663265 O b'lemma:oxyr'
290 -1.660953 Anti b'lemma:anti-rpos'
291 -1.630672 OD b'lemma:0.3'
292 -1.621148 O b'lemma:-rrb-'
293 -1.617178 Anti b'lemma:anti-myc'
294 -1.604063 O b'-1:lemma:stpa'
295 -1.586655 Med b'lemma:glucose'
296 -1.585743 Gversion b'+1:lemma:000913'
297 -1.579174 O b'postag:SYM'
298 -1.578068 Gtype b'-1:lemma:nsrr'
299 -1.574137 Supp b'-1:lemma:+'
300 -1.567060 Gtype b'+1:postag::'
301 -1.563299 Gversion b'postag:CD'
302 -1.544619 Temp b'-1:lemma:37'
303 -1.538602 Med b'+1:lemma:g/l'
304 -1.528286 O b'lemma:to'
305 -1.528286 O b'postag:TO'
306 -1.523324 Gtype b'lemma:\xce\xb4soxs'
307 -1.518247 Technique b'postag:NNP'
308 -1.515066 O b'lemma:Lrp'
309 -1.503810 Supp b'+1:lemma:Deficient'
310 -1.474618 Med b'postag:NNP'
311 -1.470896 O b'lemma:condition'
312 -1.470694 O b'postag:NNS'
313 -1.466882 Vess b'-1:postag:VBN'
314 -1.460777 Substrain b'+1:lemma:phtpg'
315 -1.454367 O b'lemma:Fur'
316 -1.445446 Gtype b'lemma:pk4854'
317 -1.444799 O b'lemma:chip-arca'
318 -1.433832 Air b'-1:postag:CD'
319 -1.433106 Supp b'lemma:of'
320 -1.427368 Supp b'lemma:0.2'
321 -1.416476 Gtype b'postag:-RRB-'
322 -1.416028 Med b'+1:lemma:+'
323 -1.405123 Gtype b'+1:lemma:aerobic'
324 -1.403649 O b'+1:lemma:chip-seq'
325 -1.392465 Vess b'+1:lemma:at'
326 -1.387929 Air b'+1:lemma:%'
327 -1.386557 Air b'lemma:Anaerobic'
328 -1.379418 Air b'lemma:%'
329 -
330 -
331 -Top negative:
332 -0.046237 Technique b'-1:postag:-LRB-'
333 -0.044591 O b'lemma:total'
334 -0.042487 OD b'-1:postag:JJ'
335 -0.041254 Agit b'+1:lemma:at'
336 -0.040829 Air b'-1:lemma:o2'
337 -0.039691 O b'+1:postag:SYM'
338 -0.037763 Air b'-1:lemma:95'
339 -0.037597 Med b'-1:lemma:g/l'
340 -0.034684 Med b'-1:postag::'
341 -0.034326 OD b'lemma:and'
342 -0.031598 Supp b'-1:lemma:ompr'
343 -0.024936 Technique b'postag:NN'
344 -0.024683 O b'lemma:co2'
345 -0.024521 O b'-1:lemma:k-12'
346 -0.023660 O b'lemma:express'
347 -0.023660 O b'+1:lemma:nsrr'
348 -0.021537 OD b'-1:postag:-LRB-'
349 -0.020167 O b'-1:lemma:respiratory'
350 -0.019242 Technique b'-1:postag:NN'
351 -0.017406 O b'+1:postag:-LRB-'
352 -0.015124 O b'lemma:contain'
353 -0.013912 Agit b'-1:postag:DT'
354 -0.013779 O b'+1:lemma:with'
355 -0.011889 Supp b'-1:postag:NN'
356 -0.010468 O b'-1:lemma:no3'
357 -0.007499 O b'postag:VBZ'
358 -0.006399 Temp b'-1:postag:NNS'
359 -0.006118 O b'lemma:%'
360 -0.004379 Med b'-1:lemma:2'
361 -0.003940 OD b'postag:CC'
362 -0.003905 Gtype b'lemma::'
363 -0.003701 O b'-1:lemma:with'
364 -0.003698 Air b'postag:NNP'
365 -0.003581 O b'+1:lemma:20'
366 -0.003278 O b'+1:lemma:wt'
367 -0.003056 Gtype b'-1:postag:NN'
368 -0.003014 O b'-1:postag:VBD'
369 -0.002667 Supp b'-1:lemma:contain'
370 -0.002596 O b'lemma:respiratory'
371 -0.001697 Agit b'postag:IN'
372 -0.001336 O b'-1:lemma:genotype'
373 -0.001218 OD b'+1:postag:-RRB-'
374 -0.001198 O b'lemma:mm'
375 -0.001116 OD b'postag:CD'
376 -0.000945 Med b'lemma:g/l'
377 -0.000825 O b'+1:lemma:total'
378 -0.000744 Air b'+1:lemma:and'
379 -0.000698 Gtype b'-1:lemma:lacz'
380 -0.000535 O b'+1:lemma:anaerobically'
381 -0.000513 O b'-1:lemma:and'
382 -0.000496 O b'+1:lemma:mm'
383 -0.000435 O b'-1:lemma:fructose'
384 -0.000393 O b'lemma:acetate'
385 -0.000297 Gtype b'lemma:wild'
386 -0.000283 Temp b'+1:lemma:.'
387 -0.000283 Temp b'+1:postag:.'
388 -0.000099 Phase b'postag:RB'
389 -0.000088 Supp b'lemma:1mm'
390 -0.000079 O b'+1:lemma:use'
391 -0.000050 Supp b'+1:postag:JJ'
392 -0.000036 Supp b'-1:lemma:1g/l'
393 -0.000026 Supp b'lemma:paraquat'
394 -0.000026 O b'-1:lemma:l2'
395 -0.000025 OD b'lemma:\xce\xb4soxr'
396 -0.000007 pH b'postag:CD'
397 -0.000007 Supp b'lemma:um'
398 -0.000006 Gtype b'lemma:small'
399 --0.000000 O b'-1:lemma:cra'
400 --0.000009 O b'+1:lemma:dissolve'
401 --0.000017 O b'-1:lemma:the'
402 --0.000043 Supp b'lemma:and'
403 --0.000046 O b'lemma:\xce\xb4fur'
404 --0.000085 O b'-1:lemma:rifampicin'
405 --0.000146 O b'-1:lemma:iptg'
406 --0.000260 OD b'+1:postag:NNS'
407 --0.000627 O b'-1:lemma:g/l'
408 --0.000742 OD b'postag:JJ'
409 --0.001488 O b'lemma:m63'
410 --0.003058 Air b'postag:CD'
411 --0.003448 O b'+1:lemma:phase'
412 --0.004608 Agit b'postag:NN'
413 --0.004847 O b'-1:lemma:,'
414 --0.004847 O b'-1:postag:,'
415 --0.005037 O b'-1:lemma:ml'
416 --0.007684 O b'+1:lemma:5'
417 --0.008395 Air b'+1:postag:-RRB-'
418 --0.008451 Air b'+1:lemma:-lrb-'
419 --0.017107 Med b'postag:CD'
420 --0.017612 Supp b'postag:CD'
421 --0.018284 O b'+1:lemma:c'
422 --0.018326 Air b'+1:postag:NN'
423 --0.018494 O b'+1:lemma:300'
424 --0.020172 O b'+1:lemma:arginine'
425 --0.021074 O b'+1:lemma:until'
426 --0.022065 O b'-1:lemma:n2'
427 --0.022176 Air b'+1:lemma:-rrb-'
428 --0.036363 Gtype b'postag:CD'
429 --0.041102 O b'+1:lemma:rep1'
430 --0.042847 O b'-1:lemma:e.'
431 --0.044979 Air b'-1:lemma:-lrb-'
432 --0.046714 Air b'-1:postag:CC'
433 --0.058789 O b'-1:lemma:1'
434 --0.063701 O b'lemma:k-12'
435 --0.066551 Supp b'+1:lemma:-rrb-'
436 --0.070646 Anti b'+1:lemma:anti-fur'
437 --0.073806 OD b'+1:postag:CD'
438 --0.084658 OD b'+1:postag:-LRB-'
439 --0.084874 O b'lemma:150'
440 --0.084874 O b'+1:lemma:mg/ml'
441 --0.089700 O b'-1:postag:VBN'
442 --0.098890 O b'lemma:lb'
443 --0.104646 Technique b'-1:lemma::'
444 --0.109346 Gtype b'-1:postag:CD'
445 --0.117060 Med b'-1:postag:NN'
446 --0.137397 O b'lemma:\xe2\x88\x86'
447 --0.139038 Med b'+1:postag:IN'
448 --0.139665 Supp b'postag:CC'
449 --0.145456 O b'-1:lemma:0.2'
450 --0.166221 Anti b'+1:postag:JJ'
451 --0.168662 O b'-1:lemma:30'
452 --0.170969 Gtype b'+1:lemma:-lrb-'
453 --0.185496 O b'+1:postag:NNS'
454 --0.187775 O b'+1:lemma:-rrb-'
455 --0.189256 O b'lemma:phase'
456 --0.197532 O b'-1:lemma:~'
457 --0.198007 Supp b'+1:lemma:rifampicin'
458 --0.204204 O b'+1:lemma:.'
459 --0.204204 O b'+1:postag:.'
460 --0.216763 Supp b'+1:postag:-RRB-'
461 --0.218250 O b'+1:lemma:%'
462 --0.224866 O b'lemma:dissolve'
463 --0.237242 O b'-1:postag:IN'
464 --0.238328 O b'-1:lemma:of'
465 --0.240558 O b'+1:lemma:hour'
466 --0.240999 O b'-1:lemma:-lrb-'
467 --0.256297 Temp b'+1:lemma:to'
468 --0.256297 Temp b'+1:postag:TO'
469 --0.256467 O b'+1:lemma:0.3'
470 --0.259261 Temp b'postag:JJ'
471 --0.264304 O b'-1:lemma:from'
472 --0.278399 O b'lemma:20'
473 --0.278740 Phase b'-1:lemma:at'
474 --0.285638 O b'lemma:media'
475 --0.332297 O b'-1:postag:-LRB-'
476 --0.344037 O b'-1:lemma:mid-log'
477 --0.360399 Med b'+1:postag:NN'
478 --0.369081 O b'+1:postag:IN'
479 --0.394929 pH b'postag:NN'
480 --0.422222 O b'lemma:anaerobically'
481 --0.424296 O b'lemma:fecl2'
482 --0.437175 O b'+1:postag:-RRB-'
483 --0.454022 O b'lemma:0.3'
484 --0.489502 O b'+1:lemma:fecl2'
485 --0.515212 O b'-1:lemma:rpob'
486 --0.523695 O b'-1:lemma:ompr'
487 --0.548908 O b'-1:lemma:od600'
488 --0.555804 O b'+1:postag:VBG'
489 --0.560571 O b'-1:lemma:sample'
490 --0.564990 O b'-1:lemma:37'
491 --0.571228 O b'-1:lemma:grow'
492 --0.575388 OD b'+1:postag:NN'
493 --0.582274 O b'lemma:od600'
494 --0.590024 Technique b'-1:postag::'
495 --0.607317 OD b'lemma:-lrb-'
496 --0.626089 Air b'-1:postag:JJ'
497 --0.675603 O b'lemma:2h'
498 --0.675603 O b'-1:lemma:additional'
499 --0.678009 Supp b'+1:lemma:acetate'
500 --0.680017 O b'+1:lemma:cell'
501 --0.707984 O b'lemma:0.1'
502 --0.736935 O b'lemma:37'
503 --0.745442 O b'+1:lemma:+'
504 --0.767826 O b'lemma:0.2'
505 --0.773161 Temp b'postag:NN'
506 --0.851338 O b'lemma:wt'
507 --0.866767 O b'-1:lemma:dissolve'
508 --0.866767 O b'+1:lemma:methanol'
509 --0.888840 O b'+1:lemma:g/l'
510 --0.912059 O b'lemma:mid-log'
511 --0.950858 O b'-1:postag::'
512 --0.973355 Anti b'postag:NNP'
513 --0.986952 O b'lemma:of'
514 --1.090926 O b'lemma:methanol'
515 --1.112071 O b'+1:lemma:supplement'
516 --1.135645 O b'lemma:rifampicin'
517 --1.140338 O b'-1:postag:VBG'
518 --1.194026 O b'+1:lemma:at'
519 --1.228205 O b'-1:lemma:co2'
520 --1.238990 O b'-1:lemma:nsrr'
521 --1.291964 OD b'postag:-LRB-'
522 --1.351756 O b'-1:lemma:IP'
523 --1.411430 Air b'+1:postag:JJ'
524 --1.429559 O b'+1:lemma:in'
525 --1.505998 Supp b'postag:JJ'
526 --1.647279 Air b'postag:NN'
527 --1.998332 O b'-1:lemma:2'
528 --2.129948 O b'+1:lemma:2'
529 --2.202486 O b'+1:lemma:1'
530 --3.512875 O b'-1:lemma::'
531 --3.774844 O b'-1:lemma:_'
532 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.18162961741547431, 'c2': 0.010173319055706773}
5 -best CV score:0.8000535163011767
6 -model size: 0.06M
7 -
8 -Flat F1: 0.7788313742200469
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.800 0.842 0.821 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 0.571 0.444 0.500 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.863 0.774 0.816 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.820 0.669 0.737 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.844 0.740 0.779 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.428280
32 -OD -> OD 6.391198
33 -Temp -> Temp 5.649607
34 -Med -> Med 5.539114
35 -Anti -> Anti 5.303445
36 -Air -> Air 5.166643
37 -O -> O 4.665819
38 -Gversion -> Gversion 4.506373
39 -Gtype -> Gtype 4.407445
40 -Phase -> Phase 4.396047
41 -Supp -> Supp 4.016861
42 -Technique -> Technique 3.916964
43 -O -> Supp 1.874908
44 -pH -> pH 1.860916
45 -Air -> O 1.770442
46 -Gtype -> Supp 1.543348
47 -O -> Technique 1.425814
48 -O -> Gtype 1.309373
49 -Substrain -> Gtype 1.304530
50 -Technique -> Air 0.870147
51 -O -> Temp 0.799278
52 -O -> Anti 0.706193
53 -Med -> O 0.658266
54 -Temp -> O 0.368124
55 -O -> Gversion 0.329037
56 -OD -> Phase 0.304771
57 -O -> Med 0.286180
58 -Gtype -> pH 0.234567
59 -Phase -> O 0.219735
60 -Supp -> O 0.186801
61 -O -> Strain 0.165838
62 -O -> Phase 0.049593
63 -Gtype -> Air 0.047789
64 -O -> OD 0.017713
65 -Technique -> O -0.003305
66 -OD -> Med -0.005961
67 -Supp -> Air -0.145259
68 -Gtype -> Med -0.329989
69 -OD -> O -0.341272
70 -Gtype -> O -0.347754
71 -Technique -> OD -0.359361
72 -Agit -> O -0.510570
73 -Gtype -> Anti -0.695655
74 -Supp -> Med -0.748551
75 -Gtype -> OD -0.794417
76 -O -> Air -0.800635
77 -Substrain -> O -1.117563
78 -Phase -> OD -1.392334
79 -Med -> Supp -1.659724
80 -
81 -
82 -Top unlikely transitions:
83 -Agit -> Agit 6.428280
84 -OD -> OD 6.391198
85 -Temp -> Temp 5.649607
86 -Med -> Med 5.539114
87 -Anti -> Anti 5.303445
88 -Air -> Air 5.166643
89 -O -> O 4.665819
90 -Gversion -> Gversion 4.506373
91 -Gtype -> Gtype 4.407445
92 -Phase -> Phase 4.396047
93 -Supp -> Supp 4.016861
94 -Technique -> Technique 3.916964
95 -O -> Supp 1.874908
96 -pH -> pH 1.860916
97 -Air -> O 1.770442
98 -Gtype -> Supp 1.543348
99 -O -> Technique 1.425814
100 -O -> Gtype 1.309373
101 -Substrain -> Gtype 1.304530
102 -Technique -> Air 0.870147
103 -O -> Temp 0.799278
104 -O -> Anti 0.706193
105 -Med -> O 0.658266
106 -Temp -> O 0.368124
107 -O -> Gversion 0.329037
108 -OD -> Phase 0.304771
109 -O -> Med 0.286180
110 -Gtype -> pH 0.234567
111 -Phase -> O 0.219735
112 -Supp -> O 0.186801
113 -O -> Strain 0.165838
114 -O -> Phase 0.049593
115 -Gtype -> Air 0.047789
116 -O -> OD 0.017713
117 -Technique -> O -0.003305
118 -OD -> Med -0.005961
119 -Supp -> Air -0.145259
120 -Gtype -> Med -0.329989
121 -OD -> O -0.341272
122 -Gtype -> O -0.347754
123 -Technique -> OD -0.359361
124 -Agit -> O -0.510570
125 -Gtype -> Anti -0.695655
126 -Supp -> Med -0.748551
127 -Gtype -> OD -0.794417
128 -O -> Air -0.800635
129 -Substrain -> O -1.117563
130 -Phase -> OD -1.392334
131 -Med -> Supp -1.659724
132 -
133 -
134 -Top positive:
135 -8.779498 Supp b'lemma:Iron'
136 -8.304502 O b'lemma:_'
137 -7.618690 Phase b'lemma:stationary'
138 -7.484170 Air b'lemma:anaerobic'
139 -7.354518 O b'lemma:1'
140 -7.067189 Air b'lemma:aerobic'
141 -6.669483 Phase b'lemma:mid-log'
142 -6.618228 Strain b'lemma:k-12'
143 -6.546745 Technique b'lemma:ChIP-exo'
144 -6.382709 Supp b'lemma:nitrate'
145 -6.166994 O b'lemma:rpob'
146 -5.942129 Technique b'lemma:chipseq'
147 -5.857472 Med b'lemma:MOPS'
148 -5.774642 Air b'-1:lemma:ChIP-Seq'
149 -5.737667 Substrain b'lemma:mg1655'
150 -5.732281 O b'lemma:2'
151 -5.455707 O b'lemma:3'
152 -5.364542 Supp b'lemma:pq'
153 -5.264936 Gtype b'lemma:\xce\xb4cra'
154 -5.213694 Gversion b'lemma:asm584v2'
155 -5.194289 O b'-1:lemma:tag'
156 -5.063868 O b'lemma:\xcf\x8332'
157 -5.027668 O b'lemma:Custom'
158 -4.891622 OD b'lemma:od600'
159 -4.882911 O b'lemma:rep1'
160 -4.854545 Gtype b'-1:lemma:\xe2\x88\x86'
161 -4.823744 Med b'lemma:LB'
162 -4.814164 Gtype b'+1:lemma:type'
163 -4.802778 Gtype b'lemma:flag-tag'
164 -4.802778 Gtype b'-1:lemma:c-terminal'
165 -4.765392 O b'postag:IN'
166 -4.744766 O b'lemma:b'
167 -4.740937 Gversion b'lemma:nc'
168 -4.733044 O b'lemma:rep2'
169 -4.686977 Supp b'+1:lemma:\xc2\xb5m'
170 -4.648287 Gtype b'lemma:type'
171 -4.641760 O b'-1:lemma:ChIP-exo'
172 -4.637432 Air b'lemma:Aerobic'
173 -4.612308 Technique b'lemma:ChIP-Seq'
174 -4.552359 O b'lemma:rep3'
175 -4.544430 Supp b'lemma:nh4cl'
176 -4.492332 Med b'lemma:lb'
177 -4.439803 O b'lemma:Cra'
178 -4.427104 Gtype b'lemma:arca8myc'
179 -4.360255 O b'lemma:a'
180 -4.334331 Supp b'lemma:glucose'
181 -4.324045 O b'postag::'
182 -4.225895 Gtype b'lemma:delta-arca'
183 -4.196049 OD b'lemma:od450'
184 -4.164044 Gtype b'lemma:wt'
185 -4.160035 OD b'+1:lemma:stationary'
186 -4.107066 Supp b'lemma:rifampicin'
187 -4.089185 Technique b'lemma:rna-seq'
188 -4.023125 Gtype b'lemma:fnr8myc'
189 -3.987616 Supp b'lemma:acetate'
190 -3.959560 Supp b'lemma:Fe'
191 -3.767113 O b'-1:lemma:Aerobic'
192 -3.742419 Technique b'lemma:chip-seq'
193 -3.719024 Supp b'lemma:dpd'
194 -3.697799 Anti b'lemma:none'
195 -3.628511 Gtype b'lemma:\xce\xb4fur'
196 -3.610358 O b'-1:lemma:0.3-0.35'
197 -3.589450 O b'lemma:.'
198 -3.589450 O b'postag:.'
199 -3.579795 Supp b'lemma:fructose'
200 -3.551159 Gtype b'lemma:delta-fnr'
201 -3.542698 O b'+1:lemma:od600'
202 -3.524374 O b'lemma:-'
203 -3.524138 Gversion b'-1:lemma:nc'
204 -3.508492 Technique b'lemma:rnaseq'
205 -3.507955 Supp b'lemma:no3'
206 -3.411452 Temp b'-1:lemma:sample'
207 -3.356731 Vess b'lemma:flask'
208 -3.356731 Vess b'-1:lemma:warm'
209 -3.344734 Gtype b'lemma:\xe2\x88\x86'
210 -3.342213 Gtype b'lemma:nsrr'
211 -3.307055 Med b'+1:lemma:0.4'
212 -3.294711 Anti b'lemma:seqa'
213 -3.198770 Anti b'lemma:anti-myc'
214 -3.181726 Supp b'+1:lemma:1'
215 -3.157564 O b'-1:lemma:type'
216 -3.124717 Technique b'-1:lemma:IP'
217 -3.101009 pH b'lemma:ph5'
218 -3.101009 pH b'+1:lemma:.5'
219 -3.088003 O b'lemma:CEL'
220 -3.079066 O b'-1:lemma:glucose'
221 -3.060659 Temp b'-1:lemma:\xcf\x8332'
222 -3.059431 O b'-1:lemma:0.3'
223 -3.049487 O b'-1:lemma:anaerobic'
224 -3.042109 O b'lemma:chip'
225 -3.030894 Supp b'lemma:arginine'
226 -3.023592 Gtype b'-1:lemma:ptac'
227 -2.997640 Med b'lemma:m63'
228 -2.992347 O b'+1:postag:RB'
229 -2.983691 O b'postag:VBN'
230 -2.926938 Strain b'+1:lemma:substr'
231 -2.901956 Supp b'+1:lemma:2'
232 -2.867119 Gtype b'+1:lemma:with'
233 -2.866259 Gtype b'lemma:wild-type'
234 -2.813978 O b'+1:lemma:chip-seq'
235 -2.813217 O b'-1:lemma:lb'
236 -2.811430 Gversion b'lemma:u00096'
237 -2.811430 Gversion b'+1:lemma:.2'
238 -2.805985 Gtype b'lemma:\xce\xb4ompr'
239 -2.805379 Gversion b'lemma:chip-seq'
240 -2.791650 Med b'lemma:media'
241 -2.783789 O b'lemma:with'
242 -2.762838 O b'lemma:or'
243 -2.761734 Supp b'-1:lemma:Cra'
244 -2.735714 Supp b'lemma:nacl'
245 -2.718227 Anti b'+1:lemma:antibody'
246 -2.689667 O b'lemma:at'
247 -2.681896 Technique b'+1:lemma:chip-exo'
248 -2.675618 Gversion b'lemma:.2'
249 -2.675618 Gversion b'-1:lemma:u00096'
250 -2.673476 Technique b'-1:lemma:chip-exo'
251 -2.663534 Anti b'lemma:anti-rpos'
252 -2.642331 O b'lemma:s'
253 -2.641502 Gtype b'+1:lemma:pq'
254 -2.621220 Gtype b'-1:lemma:rpob'
255 -2.612960 Air b'lemma:anaerobically'
256 -2.582119 Supp b'+1:lemma:_'
257 -2.546680 O b'postag:DT'
258 -2.543407 Gversion b'lemma:000913'
259 -2.539879 O b'lemma:oxyr'
260 -2.525639 O b'+1:postag:NNP'
261 -2.495876 Air b'postag:RB'
262 -2.493741 O b'postag:CC'
263 -2.488520 Temp b'lemma:\xc2\xb0c'
264 -2.472865 Temp b'-1:lemma:43'
265 -2.468054 Gtype b'+1:lemma:ph5'
266 -2.460194 O b'+1:lemma:o.d.'
267 -2.457589 O b'-1:lemma:\xc2\xb0c'
268 -2.446783 Supp b'-1:lemma:\xc2\xb5m'
269 -2.446748 Med b'-1:lemma:ml'
270 -2.432723 pH b'lemma:.5'
271 -2.432723 pH b'-1:lemma:ph5'
272 -2.429127 O b'+1:lemma:pq'
273 -2.426199 Gtype b'+1:lemma:flagtag'
274 -2.422501 Temp b'-1:lemma:37'
275 -2.364062 Supp b'-1:lemma:+'
276 -2.359818 O b'lemma:affyexp'
277 -2.358214 Supp b'lemma:iptg'
278 -2.345240 Gtype b'lemma:\xce\xb4soxs'
279 -2.293242 O b'-1:lemma:l1'
280 -2.283378 O b'lemma:for'
281 -2.259276 Supp b'lemma:Leu'
282 -2.257438 Air b'-1:lemma:-'
283 -2.250572 Med b'+1:lemma:minimal'
284 -2.245090 Supp b'-1:lemma:with'
285 -2.236516 Med b'lemma:L'
286 -2.236516 Med b'+1:lemma:broth'
287 -2.194950 Gtype b'lemma:ptac'
288 -2.191764 O b'+1:lemma:acetate'
289 -2.145434 Med b'+1:lemma:2.0'
290 -2.144916 O b'-1:lemma:stpa'
291 -2.139794 Supp b'lemma:20'
292 -2.138137 Technique b'-1:lemma:input'
293 -2.120690 Supp b'lemma:0.2'
294 -2.115282 Air b'lemma:anerobically'
295 -2.108802 O b'lemma:ompr'
296 -2.102080 Air b'-1:lemma:co2'
297 -2.101933 Gtype b'lemma:deltaseqa'
298 -2.101933 Gtype b'-1:lemma:old'
299 -2.098653 Gtype b'-1:lemma:nsrr'
300 -2.094495 O b'lemma:chip-arca'
301 -2.093152 O b'lemma:Lrp'
302 -2.073057 O b'lemma:soxs'
303 -2.073057 O b'lemma:soxr'
304 -2.033842 pH b'+1:postag:CD'
305 -2.030212 Temp b'lemma:37'
306 -2.025024 Temp b'lemma:43'
307 -2.005145 O b'-1:lemma:dpd'
308 -1.996291 Supp b'lemma:methanol'
309 -1.975959 OD b'-1:lemma:~'
310 -1.961870 OD b'lemma:0.3'
311 -1.953650 Supp b'+1:lemma:hour'
312 -1.948299 Phase b'-1:lemma:until'
313 -1.945342 Gtype b'+1:lemma:_'
314 -1.941615 O b'postag:VBG'
315 -1.938029 OD b'-1:lemma:about'
316 -1.930492 O b'lemma:Fur'
317 -1.926280 Gtype b'lemma:pk4854'
318 -1.918352 Technique b'+1:lemma:rna-seq'
319 -1.910079 O b'-1:lemma:media'
320 -1.909335 O b'lemma:genotype/variation'
321 -1.897683 Med b'lemma:glucose'
322 -1.894728 O b'lemma:condition'
323 -1.886371 Supp b'lemma:Adenine'
324 -1.881519 Med b'lemma:broth'
325 -1.881519 Med b'-1:lemma:L'
326 -1.881208 Gtype b'+1:lemma:aerobic'
327 -1.872732 Supp b'+1:lemma:Deficient'
328 -1.854369 O b'lemma:culture'
329 -1.844760 O b'+1:lemma:sparging'
330 -1.836586 Phase b'-1:lemma:mid-log'
331 -1.835743 Gtype b'lemma:WT'
332 -1.826348 Gversion b'+1:lemma:000913'
333 -1.810910 Gtype b'-1:lemma:phtpg'
334 -1.809834 Gtype b'-1:lemma:_'
335 -
336 -
337 -Top negative:
338 -0.001509 Air b'+1:lemma:70'
339 -0.001485 O b'-1:lemma:5'
340 -0.001306 O b'-1:lemma:no3'
341 -0.001230 Air b'-1:postag:RB'
342 -0.001224 Med b'-1:lemma:in'
343 -0.001140 OD b'-1:postag:VBN'
344 -0.001060 Technique b'+1:lemma:Anaerobic'
345 -0.001048 O b'+1:postag:SYM'
346 -0.000988 O b'-1:lemma:fnr'
347 -0.000917 O b'lemma:fructose'
348 -0.000830 O b'+1:lemma:use'
349 -0.000649 OD b'+1:postag:VBD'
350 -0.000635 Gtype b'lemma:input'
351 -0.000565 O b'lemma:treatment'
352 -0.000544 Temp b'+1:postag:VB'
353 -0.000534 O b'lemma:EB'
354 -0.000477 OD b'+1:postag:VBN'
355 -0.000465 Supp b'-1:lemma:10'
356 -0.000457 O b'lemma:~'
357 -0.000451 Gtype b'lemma:wild'
358 -0.000403 Air b'postag:NNP'
359 -0.000324 Temp b'-1:postag:NN'
360 -0.000271 Supp b'+1:lemma:of'
361 -0.000230 Supp b'-1:lemma:contain'
362 -0.000161 Gtype b'-1:lemma:small'
363 -0.000112 Supp b'+1:lemma:feso4'
364 -0.000108 Air b'-1:lemma:aerobically'
365 -0.000097 Supp b'lemma:um'
366 -0.000092 Med b'-1:lemma:m9'
367 -0.000070 Temp b'postag:VB'
368 -0.000061 Supp b'-1:lemma:250'
369 -0.000056 O b'+1:lemma:_'
370 -0.000037 Gtype b'postag::'
371 -0.000032 Phase b'-1:postag:IN'
372 -0.000029 Temp b'lemma:-lrb-'
373 -0.000024 Temp b'postag:-LRB-'
374 -0.000018 OD b'+1:lemma:0.15'
375 -0.000013 Gtype b'lemma:small'
376 -0.000006 O b'lemma:agitation'
377 --0.000006 Supp b'+1:lemma:-rrb-'
378 --0.000007 Supp b'+1:postag:-RRB-'
379 --0.000030 O b'+1:lemma:95'
380 --0.000036 O b'-1:lemma:mid-log'
381 --0.000163 Gversion b'-1:postag:NN'
382 --0.000207 OD b'-1:postag:DT'
383 --0.000850 Supp b'+1:lemma:dpd'
384 --0.001166 O b'+1:lemma:o2'
385 --0.001921 Temp b'-1:postag:JJ'
386 --0.002203 O b'+1:lemma:rep1'
387 --0.002684 O b'-1:lemma:g/l'
388 --0.003051 O b'-1:lemma:,'
389 --0.003051 O b'-1:postag:,'
390 --0.004416 O b'-1:lemma:until'
391 --0.005028 O b'lemma:lb'
392 --0.006746 O b'-1:lemma:iptg'
393 --0.008099 O b'lemma:minimal'
394 --0.009386 O b'lemma:glucose'
395 --0.009971 Gtype b'+1:lemma:2'
396 --0.011912 Med b'-1:postag:CD'
397 --0.012108 OD b'+1:postag:NNS'
398 --0.012515 Air b'-1:lemma:and'
399 --0.014917 OD b'+1:lemma:0.4'
400 --0.015462 O b'lemma:co2'
401 --0.017434 O b'lemma:medium'
402 --0.017596 O b'+1:lemma:grow'
403 --0.018130 O b'-1:lemma:1'
404 --0.019463 Air b'+1:postag:-LRB-'
405 --0.020969 Air b'-1:lemma:95'
406 --0.026012 Med b'+1:postag:IN'
407 --0.029462 Air b'+1:lemma:-rrb-'
408 --0.029964 Med b'+1:postag:NNS'
409 --0.030676 Gtype b'-1:postag:CD'
410 --0.030969 OD b'+1:postag:CC'
411 --0.032789 Air b'postag:CC'
412 --0.039308 O b'lemma:m63'
413 --0.039681 O b'-1:lemma:mm'
414 --0.043781 O b'-1:lemma:sample'
415 --0.045727 O b'+1:lemma:5'
416 --0.048720 Gversion b'+1:postag:NN'
417 --0.050456 O b'lemma:e.'
418 --0.051510 Air b'+1:lemma:-lrb-'
419 --0.052744 Phase b'+1:postag:NN'
420 --0.060135 O b'lemma:150'
421 --0.060135 O b'+1:lemma:mg/ml'
422 --0.061483 OD b'+1:postag:CD'
423 --0.061644 Gtype b'postag:CD'
424 --0.062527 O b'-1:lemma:o2'
425 --0.067638 Air b'-1:lemma:or'
426 --0.070682 O b'-1:lemma:0.1'
427 --0.072485 O b'-1:postag:IN'
428 --0.072778 Gtype b'-1:postag:NN'
429 --0.074033 Air b'-1:postag:CC'
430 --0.074222 Temp b'postag:JJ'
431 --0.085943 O b'-1:lemma:e.'
432 --0.090975 OD b'postag:JJ'
433 --0.094470 Supp b'+1:postag:VBN'
434 --0.097464 O b'+1:lemma:antibody'
435 --0.099584 O b'+1:lemma:300'
436 --0.099687 O b'-1:postag:VBN'
437 --0.107582 Air b'+1:postag:-RRB-'
438 --0.110954 O b'postag:RB'
439 --0.132121 Air b'postag:CD'
440 --0.148947 O b'-1:lemma:-lrb-'
441 --0.150683 Med b'postag:CD'
442 --0.155098 Technique b'-1:lemma::'
443 --0.162800 Supp b'lemma:and'
444 --0.171938 O b'+1:lemma:minimal'
445 --0.173189 Supp b'+1:lemma:rifampicin'
446 --0.173535 O b'lemma:\xe2\x88\x86'
447 --0.181287 O b'-1:lemma:ml'
448 --0.195801 O b'+1:lemma:%'
449 --0.197661 O b'-1:lemma:30'
450 --0.202314 O b'lemma:\xce\xb4fur'
451 --0.220334 O b'+1:lemma:or'
452 --0.221282 Supp b'postag:CC'
453 --0.230040 O b'lemma:30'
454 --0.234659 O b'+1:lemma:arginine'
455 --0.241611 Anti b'+1:postag:JJ'
456 --0.253103 O b'-1:lemma:rifampicin'
457 --0.268147 O b'+1:lemma:until'
458 --0.276798 O b'-1:lemma:of'
459 --0.283028 pH b'postag:NN'
460 --0.285848 O b'lemma:aerobically'
461 --0.308992 O b'+1:lemma:-rrb-'
462 --0.311262 O b'-1:postag:-LRB-'
463 --0.314602 O b'-1:lemma:from'
464 --0.326058 O b'-1:lemma:cra'
465 --0.332056 O b'+1:lemma:.'
466 --0.332056 O b'+1:postag:.'
467 --0.335073 O b'lemma:phase'
468 --0.341647 Med b'-1:postag:NN'
469 --0.344072 Med b'+1:postag:NN'
470 --0.355271 Temp b'+1:lemma:to'
471 --0.355271 Temp b'+1:postag:TO'
472 --0.379882 O b'+1:postag:IN'
473 --0.399275 O b'lemma:od600'
474 --0.406215 O b'-1:lemma:od600'
475 --0.417969 O b'+1:postag:NNS'
476 --0.429718 O b'postag:VBP'
477 --0.438097 O b'lemma:media'
478 --0.446126 O b'lemma:anaerobically'
479 --0.460423 O b'+1:lemma:c'
480 --0.472382 O b'lemma:dissolve'
481 --0.479226 O b'-1:lemma:~'
482 --0.487398 OD b'+1:postag:NN'
483 --0.497942 O b'+1:postag:-RRB-'
484 --0.513460 O b'-1:lemma:0.2'
485 --0.534142 Phase b'-1:lemma:at'
486 --0.535921 Temp b'postag:NN'
487 --0.546444 O b'lemma:20'
488 --0.554159 O b'+1:lemma:\xc2\xb0c'
489 --0.568528 Supp b'+1:lemma:acetate'
490 --0.579080 O b'+1:lemma:fecl2'
491 --0.580237 O b'+1:lemma:0.3'
492 --0.597189 Technique b'-1:postag::'
493 --0.633040 O b'lemma:0.3'
494 --0.635311 Air b'-1:postag:JJ'
495 --0.639958 O b'+1:lemma:cell'
496 --0.642294 Supp b'-1:lemma:%'
497 --0.674687 O b'-1:lemma:grow'
498 --0.678680 O b'+1:postag:VBG'
499 --0.725561 O b'-1:lemma:37'
500 --0.767934 O b'lemma:of'
501 --0.780908 O b'-1:lemma:co2'
502 --0.783637 O b'-1:postag::'
503 --0.801117 O b'lemma:0.2'
504 --0.825901 O b'lemma:37'
505 --0.836319 O b'-1:lemma:rpob'
506 --0.911234 O b'+1:lemma:hour'
507 --0.911954 O b'lemma:fecl2'
508 --0.962999 O b'lemma:rifampicin'
509 --0.978360 O b'lemma:2h'
510 --0.978360 O b'-1:lemma:additional'
511 --0.998803 O b'-1:lemma:dissolve'
512 --0.998803 O b'+1:lemma:methanol'
513 --1.013445 OD b'lemma:-lrb-'
514 --1.072784 O b'-1:postag:VBG'
515 --1.079188 O b'+1:lemma:g/l'
516 --1.085657 O b'lemma:0.1'
517 --1.090190 O b'lemma:mid-log'
518 --1.191813 O b'+1:lemma:supplement'
519 --1.257824 Anti b'postag:NNP'
520 --1.260068 O b'+1:lemma:+'
521 --1.276383 OD b'postag:-LRB-'
522 --1.370527 O b'lemma:wt'
523 --1.398724 Phase b'postag:JJ'
524 --1.421300 O b'+1:lemma:at'
525 --1.471212 O b'-1:lemma:IP'
526 --1.494485 O b'-1:lemma:ompr'
527 --1.577503 O b'-1:lemma:nsrr'
528 --1.592880 Supp b'postag:JJ'
529 --1.599977 Air b'+1:postag:JJ'
530 --1.682029 Air b'postag:NN'
531 --1.687804 O b'lemma:methanol'
532 --1.731880 O b'+1:lemma:in'
533 --2.271152 O b'+1:lemma:2'
534 --2.300463 O b'-1:lemma:2'
535 --2.728413 O b'+1:lemma:1'
536 --3.852462 O b'-1:lemma:_'
537 --4.219153 O b'-1:lemma::'
538 -
1 +********** TRAINING AND TESTING REPORT **********
2 +Training file: training-data-set-70.txt
3 +
4 +best params:{'c1': 0.04937325798482469, 'c2': 0.021347060592283952}
5 +best CV score:0.8727912197138052
6 +model size: 0.16M
7 +
8 +Flat F1: 0.7834470810208732
9 + precision recall f1-score support
10 +
11 + OD 0.857 0.818 0.837 22
12 + pH 1.000 1.000 1.000 8
13 + Technique 1.000 0.913 0.955 23
14 + Med 1.000 0.943 0.971 53
15 + Temp 1.000 0.621 0.766 29
16 + Vess 1.000 1.000 1.000 1
17 + Agit 0.000 0.000 0.000 0
18 + Phase 0.882 1.000 0.938 15
19 + Air 0.556 0.362 0.439 69
20 + Anti 1.000 1.000 1.000 11
21 + Strain 0.000 0.000 0.000 1
22 + Gtype 0.885 0.812 0.847 85
23 + Substrain 0.000 0.000 0.000 0
24 + Supp 0.735 0.806 0.769 134
25 + Gversion 0.000 0.000 0.000 0
26 +
27 +avg / total 0.818 0.763 0.783 451
28 +
29 +
30 +Top likely transitions:
31 +Temp -> Temp 5.697885
32 +Med -> Med 5.203676
33 +Supp -> Supp 5.023623
34 +Anti -> Anti 4.919423
35 +Agit -> Agit 4.878209
36 +OD -> OD 4.490452
37 +Gtype -> Gtype 4.342655
38 +Phase -> Phase 4.265502
39 +Gversion -> Gversion 4.228866
40 +O -> O 3.927755
41 +Air -> Air 3.904248
42 +Technique -> Technique 3.337823
43 +pH -> pH 3.047130
44 +Substrain -> Gtype 0.928380
45 +O -> Technique 0.767492
46 +O -> Supp 0.345238
47 +O -> Gtype 0.335711
48 +Technique -> Air 0.302367
49 +Air -> O 0.238748
50 +Gtype -> Supp 0.106918
51 +Temp -> O 0.099174
52 +O -> Anti 0.028918
53 +O -> Temp 0.024359
54 +Gtype -> Air 0.000872
55 +O -> Strain -0.006968
56 +OD -> Med -0.016869
57 +Vess -> O -0.025460
58 +Air -> Agit -0.030216
59 +Technique -> Supp -0.054732
60 +Gtype -> Temp -0.066953
61 +Air -> Technique -0.074730
62 +Phase -> Gtype -0.080334
63 +O -> Phase -0.082037
64 +Anti -> Supp -0.094817
65 +O -> Agit -0.122548
66 +Anti -> Gtype -0.136175
67 +Agit -> Air -0.139559
68 +Phase -> Technique -0.151160
69 +Gtype -> Gversion -0.170913
70 +Supp -> Phase -0.196758
71 +Supp -> O -0.208933
72 +Agit -> O -0.223185
73 +Supp -> Technique -0.223482
74 +Phase -> OD -0.285779
75 +Supp -> Gversion -0.304736
76 +Technique -> OD -0.319741
77 +Supp -> Anti -0.336780
78 +Med -> O -0.359992
79 +Temp -> Med -0.365995
80 +Supp -> Air -0.395049
81 +
82 +
83 +Top unlikely transitions:
84 +Vess -> O -0.025460
85 +Air -> Agit -0.030216
86 +Technique -> Supp -0.054732
87 +Gtype -> Temp -0.066953
88 +Air -> Technique -0.074730
89 +Phase -> Gtype -0.080334
90 +O -> Phase -0.082037
91 +Anti -> Supp -0.094817
92 +O -> Agit -0.122548
93 +Anti -> Gtype -0.136175
94 +Agit -> Air -0.139559
95 +Phase -> Technique -0.151160
96 +Gtype -> Gversion -0.170913
97 +Supp -> Phase -0.196758
98 +Supp -> O -0.208933
99 +Agit -> O -0.223185
100 +Supp -> Technique -0.223482
101 +Phase -> OD -0.285779
102 +Supp -> Gversion -0.304736
103 +Technique -> OD -0.319741
104 +Supp -> Anti -0.336780
105 +Med -> O -0.359992
106 +Temp -> Med -0.365995
107 +Supp -> Air -0.395049
108 +Anti -> Temp -0.433807
109 +Air -> Med -0.443745
110 +Technique -> Gtype -0.461980
111 +Anti -> O -0.477920
112 +Phase -> Med -0.496773
113 +Phase -> Supp -0.504111
114 +Supp -> Gtype -0.542703
115 +Air -> Supp -0.549017
116 +OD -> Air -0.590463
117 +Gtype -> Technique -0.617626
118 +OD -> O -0.633869
119 +Gversion -> O -0.665626
120 +Technique -> pH -0.667545
121 +Phase -> O -0.674680
122 +Air -> Phase -0.701860
123 +Air -> Temp -0.825208
124 +Gtype -> Anti -0.861670
125 +O -> Med -0.887587
126 +O -> OD -1.001120
127 +Technique -> O -1.008992
128 +Gtype -> Med -1.115268
129 +Supp -> Med -1.155087
130 +Gtype -> O -1.446717
131 +O -> Air -1.553604
132 +Substrain -> O -1.560176
133 +Med -> Supp -1.895924
134 +
135 +
136 +Top positive:
137 +4.079246 Gtype b'lemma[:1]:\xce\xb4'
138 +3.875929 Technique b'lemma[:2]:Ch'
139 +3.769086 O b'lemma[:2]:re'
140 +3.421852 Air b'word:Aerobic'
141 +3.297057 O b'word:Cra'
142 +3.280691 Air b'lemma:anaerobic'
143 +3.279696 O b'lemma:_'
144 +3.279696 O b'lemma[:1]:_'
145 +3.279696 O b'word:_'
146 +3.054016 O b'-1:word:tag'
147 +2.950170 O b'-1:lemma:tag'
148 +2.923311 Supp b'-1:word:Cra'
149 +2.917103 O b'lemma:-'
150 +2.917103 O b'word:-'
151 +2.673438 O b'lemma:2'
152 +2.673438 O b'word:2'
153 +2.601916 Anti b'lemma[:2]:an'
154 +2.548804 Air b'word:Anaerobic'
155 +2.540901 O b'lemma:with'
156 +2.540901 O b'word:with'
157 +2.527977 Supp b'+1:lemma:\xc2\xb5m'
158 +2.527977 Supp b'+1:word:\xc2\xb5M'
159 +2.513465 Gtype b'lemma[:2]:pk'
160 +2.467865 Air b'lemma[:2]:ae'
161 +2.465142 Supp b'-1:lemma:vol'
162 +2.465142 Supp b'-1:word:vol'
163 +2.430821 O b'word:A'
164 +2.414676 O b'+1:lemma:pq'
165 +2.414676 O b'+1:word:PQ'
166 +2.381594 Supp b'lemma:arginine'
167 +2.365113 Strain b'+1:lemma:substr'
168 +2.365113 Strain b'+1:word:substr'
169 +2.358430 O b'lemma:3'
170 +2.358430 O b'word:3'
171 +2.281060 O b'+1:postag:RB'
172 +2.274077 Gtype b'lemma:wt'
173 +2.274077 Gtype b'lemma[:2]:wt'
174 +2.271330 Gtype b'lemma[:1]:w'
175 +2.262507 Gtype b'lemma[:2]:de'
176 +2.230752 O b'-1:word:Aerobic'
177 +2.223212 Gtype b'lemma[:2]:ar'
178 +2.204027 Gtype b'word:WT'
179 +2.203708 Supp b'lemma:pq'
180 +2.203708 Supp b'lemma[:2]:pq'
181 +2.203708 Supp b'word:PQ'
182 +2.195032 Technique b'lemma[:2]:rn'
183 +2.177901 Air b'lemma[:2]:an'
184 +2.152688 O b'lemma[:2]:ge'
185 +2.152187 O b'lemma:1'
186 +2.152187 O b'word:1'
187 +2.147937 Phase b'lemma:stationary'
188 +2.147937 Phase b'word:stationary'
189 +2.139876 Phase b'lemma:mid-log'
190 +2.139876 Phase b'word:mid-log'
191 +2.082317 O b'lemma:Custom'
192 +2.082317 O b'lemma[:2]:Cu'
193 +2.082317 O b'word:Custom'
194 +2.081417 Technique b'lemma[:1]:C'
195 +2.059825 O b'lemma:b'
196 +2.059825 O b'word:B'
197 +2.051640 Technique b'word:ChIPSeq'
198 +2.044050 Supp b'lemma:Iron'
199 +2.044050 Supp b'lemma[:2]:Ir'
200 +2.044050 Supp b'word:Iron'
201 +2.044050 Supp b'+1:word:Deficient'
202 +2.034480 O b'-1:lemma:ChIP-exo'
203 +2.021616 Technique b'lemma[:2]:ch'
204 +2.004928 Substrain b'lemma[:2]:mg'
205 +1.992585 Gtype b'lemma[:1]:f'
206 +1.988583 Gtype b'lemma[:2]:cr'
207 +1.983400 O b'+1:postag:NNP'
208 +1.976657 O b'lemma[:1]:h'
209 +1.975191 O b'-1:lemma:lb'
210 +1.975191 O b'-1:word:LB'
211 +1.973175 Supp b'lemma[:1]:I'
212 +1.969412 O b'lemma:.'
213 +1.969412 O b'postag:.'
214 +1.969412 O b'postag[:1]:.'
215 +1.969412 O b'word:.'
216 +1.954569 Phase b'lemma[:2]:ex'
217 +1.946311 O b'lemma:delta'
218 +1.946311 O b'word:delta'
219 +1.942336 Supp b'postag:VBP'
220 +1.917047 Technique b'word:ChIP-Seq'
221 +1.916217 Supp b'-1:lemma:Cra'
222 +1.899702 Supp b'lemma:rifampicin'
223 +1.899702 Supp b'word:rifampicin'
224 +1.898554 Supp b'-1:lemma:with'
225 +1.898554 Supp b'-1:word:with'
226 +1.892222 Air b'lemma[:1]:a'
227 +1.892185 Supp b'lemma[:2]:ri'
228 +1.887353 Technique b'lemma:chipseq'
229 +1.852638 O b'-1:lemma:0.3'
230 +1.852638 O b'-1:word:0.3'
231 +1.839355 pH b'lemma[:2]:ph'
232 +1.838181 Gtype b'hGreek'
233 +1.837034 O b'-1:lemma:glucose'
234 +1.837034 O b'-1:word:glucose'
235 +1.821428 Gtype b'lemma:arca8myc'
236 +1.821428 Gtype b'word:ArcA8myc'
237 +1.821045 Med b'lemma:MOPS'
238 +1.821045 Med b'lemma[:1]:M'
239 +1.821045 Med b'lemma[:2]:MO'
240 +1.821045 Med b'word:MOPS'
241 +1.813601 Technique b'-1:lemma:chip-exo'
242 +1.811851 Gversion b'word:ChIP-Seq'
243 +1.810109 O b'lemma:ompr'
244 +1.810109 O b'word:OmpR'
245 +1.807989 Supp b'-1:lemma:+'
246 +1.807989 Supp b'-1:word:+'
247 +1.805457 OD b'lemma[:1]:o'
248 +1.789186 Gtype b'lemma[:1]:t'
249 +1.787157 Supp b'lemma[:2]:gl'
250 +1.784556 Gtype b'symb'
251 +1.769736 Gversion b'lemma:chip-seq'
252 +1.769144 O b'lemma[:2]:om'
253 +1.756478 Temp b'+1:lemma:in'
254 +1.756478 Temp b'+1:word:in'
255 +1.750825 O b'lemma:rpob'
256 +1.750825 O b'word:RpoB'
257 +1.744454 Gversion b'-1:lemma:nc'
258 +1.744454 Gversion b'-1:word:NC'
259 +1.743983 Technique b'lemma:ChIP-exo'
260 +1.738988 Gtype b'-1:lemma:\xe2\x88\x86'
261 +1.738988 Gtype b'-1:word:\xe2\x88\x86'
262 +1.737321 Supp b'lemma[:2]:30'
263 +1.719994 Gversion b'lemma[:2]:00'
264 +1.691622 Med b'+1:lemma:0.4'
265 +1.691622 Med b'+1:word:0.4'
266 +1.690183 Supp b'lemma:acetate'
267 +1.690183 Supp b'word:acetate'
268 +1.680098 Gtype b'lemma[:1]:W'
269 +1.669697 Phase b'lemma[:1]:e'
270 +1.654569 O b'-1:lemma:into'
271 +1.654569 O b'-1:word:into'
272 +1.646155 Agit b'+1:lemma:rpm'
273 +1.646155 Agit b'+1:word:rpm'
274 +1.639372 Supp b'lemma[:2]:ni'
275 +1.637838 Supp b'-1:postag:CC'
276 +1.633069 Med b'-1:lemma:ml'
277 +1.633069 Med b'-1:word:ml'
278 +1.626970 Gtype b'-1:postag:VBG'
279 +1.625020 O b'+1:word:ChIP-Seq'
280 +1.592935 Air b'lemma[:1]:A'
281 +1.581837 Supp b'lemma[:2]:ac'
282 +1.581166 Gversion b'lemma:asm584v2'
283 +1.581166 Gversion b'word:ASM584v2'
284 +1.576758 Gversion b'lemma[:2]:as'
285 +1.566133 Air b'lemma:Aerobic'
286 +1.566133 Air b'lemma[:2]:Ae'
287 +1.556942 Air b'+1:postag:IN'
288 +1.540738 Air b'postag:RB'
289 +1.540738 Air b'postag[:1]:R'
290 +1.540738 Air b'postag[:2]:RB'
291 +1.537191 O b'-1:lemma:phase'
292 +1.537191 O b'-1:word:phase'
293 +1.528090 Air b'-1:lemma:-'
294 +1.528090 Air b'-1:word:-'
295 +1.527198 Gtype b'lemma:type'
296 +1.527198 Gtype b'lemma[:2]:ty'
297 +1.527198 Gtype b'word:type'
298 +1.520984 O b'lemma[:1]:C'
299 +1.511967 Air b'-1:postag::'
300 +1.501971 O b'postag::'
301 +1.501971 O b'postag[:1]::'
302 +1.500818 Gtype b'lemma[:2]:wi'
303 +1.494237 O b'+1:word:were'
304 +1.488912 O b'postag:CC'
305 +1.488912 O b'postag[:2]:CC'
306 +1.488215 Agit b'lemma:rpm'
307 +1.488215 Agit b'word:rpm'
308 +1.486647 Supp b'+1:lemma:1'
309 +1.486647 Supp b'+1:word:1'
310 +1.483688 Temp b'-1:lemma:\xcf\x8332'
311 +1.483688 Temp b'-1:word:\xcf\x8332'
312 +1.483025 Air b'word:anaerobic'
313 +1.481168 O b'lemma:a'
314 +1.480233 Gversion b'lemma:nc'
315 +1.480233 Gversion b'lemma[:2]:nc'
316 +1.480233 Gversion b'word:NC'
317 +1.465788 O b'-1:lemma:anaerobic'
318 +1.464120 O b'+1:lemma:od600'
319 +1.464120 O b'+1:word:OD600'
320 +1.459126 O b'+1:postag:VBN'
321 +1.449825 Phase b'lemma:exponential'
322 +1.449825 Phase b'word:exponential'
323 +1.443892 O b'-1:lemma:0.3-0.35'
324 +1.443892 O b'-1:word:0.3-0.35'
325 +1.429105 Technique b'symb'
326 +1.428375 O b'lemma[:2]:ga'
327 +1.423820 Technique b'word:ChIP-exo'
328 +1.422037 O b'lemma:chip'
329 +1.420614 O b'isNumber'
330 +1.417035 pH b'+1:postag:CD'
331 +1.414508 Phase b'lemma[:2]:st'
332 +1.410028 O b'isLower'
333 +1.399604 Med b'+1:postag:CD'
334 +1.398736 Med b'+1:lemma:2.0'
335 +1.398736 Med b'+1:word:2.0'
336 +1.374106 O b'-1:lemma:wt'
337 +
338 +
339 +Top negative:
340 +-0.314411 Supp b'postag[:1]:N'
341 +-0.314411 Supp b'postag[:2]:NN'
342 +-0.316666 OD b'+1:lemma:0.4'
343 +-0.316666 OD b'+1:word:0.4'
344 +-0.319400 O b'+1:word:for'
345 +-0.319616 Substrain b'isLower'
346 +-0.329221 O b'+1:lemma:supplement'
347 +-0.329221 O b'+1:word:supplemented'
348 +-0.334710 Gtype b'+1:lemma:-rrb-'
349 +-0.334710 Gtype b'+1:word:-RRB-'
350 +-0.335324 Supp b'+1:lemma:nacl'
351 +-0.335324 Supp b'+1:word:NaCl'
352 +-0.338195 Phase b'lemma[:2]:pa'
353 +-0.343360 Med b'+1:postag:NNS'
354 +-0.343534 O b'+1:postag:IN'
355 +-0.344316 Temp b'postag:NN'
356 +-0.345297 O b'lemma:wt'
357 +-0.345297 O b'lemma[:2]:wt'
358 +-0.355887 Air b'isLower'
359 +-0.356867 O b'-1:lemma:from'
360 +-0.358831 O b'lemma:c'
361 +-0.359856 O b'lemma:37'
362 +-0.359856 O b'lemma[:2]:37'
363 +-0.359856 O b'word:37'
364 +-0.360624 O b'-1:lemma:final'
365 +-0.360624 O b'-1:word:final'
366 +-0.361530 Med b'-1:postag:NN'
367 +-0.362367 Technique b'-1:postag::'
368 +-0.362612 O b'lemma:of'
369 +-0.362612 O b'lemma[:2]:of'
370 +-0.362612 O b'word:of'
371 +-0.368278 O b'-1:word:from'
372 +-0.374267 O b'-1:lemma:30'
373 +-0.374267 O b'-1:word:30'
374 +-0.376045 O b'lemma:glucose'
375 +-0.376045 O b'word:glucose'
376 +-0.379443 Gtype b'lemma[:2]:rp'
377 +-0.382310 Gtype b'lemma[:1]:s'
378 +-0.383855 Supp b'-1:lemma:-lrb-'
379 +-0.383855 Supp b'-1:word:-LRB-'
380 +-0.385029 O b'-1:lemma:delta'
381 +-0.385029 O b'-1:word:delta'
382 +-0.390702 O b'-1:lemma:dissolve'
383 +-0.390702 O b'+1:lemma:methanol'
384 +-0.390702 O b'-1:word:dissolved'
385 +-0.390702 O b'+1:word:methanol'
386 +-0.395103 O b'-1:lemma:nsrr'
387 +-0.395103 O b'-1:word:NsrR'
388 +-0.399202 Supp b'lemma[:1]:a'
389 +-0.403898 O b'-1:lemma:1'
390 +-0.403898 O b'-1:word:1'
391 +-0.404014 Temp b'hGreek'
392 +-0.406161 O b'-1:lemma:\xe2\x88\x86'
393 +-0.406161 O b'-1:word:\xe2\x88\x86'
394 +-0.417535 O b'-1:postag:IN'
395 +-0.418404 Supp b'-1:postag:-LRB-'
396 +-0.428053 O b'-1:lemma:ph'
397 +-0.428053 O b'-1:word:pH'
398 +-0.432185 Supp b'postag:JJ'
399 +-0.432252 O b'lemma[:1]:L'
400 +-0.435862 Air b'-1:lemma:or'
401 +-0.435862 Air b'-1:word:or'
402 +-0.437167 Supp b'postag[:1]:J'
403 +-0.437167 Supp b'postag[:2]:JJ'
404 +-0.439673 Vess b'hUpper'
405 +-0.439673 Vess b'hLower'
406 +-0.443285 O b'lemma[:2]:gl'
407 +-0.444141 Temp b'isLower'
408 +-0.449813 Supp b'lemma[:2]:an'
409 +-0.455745 O b'-1:lemma:37'
410 +-0.455745 O b'-1:word:37'
411 +-0.465238 O b'lemma[:2]:ni'
412 +-0.469627 Supp b'lemma[:1]:s'
413 +-0.472157 Air b'+1:postag:JJ'
414 +-0.477980 O b'lemma:2h'
415 +-0.477980 O b'-1:lemma:additional'
416 +-0.477980 O b'lemma[:2]:2h'
417 +-0.477980 O b'word:2h'
418 +-0.477980 O b'-1:word:additional'
419 +-0.493105 Agit b'symb'
420 +-0.493489 O b'lemma:methanol'
421 +-0.493489 O b'word:methanol'
422 +-0.495166 O b'lemma:mid-log'
423 +-0.495166 O b'word:mid-log'
424 +-0.497445 Air b'-1:postag:JJ'
425 +-0.499724 O b'+1:lemma:g/l'
426 +-0.499724 O b'+1:word:g/L'
427 +-0.501348 O b'+1:lemma:mm'
428 +-0.501348 O b'+1:word:mM'
429 +-0.507557 O b'lemma[:2]:me'
430 +-0.508454 Gtype b'postag[:1]:V'
431 +-0.508454 Gtype b'postag[:2]:VB'
432 +-0.508460 Gtype b'postag::'
433 +-0.508460 Gtype b'postag[:1]::'
434 +-0.529784 O b'+1:lemma:at'
435 +-0.529784 O b'+1:word:at'
436 +-0.537465 O b'lemma[:1]:0'
437 +-0.542594 Supp b'-1:lemma:.'
438 +-0.542594 Supp b'-1:postag:.'
439 +-0.542594 Supp b'-1:word:.'
440 +-0.546062 O b'lemma[:1]:4'
441 +-0.548259 O b'-1:lemma:rpob'
442 +-0.548259 O b'-1:word:RpoB'
443 +-0.552281 O b'-1:lemma:IP'
444 +-0.552281 O b'-1:word:IP'
445 +-0.553960 Phase b'postag:JJ'
446 +-0.562367 O b'lemma:0.3'
447 +-0.562367 O b'word:0.3'
448 +-0.573524 Med b'-1:postag:CD'
449 +-0.574613 Technique b'postag:NN'
450 +-0.578197 O b'-1:lemma:chip-exo'
451 +-0.579399 O b'+1:lemma:1m'
452 +-0.579399 O b'+1:word:1M'
453 +-0.584655 O b'word:ChIP-exo'
454 +-0.585801 O b'lemma:soxs-8myc'
455 +-0.585801 O b'word:soxS-8myc'
456 +-0.599558 O b'lemma[:2]:ar'
457 +-0.600604 O b'word:cells'
458 +-0.606899 O b'+1:lemma:until'
459 +-0.606899 O b'+1:word:until'
460 +-0.607019 Air b'symb'
461 +-0.640639 pH b'isNumber'
462 +-0.656724 O b'+1:word:ChIP-exo'
463 +-0.664247 O b'+1:lemma:2.0'
464 +-0.664247 O b'+1:word:2.0'
465 +-0.664520 Med b'+1:postag:IN'
466 +-0.664576 O b'-1:lemma:co2'
467 +-0.664576 O b'-1:word:CO2'
468 +-0.665370 O b'+1:lemma:rep2'
469 +-0.665370 O b'+1:word:rep2'
470 +-0.671212 O b'lemma[:2]:mg'
471 +-0.724471 Agit b'hUpper'
472 +-0.724471 Agit b'hLower'
473 +-0.739501 O b'lemma[:1]:I'
474 +-0.755281 O b'lemma[:2]:30'
475 +-0.762653 pH b'isLower'
476 +-0.780673 Air b'postag:NN'
477 +-0.793295 Supp b'symb'
478 +-0.826875 O b'-1:postag::'
479 +-0.853583 O b'lemma[:2]:ri'
480 +-0.880894 O b'-1:lemma:until'
481 +-0.880894 O b'-1:word:until'
482 +-0.884934 Supp b'+1:postag:VBN'
483 +-0.893108 O b'lemma[:1]:k'
484 +-0.902922 O b'lemma[:2]:ae'
485 +-0.926126 O b'lemma:rifampicin'
486 +-0.926126 O b'word:rifampicin'
487 +-0.929148 Med b'-1:postag:IN'
488 +-0.936796 Anti b'postag:NNP'
489 +-0.952559 Supp b'-1:postag:NNP'
490 +-0.962974 Med b'symb'
491 +-0.981592 Technique b'isNumber'
492 +-1.019994 O b'-1:lemma:2'
493 +-1.019994 O b'-1:word:2'
494 +-1.023240 O b'+1:lemma:1'
495 +-1.023240 O b'+1:word:1'
496 +-1.023642 O b'-1:lemma:ml'
497 +-1.023642 O b'-1:word:ml'
498 +-1.035572 Phase b'hUpper'
499 +-1.035572 Phase b'hLower'
500 +-1.036376 O b'lemma[:1]:n'
501 +-1.044060 Gtype b'lemma[:1]:c'
502 +-1.051632 Phase b'postag[:1]:J'
503 +-1.051632 Phase b'postag[:2]:JJ'
504 +-1.074102 Gtype b'lemma[:1]:a'
505 +-1.077239 O b'+1:lemma:+'
506 +-1.077239 O b'+1:word:+'
507 +-1.084820 O b'+1:lemma:in'
508 +-1.084820 O b'+1:word:in'
509 +-1.107631 Gtype b'isNumber'
510 +-1.117617 Supp b'+1:postag:-LRB-'
511 +-1.129026 Technique b'isLower'
512 +-1.149735 Supp b'hGreek'
513 +-1.156144 Supp b'+1:lemma:-lrb-'
514 +-1.156144 Supp b'+1:word:-LRB-'
515 +-1.229045 Gtype b'lemma[:1]:r'
516 +-1.231933 O b'+1:postag:VBG'
517 +-1.262559 Gversion b'isLower'
518 +-1.277633 O b'-1:lemma:fresh'
519 +-1.277633 O b'-1:word:fresh'
520 +-1.381763 OD b'+1:postag:NN'
521 +-1.472372 O b'+1:lemma:2'
522 +-1.472372 O b'+1:word:2'
523 +-1.571807 Gtype b'isUpper'
524 +-1.677845 Supp b'lemma[:1]:c'
525 +-1.687951 O b'-1:lemma:vol'
526 +-1.687951 O b'-1:word:vol'
527 +-1.695736 Supp b'+1:lemma:,'
528 +-1.695736 Supp b'+1:postag:,'
529 +-1.695736 Supp b'+1:word:,'
530 +-1.723752 O b'-1:lemma:sample'
531 +-1.785262 Phase b'-1:postag:JJ'
532 +-1.895238 O b'postag:VBP'
533 +-1.908071 O b'-1:postag:VBG'
534 +-2.171310 O b'-1:lemma:_'
535 +-2.171310 O b'-1:word:_'
536 +-2.491839 O b'lemma[:2]:fl'
537 +-2.929187 O b'-1:lemma::'
538 +-2.929187 O b'-1:word::'
539 +-2.957042 Temp b'+1:postag:IN'
540 +
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.19555004078116134, 'c2': 0.013719557943369584}
5 -best CV score:0.8266077920368616
6 -model size: 0.11M
7 -
8 -Flat F1: 0.8150979684771513
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 1.000 0.909 0.952 22
14 - Med 0.893 0.877 0.885 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.810 0.758 0.783 62
20 - Anti 1.000 0.667 0.800 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.937 0.840 0.886 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.853 0.684 0.759 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.882 0.767 0.815 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 7.029011
32 -Agit -> Agit 6.826413
33 -Temp -> Temp 5.979472
34 -Med -> Med 5.720420
35 -Anti -> Anti 5.293877
36 -Gversion -> Gversion 4.696471
37 -Technique -> Technique 4.642372
38 -Air -> Air 4.554023
39 -Supp -> Supp 4.536382
40 -Phase -> Phase 4.521590
41 -Gtype -> Gtype 4.384473
42 -O -> O 3.790788
43 -pH -> pH 2.512302
44 -Gtype -> Supp 1.227863
45 -O -> Supp 1.192139
46 -O -> Technique 0.934775
47 -O -> Gtype 0.662404
48 -Substrain -> Gtype 0.296928
49 -Med -> O 0.185994
50 -O -> Anti 0.184766
51 -Air -> O 0.174165
52 -Temp -> O 0.096665
53 -O -> Gversion 0.076653
54 -O -> Temp 0.057678
55 -OD -> Phase 0.022845
56 -Technique -> Air 0.001578
57 -O -> Strain 0.000001
58 -O -> Med -0.054605
59 -Technique -> pH -0.057365
60 -Supp -> O -0.119271
61 -Anti -> O -0.138393
62 -Supp -> Technique -0.159198
63 -O -> OD -0.170727
64 -Supp -> Med -0.220567
65 -Phase -> OD -0.414455
66 -Air -> Temp -0.424565
67 -OD -> Air -0.495373
68 -Gtype -> Anti -0.639969
69 -Agit -> O -0.781636
70 -Technique -> O -0.863862
71 -Gtype -> O -0.926865
72 -OD -> O -1.090238
73 -Substrain -> O -1.190917
74 -Med -> Supp -1.321707
75 -O -> Air -1.398663
76 -
77 -
78 -Top unlikely transitions:
79 -OD -> OD 7.029011
80 -Agit -> Agit 6.826413
81 -Temp -> Temp 5.979472
82 -Med -> Med 5.720420
83 -Anti -> Anti 5.293877
84 -Gversion -> Gversion 4.696471
85 -Technique -> Technique 4.642372
86 -Air -> Air 4.554023
87 -Supp -> Supp 4.536382
88 -Phase -> Phase 4.521590
89 -Gtype -> Gtype 4.384473
90 -O -> O 3.790788
91 -pH -> pH 2.512302
92 -Gtype -> Supp 1.227863
93 -O -> Supp 1.192139
94 -O -> Technique 0.934775
95 -O -> Gtype 0.662404
96 -Substrain -> Gtype 0.296928
97 -Med -> O 0.185994
98 -O -> Anti 0.184766
99 -Air -> O 0.174165
100 -Temp -> O 0.096665
101 -O -> Gversion 0.076653
102 -O -> Temp 0.057678
103 -OD -> Phase 0.022845
104 -Technique -> Air 0.001578
105 -O -> Strain 0.000001
106 -O -> Med -0.054605
107 -Technique -> pH -0.057365
108 -Supp -> O -0.119271
109 -Anti -> O -0.138393
110 -Supp -> Technique -0.159198
111 -O -> OD -0.170727
112 -Supp -> Med -0.220567
113 -Phase -> OD -0.414455
114 -Air -> Temp -0.424565
115 -OD -> Air -0.495373
116 -Gtype -> Anti -0.639969
117 -Agit -> O -0.781636
118 -Technique -> O -0.863862
119 -Gtype -> O -0.926865
120 -OD -> O -1.090238
121 -Substrain -> O -1.190917
122 -Med -> Supp -1.321707
123 -O -> Air -1.398663
124 -
125 -
126 -Top positive:
127 -5.312005 O b'word[:2]:re'
128 -4.884582 Technique b'word[:2]:Ch'
129 -4.406858 Air b'lemma:anaerobic'
130 -3.944633 O b'postag::'
131 -3.862898 O b'lemma:1'
132 -3.862898 O b'word:1'
133 -3.693885 O b'word[:1]:S'
134 -3.634278 O b'postag:IN'
135 -3.455038 Air b'word[:2]:Ae'
136 -3.455038 Air b'word:Aerobic'
137 -3.425015 Technique b'word[:2]:RN'
138 -3.411467 O b'word[:2]:Rp'
139 -3.351922 Gtype b'word[:1]:\xce\x94'
140 -3.295787 Gtype b'word[:2]:cr'
141 -3.209157 OD b'word[:1]:O'
142 -3.145528 Gtype b'word[:2]:Fl'
143 -3.124141 O b'lemma:_'
144 -3.124141 O b'word[:1]:_'
145 -3.124141 O b'word:_'
146 -3.093107 Air b'postag:RB'
147 -3.052912 O b'+1:postag:RB'
148 -2.979721 O b'word:A'
149 -2.971788 O b'-1:lemma:tag'
150 -2.882253 O b'lemma:3'
151 -2.882253 O b'word:3'
152 -2.855255 O b'word[:1]:G'
153 -2.826283 O b'lemma:2'
154 -2.826283 O b'word:2'
155 -2.801121 Phase b'lemma:stationary'
156 -2.801121 Phase b'word:stationary'
157 -2.742452 Gtype b'word[:1]:d'
158 -2.729707 Air b'word[:1]:A'
159 -2.725212 Supp b'-1:word:Cra'
160 -2.626064 Supp b'lemma:arginine'
161 -2.509102 O b'-1:word:Aerobic'
162 -2.466965 O b'word[:2]:ge'
163 -2.441206 Supp b'+1:word:hours'
164 -2.439697 O b'word[:2]:or'
165 -2.414611 O b'lemma:a'
166 -2.383495 O b'lemma:.'
167 -2.383495 O b'postag:.'
168 -2.383495 O b'word:.'
169 -2.376885 Supp b'word[:1]:I'
170 -2.372488 O b'+1:word:ChIP-Seq'
171 -2.332104 Air b'word[:2]:an'
172 -2.319866 O b'-1:word:tag'
173 -2.286706 O b'word[:1]:B'
174 -2.264178 Temp b'word[:1]:3'
175 -2.232768 Technique b'lemma:ChIP-exo'
176 -2.217911 Temp b'-1:word:sample'
177 -2.211263 O b'postag:CC'
178 -2.209541 O b'word[:1]:C'
179 -2.191226 Supp b'word[:2]:Fe'
180 -2.181901 Supp b'lemma:nitrate'
181 -2.181901 Supp b'word[:2]:ni'
182 -2.181901 Supp b'word:nitrate'
183 -2.175597 O b'-1:lemma:lb'
184 -2.161370 Air b'word[:2]:An'
185 -2.161370 Air b'word:Anaerobic'
186 -2.146764 Temp b'-1:lemma:sample'
187 -2.122014 O b'word[:2]:Cu'
188 -2.100150 OD b'word[:2]:OD'
189 -2.097281 O b'lemma:with'
190 -2.097281 O b'word:with'
191 -2.096745 O b'-1:lemma:anaerobic'
192 -2.095524 O b'lemma:-'
193 -2.095524 O b'word:-'
194 -2.085444 Gtype b'lemma:wt'
195 -2.076545 Gtype b'word[:1]:W'
196 -2.074067 O b'postag:VBN'
197 -2.042662 Gversion b'lemma:chip-seq'
198 -2.032616 Gtype b'lemma:arca8myc'
199 -2.032616 Gtype b'word:ArcA8myc'
200 -2.019776 Gversion b'word[:2]:00'
201 -1.980973 O b'postag:DT'
202 -1.968660 Gversion b'-1:lemma:nc'
203 -1.968660 Gversion b'-1:word:NC'
204 -1.961531 Med b'word[:1]:M'
205 -1.921062 O b'word[:2]:ch'
206 -1.893301 Gversion b'word:ChIP-Seq'
207 -1.885602 Med b'word[:1]:L'
208 -1.878552 O b'isLower'
209 -1.865095 Gtype b'lemma:type'
210 -1.865095 Gtype b'word[:2]:ty'
211 -1.865095 Gtype b'word:type'
212 -1.850010 Supp b'word[:2]:gl'
213 -1.837123 Phase b'lemma:mid-log'
214 -1.837123 Phase b'word:mid-log'
215 -1.811977 Supp b'lemma:Iron'
216 -1.811977 Supp b'word[:2]:Ir'
217 -1.811977 Supp b'word:Iron'
218 -1.811977 Supp b'+1:word:Deficient'
219 -1.797891 Anti b'word[:2]:an'
220 -1.792147 O b'+1:lemma:od600'
221 -1.792147 O b'+1:word:OD600'
222 -1.788559 Med b'lemma:MOPS'
223 -1.788559 Med b'word[:2]:MO'
224 -1.788559 Med b'word:MOPS'
225 -1.766167 Strain b'+1:lemma:substr'
226 -1.766167 Strain b'+1:word:substr'
227 -1.752330 O b'word[:2]:Cr'
228 -1.752330 O b'word:Cra'
229 -1.749824 O b'+1:postag:NNP'
230 -1.679832 Gtype b'-1:postag:VBG'
231 -1.660773 Air b'-1:lemma:co2'
232 -1.660773 Air b'-1:word:CO2'
233 -1.660308 Supp b'+1:lemma:\xc2\xb5m'
234 -1.660308 Supp b'+1:word:\xc2\xb5M'
235 -1.651105 Air b'+1:postag:IN'
236 -1.650444 O b'word[:1]:E'
237 -1.641207 O b'lemma:at'
238 -1.630939 Supp b'word[:1]:1'
239 -1.629832 Gtype b'lemma:flag-tag'
240 -1.629832 Gtype b'-1:lemma:c-terminal'
241 -1.629832 Gtype b'word:Flag-tag'
242 -1.629832 Gtype b'-1:word:C-terminal'
243 -1.622707 Gtype b'-1:lemma:\xe2\x88\x86'
244 -1.622707 Gtype b'-1:word:\xe2\x88\x86'
245 -1.612203 Gtype b'word[:2]:de'
246 -1.564079 Supp b'lemma:nh4cl'
247 -1.564079 Supp b'word[:2]:NH'
248 -1.561438 OD b'+1:lemma:stationary'
249 -1.561438 OD b'+1:word:stationary'
250 -1.553871 Technique b'word[:1]:C'
251 -1.517787 Supp b'+1:lemma:1'
252 -1.517787 Supp b'+1:word:1'
253 -1.515416 Supp b'lemma:pq'
254 -1.515416 Supp b'word[:2]:PQ'
255 -1.515416 Supp b'word:PQ'
256 -1.510927 O b'word[:2]:Pu'
257 -1.483322 Vess b'lemma:flask'
258 -1.483322 Vess b'-1:lemma:warm'
259 -1.483322 Vess b'word[:2]:fl'
260 -1.483322 Vess b'word:flask'
261 -1.483322 Vess b'-1:word:warmed'
262 -1.475753 Technique b'symb'
263 -1.469180 O b'word[:1]:T'
264 -1.460811 Gversion b'lemma:asm584v2'
265 -1.460811 Gversion b'word[:2]:AS'
266 -1.460811 Gversion b'word:ASM584v2'
267 -1.446236 Anti b'+1:lemma:antibody'
268 -1.446236 Anti b'+1:word:antibody'
269 -1.444397 Air b'word[:1]:a'
270 -1.443964 Gtype b'word[:1]:w'
271 -1.416989 Gtype b'hGreek'
272 -1.397052 Substrain b'lemma:mg1655'
273 -1.397052 Substrain b'word[:2]:MG'
274 -1.397052 Substrain b'word:MG1655'
275 -1.394402 O b'lemma:\xcf\x8332'
276 -1.394402 O b'word[:1]:\xcf\x83'
277 -1.394402 O b'word[:2]:\xcf\x833'
278 -1.394402 O b'word:\xcf\x8332'
279 -1.377208 O b'word[:1]:R'
280 -1.375050 Med b'+1:lemma:0.4'
281 -1.375050 Med b'+1:word:0.4'
282 -1.364759 O b'lemma:Custom'
283 -1.364759 O b'word:Custom'
284 -1.360005 O b'word[:2]:fo'
285 -1.350754 Supp b'lemma:rifampicin'
286 -1.350754 Supp b'word:rifampicin'
287 -1.344579 Strain b'word[:1]:K'
288 -1.343710 Supp b'word[:2]:ri'
289 -1.340304 pH b'lemma:ph5'
290 -1.340304 pH b'+1:lemma:.5'
291 -1.340304 pH b'word:pH5'
292 -1.340304 pH b'+1:word:.5'
293 -1.337816 Gtype b'lemma:nsrr'
294 -1.337816 Gtype b'word[:2]:Ns'
295 -1.337816 Gtype b'word:NsrR'
296 -1.326904 Strain b'lemma:k-12'
297 -1.326904 Strain b'word[:2]:K-'
298 -1.326904 Strain b'word:K-12'
299 -1.314361 Supp b'+1:lemma:2'
300 -1.314361 Supp b'+1:word:2'
301 -1.308459 Med b'word[:2]:LB'
302 -1.308459 Med b'word:LB'
303 -1.298260 Gtype b'symb'
304 -1.294311 O b'+1:lemma:pq'
305 -1.294311 O b'+1:word:PQ'
306 -1.294271 Substrain b'word[:1]:M'
307 -1.290578 Gtype b'-1:postag:VBP'
308 -1.283956 Gversion b'word[:2]:Ch'
309 -1.268071 Gtype b'postag:JJ'
310 -1.261557 O b'-1:lemma:0.3-0.35'
311 -1.261557 O b'-1:word:0.3-0.35'
312 -1.259366 O b'lemma:b'
313 -1.259366 O b'word:B'
314 -1.257660 O b'-1:lemma:glucose'
315 -1.257660 O b'-1:word:glucose'
316 -1.256368 O b'+1:lemma:nacl'
317 -1.256368 O b'+1:word:NaCl'
318 -1.250169 O b'lemma:rpob'
319 -1.250169 O b'word:RpoB'
320 -1.248890 O b'word:Lrp'
321 -1.243321 Med b'+1:lemma:g/l'
322 -1.243321 Med b'+1:word:g/L'
323 -1.239040 pH b'+1:postag:CD'
324 -1.232026 O b'lemma:delta'
325 -1.232026 O b'word:delta'
326 -1.230236 O b'word[:1]:H'
327 -
328 -
329 -Top negative:
330 --0.068713 Med b'-1:postag:CD'
331 --0.070898 pH b'isLower'
332 --0.071980 O b'lemma:dpd'
333 --0.071980 O b'word[:2]:DP'
334 --0.071980 O b'word:DPD'
335 --0.072232 O b'-1:lemma:of'
336 --0.072232 O b'-1:word:of'
337 --0.075191 O b'-1:lemma:o2'
338 --0.075191 O b'-1:word:O2'
339 --0.078769 Phase b'+1:postag:NN'
340 --0.079557 Supp b'-1:postag:VBG'
341 --0.079633 Air b'-1:postag:VBN'
342 --0.083786 Air b'postag:CC'
343 --0.087096 O b'word[:2]:OD'
344 --0.093025 Supp b'postag:CD'
345 --0.093410 O b'word[:2]:20'
346 --0.097736 O b'+1:lemma:arginine'
347 --0.099182 O b'word[:1]:l'
348 --0.103765 Temp b'postag:NN'
349 --0.104490 O b'-1:postag:-LRB-'
350 --0.105330 O b'+1:lemma:fecl2'
351 --0.105330 O b'+1:word:FeCl2'
352 --0.105938 Air b'-1:postag:CC'
353 --0.107646 O b'-1:word:OmpR'
354 --0.109102 O b'+1:lemma:\xc2\xb0c'
355 --0.109102 O b'+1:word:\xc2\xb0C'
356 --0.112420 Air b'postag:-RRB-'
357 --0.112420 Air b'word[:2]:-R'
358 --0.117390 Air b'isLower'
359 --0.117817 O b'-1:lemma:IP'
360 --0.117817 O b'-1:word:IP'
361 --0.119059 Anti b'+1:lemma:anti-fur'
362 --0.119059 Anti b'+1:word:anti-Fur'
363 --0.120171 O b'word[:1]:g'
364 --0.122244 Technique b'isNumber'
365 --0.123373 O b'lemma:of'
366 --0.123373 O b'word[:2]:of'
367 --0.123373 O b'word:of'
368 --0.125903 O b'+1:postag:IN'
369 --0.127562 O b'+1:lemma:c'
370 --0.128049 OD b'postag:CD'
371 --0.128910 Gtype b'postag:NNP'
372 --0.131123 O b'lemma:anaerobically'
373 --0.131123 O b'word:anaerobically'
374 --0.133893 Supp b'word[:2]:mi'
375 --0.136181 O b'-1:word:the'
376 --0.136609 O b'-1:lemma:od600'
377 --0.136609 O b'-1:word:OD600'
378 --0.137723 O b'+1:lemma:+'
379 --0.137723 O b'+1:word:+'
380 --0.138435 O b'word[:1]:F'
381 --0.140881 O b'word[:2]:0.'
382 --0.141470 Air b'symb'
383 --0.141558 O b'word[:1]:p'
384 --0.142135 O b'lemma:150'
385 --0.142135 O b'+1:lemma:mg/ml'
386 --0.142135 O b'word[:2]:15'
387 --0.142135 O b'word:150'
388 --0.142135 O b'+1:word:mg/mL'
389 --0.143733 Phase b'-1:word:at'
390 --0.143958 O b'-1:lemma:iptg'
391 --0.143958 O b'-1:word:IPTG'
392 --0.145720 Phase b'-1:lemma:at'
393 --0.148058 OD b'+1:lemma:~'
394 --0.148058 OD b'+1:word:~'
395 --0.154564 Anti b'symb'
396 --0.168424 O b'+1:lemma:-rrb-'
397 --0.168424 O b'+1:word:-RRB-'
398 --0.171070 OD b'+1:postag:CD'
399 --0.178172 Air b'-1:lemma:or'
400 --0.178172 Air b'-1:word:or'
401 --0.183332 O b'-1:postag:VBN'
402 --0.185846 O b'lemma:20'
403 --0.185846 O b'word:20'
404 --0.187116 O b'-1:postag:IN'
405 --0.187838 Gtype b'-1:lemma:,'
406 --0.187838 Gtype b'-1:postag:,'
407 --0.187838 Gtype b'-1:word:,'
408 --0.197654 OD b'lemma:~'
409 --0.197654 OD b'word[:1]:~'
410 --0.197654 OD b'word:~'
411 --0.209004 O b'lemma:phase'
412 --0.209004 O b'word:phase'
413 --0.232938 O b'word[:2]:mg'
414 --0.241910 O b'lemma:37'
415 --0.241910 O b'word[:2]:37'
416 --0.241910 O b'word:37'
417 --0.256827 O b'+1:lemma:.'
418 --0.256827 O b'+1:postag:.'
419 --0.256827 O b'+1:word:.'
420 --0.258887 O b'+1:postag:-RRB-'
421 --0.260688 O b'word[:1]:K'
422 --0.271025 Temp b'hGreek'
423 --0.272963 O b'+1:lemma:cell'
424 --0.279619 O b'-1:lemma:rpob'
425 --0.279619 O b'-1:word:RpoB'
426 --0.282042 O b'lemma:2h'
427 --0.282042 O b'-1:lemma:additional'
428 --0.282042 O b'word[:2]:2h'
429 --0.282042 O b'word:2h'
430 --0.282042 O b'-1:word:additional'
431 --0.307901 O b'word[:1]:m'
432 --0.310789 O b'+1:word:cells'
433 --0.312898 Technique b'isLower'
434 --0.323122 Supp b'+1:postag:VBN'
435 --0.336111 Gtype b'lemma:delta'
436 --0.336111 Gtype b'word:delta'
437 --0.338083 O b'-1:lemma:37'
438 --0.338083 O b'-1:word:37'
439 --0.363134 O b'word[:1]:N'
440 --0.365622 Supp b'isUpper'
441 --0.371038 Temp b'+1:lemma:to'
442 --0.371038 Temp b'+1:postag:TO'
443 --0.371038 Temp b'+1:word:to'
444 --0.375663 O b'lemma:methanol'
445 --0.375663 O b'word:methanol'
446 --0.386821 O b'+1:word:C'
447 --0.390549 O b'word[:2]:Fe'
448 --0.398822 O b'+1:postag:NNS'
449 --0.400605 O b'+1:lemma:hour'
450 --0.402617 OD b'postag:IN'
451 --0.405062 Med b'+1:postag:NN'
452 --0.406038 O b'-1:lemma:nsrr'
453 --0.406038 O b'-1:word:NsrR'
454 --0.414701 O b'-1:lemma:ompr'
455 --0.416003 Gtype b'isNumber'
456 --0.429137 O b'word[:2]:gl'
457 --0.433599 O b'-1:lemma:grow'
458 --0.446189 Supp b'word[:2]:an'
459 --0.449818 Temp b'isLower'
460 --0.453449 Supp b'-1:lemma:%'
461 --0.453449 Supp b'-1:word:%'
462 --0.479179 Med b'-1:postag:IN'
463 --0.488851 O b'word[:2]:ri'
464 --0.490659 O b'word[:2]:me'
465 --0.500177 Med b'-1:postag:NN'
466 --0.509290 O b'word[:2]:ce'
467 --0.522634 O b'postag:VBP'
468 --0.532399 Med b'+1:postag:IN'
469 --0.539071 O b'+1:lemma:supplement'
470 --0.539071 O b'+1:word:supplemented'
471 --0.539739 O b'lemma:rifampicin'
472 --0.539739 O b'word:rifampicin'
473 --0.552871 O b'+1:lemma:g/l'
474 --0.552871 O b'+1:word:g/L'
475 --0.560634 Agit b'hUpper'
476 --0.560634 Agit b'hLower'
477 --0.562608 O b'-1:lemma:dissolve'
478 --0.562608 O b'+1:lemma:methanol'
479 --0.562608 O b'-1:word:dissolved'
480 --0.562608 O b'+1:word:methanol'
481 --0.619514 Air b'-1:postag:JJ'
482 --0.625491 Phase b'postag:JJ'
483 --0.625812 O b'word[:1]:d'
484 --0.649550 Supp b'word[:1]:C'
485 --0.703665 Phase b'hUpper'
486 --0.703665 Phase b'hLower'
487 --0.716840 O b'+1:lemma:at'
488 --0.716840 O b'+1:word:at'
489 --0.763556 Phase b'-1:postag:JJ'
490 --0.787727 O b'lemma:mid-log'
491 --0.787727 O b'word:mid-log'
492 --0.797424 Anti b'postag:NNP'
493 --0.811067 O b'lemma:wt'
494 --0.815501 O b'-1:postag:VBG'
495 --0.817040 O b'word[:1]:0'
496 --0.819358 O b'postag:RB'
497 --0.827170 O b'-1:lemma:co2'
498 --0.827170 O b'-1:word:CO2'
499 --0.854780 OD b'isNumber'
500 --0.880817 O b'+1:postag:VBG'
501 --0.904661 OD b'+1:postag:NN'
502 --0.945300 O b'+1:lemma:in'
503 --0.945300 O b'+1:word:in'
504 --0.951737 O b'+1:lemma:2'
505 --0.951737 O b'+1:word:2'
506 --0.992231 Air b'postag:NN'
507 --1.005360 O b'word:cells'
508 --1.012629 O b'word[:1]:\xce\x94'
509 --1.013888 Med b'symb'
510 --1.045981 O b'+1:lemma:1'
511 --1.045981 O b'+1:word:1'
512 --1.053560 O b'-1:lemma:2'
513 --1.053560 O b'-1:word:2'
514 --1.102339 Gtype b'word[:1]:C'
515 --1.167989 Gversion b'isLower'
516 --1.221456 Gtype b'isUpper'
517 --1.317978 O b'-1:postag::'
518 --1.332231 Supp b'symb'
519 --1.384191 Supp b'postag:JJ'
520 --1.468390 O b'word[:1]:P'
521 --1.498430 O b'word[:2]:Ch'
522 --1.650068 Technique b'postag:NN'
523 --1.692161 O b'+1:word:hours'
524 --2.120503 O b'-1:lemma::'
525 --2.120503 O b'-1:word::'
526 --2.146800 Supp b'hGreek'
527 --2.229078 O b'-1:lemma:_'
528 --2.229078 O b'-1:word:_'
529 --3.855247 OD b'word[:1]:-'
530 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.08401658210095098, 'c2': 0.01884625069711085}
5 -best CV score:0.7971532567919597
6 -model size: 0.08M
7 -
8 -Flat F1: 0.7859098898539817
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.803 0.860 0.831 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.444 0.615 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.863 0.774 0.816 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.865 0.662 0.750 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.865 0.740 0.786 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.618083
32 -OD -> OD 5.963729
33 -Anti -> Anti 5.607797
34 -Temp -> Temp 5.545821
35 -Med -> Med 5.260331
36 -Air -> Air 4.806253
37 -Gversion -> Gversion 4.687833
38 -O -> O 4.630219
39 -Phase -> Phase 4.602318
40 -Gtype -> Gtype 4.461602
41 -Supp -> Supp 4.065962
42 -Technique -> Technique 3.763491
43 -pH -> pH 2.471906
44 -O -> Supp 1.921146
45 -Substrain -> Gtype 1.817014
46 -Gtype -> Supp 1.706501
47 -O -> Gtype 1.385338
48 -O -> Technique 1.373124
49 -Air -> O 1.263736
50 -Technique -> Air 0.981438
51 -O -> Temp 0.947656
52 -O -> Anti 0.881240
53 -O -> Gversion 0.510967
54 -Gtype -> pH 0.475746
55 -Med -> O 0.383498
56 -Gtype -> Air 0.370305
57 -Phase -> O 0.334011
58 -O -> Strain 0.302672
59 -OD -> Phase 0.207286
60 -Temp -> O 0.148085
61 -O -> Med 0.134972
62 -O -> pH 0.068234
63 -O -> Phase 0.059435
64 -Supp -> O 0.022057
65 -O -> Vess 0.017629
66 -Phase -> Air 0.013801
67 -Supp -> Phase -0.000010
68 -Phase -> Technique -0.000094
69 -O -> OD -0.000142
70 -Gversion -> Air -0.000827
71 -Air -> Phase -0.032287
72 -Anti -> Gtype -0.056186
73 -Supp -> Temp -0.140218
74 -Technique -> O -0.163065
75 -Med -> Air -0.167050
76 -Supp -> Anti -0.172664
77 -Anti -> OD -0.203224
78 -Gtype -> O -0.264978
79 -Supp -> Gversion -0.273317
80 -Temp -> Med -0.300017
81 -
82 -
83 -Top unlikely transitions:
84 -Med -> O 0.383498
85 -Gtype -> Air 0.370305
86 -Phase -> O 0.334011
87 -O -> Strain 0.302672
88 -OD -> Phase 0.207286
89 -Temp -> O 0.148085
90 -O -> Med 0.134972
91 -O -> pH 0.068234
92 -O -> Phase 0.059435
93 -Supp -> O 0.022057
94 -O -> Vess 0.017629
95 -Phase -> Air 0.013801
96 -Supp -> Phase -0.000010
97 -Phase -> Technique -0.000094
98 -O -> OD -0.000142
99 -Gversion -> Air -0.000827
100 -Air -> Phase -0.032287
101 -Anti -> Gtype -0.056186
102 -Supp -> Temp -0.140218
103 -Technique -> O -0.163065
104 -Med -> Air -0.167050
105 -Supp -> Anti -0.172664
106 -Anti -> OD -0.203224
107 -Gtype -> O -0.264978
108 -Supp -> Gversion -0.273317
109 -Temp -> Med -0.300017
110 -Gtype -> Gversion -0.322045
111 -Supp -> Technique -0.339816
112 -Air -> Med -0.378155
113 -Supp -> OD -0.429402
114 -Supp -> Air -0.446692
115 -OD -> Gtype -0.457057
116 -Supp -> Gtype -0.465532
117 -Air -> Supp -0.485627
118 -OD -> Med -0.597226
119 -Gtype -> Anti -0.605601
120 -OD -> Air -0.642908
121 -Agit -> O -0.654857
122 -Air -> OD -0.667036
123 -Gtype -> Med -0.685203
124 -OD -> O -0.817999
125 -Technique -> OD -0.835801
126 -O -> Air -0.855078
127 -Technique -> pH -0.981502
128 -Technique -> Gtype -0.984976
129 -Supp -> Med -1.097285
130 -Substrain -> O -1.099208
131 -Gtype -> OD -1.114446
132 -Med -> Supp -1.496574
133 -Phase -> OD -1.695254
134 -
135 -
136 -Top positive:
137 -8.123739 O b'lemma:_'
138 -6.810504 Phase b'lemma:stationary'
139 -6.641654 O b'lemma:1'
140 -6.403325 Supp b'lemma:Iron'
141 -6.186494 Air b'lemma:anaerobic'
142 -6.121179 Technique b'lemma:ChIP-exo'
143 -6.115918 Strain b'lemma:k-12'
144 -6.089855 Air b'lemma:aerobic'
145 -5.817542 Phase b'lemma:mid-log'
146 -5.738043 O b'lemma:rpob'
147 -5.580039 O b'lemma:2'
148 -5.561019 Technique b'lemma:chipseq'
149 -5.375911 Air b'-1:lemma:ChIP-Seq'
150 -5.253286 Supp b'lemma:pq'
151 -5.023770 O b'lemma:3'
152 -4.993878 Substrain b'lemma:mg1655'
153 -4.982089 O b'-1:lemma:tag'
154 -4.964173 O b'postag:IN'
155 -4.938595 Gversion b'lemma:asm584v2'
156 -4.926165 Supp b'lemma:nitrate'
157 -4.785605 Gtype b'lemma:\xce\xb4cra'
158 -4.768006 Supp b'lemma:nh4cl'
159 -4.718684 O b'lemma:rep1'
160 -4.670907 Gtype b'lemma:flag-tag'
161 -4.670907 Gtype b'-1:lemma:c-terminal'
162 -4.606839 Supp b'lemma:glucose'
163 -4.553992 O b'lemma:Cra'
164 -4.544271 Supp b'+1:lemma:\xc2\xb5m'
165 -4.491246 Gtype b'lemma:arca8myc'
166 -4.483151 O b'lemma:rep2'
167 -4.433079 Gtype b'-1:lemma:\xe2\x88\x86'
168 -4.339017 Med b'lemma:MOPS'
169 -4.311202 Air b'lemma:Aerobic'
170 -4.296372 O b'lemma:rep3'
171 -4.261737 O b'lemma:\xcf\x8332'
172 -4.226976 O b'lemma:Custom'
173 -4.195337 O b'lemma:b'
174 -4.188524 Med b'lemma:LB'
175 -4.172139 Supp b'lemma:dpd'
176 -4.089549 Med b'lemma:lb'
177 -4.079376 O b'-1:lemma:ChIP-exo'
178 -4.036897 Supp b'lemma:acetate'
179 -4.018214 Gtype b'lemma:wt'
180 -4.015668 Technique b'lemma:rna-seq'
181 -3.920242 Gtype b'lemma:delta-arca'
182 -3.910529 Gversion b'lemma:nc'
183 -3.899136 O b'lemma:a'
184 -3.895888 Gtype b'+1:lemma:type'
185 -3.885009 O b'postag::'
186 -3.855692 Gtype b'lemma:type'
187 -3.834701 Supp b'lemma:no3'
188 -3.819349 OD b'lemma:od600'
189 -3.817994 Supp b'lemma:Fe'
190 -3.765429 Anti b'lemma:none'
191 -3.748597 Gtype b'lemma:fnr8myc'
192 -3.746700 Technique b'lemma:chip-seq'
193 -3.731504 O b'-1:lemma:Aerobic'
194 -3.682782 O b'lemma:.'
195 -3.682782 O b'postag:.'
196 -3.604002 OD b'lemma:od450'
197 -3.566627 Technique b'lemma:ChIP-Seq'
198 -3.529137 O b'lemma:CEL'
199 -3.522238 Supp b'lemma:fructose'
200 -3.519152 Anti b'lemma:seqa'
201 -3.519022 O b'lemma:-'
202 -3.511099 Technique b'lemma:rnaseq'
203 -3.493325 Supp b'+1:lemma:Deficient'
204 -3.455879 Gtype b'lemma:\xe2\x88\x86'
205 -3.419995 Air b'postag:RB'
206 -3.414096 Med b'+1:lemma:0.4'
207 -3.352804 O b'+1:lemma:od600'
208 -3.347175 Gtype b'lemma:delta-fnr'
209 -3.308709 Gversion b'lemma:chip-seq'
210 -3.285099 Supp b'+1:lemma:1'
211 -3.229589 Gtype b'lemma:\xce\xb4fur'
212 -3.161898 Supp b'lemma:arginine'
213 -3.139896 Gtype b'lemma:nsrr'
214 -3.136958 Vess b'lemma:flask'
215 -3.136958 Vess b'-1:lemma:warm'
216 -3.129325 Med b'lemma:m63'
217 -3.128400 Gtype b'+1:lemma:with'
218 -3.125627 pH b'lemma:ph5'
219 -3.125627 pH b'+1:lemma:.5'
220 -3.125247 Supp b'lemma:rifampicin'
221 -3.103906 O b'+1:postag:RB'
222 -3.094719 Gversion b'lemma:000913'
223 -3.087516 O b'-1:lemma:anaerobic'
224 -3.071486 Gtype b'lemma:wild-type'
225 -3.045037 O b'-1:lemma:0.3-0.35'
226 -3.040572 Supp b'+1:lemma:2'
227 -3.014672 O b'postag:VBN'
228 -3.012836 Supp b'-1:lemma:Cra'
229 -3.011017 Gversion b'-1:lemma:nc'
230 -2.965942 O b'-1:lemma:glucose'
231 -2.965565 Supp b'+1:lemma:hour'
232 -2.961946 Anti b'lemma:anti-myc'
233 -2.924402 O b'-1:lemma:lb'
234 -2.922240 Strain b'+1:lemma:substr'
235 -2.919534 O b'lemma:affyexp'
236 -2.903005 O b'lemma:for'
237 -2.879508 Technique b'-1:lemma:IP'
238 -2.872556 O b'lemma:with'
239 -2.842720 O b'-1:lemma:type'
240 -2.828833 Gversion b'lemma:u00096'
241 -2.828833 Gversion b'+1:lemma:.2'
242 -2.821257 Anti b'+1:lemma:antibody'
243 -2.802148 Gversion b'lemma:.2'
244 -2.802148 Gversion b'-1:lemma:u00096'
245 -2.791973 Gtype b'-1:lemma:ptac'
246 -2.785654 O b'lemma:chip'
247 -2.777328 O b'lemma:oxyr'
248 -2.767449 O b'lemma:s'
249 -2.762984 Med b'+1:lemma:2.0'
250 -2.701150 Temp b'lemma:\xc2\xb0c'
251 -2.700498 Temp b'-1:lemma:43'
252 -2.698132 Gtype b'lemma:\xce\xb4soxs'
253 -2.696529 OD b'+1:lemma:stationary'
254 -2.695658 O b'lemma:or'
255 -2.694898 O b'postag:CC'
256 -2.692159 O b'-1:lemma:stpa'
257 -2.668311 O b'lemma:ompr'
258 -2.643579 Supp b'lemma:nacl'
259 -2.630322 O b'lemma:chip-arca'
260 -2.625439 Supp b'+1:lemma:_'
261 -2.617277 Med b'-1:lemma:ml'
262 -2.616109 Gtype b'lemma:\xce\xb4ompr'
263 -2.581776 Temp b'lemma:43'
264 -2.528601 Temp b'-1:lemma:sample'
265 -2.520928 O b'lemma:Lrp'
266 -2.506536 Gtype b'lemma:WT'
267 -2.496575 Gtype b'lemma:ptac'
268 -2.489191 O b'+1:lemma:chip-seq'
269 -2.488069 O b'+1:lemma:o.d.'
270 -2.478372 Technique b'-1:lemma:chip-exo'
271 -2.471197 Gtype b'lemma:pk4854'
272 -2.470284 Gtype b'+1:lemma:ph5'
273 -2.425178 Temp b'-1:lemma:\xcf\x8332'
274 -2.394241 Gtype b'+1:lemma:pq'
275 -2.390337 Supp b'-1:lemma:+'
276 -2.379949 O b'-1:lemma:l1'
277 -2.373863 Gtype b'lemma:deltaseqa'
278 -2.373863 Gtype b'-1:lemma:old'
279 -2.362861 O b'+1:lemma:pq'
280 -2.344951 pH b'lemma:.5'
281 -2.344951 pH b'-1:lemma:ph5'
282 -2.343944 O b'lemma:purr'
283 -2.340182 O b'postag:DT'
284 -2.330847 Med b'+1:lemma:minimal'
285 -2.321541 Supp b'lemma:Leu'
286 -2.318395 O b'lemma:argr'
287 -2.311924 Technique b'+1:lemma:chip-exo'
288 -2.309581 Gtype b'+1:lemma:flagtag'
289 -2.296616 Technique b'-1:lemma:input'
290 -2.290860 Temp b'-1:lemma:37'
291 -2.268695 pH b'+1:postag:CD'
292 -2.260677 Air b'-1:lemma:-'
293 -2.258589 O b'lemma:Fur'
294 -2.242051 Gtype b'-1:lemma:rpob'
295 -2.232930 Substrain b'+1:lemma:phtpg'
296 -2.209727 O b'+1:lemma:mid-log'
297 -2.203454 O b'+1:lemma:sparging'
298 -2.197358 Anti b'lemma:anti-rpos'
299 -2.189715 Temp b'lemma:37'
300 -2.177841 Med b'lemma:glucose'
301 -2.177663 Supp b'lemma:iptg'
302 -2.156759 Phase b'+1:lemma:for'
303 -2.146515 Gtype b'-1:lemma:nsrr'
304 -2.145729 O b'lemma:soxs'
305 -2.145729 O b'lemma:soxr'
306 -2.116627 Med b'lemma:L'
307 -2.116627 Med b'+1:lemma:broth'
308 -2.108116 Gtype b'+1:lemma:_'
309 -2.105252 O b'+1:lemma:anti-fur'
310 -2.101969 O b'-1:lemma:dpd'
311 -2.101790 O b'postag:SYM'
312 -2.101328 O b'postag:VBG'
313 -2.099930 O b'-1:lemma:\xc2\xb0c'
314 -2.098829 Air b'lemma:anaerobically'
315 -2.098434 Supp b'-1:lemma:\xc2\xb5m'
316 -2.096819 Gtype b'+1:lemma:aerobic'
317 -2.094813 Supp b'lemma:Adenine'
318 -2.088323 O b'lemma:2-3'
319 -2.075369 O b'lemma:at'
320 -2.068102 Vess b'-1:postag:VBN'
321 -2.054291 O b'-1:lemma:0.3'
322 -2.053277 Supp b'lemma:20'
323 -2.013209 Air b'lemma:Anaerobic'
324 -2.012548 Air b'lemma:anerobically'
325 -1.999409 Gtype b'lemma:\xce\xb4soxr'
326 -1.981344 O b'+1:postag:NNP'
327 -1.973476 Med b'postag:NNP'
328 -1.946249 Gtype b'lemma:\xce\xb4oxyr'
329 -1.946126 Phase b'-1:lemma:until'
330 -1.942530 Supp b'-1:lemma:with'
331 -1.936299 O b'lemma:genotype/variation'
332 -1.930729 Temp b'-1:lemma:30'
333 -1.927186 O b'lemma:chip-fnr'
334 -1.924213 Gtype b'-1:postag:VBG'
335 -1.924060 Temp b'+1:lemma:\xc2\xb0c'
336 -1.915381 Technique b'-1:lemma:_'
337 -
338 -
339 -Top negative:
340 -0.000026 O b'-1:postag:-RRB-'
341 -0.000013 Anti b'lemma:polyclonal'
342 -0.000013 Gtype b'+1:lemma:lacx74/ptg2'
343 -0.000013 O b'lemma:ga'
344 -0.000000 O b'lemma:Deficient'
345 --0.000007 O b'+1:lemma:pahse'
346 --0.000008 O b'-1:lemma:chip-exo'
347 --0.000010 Supp b'+1:lemma:-rrb-'
348 --0.000010 Supp b'+1:postag:-RRB-'
349 --0.000013 O b'+1:lemma:delta'
350 --0.000025 O b'lemma:pahse'
351 --0.000026 Gversion b'-1:postag:NN'
352 --0.000058 O b'+1:lemma:phase'
353 --0.000081 OD b'postag:NNS'
354 --0.000302 O b'-1:lemma:delta'
355 --0.000325 O b'+1:lemma:dissolve'
356 --0.000441 O b'-1:postag:DT'
357 --0.001613 O b'lemma:10'
358 --0.002653 Med b'-1:postag:CD'
359 --0.007301 OD b'+1:postag:NNS'
360 --0.011796 O b'lemma:minimal'
361 --0.012879 Air b'postag:CC'
362 --0.015192 Supp b'+1:lemma:glucose'
363 --0.015373 O b'lemma:mg1655'
364 --0.015533 Med b'postag:JJ'
365 --0.015705 OD b'+1:postag:CD'
366 --0.016291 O b'+1:lemma:0.4'
367 --0.019297 O b'+1:lemma:-lcb-'
368 --0.019455 OD b'+1:lemma:-lrb-'
369 --0.022330 O b'+1:lemma:antibody'
370 --0.024436 O b'+1:lemma:grow'
371 --0.025452 O b'+1:lemma:~'
372 --0.025572 OD b'+1:lemma:0.4'
373 --0.026441 Gtype b'+1:postag:NNS'
374 --0.030832 O b'-1:lemma:the'
375 --0.033857 O b'lemma:aerobically'
376 --0.036355 O b'+1:lemma:mm'
377 --0.037359 Gtype b'+1:lemma:2'
378 --0.037661 O b'-1:postag:IN'
379 --0.040653 O b'lemma:medium'
380 --0.041962 O b'lemma:glucose'
381 --0.042266 O b'+1:lemma:Aerobic'
382 --0.043089 Phase b'+1:postag:NN'
383 --0.044930 O b'+1:lemma:95'
384 --0.055017 Gtype b'-1:postag:CD'
385 --0.055240 O b'lemma:o2'
386 --0.060245 Gtype b'+1:lemma:cra'
387 --0.060637 O b'lemma:nacl'
388 --0.061555 Phase b'-1:postag:NN'
389 --0.071216 O b'-1:postag:VBN'
390 --0.073581 O b'-1:lemma:mm'
391 --0.078544 Med b'postag:CD'
392 --0.090713 Supp b'-1:postag:NNP'
393 --0.098591 O b'lemma:\xc2\xb0c'
394 --0.102077 Air b'-1:postag:CC'
395 --0.102114 O b'lemma:m63'
396 --0.105468 Temp b'-1:lemma:\xc2\xb0c'
397 --0.105895 Supp b'lemma:and'
398 --0.111348 Air b'-1:lemma:or'
399 --0.115338 O b'+1:lemma:_'
400 --0.128807 Med b'-1:postag:NN'
401 --0.128969 Gtype b'lemma:delta'
402 --0.131150 O b'+1:lemma:or'
403 --0.132570 O b'+1:lemma:minimal'
404 --0.135127 O b'-1:lemma:30'
405 --0.135964 O b'-1:lemma:e.'
406 --0.140354 Med b'+1:postag:NN'
407 --0.145665 O b'-1:lemma:-lrb-'
408 --0.155987 O b'lemma:n2'
409 --0.156942 O b'-1:lemma:of'
410 --0.159639 Gversion b'+1:postag:NN'
411 --0.161027 O b'-1:lemma:\xe2\x88\x86'
412 --0.166686 O b'lemma:e.'
413 --0.169994 OD b'postag:JJ'
414 --0.176847 Med b'+1:postag:NNS'
415 --0.176866 Supp b'-1:postag:VBG'
416 --0.183758 O b'lemma:grow'
417 --0.188546 O b'-1:lemma:n2'
418 --0.188833 O b'-1:lemma:g/l'
419 --0.190322 OD b'+1:lemma:and'
420 --0.195342 OD b'+1:postag:CC'
421 --0.202144 O b'-1:postag:-LRB-'
422 --0.205644 O b'lemma:co2'
423 --0.210227 Supp b'+1:postag:IN'
424 --0.213468 O b'-1:lemma:0.1'
425 --0.214864 O b'lemma:phase'
426 --0.215815 Supp b'+1:postag:VBN'
427 --0.219355 Gtype b'postag:CD'
428 --0.239606 Gtype b'-1:postag:SYM'
429 --0.243275 O b'-1:lemma:from'
430 --0.244995 Supp b'postag:CC'
431 --0.246314 Temp b'postag:JJ'
432 --0.247956 O b'+1:lemma:.'
433 --0.247956 O b'+1:postag:.'
434 --0.249604 O b'+1:lemma:5'
435 --0.250831 Gtype b'-1:postag:DT'
436 --0.253469 O b'+1:lemma:-rrb-'
437 --0.254981 O b'+1:lemma:until'
438 --0.256496 O b'+1:lemma:shake'
439 --0.257679 O b'+1:lemma:%'
440 --0.258132 O b'lemma:lb'
441 --0.269974 Gtype b'+1:lemma:\xe2\x88\x86'
442 --0.281159 O b'-1:lemma:iptg'
443 --0.288450 Technique b'-1:lemma::'
444 --0.293073 O b'+1:postag:IN'
445 --0.295868 Phase b'-1:lemma:at'
446 --0.299182 O b'-1:lemma:um'
447 --0.299182 O b'+1:lemma:paraquat'
448 --0.314439 O b'lemma:k-12'
449 --0.325000 O b'+1:lemma:rep1'
450 --0.330417 Med b'-1:postag:IN'
451 --0.341066 O b'+1:lemma:c'
452 --0.359756 O b'lemma:purify'
453 --0.360517 pH b'postag:NN'
454 --0.360830 O b'-1:lemma:1'
455 --0.366396 O b'lemma:30'
456 --0.368824 Med b'+1:postag:IN'
457 --0.371177 O b'-1:lemma:rifampicin'
458 --0.372454 O b'-1:lemma:o2'
459 --0.379912 Supp b'+1:lemma:rifampicin'
460 --0.385450 O b'-1:lemma:until'
461 --0.400292 Anti b'+1:lemma:anti-fur'
462 --0.408694 Phase b'-1:postag:JJ'
463 --0.409475 O b'+1:postag:-RRB-'
464 --0.425033 Anti b'+1:postag:JJ'
465 --0.431972 O b'-1:lemma:mid-log'
466 --0.454284 O b'+1:lemma:\xc2\xb0c'
467 --0.456154 O b'-1:lemma:cra'
468 --0.468923 O b'+1:lemma:300'
469 --0.476521 OD b'+1:postag:NN'
470 --0.486601 O b'+1:lemma:arginine'
471 --0.497598 O b'-1:lemma:od600'
472 --0.500312 Temp b'postag:NN'
473 --0.501307 O b'lemma:\xe2\x88\x86'
474 --0.527078 O b'-1:lemma:grow'
475 --0.535232 O b'lemma:media'
476 --0.560336 Temp b'+1:lemma:to'
477 --0.560336 Temp b'+1:postag:TO'
478 --0.580574 Technique b'-1:postag::'
479 --0.586372 O b'lemma:150'
480 --0.586372 O b'+1:lemma:mg/ml'
481 --0.599232 O b'-1:lemma:ml'
482 --0.631824 O b'lemma:od600'
483 --0.642215 O b'+1:lemma:cell'
484 --0.656656 O b'-1:lemma:0.2'
485 --0.667528 O b'lemma:dissolve'
486 --0.696155 O b'+1:lemma:0.3'
487 --0.704278 O b'+1:postag:NNS'
488 --0.722852 O b'lemma:of'
489 --0.794409 OD b'lemma:-lrb-'
490 --0.798043 O b'lemma:mid-log'
491 --0.800225 Air b'-1:postag:JJ'
492 --0.807147 O b'+1:lemma:fecl2'
493 --0.846837 O b'lemma:anaerobically'
494 --0.848073 O b'-1:postag:VBG'
495 --0.863647 O b'lemma:\xce\xb4fur'
496 --0.869227 O b'lemma:anaerobic'
497 --0.880191 O b'lemma:20'
498 --0.903243 Supp b'-1:lemma:%'
499 --0.911617 OD b'postag:-LRB-'
500 --0.920995 O b'lemma:0.3'
501 --0.922420 Supp b'+1:lemma:acetate'
502 --0.960047 O b'-1:lemma:~'
503 --0.971637 O b'-1:lemma:sample'
504 --0.997239 O b'-1:lemma:dissolve'
505 --0.997239 O b'+1:lemma:methanol'
506 --1.021077 O b'-1:lemma:co2'
507 --1.029818 O b'-1:postag::'
508 --1.037126 O b'+1:lemma:g/l'
509 --1.055847 O b'+1:postag:VBG'
510 --1.065175 O b'postag:VBP'
511 --1.100145 O b'lemma:fecl2'
512 --1.138423 O b'lemma:2h'
513 --1.138423 O b'-1:lemma:additional'
514 --1.148498 Air b'postag:NN'
515 --1.149326 O b'lemma:0.1'
516 --1.209987 O b'lemma:0.2'
517 --1.234531 O b'+1:lemma:supplement'
518 --1.275261 O b'lemma:37'
519 --1.368318 O b'+1:lemma:at'
520 --1.399811 O b'-1:lemma:37'
521 --1.426313 O b'+1:lemma:in'
522 --1.457935 O b'-1:lemma:rpob'
523 --1.491896 O b'-1:lemma:ompr'
524 --1.501624 Air b'+1:postag:JJ'
525 --1.548871 O b'lemma:wt'
526 --1.574564 Phase b'postag:JJ'
527 --1.596170 O b'+1:lemma:hour'
528 --1.660391 O b'-1:lemma:IP'
529 --1.699119 Supp b'postag:JJ'
530 --1.736144 O b'lemma:methanol'
531 --1.794070 O b'-1:lemma:nsrr'
532 --1.798927 O b'+1:lemma:+'
533 --1.799190 Anti b'postag:NNP'
534 --2.092441 O b'-1:lemma:2'
535 --2.113784 O b'+1:lemma:2'
536 --2.209993 O b'lemma:rifampicin'
537 --2.612840 O b'+1:lemma:1'
538 --3.674746 O b'-1:lemma:_'
539 --3.979126 O b'-1:lemma::'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.06175888892030738, 'c2': 0.007297468450426697}
5 -best CV score:0.8063684219603322
6 -model size: 0.08M
7 -
8 -Flat F1: 0.8038632313016971
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.897 0.912 0.904 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.807 0.742 0.773 62
20 - Anti 1.000 0.444 0.615 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.867 0.802 0.833 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.877 0.684 0.769 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.871 0.758 0.804 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 7.039997
32 -OD -> OD 6.131524
33 -Anti -> Anti 6.088253
34 -Temp -> Temp 5.782167
35 -Med -> Med 5.473727
36 -Phase -> Phase 5.118964
37 -Gversion -> Gversion 5.069590
38 -Air -> Air 5.035955
39 -O -> O 4.832708
40 -Gtype -> Gtype 4.669937
41 -Supp -> Supp 4.378479
42 -Technique -> Technique 3.990893
43 -pH -> pH 2.569701
44 -Substrain -> Gtype 1.830007
45 -O -> Supp 1.626801
46 -O -> Gtype 1.297672
47 -Gtype -> Supp 1.190661
48 -O -> Technique 1.135884
49 -Air -> O 0.818807
50 -Technique -> Air 0.814259
51 -O -> Anti 0.771130
52 -O -> Temp 0.647711
53 -O -> Gversion 0.213529
54 -Med -> O 0.130864
55 -Gtype -> pH 0.110856
56 -Temp -> O 0.071206
57 -O -> Med 0.068395
58 -OD -> Phase 0.032935
59 -O -> Phase 0.005045
60 -O -> Strain 0.004127
61 -Gtype -> Air 0.001026
62 -O -> pH 0.000010
63 -Med -> Air -0.000266
64 -Air -> Phase -0.002144
65 -Supp -> Gtype -0.028407
66 -Gtype -> Phase -0.055051
67 -pH -> O -0.067213
68 -Phase -> O -0.083281
69 -Supp -> Temp -0.086247
70 -O -> Agit -0.105739
71 -Anti -> OD -0.120656
72 -Supp -> Gversion -0.132405
73 -Phase -> Air -0.135463
74 -Air -> Temp -0.140622
75 -OD -> Gtype -0.176085
76 -Gtype -> Gversion -0.192477
77 -O -> OD -0.271290
78 -Technique -> O -0.302420
79 -Supp -> OD -0.335241
80 -Temp -> Med -0.384357
81 -
82 -
83 -Top unlikely transitions:
84 -O -> Gversion 0.213529
85 -Med -> O 0.130864
86 -Gtype -> pH 0.110856
87 -Temp -> O 0.071206
88 -O -> Med 0.068395
89 -OD -> Phase 0.032935
90 -O -> Phase 0.005045
91 -O -> Strain 0.004127
92 -Gtype -> Air 0.001026
93 -O -> pH 0.000010
94 -Med -> Air -0.000266
95 -Air -> Phase -0.002144
96 -Supp -> Gtype -0.028407
97 -Gtype -> Phase -0.055051
98 -pH -> O -0.067213
99 -Phase -> O -0.083281
100 -Supp -> Temp -0.086247
101 -O -> Agit -0.105739
102 -Anti -> OD -0.120656
103 -Supp -> Gversion -0.132405
104 -Phase -> Air -0.135463
105 -Air -> Temp -0.140622
106 -OD -> Gtype -0.176085
107 -Gtype -> Gversion -0.192477
108 -O -> OD -0.271290
109 -Technique -> O -0.302420
110 -Supp -> OD -0.335241
111 -Temp -> Med -0.384357
112 -Supp -> Technique -0.385060
113 -Supp -> O -0.403868
114 -Gtype -> Med -0.554149
115 -Air -> Med -0.637433
116 -OD -> Med -0.669447
117 -Gtype -> O -0.714185
118 -Technique -> OD -0.717082
119 -Technique -> Gtype -0.718169
120 -Technique -> pH -0.760896
121 -Air -> OD -0.787076
122 -Gtype -> Anti -0.790622
123 -OD -> Air -0.869139
124 -Agit -> O -0.936533
125 -Supp -> Air -0.944719
126 -Air -> Supp -0.951816
127 -OD -> O -0.966392
128 -Gtype -> OD -1.245349
129 -Supp -> Med -1.310718
130 -Substrain -> O -1.335115
131 -O -> Air -1.686756
132 -Phase -> OD -2.096304
133 -Med -> Supp -2.167551
134 -
135 -
136 -Top positive:
137 -9.429627 O b'lemma:_'
138 -8.878639 Phase b'lemma:stationary'
139 -8.718938 Supp b'lemma:Iron'
140 -7.681723 O b'lemma:1'
141 -7.568503 Air b'lemma:aerobic'
142 -7.528752 Technique b'lemma:ChIP-exo'
143 -7.490123 Air b'lemma:anaerobic'
144 -6.800664 O b'lemma:rpob'
145 -6.784655 Supp b'lemma:nitrate'
146 -6.781496 Med b'lemma:MOPS'
147 -6.698412 Strain b'lemma:k-12'
148 -6.360995 Technique b'lemma:chipseq'
149 -6.332061 O b'-1:lemma:tag'
150 -6.294441 O b'lemma:2'
151 -6.134867 Supp b'lemma:pq'
152 -6.056497 Gversion b'lemma:asm584v2'
153 -5.974776 Gtype b'lemma:\xce\xb4cra'
154 -5.968446 O b'lemma:3'
155 -5.959950 Air b'-1:lemma:ChIP-Seq'
156 -5.787437 Gtype b'lemma:flag-tag'
157 -5.787437 Gtype b'-1:lemma:c-terminal'
158 -5.767411 O b'lemma:Custom'
159 -5.622312 Air b'lemma:Aerobic'
160 -5.534195 O b'lemma:rep1'
161 -5.503124 Gtype b'lemma:arca8myc'
162 -5.451254 O b'-1:lemma:ChIP-exo'
163 -5.433030 Substrain b'lemma:mg1655'
164 -5.426412 O b'lemma:rep2'
165 -5.419246 O b'lemma:b'
166 -5.392492 O b'lemma:Cra'
167 -5.313073 Supp b'+1:lemma:\xc2\xb5m'
168 -5.205081 Med b'lemma:LB'
169 -5.079806 Technique b'lemma:ChIP-Seq'
170 -5.049305 Supp b'lemma:glucose'
171 -5.044483 OD b'lemma:od450'
172 -5.039131 O b'lemma:rep3'
173 -5.012495 Gtype b'lemma:delta-arca'
174 -4.965809 Supp b'lemma:nh4cl'
175 -4.923813 Gtype b'lemma:type'
176 -4.896333 O b'lemma:a'
177 -4.860082 Supp b'lemma:Fe'
178 -4.840158 O b'+1:postag:RB'
179 -4.836640 Gtype b'-1:lemma:\xe2\x88\x86'
180 -4.816606 Phase b'lemma:mid-log'
181 -4.811283 Gtype b'lemma:fnr8myc'
182 -4.790845 OD b'+1:lemma:stationary'
183 -4.780811 O b'lemma:\xcf\x8332'
184 -4.762091 Gtype b'lemma:wt'
185 -4.756489 O b'+1:lemma:od600'
186 -4.716971 Technique b'lemma:rna-seq'
187 -4.704242 O b'postag:IN'
188 -4.655483 OD b'lemma:od600'
189 -4.653380 Gversion b'lemma:nc'
190 -4.577875 Anti b'lemma:none'
191 -4.558396 Supp b'lemma:acetate'
192 -4.516720 Supp b'lemma:rifampicin'
193 -4.507138 O b'postag::'
194 -4.433020 Gtype b'+1:lemma:type'
195 -4.356436 Gversion b'-1:lemma:nc'
196 -4.338051 Supp b'-1:lemma:Cra'
197 -4.313945 Technique b'lemma:rnaseq'
198 -4.282860 Med b'lemma:lb'
199 -4.266947 Anti b'lemma:seqa'
200 -4.245888 Supp b'lemma:no3'
201 -4.245555 O b'-1:lemma:0.3-0.35'
202 -4.242062 O b'lemma:.'
203 -4.242062 O b'postag:.'
204 -4.224468 Gtype b'lemma:delta-fnr'
205 -4.214205 Gtype b'lemma:\xce\xb4fur'
206 -4.192928 O b'-1:lemma:Aerobic'
207 -4.142672 Technique b'lemma:chip-seq'
208 -4.113542 Supp b'lemma:dpd'
209 -4.085146 O b'lemma:-'
210 -3.963197 Med b'+1:lemma:0.4'
211 -3.958952 O b'+1:lemma:o.d.'
212 -3.887023 Supp b'lemma:fructose'
213 -3.878469 Supp b'+1:lemma:hour'
214 -3.849287 Strain b'+1:lemma:substr'
215 -3.805978 O b'lemma:with'
216 -3.794001 Vess b'lemma:flask'
217 -3.794001 Vess b'-1:lemma:warm'
218 -3.787347 Gtype b'lemma:nsrr'
219 -3.742649 O b'-1:lemma:glucose'
220 -3.720278 O b'+1:lemma:chip-seq'
221 -3.702007 Gtype b'-1:lemma:ptac'
222 -3.662982 Supp b'+1:lemma:1'
223 -3.654612 Anti b'lemma:anti-myc'
224 -3.649389 Supp b'+1:lemma:Deficient'
225 -3.646552 Supp b'lemma:arginine'
226 -3.618594 O b'lemma:CEL'
227 -3.606640 O b'-1:lemma:0.3'
228 -3.599357 O b'postag:VBN'
229 -3.586637 Temp b'lemma:\xc2\xb0c'
230 -3.576770 Air b'lemma:Anaerobic'
231 -3.574484 O b'-1:lemma:anaerobic'
232 -3.573047 O b'lemma:ompr'
233 -3.556429 Gtype b'lemma:wild-type'
234 -3.554917 Gtype b'-1:lemma:rpob'
235 -3.554502 O b'lemma:2-3'
236 -3.523026 Supp b'-1:lemma:+'
237 -3.503145 O b'lemma:s'
238 -3.499526 Gtype b'+1:lemma:with'
239 -3.489586 Gtype b'lemma:\xe2\x88\x86'
240 -3.467032 O b'-1:lemma:type'
241 -3.452564 Gversion b'lemma:chip-seq'
242 -3.446983 O b'lemma:oxyr'
243 -3.437767 pH b'lemma:ph5'
244 -3.437767 pH b'+1:lemma:.5'
245 -3.432615 Anti b'lemma:anti-rpos'
246 -3.418713 O b'lemma:or'
247 -3.407689 Med b'lemma:m63'
248 -3.401201 O b'lemma:for'
249 -3.394419 Med b'+1:lemma:minimal'
250 -3.357624 Air b'lemma:anerobically'
251 -3.345050 Temp b'-1:lemma:37'
252 -3.316153 Gtype b'+1:lemma:ph5'
253 -3.308024 O b'lemma:chip'
254 -3.305474 Gtype b'+1:lemma:pq'
255 -3.303537 Temp b'-1:lemma:sample'
256 -3.262181 Gtype b'lemma:\xce\xb4ompr'
257 -3.232854 Gversion b'lemma:.2'
258 -3.232854 Gversion b'-1:lemma:u00096'
259 -3.227066 Gversion b'lemma:000913'
260 -3.204195 Phase b'-1:lemma:until'
261 -3.194368 Temp b'-1:lemma:\xcf\x8332'
262 -3.192675 O b'lemma:affyexp'
263 -3.185554 Air b'lemma:anaerobically'
264 -3.157577 Supp b'+1:lemma:2'
265 -3.152351 O b'-1:lemma:dpd'
266 -3.147823 Anti b'+1:lemma:antibody'
267 -3.147197 Gversion b'lemma:u00096'
268 -3.147197 Gversion b'+1:lemma:.2'
269 -3.145534 Med b'+1:lemma:2.0'
270 -3.144986 O b'lemma:chip-arca'
271 -3.128621 O b'-1:lemma:\xc2\xb0c'
272 -3.123647 Gtype b'lemma:\xce\xb4soxs'
273 -3.096543 O b'+1:lemma:mid-log'
274 -3.081866 Technique b'-1:lemma:IP'
275 -3.074036 O b'+1:lemma:pq'
276 -3.055089 Gtype b'lemma:pk4854'
277 -3.047512 Gtype b'+1:lemma:flagtag'
278 -3.033127 Technique b'-1:lemma:chip-exo'
279 -3.002892 Supp b'lemma:Leu'
280 -2.999013 Supp b'lemma:Adenine'
281 -2.974704 O b'-1:lemma:lb'
282 -2.958351 Med b'-1:lemma:ml'
283 -2.936300 Air b'+1:lemma:at'
284 -2.921131 Gtype b'lemma:WT'
285 -2.907355 O b'lemma:argr'
286 -2.906382 Technique b'+1:lemma:chip-exo'
287 -2.887412 OD b'-1:lemma:~'
288 -2.886486 O b'lemma:at'
289 -2.880821 Technique b'-1:lemma:input'
290 -2.874454 Temp b'-1:lemma:43'
291 -2.847136 O b'-1:lemma:stpa'
292 -2.828648 Gtype b'lemma:ptac'
293 -2.821605 Gtype b'lemma:deltaseqa'
294 -2.821605 Gtype b'-1:lemma:old'
295 -2.819393 Supp b'+1:lemma:_'
296 -2.815914 O b'lemma:purr'
297 -2.782076 Supp b'lemma:nacl'
298 -2.766819 Air b'postag:RB'
299 -2.765932 O b'lemma:soxs'
300 -2.765932 O b'lemma:soxr'
301 -2.755196 pH b'lemma:.5'
302 -2.755196 pH b'-1:lemma:ph5'
303 -2.722030 O b'-1:lemma:l1'
304 -2.718971 Air b'-1:postag::'
305 -2.658925 O b'lemma:culture'
306 -2.648763 Med b'lemma:L'
307 -2.648763 Med b'+1:lemma:broth'
308 -2.627139 Technique b'+1:lemma:rna-seq'
309 -2.619872 Med b'lemma:glucose'
310 -2.619781 Supp b'lemma:methanol'
311 -2.591668 O b'lemma:Lrp'
312 -2.561051 O b'lemma:one'
313 -2.550533 O b'+1:lemma:43'
314 -2.549438 Supp b'lemma:iptg'
315 -2.527814 Med b'-1:lemma:LB'
316 -2.524624 Temp b'lemma:37'
317 -2.515848 OD b'-1:lemma:about'
318 -2.506523 Temp b'lemma:43'
319 -2.504102 O b'+1:postag:VBP'
320 -2.486048 Gtype b'lemma:dfnr'
321 -2.463884 O b'postag:DT'
322 -2.460887 O b'postag:VBG'
323 -2.404015 Gtype b'lemma:\xce\xb4soxr'
324 -2.395072 O b'lemma:pt7'
325 -2.386555 Gtype b'lemma:\xce\xb4oxyr'
326 -2.384720 O b'+1:postag:NNP'
327 -2.384009 Phase b'+1:lemma:for'
328 -2.375984 Gtype b'-1:lemma:phtpg'
329 -2.357924 Supp b'lemma:leucine'
330 -2.346880 Gtype b'+1:lemma:aerobic'
331 -2.331271 pH b'+1:postag:CD'
332 -2.296129 Gtype b'-1:lemma:nsrr'
333 -2.286249 O b'lemma:Fur'
334 -2.281780 OD b'lemma:0.3'
335 -2.279276 O b'lemma:delta'
336 -2.265327 Med b'postag:NNP'
337 -
338 -
339 -Top negative:
340 --0.000825 O b'+1:lemma:95'
341 --0.001451 O b'lemma:5'
342 --0.001572 O b'-1:lemma:-lrb-'
343 --0.002926 O b'+1:lemma:25'
344 --0.003089 OD b'-1:postag:DT'
345 --0.003331 OD b'+1:postag:-LRB-'
346 --0.003846 O b'+1:lemma:a'
347 --0.004476 O b'+1:lemma:0.4'
348 --0.004597 Air b'-1:lemma:aerobically'
349 --0.005115 Gtype b'+1:lemma:2'
350 --0.005380 Temp b'-1:lemma:\xc2\xb0c'
351 --0.006805 O b'-1:lemma:,'
352 --0.006805 O b'-1:postag:,'
353 --0.007118 Air b'-1:postag:CC'
354 --0.010580 O b'+1:lemma:dissolve'
355 --0.012150 OD b'+1:postag:CD'
356 --0.017346 O b'-1:postag:IN'
357 --0.019089 O b'-1:lemma:1'
358 --0.021090 O b'+1:lemma:grow'
359 --0.021180 O b'lemma:30'
360 --0.021446 O b'lemma:cell'
361 --0.021525 OD b'lemma:~'
362 --0.021651 Gtype b'-1:lemma:mg1655'
363 --0.022113 Air b'-1:lemma:anaerobically'
364 --0.023965 O b'lemma:nacl'
365 --0.025824 Med b'-1:postag:CD'
366 --0.026049 OD b'postag:IN'
367 --0.028482 OD b'+1:postag:DT'
368 --0.029411 OD b'+1:lemma:0.4'
369 --0.031488 O b'lemma:mg1655'
370 --0.032375 OD b'-1:lemma:a'
371 --0.038129 O b'+1:lemma:co2'
372 --0.041455 O b'-1:lemma:with'
373 --0.046377 O b'+1:lemma:mm'
374 --0.046769 O b'+1:lemma:o2'
375 --0.047221 O b'lemma:medium'
376 --0.047788 Gtype b'+1:lemma:\xe2\x88\x86'
377 --0.051338 O b'lemma:k-12'
378 --0.058113 O b'+1:lemma:shake'
379 --0.067222 O b'+1:lemma:phase'
380 --0.067235 Strain b'+1:postag:NN'
381 --0.068404 Gtype b'-1:postag:SYM'
382 --0.070459 Phase b'+1:postag:NN'
383 --0.071893 O b'lemma:m63'
384 --0.074961 O b'-1:lemma:fresh'
385 --0.076182 O b'-1:lemma:mm'
386 --0.081344 Technique b'-1:lemma::'
387 --0.089803 O b'lemma:o2'
388 --0.090417 O b'-1:lemma:e.'
389 --0.090764 O b'lemma:grow'
390 --0.099382 Supp b'-1:postag:NN'
391 --0.101790 Gtype b'-1:postag:CD'
392 --0.106440 O b'+1:lemma:300'
393 --0.107647 Gtype b'-1:postag:NN'
394 --0.110265 O b'-1:lemma:\xe2\x88\x86'
395 --0.113592 O b'lemma:\xc2\xb0c'
396 --0.113759 O b'+1:lemma:5'
397 --0.126723 O b'-1:lemma:until'
398 --0.127511 Supp b'+1:lemma:glucose'
399 --0.130049 O b'-1:lemma:minimal'
400 --0.138770 O b'lemma:e.'
401 --0.140462 O b'lemma:aerobically'
402 --0.140632 O b'lemma:minimal'
403 --0.140732 O b'-1:lemma:of'
404 --0.151688 Phase b'-1:lemma:at'
405 --0.153011 Supp b'+1:postag:IN'
406 --0.155728 Air b'-1:lemma:or'
407 --0.155927 O b'lemma:n2'
408 --0.158122 O b'lemma:purify'
409 --0.159148 O b'-1:postag:-LRB-'
410 --0.162204 O b'-1:lemma:n2'
411 --0.163370 Gtype b'postag:CD'
412 --0.165311 O b'+1:lemma:-rrb-'
413 --0.181332 O b'+1:lemma:antibody'
414 --0.183547 Med b'postag:CD'
415 --0.187622 O b'+1:lemma:minimal'
416 --0.190046 Gversion b'-1:postag:NN'
417 --0.193027 O b'-1:lemma:o2'
418 --0.199971 O b'+1:lemma:.'
419 --0.199971 O b'+1:postag:.'
420 --0.203385 Med b'-1:postag:NN'
421 --0.221160 O b'-1:postag:VBN'
422 --0.230480 Supp b'lemma:and'
423 --0.232278 Med b'+1:lemma:media'
424 --0.234457 Med b'+1:postag:CC'
425 --0.235346 Gtype b'-1:postag:DT'
426 --0.239623 O b'-1:lemma:um'
427 --0.239623 O b'+1:lemma:paraquat'
428 --0.242354 O b'lemma:co2'
429 --0.264358 O b'-1:lemma:mid-log'
430 --0.265962 Supp b'-1:postag:NNP'
431 --0.267624 Supp b'-1:lemma:-'
432 --0.283009 O b'lemma:phase'
433 --0.307486 O b'-1:lemma:from'
434 --0.311456 O b'-1:lemma:rifampicin'
435 --0.336644 O b'-1:lemma:od600'
436 --0.348696 O b'-1:lemma:cra'
437 --0.349206 O b'-1:lemma:30'
438 --0.349519 O b'+1:lemma:\xc2\xb0c'
439 --0.376657 O b'+1:lemma:until'
440 --0.376734 O b'+1:lemma:or'
441 --0.380376 O b'lemma:lb'
442 --0.391631 Anti b'+1:postag:JJ'
443 --0.391764 O b'postag:RB'
444 --0.393925 Med b'-1:postag:IN'
445 --0.404484 O b'-1:lemma:0.1'
446 --0.405885 O b'+1:postag:-RRB-'
447 --0.410930 OD b'+1:lemma:and'
448 --0.440153 Agit b'postag:NN'
449 --0.449451 O b'+1:lemma:rep1'
450 --0.458859 O b'lemma:od600'
451 --0.466920 O b'-1:lemma:grow'
452 --0.485539 O b'lemma:dissolve'
453 --0.485571 O b'+1:lemma:arginine'
454 --0.500536 OD b'+1:postag:CC'
455 --0.501505 Anti b'+1:lemma:anti-fur'
456 --0.508110 O b'+1:lemma:_'
457 --0.509492 O b'lemma:media'
458 --0.520104 O b'+1:postag:IN'
459 --0.520122 Med b'+1:postag:NN'
460 --0.536661 O b'lemma:anaerobic'
461 --0.537297 OD b'+1:postag:NN'
462 --0.552346 O b'+1:lemma:%'
463 --0.557522 Supp b'postag:CC'
464 --0.561985 O b'lemma:\xe2\x88\x86'
465 --0.562073 O b'-1:lemma:~'
466 --0.563392 Temp b'postag:JJ'
467 --0.565743 O b'-1:lemma:co2'
468 --0.569796 Technique b'-1:postag::'
469 --0.575269 O b'lemma:150'
470 --0.575269 O b'+1:lemma:mg/ml'
471 --0.583809 O b'+1:lemma:0.3'
472 --0.589903 Phase b'-1:postag:NN'
473 --0.589906 Supp b'-1:postag:VBG'
474 --0.624638 Med b'+1:postag:IN'
475 --0.647563 OD b'lemma:-lrb-'
476 --0.651123 O b'lemma:0.3'
477 --0.672987 O b'+1:postag:NNS'
478 --0.675261 O b'lemma:fecl2'
479 --0.712388 Med b'+1:postag:NNS'
480 --0.714926 O b'+1:lemma:c'
481 --0.727882 O b'-1:lemma:0.2'
482 --0.741220 OD b'postag:-LRB-'
483 --0.746499 Gversion b'+1:postag:NN'
484 --0.753494 Supp b'+1:postag:VBN'
485 --0.755447 O b'lemma:\xce\xb4fur'
486 --0.756879 O b'+1:lemma:fecl2'
487 --0.756986 pH b'postag:NN'
488 --0.757378 OD b'postag:JJ'
489 --0.788163 O b'-1:postag:VBG'
490 --0.834275 O b'-1:lemma:ml'
491 --0.897819 Temp b'+1:lemma:to'
492 --0.897819 Temp b'+1:postag:TO'
493 --0.904753 O b'lemma:20'
494 --0.944733 O b'lemma:anaerobically'
495 --0.963571 O b'+1:lemma:in'
496 --0.967298 Air b'-1:postag:JJ'
497 --0.978670 Supp b'+1:lemma:rifampicin'
498 --0.980602 Phase b'-1:postag:JJ'
499 --0.986834 O b'lemma:of'
500 --0.987936 Temp b'postag:NN'
501 --1.002995 O b'postag:VBP'
502 --1.014836 O b'lemma:dpd'
503 --1.041168 Supp b'+1:lemma:acetate'
504 --1.041187 O b'-1:lemma:sample'
505 --1.042720 O b'lemma:0.2'
506 --1.050897 O b'+1:lemma:supplement'
507 --1.079011 O b'+1:lemma:at'
508 --1.093829 O b'+1:lemma:cell'
509 --1.096333 O b'-1:lemma:dissolve'
510 --1.096333 O b'+1:lemma:methanol'
511 --1.136240 O b'+1:lemma:g/l'
512 --1.201055 O b'-1:lemma:rpob'
513 --1.208075 O b'lemma:2h'
514 --1.208075 O b'-1:lemma:additional'
515 --1.245138 O b'-1:lemma:37'
516 --1.284488 O b'lemma:0.1'
517 --1.307838 O b'-1:lemma:IP'
518 --1.367289 O b'+1:postag:VBG'
519 --1.389589 O b'+1:lemma:+'
520 --1.436423 Air b'+1:postag:JJ'
521 --1.446071 O b'lemma:wt'
522 --1.450739 Supp b'-1:lemma:%'
523 --1.499193 O b'lemma:37'
524 --1.538565 O b'-1:postag::'
525 --1.553221 Air b'postag:NN'
526 --1.648157 Anti b'postag:NNP'
527 --1.853282 O b'+1:lemma:hour'
528 --1.858904 O b'-1:lemma:nsrr'
529 --1.884215 O b'-1:lemma:ompr'
530 --2.067974 O b'-1:lemma:2'
531 --2.131263 O b'lemma:rifampicin'
532 --2.175822 O b'+1:lemma:2'
533 --2.308282 O b'lemma:methanol'
534 --2.446120 Supp b'postag:JJ'
535 --2.454149 O b'lemma:mid-log'
536 --2.638968 Phase b'postag:JJ'
537 --2.760556 O b'+1:lemma:1'
538 --3.707810 O b'-1:lemma:_'
539 --3.997262 O b'-1:lemma::'
540 -
1 +********** TRAINING AND TESTING REPORT **********
2 +Training file: training-data-set-70.txt
3 +
4 +best params:{'c1': 0.14521637026904505, 'c2': 0.02160263268998293}
5 +best CV score:0.8705560896194018
6 +model size: 0.08M
7 +
8 +Flat F1: 0.7637642434421422
9 + precision recall f1-score support
10 +
11 + OD 1.000 0.818 0.900 22
12 + pH 1.000 1.000 1.000 8
13 + Technique 0.952 0.870 0.909 23
14 + Med 1.000 0.925 0.961 53
15 + Temp 0.923 0.828 0.873 29
16 + Vess 1.000 1.000 1.000 1
17 + Agit 0.000 0.000 0.000 0
18 + Phase 0.875 0.933 0.903 15
19 + Air 0.545 0.348 0.425 69
20 + Anti 1.000 1.000 1.000 11
21 + Strain 0.000 0.000 0.000 1
22 + Gtype 0.857 0.847 0.852 85
23 + Substrain 0.000 0.000 0.000 0
24 + Supp 0.609 0.791 0.688 134
25 + Gversion 0.000 0.000 0.000 0
26 +
27 +avg / total 0.774 0.769 0.764 451
28 +
29 +
30 +Top likely transitions:
31 +Temp -> Temp 5.770024
32 +Agit -> Agit 5.591940
33 +Med -> Med 5.238745
34 +OD -> OD 5.208128
35 +Supp -> Supp 5.009566
36 +Anti -> Anti 4.435661
37 +Phase -> Phase 4.266553
38 +Air -> Air 4.183832
39 +Gversion -> Gversion 4.181832
40 +Gtype -> Gtype 4.159817
41 +O -> O 4.029919
42 +Technique -> Technique 3.397241
43 +pH -> pH 2.835139
44 +Substrain -> Gtype 1.746378
45 +Gtype -> Supp 1.354961
46 +Air -> O 1.123193
47 +O -> Technique 0.956245
48 +O -> Supp 0.860304
49 +Technique -> Air 0.720188
50 +Gtype -> Air 0.705752
51 +Supp -> O 0.675087
52 +Med -> O 0.607714
53 +O -> Gtype 0.602507
54 +Temp -> O 0.586988
55 +Gtype -> pH 0.132889
56 +O -> Phase 0.103874
57 +O -> Anti 0.059111
58 +O -> Med 0.043976
59 +O -> Temp 0.037475
60 +Phase -> O 0.007325
61 +OD -> O 0.001147
62 +Temp -> Med -0.004820
63 +O -> OD -0.007911
64 +Air -> Agit -0.018394
65 +Technique -> O -0.037749
66 +Air -> Supp -0.052877
67 +Supp -> Gtype -0.118891
68 +Gtype -> Technique -0.146943
69 +Air -> Gtype -0.162470
70 +OD -> Air -0.407752
71 +Supp -> Med -0.519051
72 +Gtype -> Med -0.520149
73 +Gtype -> O -0.569447
74 +O -> Air -0.679735
75 +Phase -> OD -0.846881
76 +Substrain -> O -1.190575
77 +Technique -> Gtype -1.334054
78 +Med -> Supp -1.751616
79 +
80 +
81 +Top unlikely transitions:
82 +Temp -> Temp 5.770024
83 +Agit -> Agit 5.591940
84 +Med -> Med 5.238745
85 +OD -> OD 5.208128
86 +Supp -> Supp 5.009566
87 +Anti -> Anti 4.435661
88 +Phase -> Phase 4.266553
89 +Air -> Air 4.183832
90 +Gversion -> Gversion 4.181832
91 +Gtype -> Gtype 4.159817
92 +O -> O 4.029919
93 +Technique -> Technique 3.397241
94 +pH -> pH 2.835139
95 +Substrain -> Gtype 1.746378
96 +Gtype -> Supp 1.354961
97 +Air -> O 1.123193
98 +O -> Technique 0.956245
99 +O -> Supp 0.860304
100 +Technique -> Air 0.720188
101 +Gtype -> Air 0.705752
102 +Supp -> O 0.675087
103 +Med -> O 0.607714
104 +O -> Gtype 0.602507
105 +Temp -> O 0.586988
106 +Gtype -> pH 0.132889
107 +O -> Phase 0.103874
108 +O -> Anti 0.059111
109 +O -> Med 0.043976
110 +O -> Temp 0.037475
111 +Phase -> O 0.007325
112 +OD -> O 0.001147
113 +Temp -> Med -0.004820
114 +O -> OD -0.007911
115 +Air -> Agit -0.018394
116 +Technique -> O -0.037749
117 +Air -> Supp -0.052877
118 +Supp -> Gtype -0.118891
119 +Gtype -> Technique -0.146943
120 +Air -> Gtype -0.162470
121 +OD -> Air -0.407752
122 +Supp -> Med -0.519051
123 +Gtype -> Med -0.520149
124 +Gtype -> O -0.569447
125 +O -> Air -0.679735
126 +Phase -> OD -0.846881
127 +Substrain -> O -1.190575
128 +Technique -> Gtype -1.334054
129 +Med -> Supp -1.751616
130 +
131 +
132 +Top positive:
133 +6.295982 O b'lemma:2'
134 +6.088107 O b'lemma:1'
135 +5.499374 Phase b'lemma:mid-log'
136 +5.468207 Anti b'-2:lemma:antibody'
137 +5.389740 O b'-2:lemma:_'
138 +5.310900 O b'lemma:_'
139 +5.124562 Air b'lemma:anaerobic'
140 +5.038711 Gtype b'lemma:wt'
141 +4.975908 Supp b'lemma:pq'
142 +4.858798 O b'lemma:3'
143 +4.706721 Technique b'lemma:chipseq'
144 +4.694852 Air b'lemma:Aerobic'
145 +4.682998 Gtype b'lemma:type'
146 +4.617298 O b'postag:IN'
147 +4.544190 O b'-2:lemma:flagtag'
148 +4.540916 Technique b'lemma:ChIP-exo'
149 +4.378201 Gtype b'lemma:\xce\xb4cra'
150 +4.141678 Air b'lemma:aerobic'
151 +4.102798 Gtype b'lemma:\xe2\x88\x86'
152 +4.083658 Gtype b'+1:lemma:type'
153 +4.039276 Med b'lemma:MOPS'
154 +3.938693 Technique b'lemma:rna-seq'
155 +3.794686 O b'lemma:rpob'
156 +3.792227 O b'-1:lemma:ChIP-exo'
157 +3.784855 O b'lemma:-'
158 +3.774100 O b'lemma:b'
159 +3.764975 Supp b'lemma:acetate'
160 +3.691796 Gtype b'-2:lemma:genotype/variation'
161 +3.672526 Supp b'lemma:Iron'
162 +3.672526 Supp b'-2:lemma:Anaerobic'
163 +3.617838 Technique b'lemma:chip-seq'
164 +3.604759 Supp b'lemma:no3'
165 +3.568114 Supp b'lemma:nacl'
166 +3.558608 Phase b'-2:lemma:phase'
167 +3.526017 O b'lemma:.'
168 +3.526017 O b'postag:.'
169 +3.449878 Gtype b'-1:lemma:\xe2\x88\x86'
170 +3.446438 Supp b'lemma:glucose'
171 +3.403359 Med b'lemma:lb'
172 +3.365642 Gtype b'lemma:wild-type'
173 +3.350130 Air b'postag:RB'
174 +3.342253 O b'+2:lemma:\xc2\xb0c'
175 +3.335770 Supp b'lemma:nh4cl'
176 +3.326472 O b'lemma:Cra'
177 +3.318880 Gtype b'lemma:\xce\xb4fur'
178 +3.295001 O b'postag:CC'
179 +3.262632 O b'postag:VBN'
180 +3.206029 O b'lemma:a'
181 +3.195357 Gtype b'-2:lemma:genotype'
182 +3.193335 Technique b'+2:lemma:ph5'
183 +3.187683 O b'postag::'
184 +3.127353 Gtype b'lemma:flag-tag'
185 +3.127353 Gtype b'-1:lemma:c-terminal'
186 +3.121057 Supp b'lemma:nitrate'
187 +3.112065 Gtype b'lemma:\xce\xb4soxr'
188 +3.087827 Substrain b'lemma:mg1655'
189 +3.047270 Supp b'+2:lemma:iptg'
190 +3.025373 Supp b'-1:lemma:Cra'
191 +2.966835 Air b'-1:lemma:ChIP-Seq'
192 +2.963423 Supp b'-1:lemma:with'
193 +2.920292 Gtype b'lemma:dfnr'
194 +2.878192 O b'lemma:with'
195 +2.811966 O b'+1:lemma:arca-8myc'
196 +2.806521 O b'-2:lemma:medium'
197 +2.792197 Gtype b'-2:lemma:affyexp'
198 +2.777524 Gversion b'lemma:chip-seq'
199 +2.764298 Technique b'lemma:rnaseq'
200 +2.751592 O b'-1:lemma:tag'
201 +2.744091 Air b'-2:lemma:IP'
202 +2.741300 Supp b'+1:lemma:1'
203 +2.735516 O b'lemma:CEL'
204 +2.729762 O b'lemma:rep2'
205 +2.702452 Med b'lemma:m63'
206 +2.699796 O b'lemma:harbor'
207 +2.669950 Supp b'lemma:arginine'
208 +2.661545 O b'-1:lemma:0.3'
209 +2.602799 Gtype b'+1:lemma:with'
210 +2.599935 O b'-1:lemma:\xc2\xb0c'
211 +2.587031 Technique b'lemma:ChIP-Seq'
212 +2.568848 Gtype b'-2:lemma:delta'
213 +2.543114 Gtype b'lemma:nsrr'
214 +2.539452 Substrain b'-2:lemma:substr'
215 +2.534370 O b'postag:DT'
216 +2.513411 Gtype b'lemma:pk4854'
217 +2.512728 O b'lemma:chip'
218 +2.505650 O b'+1:postag:RB'
219 +2.493029 Temp b'-2:lemma:\xcf\x8332'
220 +2.454541 Anti b'+1:lemma:antibody'
221 +2.447213 Anti b'+2:lemma:antibody'
222 +2.436325 Gtype b'-1:lemma:rpob'
223 +2.430821 pH b'lemma:ph5'
224 +2.430821 pH b'+1:lemma:.5'
225 +2.411045 O b'postag:VBG'
226 +2.347885 Supp b'-2:lemma:media'
227 +2.345716 pH b'+1:postag:CD'
228 +2.342949 Technique b'-2:lemma:Fur'
229 +2.340323 O b'-1:lemma:glucose'
230 +2.326562 O b'-1:lemma:lb'
231 +2.318033 Gtype b'+1:lemma:ph5'
232 +2.318033 Gtype b'+2:lemma:.5'
233 +2.312502 Temp b'lemma:43'
234 +2.307908 Supp b'lemma:Leu'
235 +2.307908 Supp b'-2:lemma:Lrp'
236 +2.283291 O b'-1:lemma:media'
237 +2.278223 Gtype b'lemma:\xce\xb4oxyr'
238 +2.277778 Air b'-1:lemma:-'
239 +2.269087 Substrain b'+1:lemma:phtpg'
240 +2.262780 Supp b'-2:lemma:agent'
241 +2.259842 Temp b'-1:lemma:43'
242 +2.259677 O b'lemma:ompr'
243 +2.241905 Supp b'lemma:Adenine'
244 +2.238893 Gtype b'lemma:\xce\xb4ompr'
245 +2.238698 Supp b'+1:lemma:\xc2\xb5m'
246 +2.212658 Med b'+2:lemma:b2'
247 +2.198189 O b'-2:lemma:myc'
248 +2.163443 Phase b'lemma:exponential'
249 +2.163443 Phase b'lemma:stationary'
250 +2.159726 O b'+1:postag:NNP'
251 +2.156490 Phase b'-1:lemma:mid-log'
252 +2.151371 Gversion b'lemma:.2'
253 +2.151371 Gversion b'-1:lemma:u00096'
254 +2.140308 O b'-1:lemma:type'
255 +2.138372 O b'lemma:ml'
256 +2.128755 Med b'+2:postag:CC'
257 +2.123732 Technique b'-1:lemma:chip-exo'
258 +2.118518 Technique b'-1:lemma:IP'
259 +2.117337 Strain b'+1:lemma:substr'
260 +2.117337 Strain b'-2:lemma:str'
261 +2.099392 Agit b'lemma:rpm'
262 +2.096807 Supp b'+1:lemma:2'
263 +2.096794 Strain b'lemma:k-12'
264 +2.091407 O b'+2:lemma:cra'
265 +2.063564 O b'lemma:\xcf\x8332'
266 +2.050789 Supp b'lemma:rifampicin'
267 +2.049024 Gversion b'lemma:nc'
268 +2.033164 O b'+1:lemma:pq'
269 +2.013358 Temp b'-1:lemma:\xcf\x8332'
270 +1.966874 Temp b'+1:lemma:\xc2\xb0c'
271 +1.966521 O b'-1:lemma:anaerobic'
272 +1.957027 O b'lemma:culture'
273 +1.952247 O b'-2:lemma:min'
274 +1.929194 O b'+1:lemma:condition'
275 +1.923035 Supp b'-1:postag:CC'
276 +1.911344 Temp b'lemma:\xc2\xb0c'
277 +1.902035 Gversion b'+2:lemma:000913'
278 +1.892926 Technique b'-1:lemma:input'
279 +1.877608 Supp b'lemma:fructose'
280 +1.876135 O b'+1:lemma:250'
281 +1.868225 O b'lemma:Custom'
282 +1.867543 Air b'lemma:anaeroibc'
283 +1.865515 O b'+2:postag:JJ'
284 +1.861583 Supp b'-1:lemma:+'
285 +1.856696 O b'lemma:s'
286 +1.856578 Supp b'+1:lemma:_'
287 +1.851722 Gversion b'lemma:u00096'
288 +1.851722 Gversion b'+1:lemma:.2'
289 +1.838273 Phase b'lemma:phase'
290 +1.825249 Med b'lemma:broth'
291 +1.825249 Med b'-1:lemma:L'
292 +1.817848 O b'+1:lemma:coli'
293 +1.805545 Med b'+1:lemma:0.4'
294 +1.803317 O b'-1:lemma:into'
295 +1.801603 Agit b'+1:lemma:rpm'
296 +1.799565 Gtype b'-1:postag:VBG'
297 +1.796090 Supp b'+2:lemma:rifampicin'
298 +1.784603 O b'+1:lemma:chip-seq'
299 +1.777806 Med b'lemma:media'
300 +1.769076 O b'lemma:trpr'
301 +1.768678 Gtype b'lemma:ptac'
302 +1.760760 Gtype b'+1:lemma:flagtag'
303 +1.757550 Gversion b'-2:lemma:nc'
304 +1.745784 O b'lemma:soxs'
305 +1.745784 O b'lemma:soxr'
306 +1.739107 O b'-2:lemma:~'
307 +1.736949 Med b'+2:lemma:b1'
308 +1.736832 OD b'+1:lemma:of'
309 +1.735882 O b'postag:NNS'
310 +1.709175 O b'+2:lemma:70'
311 +1.708616 O b'postag:VBD'
312 +1.705680 O b'-1:lemma:aerobically'
313 +1.700488 O b'lemma:argr'
314 +1.696537 Temp b'-1:lemma:sample'
315 +1.694740 O b'+1:lemma:acetate'
316 +1.690209 O b'lemma:affyexp'
317 +1.689269 Med b'lemma:minimal'
318 +1.687607 Agit b'+2:lemma:at'
319 +1.683096 O b'lemma:purr'
320 +1.680453 Gversion b'-2:lemma:build'
321 +1.674723 O b'+2:lemma:fructose'
322 +1.673798 Vess b'lemma:flask'
323 +1.673798 Vess b'-1:lemma:warm'
324 +1.673798 Vess b'-2:lemma:pre'
325 +1.673798 Vess b'+2:lemma:43'
326 +1.671743 O b'-1:lemma:Aerobic'
327 +1.670303 O b'+2:lemma:polyclonal'
328 +1.644434 O b'+1:lemma:wt'
329 +1.641217 Gtype b'+2:lemma:glucose'
330 +1.620167 O b'lemma:genotype/variation'
331 +1.613899 Air b'lemma:aerobically'
332 +1.603327 Temp b'-1:lemma:37'
333 +
334 +
335 +Top negative:
336 +-0.098715 O b'-1:lemma:g/l'
337 +-0.098977 O b'+2:lemma:0.2'
338 +-0.099326 O b'lemma:m63'
339 +-0.099882 O b'-1:lemma:rifampicin'
340 +-0.106371 O b'-1:lemma:37'
341 +-0.107922 Med b'-1:postag:CD'
342 +-0.110064 O b'-2:lemma:-lrb-'
343 +-0.117142 O b'+1:lemma:of'
344 +-0.123918 Supp b'+2:lemma:.'
345 +-0.123918 Supp b'+2:postag:.'
346 +-0.131710 O b'+1:lemma:culture'
347 +-0.132661 O b'+1:postag:-LRB-'
348 +-0.136103 O b'+1:lemma:95'
349 +-0.137008 Technique b'-1:postag::'
350 +-0.138812 O b'-1:lemma:final'
351 +-0.138847 O b'lemma:7.6'
352 +-0.138847 O b'+1:lemma:;'
353 +-0.139546 Supp b'+1:lemma:-rrb-'
354 +-0.140317 Supp b'+2:lemma:dpd'
355 +-0.142690 O b'postag:RB'
356 +-0.143532 O b'lemma:;'
357 +-0.143532 O b'-1:lemma:7.6'
358 +-0.144217 O b'+2:lemma:reference'
359 +-0.145656 Temp b'-2:postag:NN'
360 +-0.146454 O b'lemma:anaerobic'
361 +-0.147525 Air b'-1:postag:JJ'
362 +-0.149095 O b'-1:lemma:0.2'
363 +-0.151176 O b'-1:lemma:contain'
364 +-0.151476 Air b'+2:postag:IN'
365 +-0.152942 O b'+1:lemma:fecl2'
366 +-0.154443 Med b'postag:CD'
367 +-0.158960 Supp b'-1:lemma:-lrb-'
368 +-0.169851 Med b'-1:postag:NN'
369 +-0.176135 OD b'postag:NN'
370 +-0.178701 Supp b'-1:postag:-LRB-'
371 +-0.180805 O b'lemma:methanol'
372 +-0.180805 O b'-2:lemma:dissolve'
373 +-0.182601 Supp b'+2:lemma:glucose'
374 +-0.185072 Supp b'postag:CC'
375 +-0.189120 O b'+2:lemma:-rrb-'
376 +-0.192885 O b'+1:lemma:dissolve'
377 +-0.199989 O b'-1:lemma:1m'
378 +-0.199989 O b'+2:lemma:7.6'
379 +-0.201669 O b'-2:lemma:nh4cl'
380 +-0.201904 O b'-2:lemma:the'
381 +-0.202079 O b'-1:lemma:of'
382 +-0.202589 Supp b'+1:lemma:acetate'
383 +-0.204371 Supp b'+1:lemma:rifampicin'
384 +-0.207950 Gtype b'-2:postag:CD'
385 +-0.215109 O b'-1:lemma:iptg'
386 +-0.217533 O b'lemma:nitrogen'
387 +-0.221912 O b'lemma:37'
388 +-0.229060 O b'-1:lemma:n2'
389 +-0.236563 Air b'-2:postag:CC'
390 +-0.241693 O b'-2:lemma:IP'
391 +-0.248054 O b'-2:lemma:aerobically'
392 +-0.248583 Med b'+1:postag:NN'
393 +-0.249693 Phase b'+1:postag:NN'
394 +-0.251280 O b'+2:lemma:tag'
395 +-0.260336 O b'+1:lemma:10'
396 +-0.266374 O b'-1:lemma:until'
397 +-0.269589 O b'lemma:ph'
398 +-0.275513 O b'-1:lemma:dfnr'
399 +-0.277525 Supp b'+1:postag:VBN'
400 +-0.277770 O b'-1:lemma:fresh'
401 +-0.287656 O b'+2:lemma:250'
402 +-0.295216 O b'lemma:nh4cl'
403 +-0.296463 O b'-2:lemma:mm'
404 +-0.296923 O b'lemma:\xe2\x88\x86'
405 +-0.301390 O b'-1:postag:IN'
406 +-0.303644 O b'+1:postag:IN'
407 +-0.305259 O b'lemma:fecl2'
408 +-0.310628 Gtype b'-1:postag:NN'
409 +-0.311296 O b'lemma:k-12'
410 +-0.316958 O b'+1:lemma:%'
411 +-0.317571 O b'+2:lemma:.'
412 +-0.317571 O b'+2:postag:.'
413 +-0.317988 Phase b'-2:postag:NN'
414 +-0.321822 O b'lemma:minimal'
415 +-0.322289 O b'-1:lemma:minimal'
416 +-0.322560 O b'-2:lemma:genome'
417 +-0.332944 O b'-2:postag::'
418 +-0.333295 O b'lemma:dissolve'
419 +-0.333295 O b'+2:lemma:methanol'
420 +-0.338620 O b'-2:lemma:anaerobically'
421 +-0.345174 O b'-1:postag::'
422 +-0.363808 Gtype b'-2:lemma:\xe2\x88\x86'
423 +-0.382684 O b'-2:lemma:rpob'
424 +-0.387944 Supp b'+1:postag:-RRB-'
425 +-0.394192 O b'-2:lemma:fresh'
426 +-0.395680 O b'+1:lemma:minimal'
427 +-0.396198 O b'-2:lemma:phase'
428 +-0.398092 O b'-2:lemma:dpd'
429 +-0.402236 Supp b'+2:lemma:-rrb-'
430 +-0.410787 O b'+1:lemma:1m'
431 +-0.410787 O b'-2:lemma:vol'
432 +-0.419351 O b'-1:lemma:cra'
433 +-0.439916 Med b'+1:postag:IN'
434 +-0.447763 Supp b'+2:postag:-RRB-'
435 +-0.451257 O b'-2:lemma:until'
436 +-0.454676 Supp b'-2:lemma:treat'
437 +-0.461514 Supp b'+1:postag:NNS'
438 +-0.473439 O b'+2:lemma:at'
439 +-0.489525 Supp b'-2:postag:NNS'
440 +-0.490480 O b'-2:lemma:a'
441 +-0.491484 Supp b'+1:lemma:,'
442 +-0.491484 Supp b'+1:postag:,'
443 +-0.497187 O b'lemma:aerobically'
444 +-0.503626 Supp b'-1:postag:NNP'
445 +-0.509023 Supp b'lemma:10'
446 +-0.516721 O b'+1:lemma:+'
447 +-0.521588 O b'lemma:nitrate'
448 +-0.522828 O b'-2:lemma::'
449 +-0.525160 O b'+1:lemma:g/l'
450 +-0.528490 O b'+1:lemma:supplement'
451 +-0.536875 Anti b'+2:postag:JJ'
452 +-0.541770 O b'-1:lemma:ml'
453 +-0.549347 O b'+1:lemma:mm'
454 +-0.554922 O b'-1:lemma:rpob'
455 +-0.555832 O b'-1:lemma:dissolve'
456 +-0.555832 O b'+1:lemma:methanol'
457 +-0.556682 O b'+1:postag:VBG'
458 +-0.560238 O b'-1:lemma:co2'
459 +-0.588187 O b'+2:lemma:a'
460 +-0.589107 Anti b'+1:lemma:anti-fur'
461 +-0.592147 Med b'-2:postag:VBN'
462 +-0.594320 O b'-2:lemma:2'
463 +-0.596090 O b'+2:lemma:add'
464 +-0.599346 O b'-2:lemma:supplement'
465 +-0.602638 pH b'postag:NN'
466 +-0.603217 O b'-2:lemma:glucose'
467 +-0.605916 O b'lemma:mid-log'
468 +-0.609002 O b'+2:lemma:10'
469 +-0.610140 O b'-1:lemma:mm'
470 +-0.614692 Supp b'+1:lemma:-lrb-'
471 +-0.622267 Med b'+2:postag:VBN'
472 +-0.631151 O b'-1:lemma:vol'
473 +-0.631151 O b'-2:lemma:1/100'
474 +-0.631151 O b'+2:lemma:1m'
475 +-0.635308 O b'-2:lemma:media'
476 +-0.643298 Supp b'+1:postag:-LRB-'
477 +-0.667302 O b'-1:lemma:grow'
478 +-0.675604 O b'lemma:anaerobically'
479 +-0.678285 O b'postag:VBP'
480 +-0.712921 O b'-2:postag:DT'
481 +-0.743302 O b'-2:postag:RB'
482 +-0.797815 O b'-1:lemma:2'
483 +-0.803294 Supp b'-2:postag:JJ'
484 +-0.804094 O b'lemma:wt'
485 +-0.827192 O b'+2:lemma:+'
486 +-0.827898 O b'+1:lemma:until'
487 +-0.831996 O b'+2:lemma:mid-log'
488 +-0.837044 O b'lemma:2h'
489 +-0.837044 O b'-1:lemma:additional'
490 +-0.853094 O b'lemma:of'
491 +-0.881861 O b'lemma:aerobic'
492 +-0.919135 O b'-1:lemma:30'
493 +-0.952995 Air b'postag:NN'
494 +-0.973697 O b'+2:postag:-RRB-'
495 +-0.983024 Air b'+1:postag:JJ'
496 +-1.013906 O b'+2:lemma:fnr'
497 +-1.021974 O b'-2:postag:SYM'
498 +-1.037571 O b'+2:lemma:then'
499 +-1.048639 Med b'-2:lemma:grow'
500 +-1.054249 O b'lemma:media'
501 +-1.064365 Temp b'postag:NN'
502 +-1.088097 O b'-1:lemma:nsrr'
503 +-1.141026 Phase b'-1:postag:JJ'
504 +-1.155260 O b'+2:lemma:b'
505 +-1.165858 O b'-2:lemma:0.3'
506 +-1.175657 O b'-1:lemma:ph'
507 +-1.186408 O b'lemma:\xce\xb4fur'
508 +-1.229030 O b'+1:lemma:in'
509 +-1.249314 O b'+1:lemma:at'
510 +-1.257039 O b'lemma:rifampicin'
511 +-1.261781 Gtype b'+2:lemma:cra'
512 +-1.267291 O b'+1:lemma:2.0'
513 +-1.293131 O b'-2:lemma:rifampicin'
514 +-1.297426 O b'-1:lemma:sample'
515 +-1.317920 Phase b'postag:JJ'
516 +-1.321832 O b'-1:lemma:1'
517 +-1.346398 OD b'+2:lemma:aerobically'
518 +-1.353123 Supp b'+2:lemma:2'
519 +-1.353839 OD b'+1:postag:NN'
520 +-1.379126 Anti b'+2:lemma:polyclonal'
521 +-1.433804 O b'+2:lemma:rifampicin'
522 +-1.437034 Supp b'+2:postag:CD'
523 +-1.439161 Supp b'+2:lemma:1'
524 +-1.489609 Supp b'+2:lemma:fructose'
525 +-1.512780 O b'lemma:30'
526 +-1.553364 Supp b'postag:JJ'
527 +-1.601724 O b'-1:postag:VBG'
528 +-1.789724 O b'-1:lemma:IP'
529 +-1.863826 Gtype b'postag:VBG'
530 +-2.000634 Anti b'postag:NNP'
531 +-2.029905 O b'lemma:0.3'
532 +-2.144948 O b'+1:lemma:1'
533 +-2.735063 O b'+1:lemma:2'
534 +-3.945319 O b'-1:lemma::'
535 +-4.420879 O b'-1:lemma:_'
536 +
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.10611954839898095, 'c2': 0.006346156532999689}
5 -best CV score:0.8029791834815372
6 -model size: 0.09M
7 -
8 -Flat F1: 0.811550814808516
9 - precision recall f1-score support
10 -
11 - OD 0.652 0.405 0.500 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.875 0.955 0.913 22
14 - Med 1.000 0.842 0.914 57
15 - Temp 0.800 0.889 0.842 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.842 0.914 19
19 - Air 0.804 0.726 0.763 62
20 - Anti 1.000 1.000 1.000 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.935 0.811 0.869 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.831 0.721 0.772 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.870 0.765 0.812 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.951338
32 -OD -> OD 6.384899
33 -Temp -> Temp 6.191832
34 -Med -> Med 5.660137
35 -Anti -> Anti 5.222338
36 -Supp -> Supp 4.948395
37 -Gversion -> Gversion 4.779316
38 -Air -> Air 4.661973
39 -Phase -> Phase 4.585606
40 -O -> O 4.523040
41 -Gtype -> Gtype 4.374544
42 -Technique -> Technique 3.916776
43 -pH -> pH 2.762443
44 -Gtype -> Supp 1.647453
45 -Substrain -> Gtype 1.438721
46 -O -> Supp 1.197603
47 -O -> Technique 1.047286
48 -Technique -> Air 0.678619
49 -Air -> O 0.635169
50 -O -> Gtype 0.582793
51 -O -> Anti 0.576502
52 -Gtype -> Air 0.400088
53 -Med -> O 0.380660
54 -O -> Temp 0.322992
55 -Temp -> O 0.199442
56 -Phase -> O 0.150624
57 -O -> Gversion 0.126987
58 -Supp -> O 0.120279
59 -O -> Med 0.081702
60 -OD -> Phase 0.004611
61 -Gtype -> pH 0.003342
62 -O -> Phase -0.018492
63 -Supp -> Gtype -0.099455
64 -Technique -> O -0.160718
65 -O -> OD -0.177350
66 -Gtype -> O -0.254968
67 -OD -> Air -0.399166
68 -Technique -> Gtype -0.518986
69 -Gtype -> OD -0.674743
70 -O -> Air -0.909565
71 -OD -> O -1.026695
72 -Agit -> O -1.193723
73 -Substrain -> O -1.417707
74 -Phase -> OD -1.598916
75 -Med -> Supp -2.026822
76 -
77 -
78 -Top unlikely transitions:
79 -Agit -> Agit 6.951338
80 -OD -> OD 6.384899
81 -Temp -> Temp 6.191832
82 -Med -> Med 5.660137
83 -Anti -> Anti 5.222338
84 -Supp -> Supp 4.948395
85 -Gversion -> Gversion 4.779316
86 -Air -> Air 4.661973
87 -Phase -> Phase 4.585606
88 -O -> O 4.523040
89 -Gtype -> Gtype 4.374544
90 -Technique -> Technique 3.916776
91 -pH -> pH 2.762443
92 -Gtype -> Supp 1.647453
93 -Substrain -> Gtype 1.438721
94 -O -> Supp 1.197603
95 -O -> Technique 1.047286
96 -Technique -> Air 0.678619
97 -Air -> O 0.635169
98 -O -> Gtype 0.582793
99 -O -> Anti 0.576502
100 -Gtype -> Air 0.400088
101 -Med -> O 0.380660
102 -O -> Temp 0.322992
103 -Temp -> O 0.199442
104 -Phase -> O 0.150624
105 -O -> Gversion 0.126987
106 -Supp -> O 0.120279
107 -O -> Med 0.081702
108 -OD -> Phase 0.004611
109 -Gtype -> pH 0.003342
110 -O -> Phase -0.018492
111 -Supp -> Gtype -0.099455
112 -Technique -> O -0.160718
113 -O -> OD -0.177350
114 -Gtype -> O -0.254968
115 -OD -> Air -0.399166
116 -Technique -> Gtype -0.518986
117 -Gtype -> OD -0.674743
118 -O -> Air -0.909565
119 -OD -> O -1.026695
120 -Agit -> O -1.193723
121 -Substrain -> O -1.417707
122 -Phase -> OD -1.598916
123 -Med -> Supp -2.026822
124 -
125 -
126 -Top positive:
127 -8.202551 O b'lemma:1'
128 -8.081205 Supp b'lemma:nitrate'
129 -7.724034 Phase b'lemma:stationary'
130 -7.139079 O b'-2:lemma:_'
131 -7.113779 O b'lemma:rpob'
132 -7.039754 Air b'lemma:aerobic'
133 -6.838389 Air b'lemma:anaerobic'
134 -6.715520 O b'lemma:2'
135 -6.343991 O b'lemma:3'
136 -6.130545 Technique b'lemma:ChIP-exo'
137 -5.730880 Gtype b'lemma:type'
138 -5.677171 Supp b'lemma:no3'
139 -5.464025 Supp b'lemma:pq'
140 -5.438992 Strain b'lemma:k-12'
141 -5.409079 Med b'lemma:MOPS'
142 -5.383170 Gtype b'-2:lemma:genotype/variation'
143 -5.364773 Technique b'lemma:chipseq'
144 -5.303901 Phase b'lemma:mid-log'
145 -5.273251 Substrain b'lemma:mg1655'
146 -5.262924 Anti b'-2:lemma:antibody'
147 -5.234508 O b'-1:lemma:ChIP-exo'
148 -5.167882 O b'lemma:_'
149 -5.116022 O b'+2:lemma:\xc2\xb0c'
150 -5.083422 Air b'lemma:Aerobic'
151 -4.942311 Gtype b'lemma:\xce\xb4cra'
152 -4.924649 Supp b'lemma:nh4cl'
153 -4.774563 O b'lemma:b'
154 -4.709841 O b'postag:IN'
155 -4.702565 Supp b'+1:lemma:\xc2\xb5m'
156 -4.687035 Gtype b'-1:lemma:\xe2\x88\x86'
157 -4.643920 Technique b'lemma:rna-seq'
158 -4.637975 Technique b'lemma:chip-seq'
159 -4.607255 Gtype b'+1:lemma:type'
160 -4.457411 OD b'lemma:od450'
161 -4.452366 O b'-2:lemma:flagtag'
162 -4.351257 O b'+2:lemma:fructose'
163 -4.305727 Supp b'lemma:Iron'
164 -4.305727 Supp b'-2:lemma:Anaerobic'
165 -4.270637 Med b'lemma:LB'
166 -4.264041 Gtype b'lemma:wt'
167 -4.196120 OD b'lemma:od600'
168 -4.164218 Supp b'lemma:acetate'
169 -4.136757 O b'lemma:-'
170 -4.109668 Med b'lemma:lb'
171 -4.038024 O b'lemma:.'
172 -4.038024 O b'postag:.'
173 -4.011633 O b'lemma:a'
174 -4.001990 Gversion b'lemma:chip-seq'
175 -3.980816 O b'lemma:Cra'
176 -3.888163 O b'+1:postag:RB'
177 -3.882391 Gtype b'-2:lemma:genotype'
178 -3.870554 O b'lemma:rep1'
179 -3.786732 O b'-1:lemma:tag'
180 -3.784821 Gtype b'lemma:flag-tag'
181 -3.784821 Gtype b'-1:lemma:c-terminal'
182 -3.784385 Gtype b'-2:lemma:affyexp'
183 -3.777053 Gtype b'lemma:\xe2\x88\x86'
184 -3.728794 O b'+2:lemma:cra'
185 -3.679265 Gtype b'lemma:\xce\xb4fur'
186 -3.669557 Gtype b'-2:lemma:delta'
187 -3.559327 Supp b'lemma:glucose'
188 -3.549105 Gtype b'lemma:nsrr'
189 -3.543860 Supp b'lemma:iptg'
190 -3.508675 Supp b'lemma:arginine'
191 -3.463556 O b'lemma:Custom'
192 -3.436560 O b'-1:lemma:media'
193 -3.426544 O b'-2:lemma:myc'
194 -3.416590 O b'lemma:oxyr'
195 -3.416144 O b'postag:VBN'
196 -3.379211 Air b'-1:lemma:ChIP-Seq'
197 -3.361106 O b'postag::'
198 -3.327937 O b'lemma:culture'
199 -3.281566 Air b'-2:lemma:IP'
200 -3.243630 Gtype b'+1:lemma:with'
201 -3.233953 Supp b'-2:lemma:purr'
202 -3.177625 Supp b'-1:lemma:Cra'
203 -3.154838 Supp b'lemma:Fe'
204 -3.106755 Gtype b'lemma:\xce\xb4ompr'
205 -3.091806 Technique b'+2:lemma:ph5'
206 -3.085874 Supp b'+1:lemma:1'
207 -3.076198 Technique b'lemma:rnaseq'
208 -3.067570 O b'lemma:purr'
209 -3.056379 O b'+1:postag:VBP'
210 -2.992692 Med b'+2:lemma:b2'
211 -2.989554 Supp b'lemma:nacl'
212 -2.977780 O b'lemma:rep2'
213 -2.962704 O b'-1:lemma:0.3'
214 -2.933202 Supp b'lemma:fructose'
215 -2.929584 Temp b'-1:lemma:sample'
216 -2.914017 pH b'lemma:ph5'
217 -2.914017 pH b'+1:lemma:.5'
218 -2.909617 O b'lemma:CEL'
219 -2.897129 Supp b'+1:lemma:_'
220 -2.888676 O b'-2:lemma:~'
221 -2.886570 Supp b'+1:lemma:2'
222 -2.868631 Technique b'lemma:ChIP-Seq'
223 -2.863602 Supp b'lemma:rifampicin'
224 -2.844607 O b'-1:lemma:type'
225 -2.822375 O b'lemma:argr'
226 -2.738012 O b'lemma:Lrp'
227 -2.736527 Supp b'-2:lemma:shake'
228 -2.722390 O b'-1:lemma:anaerobic'
229 -2.722131 Technique b'-2:lemma:Fur'
230 -2.717816 Gtype b'-1:lemma:rpob'
231 -2.702398 O b'-1:lemma:\xc2\xb0c'
232 -2.697548 Gtype b'-1:lemma:ptac'
233 -2.686027 Gtype b'lemma:\xce\xb4soxs'
234 -2.672826 O b'-2:lemma:ChIP-Seq'
235 -2.652232 O b'lemma:s'
236 -2.640574 Temp b'lemma:43'
237 -2.616265 O b'-1:lemma:glucose'
238 -2.604674 O b'-2:lemma:fructose'
239 -2.596037 Gversion b'lemma:.2'
240 -2.596037 Gversion b'-1:lemma:u00096'
241 -2.593526 Supp b'+2:lemma:rifampicin'
242 -2.593425 O b'+2:lemma:chipseq'
243 -2.574956 O b'lemma:soxs'
244 -2.574956 O b'lemma:soxr'
245 -2.572085 O b'lemma:\xcf\x8332'
246 -2.560311 pH b'lemma:.5'
247 -2.560311 pH b'-1:lemma:ph5'
248 -2.558026 Anti b'+1:lemma:antibody'
249 -2.548716 O b'+1:lemma:chip-seq'
250 -2.547807 O b'+2:lemma:polyclonal'
251 -2.547779 O b'postag:DT'
252 -2.547476 Gtype b'lemma:wild-type'
253 -2.542568 Gtype b'lemma:ptac'
254 -2.496299 Temp b'-1:lemma:\xcf\x8332'
255 -2.482714 O b'lemma:condition'
256 -2.450763 Supp b'lemma:dpd'
257 -2.436790 OD b'lemma:0.3'
258 -2.432687 Gtype b'lemma:dfnr'
259 -2.425186 O b'lemma:affyexp'
260 -2.402512 OD b'+1:lemma:stationary'
261 -2.396707 O b'+1:postag:NNP'
262 -2.395525 O b'-1:lemma:Aerobic'
263 -2.390930 O b'lemma:chip'
264 -2.365269 Med b'+2:lemma:with'
265 -2.349317 O b'+1:lemma:condition'
266 -2.347569 Med b'+2:lemma:b1'
267 -2.323852 Gtype b'+1:lemma:flagtag'
268 -2.285051 Air b'-2:postag:SYM'
269 -2.270519 Med b'+1:lemma:0.4'
270 -2.267409 Air b'postag:RB'
271 -2.227138 Med b'lemma:m63'
272 -2.221466 Supp b'-2:lemma:Lrp'
273 -2.211681 Gtype b'lemma:\xce\xb4soxr'
274 -2.198402 Technique b'-1:lemma:IP'
275 -2.191991 Temp b'-1:lemma:43'
276 -2.190945 Technique b'-1:lemma:chip-exo'
277 -2.177040 Technique b'-1:lemma:input'
278 -2.164912 O b'lemma:ompr'
279 -2.159564 Supp b'+2:lemma:for'
280 -2.147969 Gversion b'-2:lemma:build'
281 -2.138399 Supp b'-1:lemma:with'
282 -2.130975 Gversion b'lemma:u00096'
283 -2.130975 Gversion b'+1:lemma:.2'
284 -2.116889 Air b'+2:lemma:L'
285 -2.109271 O b'+1:lemma:anti-fur'
286 -2.094403 Phase b'-2:lemma:phase'
287 -2.088072 Anti b'+2:lemma:antibody'
288 -2.069606 Temp b'-1:lemma:37'
289 -2.062716 OD b'+2:lemma:stationary'
290 -2.062298 Supp b'-2:lemma:supplement'
291 -2.054041 Temp b'lemma:\xc2\xb0c'
292 -2.051199 Supp b'lemma:20'
293 -2.046096 Med b'+1:lemma:g/l'
294 -2.033023 Temp b'lemma:37'
295 -2.031219 Gversion b'lemma:nc'
296 -2.026359 Phase b'-1:lemma:mid-log'
297 -2.022551 Temp b'-2:lemma:\xcf\x8332'
298 -2.021988 O b'postag:CC'
299 -2.012689 Med b'-2:lemma:50'
300 -1.995640 O b'lemma:with'
301 -1.988961 Supp b'-2:postag:VBG'
302 -1.987668 Temp b'+1:lemma:\xc2\xb0c'
303 -1.983838 Med b'lemma:media'
304 -1.966093 Gtype b'+1:lemma:ph5'
305 -1.966093 Gtype b'+2:lemma:.5'
306 -1.929947 O b'+1:lemma:od600'
307 -1.925489 Gtype b'+2:lemma:glucose'
308 -1.923491 Gversion b'-2:lemma:nc'
309 -1.919933 O b'-2:lemma:medium'
310 -1.916487 Technique b'+1:lemma:chip-exo'
311 -1.915937 O b'lemma:at'
312 -1.903350 pH b'+1:postag:CD'
313 -1.881335 O b'-2:lemma:co2'
314 -1.880331 Air b'+2:lemma:37'
315 -1.842022 O b'-1:lemma:l1'
316 -1.835960 Gtype b'lemma:arca8myc'
317 -1.835960 Gtype b'-2:lemma:chip-arca'
318 -1.825949 O b'+1:lemma:sparging'
319 -1.820188 O b'lemma:Fur'
320 -1.816501 Med b'postag:NNP'
321 -1.816366 Temp b'-2:lemma:keep'
322 -1.812523 Substrain b'+1:lemma:phtpg'
323 -1.806914 Med b'lemma:glucose'
324 -1.798594 O b'lemma:for'
325 -1.790149 Supp b'-1:lemma:+'
326 -1.786505 O b'-1:lemma:lb'
327 -
328 -
329 -Top negative:
330 --0.056377 O b'+2:lemma:follow'
331 --0.057834 O b'-2:postag:RB'
332 --0.062691 O b'lemma:lb'
333 --0.062694 O b'+2:lemma:co2'
334 --0.063082 Agit b'postag:NN'
335 --0.063895 O b'-2:lemma:stir'
336 --0.066451 O b'+1:lemma:or'
337 --0.069881 Air b'-2:lemma:or'
338 --0.071179 Supp b'+1:postag:-RRB-'
339 --0.073541 O b'+1:lemma:300'
340 --0.076445 OD b'+2:lemma:~'
341 --0.078449 O b'-2:lemma:paraquat'
342 --0.079932 OD b'+1:postag:CC'
343 --0.080336 OD b'lemma:~'
344 --0.082164 O b'-1:lemma:until'
345 --0.087626 O b'+2:lemma:supplement'
346 --0.089622 O b'lemma:e.'
347 --0.092349 O b'-1:lemma:1'
348 --0.093669 O b'lemma:grow'
349 --0.094841 Med b'+1:postag:IN'
350 --0.097229 Supp b'-2:postag:IN'
351 --0.101825 Air b'postag:CD'
352 --0.103517 Anti b'+1:postag:JJ'
353 --0.105803 O b'+2:lemma:od600'
354 --0.108906 O b'lemma:co2'
355 --0.111524 Supp b'-2:postag:VBN'
356 --0.118531 Agit b'-1:postag:NN'
357 --0.120507 O b'-2:lemma:cell'
358 --0.121204 Air b'lemma:70'
359 --0.124675 O b'-1:lemma:0.1'
360 --0.124675 O b'+2:lemma:fecl2'
361 --0.126624 O b'+2:lemma:for'
362 --0.128419 Air b'+1:lemma:70'
363 --0.128789 O b'lemma:150'
364 --0.128789 O b'+1:lemma:mg/ml'
365 --0.128789 O b'-2:lemma:concentration'
366 --0.130352 O b'-2:lemma:nh4cl'
367 --0.132047 O b'+2:lemma:37'
368 --0.135046 O b'-1:postag:VBN'
369 --0.138694 Med b'+2:postag:VBN'
370 --0.138737 O b'lemma:\xc2\xb0c'
371 --0.140991 Gtype b'lemma:_'
372 --0.145854 O b'-1:postag:IN'
373 --0.145950 O b'-2:lemma:genome'
374 --0.147428 O b'+2:lemma:iptg'
375 --0.147810 O b'-1:lemma:cra'
376 --0.155455 Air b'+2:lemma:70'
377 --0.156201 Supp b'lemma:and'
378 --0.158149 O b'+1:postag:JJ'
379 --0.164480 O b'+1:postag:CD'
380 --0.172333 OD b'+1:postag:CD'
381 --0.174063 O b'+2:lemma:.'
382 --0.174063 O b'+2:postag:.'
383 --0.178683 Supp b'+2:lemma:-rrb-'
384 --0.181783 O b'-1:lemma:ml'
385 --0.184867 O b'-2:postag:VBG'
386 --0.187294 O b'+2:lemma:anaerobically'
387 --0.187906 Supp b'-1:postag:NN'
388 --0.188626 Gtype b'-2:postag:IN'
389 --0.197726 O b'-1:postag:-LRB-'
390 --0.198187 O b'-2:lemma:dna'
391 --0.204690 Air b'+2:postag:IN'
392 --0.204920 O b'+2:lemma:cell'
393 --0.225831 O b'lemma:\xce\xb4fur'
394 --0.230974 O b'-1:lemma:um'
395 --0.230974 O b'+1:lemma:paraquat'
396 --0.236573 O b'lemma:of'
397 --0.240385 O b'-1:lemma:iptg'
398 --0.244742 Supp b'+2:postag:-RRB-'
399 --0.251781 O b'-1:lemma:rifampicin'
400 --0.263047 O b'+1:postag:IN'
401 --0.263702 O b'+1:postag:VBG'
402 --0.268568 O b'lemma:20'
403 --0.274794 O b'+2:lemma:add'
404 --0.280223 O b'+2:postag:RB'
405 --0.291400 Supp b'+2:lemma:1'
406 --0.296141 Phase b'-1:postag:NN'
407 --0.297378 O b'-2:lemma:dpd'
408 --0.301496 Phase b'-2:postag:NN'
409 --0.307882 Supp b'-2:lemma:grow'
410 --0.308671 O b'-2:lemma:anaerobically'
411 --0.316370 O b'+1:lemma:mg1655'
412 --0.317713 O b'-2:lemma:until'
413 --0.327378 O b'-1:lemma:from'
414 --0.329280 Med b'-2:lemma:in'
415 --0.331478 O b'+1:lemma:until'
416 --0.343943 O b'lemma:k-12'
417 --0.346692 OD b'+1:postag:NN'
418 --0.347195 Supp b'-1:postag:VBG'
419 --0.348433 O b'+1:lemma:fecl2'
420 --0.348433 O b'-2:lemma:0.1'
421 --0.358964 O b'-2:lemma::'
422 --0.362392 pH b'postag:NN'
423 --0.364550 OD b'lemma:-lrb-'
424 --0.366840 Anti b'+1:lemma:anti-fur'
425 --0.372342 O b'-1:lemma:grow'
426 --0.376200 O b'+2:postag:-RRB-'
427 --0.383946 O b'lemma:od600'
428 --0.387364 Supp b'-2:postag:NN'
429 --0.394053 Anti b'+2:lemma:polyclonal'
430 --0.398869 Supp b'-1:postag:NNP'
431 --0.402792 O b'-1:lemma:od600'
432 --0.405894 O b'postag:RB'
433 --0.407413 O b'-1:lemma:mid-log'
434 --0.417577 O b'+2:lemma:fnr'
435 --0.419538 O b'lemma:dissolve'
436 --0.419538 O b'+2:lemma:methanol'
437 --0.420729 O b'-2:postag:DT'
438 --0.427686 Gtype b'-1:postag:NN'
439 --0.433305 O b'+1:lemma:_'
440 --0.440572 O b'+1:lemma:\xc2\xb0c'
441 --0.441074 Supp b'+1:lemma:rifampicin'
442 --0.446067 Med b'+1:postag:NN'
443 --0.453325 Phase b'+1:postag:NN'
444 --0.453738 O b'-1:lemma:co2'
445 --0.454368 O b'lemma:0.3'
446 --0.465224 OD b'-2:postag:IN'
447 --0.467206 O b'-2:postag:SYM'
448 --0.469619 Supp b'postag:CC'
449 --0.480615 O b'lemma:anaerobically'
450 --0.482560 O b'+2:lemma:reference'
451 --0.492293 O b'-2:lemma:rpob'
452 --0.507584 O b'+1:lemma:hour'
453 --0.517359 O b'lemma:glucose'
454 --0.518184 O b'-2:lemma:a'
455 --0.523810 O b'+1:lemma:supplement'
456 --0.529465 O b'lemma:dpd'
457 --0.535094 O b'lemma:anaerobic'
458 --0.535327 Supp b'+1:lemma:acetate'
459 --0.543209 Supp b'+2:postag:NN'
460 --0.549417 O b'lemma:aerobically'
461 --0.550622 O b'+1:lemma:+'
462 --0.571540 O b'lemma:media'
463 --0.573484 O b'+2:lemma:antibody'
464 --0.582564 O b'-1:lemma:dissolve'
465 --0.582564 O b'+1:lemma:methanol'
466 --0.591022 O b'lemma:0.1'
467 --0.601166 Air b'+1:postag:JJ'
468 --0.618396 O b'-2:lemma:aerobically'
469 --0.620494 O b'lemma:methanol'
470 --0.620494 O b'-2:lemma:dissolve'
471 --0.625501 O b'lemma:0.2'
472 --0.627314 O b'-1:lemma:ompr'
473 --0.627416 Temp b'-1:lemma:\xc2\xb0c'
474 --0.631755 Air b'-1:postag:JJ'
475 --0.641710 O b'+1:lemma:minimal'
476 --0.642246 O b'lemma:fecl2'
477 --0.651512 O b'lemma:rifampicin'
478 --0.655237 O b'lemma:\xe2\x88\x86'
479 --0.663186 O b'-1:lemma:sample'
480 --0.665432 O b'+2:lemma:+'
481 --0.669192 O b'lemma:phase'
482 --0.678711 O b'lemma:37'
483 --0.681855 O b'+1:lemma:g/l'
484 --0.682703 O b'-1:lemma:37'
485 --0.698027 O b'+1:postag:NNS'
486 --0.702726 Supp b'+2:lemma:2'
487 --0.715445 O b'-1:lemma:0.2'
488 --0.734463 Med b'-1:postag:NN'
489 --0.741932 O b'lemma:2h'
490 --0.741932 O b'-1:lemma:additional'
491 --0.743025 Supp b'-2:postag:JJ'
492 --0.769586 O b'+1:lemma:phase'
493 --0.772776 OD b'-2:postag:JJ'
494 --0.774462 O b'+2:lemma:medium'
495 --0.795476 O b'-2:lemma:IP'
496 --0.799045 O b'-1:lemma:~'
497 --0.821552 O b'+2:lemma:mid-log'
498 --0.839684 OD b'postag:-LRB-'
499 --0.858529 O b'-2:lemma:rifampicin'
500 --0.862954 O b'-1:postag::'
501 --0.882732 Supp b'+2:postag:NNS'
502 --0.895274 Temp b'postag:NN'
503 --0.947318 Anti b'+2:postag:JJ'
504 --0.959235 Phase b'-1:postag:JJ'
505 --0.977788 O b'-1:lemma:rpob'
506 --0.978443 O b'lemma:mid-log'
507 --0.988760 O b'-1:postag:VBG'
508 --1.006314 O b'-2:lemma:50'
509 --1.041256 O b'-1:lemma:nsrr'
510 --1.065402 O b'+2:lemma:b'
511 --1.086805 O b'-2:lemma:supplement'
512 --1.093802 O b'+1:lemma:cell'
513 --1.098577 O b'+2:lemma:rifampicin'
514 --1.120238 O b'-1:lemma:IP'
515 --1.200121 Med b'-2:postag:VBN'
516 --1.376159 Air b'postag:NN'
517 --1.479670 O b'+1:lemma:in'
518 --1.485332 Phase b'postag:JJ'
519 --1.570263 O b'lemma:wt'
520 --1.570821 Supp b'postag:JJ'
521 --1.809959 Anti b'postag:NNP'
522 --1.929723 O b'-1:lemma:2'
523 --2.027837 O b'+1:lemma:at'
524 --2.145834 O b'-2:lemma:phase'
525 --2.516491 O b'+1:lemma:2'
526 --2.632073 Supp b'+2:postag:CD'
527 --3.112250 O b'+1:lemma:1'
528 --4.352391 O b'-1:lemma::'
529 --4.597643 O b'-1:lemma:_'
530 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.06596113672627639, 'c2': 0.005613954965247502}
5 -best CV score:0.8018183916317536
6 -model size: 0.08M
7 -
8 -Flat F1: 0.7935906805413363
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.803 0.860 0.831 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.902 0.742 0.814 62
20 - Anti 0.571 0.444 0.500 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.865 0.783 0.822 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.830 0.684 0.750 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.867 0.748 0.794 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.810185
32 -OD -> OD 6.187635
33 -Temp -> Temp 5.829357
34 -Med -> Med 5.699279
35 -Anti -> Anti 5.664227
36 -Air -> Air 5.035921
37 -Phase -> Phase 4.898803
38 -Gversion -> Gversion 4.861231
39 -O -> O 4.770492
40 -Gtype -> Gtype 4.725413
41 -Supp -> Supp 4.444377
42 -Technique -> Technique 4.039464
43 -pH -> pH 2.490113
44 -O -> Supp 1.657684
45 -Substrain -> Gtype 1.602926
46 -O -> Technique 1.346731
47 -Gtype -> Supp 1.341693
48 -O -> Gtype 1.213701
49 -O -> Temp 0.759700
50 -Technique -> Air 0.709582
51 -Air -> O 0.679733
52 -O -> Anti 0.628958
53 -Gtype -> pH 0.381737
54 -OD -> Phase 0.217695
55 -Gtype -> Air 0.206619
56 -O -> Gversion 0.164188
57 -O -> Med 0.158358
58 -Med -> O 0.068822
59 -O -> Strain 0.037849
60 -O -> Phase 0.019143
61 -Temp -> O 0.000267
62 -Supp -> Anti -0.000426
63 -Gversion -> O -0.017952
64 -Anti -> OD -0.023479
65 -Air -> Temp -0.064389
66 -Strain -> O -0.068951
67 -Phase -> Air -0.097477
68 -Temp -> Med -0.130697
69 -Supp -> Gversion -0.132660
70 -Gtype -> Gversion -0.152489
71 -Supp -> Temp -0.180122
72 -O -> OD -0.195607
73 -Anti -> O -0.203415
74 -Supp -> Technique -0.213129
75 -Supp -> OD -0.295829
76 -Technique -> pH -0.297966
77 -Air -> Phase -0.309467
78 -Gtype -> Med -0.371622
79 -Phase -> O -0.401213
80 -Technique -> O -0.444318
81 -
82 -
83 -Top unlikely transitions:
84 -Air -> O 0.679733
85 -O -> Anti 0.628958
86 -Gtype -> pH 0.381737
87 -OD -> Phase 0.217695
88 -Gtype -> Air 0.206619
89 -O -> Gversion 0.164188
90 -O -> Med 0.158358
91 -Med -> O 0.068822
92 -O -> Strain 0.037849
93 -O -> Phase 0.019143
94 -Temp -> O 0.000267
95 -Supp -> Anti -0.000426
96 -Gversion -> O -0.017952
97 -Anti -> OD -0.023479
98 -Air -> Temp -0.064389
99 -Strain -> O -0.068951
100 -Phase -> Air -0.097477
101 -Temp -> Med -0.130697
102 -Supp -> Gversion -0.132660
103 -Gtype -> Gversion -0.152489
104 -Supp -> Temp -0.180122
105 -O -> OD -0.195607
106 -Anti -> O -0.203415
107 -Supp -> Technique -0.213129
108 -Supp -> OD -0.295829
109 -Technique -> pH -0.297966
110 -Air -> Phase -0.309467
111 -Gtype -> Med -0.371622
112 -Phase -> O -0.401213
113 -Technique -> O -0.444318
114 -OD -> Gtype -0.458964
115 -Air -> Med -0.484691
116 -Supp -> O -0.486623
117 -OD -> Air -0.565502
118 -Technique -> OD -0.598899
119 -Technique -> Gtype -0.612194
120 -Air -> OD -0.617091
121 -Supp -> Air -0.672649
122 -Gtype -> O -0.732894
123 -OD -> Med -0.783942
124 -O -> Air -0.841156
125 -Gtype -> Anti -0.881159
126 -Air -> Supp -0.895933
127 -Agit -> O -0.971277
128 -Gtype -> OD -1.088787
129 -OD -> O -1.113905
130 -Supp -> Med -1.253584
131 -Substrain -> O -1.723672
132 -Phase -> OD -2.084990
133 -Med -> Supp -2.134929
134 -
135 -
136 -Top positive:
137 -9.803739 Supp b'lemma:Iron'
138 -9.580173 O b'lemma:_'
139 -8.154870 O b'lemma:1'
140 -7.967307 Phase b'lemma:stationary'
141 -7.817188 Technique b'lemma:ChIP-exo'
142 -7.499968 Air b'lemma:anaerobic'
143 -7.345897 Supp b'lemma:nitrate'
144 -7.255329 Med b'lemma:MOPS'
145 -7.049720 Strain b'lemma:k-12'
146 -6.904427 Air b'lemma:aerobic'
147 -6.841300 O b'lemma:rpob'
148 -6.768590 O b'lemma:2'
149 -6.737063 Technique b'lemma:chipseq'
150 -6.360291 O b'-1:lemma:tag'
151 -6.349470 Supp b'lemma:pq'
152 -6.300045 Gtype b'lemma:\xce\xb4cra'
153 -6.186808 O b'lemma:3'
154 -6.179446 O b'-1:lemma:ChIP-exo'
155 -6.005364 Air b'-1:lemma:ChIP-Seq'
156 -5.920885 Gversion b'lemma:asm584v2'
157 -5.896974 Air b'lemma:Aerobic'
158 -5.722661 Gtype b'lemma:flag-tag'
159 -5.722661 Gtype b'-1:lemma:c-terminal'
160 -5.531927 OD b'lemma:od600'
161 -5.514469 Med b'lemma:LB'
162 -5.500899 O b'lemma:Cra'
163 -5.490395 O b'lemma:rep1'
164 -5.429405 Gtype b'lemma:arca8myc'
165 -5.319893 Substrain b'lemma:mg1655'
166 -5.281725 O b'lemma:rep2'
167 -5.261435 O b'lemma:Custom'
168 -5.225717 Supp b'+1:lemma:\xc2\xb5m'
169 -5.209658 Gtype b'lemma:delta-arca'
170 -5.179292 Gtype b'lemma:type'
171 -5.158663 O b'lemma:b'
172 -5.112757 Supp b'lemma:nh4cl'
173 -5.101092 O b'lemma:rep3'
174 -5.039392 OD b'lemma:od450'
175 -5.020295 Med b'lemma:lb'
176 -5.002221 O b'-1:lemma:0.3-0.35'
177 -4.965187 Supp b'lemma:glucose'
178 -4.956435 Gtype b'lemma:fnr8myc'
179 -4.954144 O b'postag::'
180 -4.945827 Technique b'lemma:rna-seq'
181 -4.916169 OD b'+1:lemma:stationary'
182 -4.892519 Gtype b'lemma:wt'
183 -4.870877 Supp b'lemma:Fe'
184 -4.839544 Gtype b'+1:lemma:type'
185 -4.839112 O b'lemma:a'
186 -4.816421 Supp b'lemma:acetate'
187 -4.800826 O b'lemma:for'
188 -4.795011 O b'-1:lemma:Aerobic'
189 -4.749012 O b'lemma:\xcf\x8332'
190 -4.703876 Anti b'lemma:none'
191 -4.687916 Gversion b'lemma:nc'
192 -4.679745 Gtype b'-1:lemma:\xe2\x88\x86'
193 -4.658460 O b'postag:IN'
194 -4.499779 Gtype b'lemma:delta-fnr'
195 -4.488425 Supp b'lemma:rifampicin'
196 -4.420970 Technique b'lemma:ChIP-Seq'
197 -4.383863 O b'lemma:.'
198 -4.383863 O b'postag:.'
199 -4.370053 O b'+1:lemma:od600'
200 -4.356499 O b'-1:lemma:glucose'
201 -4.332569 Anti b'lemma:seqa'
202 -4.328668 Supp b'lemma:no3'
203 -4.297407 Med b'+1:lemma:0.4'
204 -4.276695 Supp b'-1:lemma:Cra'
205 -4.206385 Strain b'+1:lemma:substr'
206 -4.200724 Gtype b'lemma:\xe2\x88\x86'
207 -4.199179 Phase b'lemma:mid-log'
208 -4.192968 Gtype b'lemma:\xce\xb4fur'
209 -4.176687 Technique b'lemma:rnaseq'
210 -4.174399 Technique b'lemma:chip-seq'
211 -4.163064 O b'-1:lemma:anaerobic'
212 -4.079966 Supp b'lemma:dpd'
213 -4.071291 O b'lemma:-'
214 -4.042539 Gtype b'lemma:nsrr'
215 -4.040900 O b'+1:postag:RB'
216 -3.961200 Anti b'lemma:anti-rpos'
217 -3.949739 Supp b'lemma:fructose'
218 -3.943560 Supp b'lemma:arginine'
219 -3.920546 O b'lemma:with'
220 -3.906842 O b'lemma:or'
221 -3.867183 Gversion b'lemma:000913'
222 -3.852346 Supp b'+1:lemma:1'
223 -3.844501 Vess b'lemma:flask'
224 -3.844501 Vess b'-1:lemma:warm'
225 -3.833652 O b'lemma:CEL'
226 -3.821792 Anti b'lemma:anti-myc'
227 -3.754133 Gversion b'-1:lemma:nc'
228 -3.739933 pH b'lemma:ph5'
229 -3.739933 pH b'+1:lemma:.5'
230 -3.707305 Temp b'-1:lemma:\xcf\x8332'
231 -3.705406 O b'lemma:chip'
232 -3.697004 O b'-1:lemma:type'
233 -3.688398 Med b'lemma:m63'
234 -3.683435 Supp b'+1:lemma:hour'
235 -3.597164 O b'postag:VBN'
236 -3.578566 Gversion b'lemma:chip-seq'
237 -3.568740 O b'lemma:s'
238 -3.558200 Temp b'-1:lemma:sample'
239 -3.545060 O b'+1:lemma:o.d.'
240 -3.516070 Supp b'-1:lemma:+'
241 -3.483554 Gtype b'lemma:\xce\xb4ompr'
242 -3.483503 Gtype b'+1:lemma:with'
243 -3.459746 Supp b'lemma:nacl'
244 -3.441734 O b'-1:lemma:lb'
245 -3.409536 Air b'lemma:Anaerobic'
246 -3.404389 Gtype b'+1:lemma:ph5'
247 -3.361396 Technique b'+1:lemma:chip-exo'
248 -3.328422 Gtype b'lemma:\xce\xb4soxs'
249 -3.317686 Med b'+1:lemma:2.0'
250 -3.301476 Gversion b'lemma:u00096'
251 -3.301476 Gversion b'+1:lemma:.2'
252 -3.286668 O b'lemma:affyexp'
253 -3.280195 Air b'lemma:anaerobically'
254 -3.258177 Gtype b'-1:lemma:ptac'
255 -3.257208 O b'lemma:ompr'
256 -3.255510 Gtype b'+1:lemma:pq'
257 -3.246680 Anti b'+1:lemma:antibody'
258 -3.236124 O b'lemma:oxyr'
259 -3.209122 Supp b'+1:lemma:2'
260 -3.197656 Med b'+1:lemma:minimal'
261 -3.196597 Phase b'-1:lemma:until'
262 -3.189945 Gtype b'lemma:wild-type'
263 -3.181288 O b'-1:lemma:0.3'
264 -3.170002 Temp b'lemma:\xc2\xb0c'
265 -3.161695 O b'+1:lemma:pq'
266 -3.159682 Supp b'lemma:Leu'
267 -3.133292 Gversion b'lemma:.2'
268 -3.133292 Gversion b'-1:lemma:u00096'
269 -3.126040 O b'lemma:2-3'
270 -3.125880 Technique b'-1:lemma:IP'
271 -3.112267 O b'-1:lemma:stpa'
272 -3.103375 Gtype b'lemma:ptac'
273 -3.101224 Gtype b'+1:lemma:flagtag'
274 -3.060100 Temp b'-1:lemma:37'
275 -3.057323 Supp b'+1:lemma:_'
276 -3.050729 O b'lemma:Lrp'
277 -3.035951 Gtype b'lemma:pk4854'
278 -3.030223 O b'lemma:chip-arca'
279 -3.008946 OD b'-1:lemma:~'
280 -2.947889 O b'lemma:argr'
281 -2.944505 Technique b'-1:lemma:chip-exo'
282 -2.933771 O b'+1:lemma:chip-seq'
283 -2.918186 Gtype b'-1:lemma:rpob'
284 -2.896628 Phase b'+1:lemma:for'
285 -2.896158 O b'lemma:purr'
286 -2.893920 Gtype b'lemma:WT'
287 -2.885542 Med b'-1:lemma:ml'
288 -2.868396 O b'-1:lemma:l1'
289 -2.864588 O b'lemma:at'
290 -2.861849 Gtype b'lemma:deltaseqa'
291 -2.861849 Gtype b'-1:lemma:old'
292 -2.861515 Air b'postag:RB'
293 -2.860863 Technique b'-1:lemma:input'
294 -2.852420 Air b'lemma:anerobically'
295 -2.847369 O b'-1:lemma:\xc2\xb0c'
296 -2.838846 Substrain b'+1:lemma:phtpg'
297 -2.838740 Temp b'-1:lemma:43'
298 -2.808074 OD b'lemma:phase'
299 -2.787238 Med b'lemma:L'
300 -2.787238 Med b'+1:lemma:broth'
301 -2.770533 Gtype b'+1:lemma:aerobic'
302 -2.754834 O b'-1:lemma:dpd'
303 -2.711280 Gtype b'lemma:\xce\xb4soxr'
304 -2.708114 Med b'lemma:glucose'
305 -2.683398 O b'-1:lemma:media'
306 -2.661239 O b'+1:postag:NNP'
307 -2.646068 Gtype b'lemma:\xce\xb4oxyr'
308 -2.622418 O b'lemma:soxs'
309 -2.622418 O b'lemma:soxr'
310 -2.602038 Supp b'+1:lemma:Deficient'
311 -2.600846 Temp b'lemma:43'
312 -2.597103 O b'postag:DT'
313 -2.594739 Supp b'lemma:iptg'
314 -2.565098 OD b'lemma:0.3'
315 -2.562324 Supp b'lemma:Adenine'
316 -2.524716 pH b'lemma:.5'
317 -2.524716 pH b'-1:lemma:ph5'
318 -2.490454 Air b'+1:lemma:at'
319 -2.468286 O b'lemma:Fur'
320 -2.464129 Supp b'lemma:methanol'
321 -2.445015 Air b'-1:lemma:-'
322 -2.439688 Med b'+1:lemma:contain'
323 -2.436952 Med b'-1:lemma:LB'
324 -2.431687 Supp b'-1:lemma:\xc2\xb5m'
325 -2.424727 O b'lemma:culture'
326 -2.410632 O b'lemma:chip-fnr'
327 -2.399552 O b'+1:lemma:mid-log'
328 -2.380228 O b'lemma:condition'
329 -2.369416 Supp b'lemma:20'
330 -2.332730 Technique b'+1:lemma:rna-seq'
331 -2.331984 Gtype b'lemma:dfnr'
332 -2.298119 O b'-1:lemma:min'
333 -2.251434 Gtype b'lemma:soxs-8myc'
334 -2.251434 Gtype b'lemma:soxr-8myc'
335 -2.236660 O b'+1:lemma:sparging'
336 -2.235760 Gtype b'-1:lemma:_'
337 -
338 -
339 -Top negative:
340 -0.000004 Gtype b'+1:lemma:carrying'
341 --0.000024 Gtype b'+1:lemma:-'
342 --0.000044 Med b'+1:lemma:media'
343 --0.000057 O b'-1:lemma:g/l'
344 --0.000062 Gtype b'+1:postag:IN'
345 --0.000133 Gtype b'+1:lemma:cra'
346 --0.000220 OD b'+1:postag:NNS'
347 --0.000334 O b'lemma:pahse'
348 --0.000367 O b'+1:lemma:pahse'
349 --0.000370 O b'+1:lemma:antibody'
350 --0.000463 Gtype b'+1:lemma:2'
351 --0.000888 O b'+1:lemma:95'
352 --0.001725 O b'+1:lemma:grow'
353 --0.001924 O b'-1:lemma:70'
354 --0.002590 O b'-1:lemma:at'
355 --0.002609 Supp b'+1:lemma:glucose'
356 --0.002737 Temp b'-1:lemma:\xc2\xb0c'
357 --0.003250 O b'+1:lemma:0.4'
358 --0.003835 O b'-1:lemma:the'
359 --0.004365 Supp b'lemma:min'
360 --0.004404 Air b'+1:postag:NN'
361 --0.004876 Gtype b'-1:postag:SYM'
362 --0.007478 Air b'-1:lemma:anaerobically'
363 --0.008825 O b'lemma:25'
364 --0.010133 O b'-1:lemma:\xe2\x88\x86'
365 --0.010800 O b'+1:lemma:~'
366 --0.011018 O b'-1:lemma:25'
367 --0.012738 OD b'+1:lemma:0.4'
368 --0.013297 O b'-1:lemma:mm'
369 --0.013330 O b'+1:lemma:25'
370 --0.017236 O b'lemma:medium'
371 --0.017258 O b'+1:lemma:co2'
372 --0.021642 O b'-1:lemma:minimal'
373 --0.022529 O b'lemma:\xe2\x88\x86'
374 --0.023207 OD b'+1:postag:CD'
375 --0.024275 O b'+1:lemma:culture'
376 --0.027000 Med b'+1:postag:NNS'
377 --0.028443 O b'-1:postag:IN'
378 --0.028871 OD b'lemma:~'
379 --0.029400 O b'-1:lemma:-lrb-'
380 --0.029957 O b'-1:postag:VBN'
381 --0.031814 OD b'+1:lemma:-lrb-'
382 --0.036730 O b'lemma:\xc2\xb0c'
383 --0.040489 O b'+1:lemma:shake'
384 --0.049352 O b'lemma:grow'
385 --0.049870 Gtype b'-1:postag:CD'
386 --0.051592 O b'+1:lemma:\xc2\xb0c'
387 --0.058064 O b'+1:lemma:5'
388 --0.060533 Supp b'-1:postag:NNP'
389 --0.066506 O b'lemma:m63'
390 --0.067322 O b'lemma:purify'
391 --0.073479 O b'-1:lemma:1'
392 --0.078629 OD b'+1:postag:-LRB-'
393 --0.088409 OD b'-1:postag:DT'
394 --0.089657 O b'+1:lemma:300'
395 --0.090027 O b'lemma:lb'
396 --0.092005 Air b'-1:postag:CC'
397 --0.094016 O b'-1:lemma:e.'
398 --0.094979 O b'-1:postag:-LRB-'
399 --0.095499 O b'+1:lemma:-rrb-'
400 --0.096558 Gversion b'-1:postag:NN'
401 --0.102714 O b'-1:lemma:fresh'
402 --0.102983 Phase b'+1:postag:NN'
403 --0.104669 Supp b'lemma:and'
404 --0.106096 Phase b'-1:lemma:at'
405 --0.110455 O b'+1:lemma:minimal'
406 --0.110526 Supp b'+1:postag:IN'
407 --0.113970 Technique b'-1:lemma::'
408 --0.119878 O b'-1:lemma:iptg'
409 --0.125836 O b'+1:lemma:mm'
410 --0.127210 O b'+1:lemma:rep1'
411 --0.132494 Gtype b'-1:postag:NN'
412 --0.133598 Vess b'postag:NN'
413 --0.137884 O b'lemma:o2'
414 --0.140906 O b'+1:lemma:o2'
415 --0.143319 O b'-1:lemma:n2'
416 --0.147451 O b'-1:lemma:o2'
417 --0.153465 Anti b'+1:postag:JJ'
418 --0.160555 O b'lemma:mg1655'
419 --0.160730 O b'-1:lemma:um'
420 --0.160730 O b'+1:lemma:paraquat'
421 --0.168104 O b'lemma:minimal'
422 --0.171270 O b'-1:lemma:of'
423 --0.172228 O b'-1:lemma:from'
424 --0.175329 O b'lemma:e.'
425 --0.178475 O b'-1:lemma:30'
426 --0.179463 O b'-1:lemma:0.1'
427 --0.182901 OD b'postag:JJ'
428 --0.185549 Med b'postag:CD'
429 --0.192111 Air b'postag:CD'
430 --0.211750 Supp b'-1:postag:NN'
431 --0.223595 O b'lemma:co2'
432 --0.226618 Gtype b'postag:CD'
433 --0.231536 Med b'-1:postag:NN'
434 --0.234723 O b'lemma:30'
435 --0.248832 O b'lemma:aerobically'
436 --0.249281 Agit b'postag:NN'
437 --0.250953 O b'lemma:n2'
438 --0.270863 O b'+1:lemma:phase'
439 --0.306219 Strain b'+1:postag:NN'
440 --0.308359 O b'-1:lemma:od600'
441 --0.323236 O b'+1:postag:IN'
442 --0.329990 O b'lemma:anaerobic'
443 --0.339291 O b'lemma:od600'
444 --0.345297 O b'+1:lemma:.'
445 --0.345297 O b'+1:postag:.'
446 --0.345455 Med b'+1:postag:IN'
447 --0.346323 O b'-1:lemma:rifampicin'
448 --0.350930 Air b'-1:lemma:or'
449 --0.351942 O b'-1:lemma:cra'
450 --0.357748 Gtype b'lemma:delta'
451 --0.359268 O b'lemma:phase'
452 --0.360855 O b'-1:lemma:~'
453 --0.363783 O b'postag:RB'
454 --0.363829 OD b'+1:lemma:and'
455 --0.388025 Supp b'+1:postag:VBN'
456 --0.399712 O b'+1:lemma:until'
457 --0.413829 O b'+1:postag:NNS'
458 --0.416759 OD b'+1:postag:CC'
459 --0.419943 O b'-1:lemma:ml'
460 --0.423733 O b'+1:postag:-RRB-'
461 --0.431094 O b'-1:lemma:grow'
462 --0.438662 O b'lemma:150'
463 --0.438662 O b'+1:lemma:mg/ml'
464 --0.438787 O b'+1:lemma:0.3'
465 --0.450796 Temp b'postag:JJ'
466 --0.452037 O b'lemma:\xce\xb4fur'
467 --0.453882 Air b'-1:postag:JJ'
468 --0.460132 O b'+1:lemma:arginine'
469 --0.520629 O b'postag:VBP'
470 --0.525807 O b'-1:lemma:0.2'
471 --0.531833 O b'lemma:dissolve'
472 --0.544854 Phase b'-1:postag:NN'
473 --0.548102 Anti b'+1:lemma:anti-fur'
474 --0.553501 O b'lemma:0.3'
475 --0.554123 Technique b'-1:postag::'
476 --0.564730 O b'+1:lemma:%'
477 --0.566274 O b'-1:lemma:mid-log'
478 --0.595934 O b'+1:lemma:cell'
479 --0.624651 O b'+1:lemma:c'
480 --0.627312 Temp b'+1:lemma:to'
481 --0.627312 Temp b'+1:postag:TO'
482 --0.629337 Med b'+1:postag:NN'
483 --0.634742 O b'+1:lemma:_'
484 --0.635820 O b'lemma:dpd'
485 --0.688829 OD b'lemma:-lrb-'
486 --0.690594 OD b'+1:postag:NN'
487 --0.702445 O b'lemma:20'
488 --0.763984 OD b'postag:-LRB-'
489 --0.768100 O b'lemma:media'
490 --0.778612 Gversion b'+1:postag:NN'
491 --0.780471 O b'lemma:anaerobically'
492 --0.786127 O b'-1:postag:VBG'
493 --0.824784 Med b'-1:postag:IN'
494 --0.845775 Supp b'+1:lemma:acetate'
495 --0.846041 O b'-1:lemma:co2'
496 --0.852351 pH b'postag:NN'
497 --0.867978 O b'+1:lemma:fecl2'
498 --0.888618 Supp b'+1:lemma:rifampicin'
499 --0.923659 Supp b'postag:CC'
500 --0.924869 O b'lemma:of'
501 --0.956241 Temp b'postag:NN'
502 --0.991767 O b'-1:lemma:sample'
503 --1.051712 O b'-1:lemma:dissolve'
504 --1.051712 O b'+1:lemma:methanol'
505 --1.119586 O b'+1:lemma:+'
506 --1.132902 O b'-1:lemma:37'
507 --1.140977 Phase b'-1:postag:JJ'
508 --1.157470 O b'lemma:fecl2'
509 --1.187930 O b'lemma:0.2'
510 --1.196177 O b'+1:lemma:supplement'
511 --1.198543 O b'lemma:2h'
512 --1.198543 O b'-1:lemma:additional'
513 --1.211522 O b'+1:lemma:g/l'
514 --1.224455 O b'+1:lemma:at'
515 --1.233557 O b'-1:lemma:rpob'
516 --1.246376 O b'lemma:0.1'
517 --1.265258 O b'-1:postag::'
518 --1.266857 O b'lemma:37'
519 --1.276968 Air b'+1:postag:JJ'
520 --1.367143 O b'+1:postag:VBG'
521 --1.372161 O b'lemma:rifampicin'
522 --1.380156 O b'lemma:mid-log'
523 --1.408891 O b'+1:lemma:hour'
524 --1.503066 O b'lemma:wt'
525 --1.654992 Anti b'postag:NNP'
526 --1.656418 Supp b'-1:lemma:%'
527 --1.743144 Phase b'postag:JJ'
528 --1.805708 O b'-1:lemma:ompr'
529 --1.821985 O b'+1:lemma:in'
530 --1.835729 O b'-1:lemma:nsrr'
531 --1.914064 O b'lemma:methanol'
532 --1.942273 O b'-1:lemma:IP'
533 --2.145235 Air b'postag:NN'
534 --2.312190 O b'-1:lemma:2'
535 --2.393207 Supp b'postag:JJ'
536 --2.809437 O b'+1:lemma:2'
537 --3.166822 O b'+1:lemma:1'
538 --3.568530 O b'-1:lemma:_'
539 --3.975976 O b'-1:lemma::'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.3584617458365783, 'c2': 0.005702731733010388}
5 -best CV score:0.7892724734479645
6 -model size: 0.05M
7 -
8 -Flat F1: 0.7770000497122165
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.800 0.842 0.821 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.780 0.742 0.760 62
20 - Anti 0.500 0.444 0.471 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.828 0.774 0.800 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.803 0.691 0.743 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.834 0.744 0.777 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 6.207517
32 -Agit -> Agit 6.144930
33 -Med -> Med 5.284052
34 -Anti -> Anti 5.278606
35 -Temp -> Temp 5.208476
36 -Air -> Air 4.805077
37 -O -> O 4.440768
38 -Gtype -> Gtype 4.358978
39 -Gversion -> Gversion 4.158001
40 -Phase -> Phase 4.098995
41 -Technique -> Technique 4.090708
42 -Supp -> Supp 4.012852
43 -O -> Supp 2.068480
44 -Gtype -> Supp 1.861974
45 -pH -> pH 1.651755
46 -O -> Technique 1.423652
47 -Air -> O 1.413050
48 -O -> Gtype 1.235571
49 -O -> Anti 1.042265
50 -Substrain -> Gtype 0.832252
51 -Med -> O 0.806110
52 -O -> Temp 0.755910
53 -Temp -> O 0.540542
54 -Technique -> Air 0.454746
55 -O -> Gversion 0.402020
56 -Supp -> O 0.347334
57 -O -> Med 0.334881
58 -OD -> Phase 0.330860
59 -Phase -> O 0.243437
60 -Gtype -> pH 0.053400
61 -O -> OD 0.004380
62 -O -> Phase 0.002932
63 -Technique -> O -0.000992
64 -Gtype -> Med -0.027797
65 -Supp -> Air -0.028399
66 -Gtype -> O -0.156530
67 -OD -> O -0.230762
68 -O -> Air -0.339608
69 -Gtype -> OD -0.384678
70 -Agit -> O -0.523470
71 -Supp -> Med -0.770936
72 -Med -> Supp -0.862383
73 -Phase -> OD -0.954560
74 -Substrain -> O -1.080979
75 -
76 -
77 -Top unlikely transitions:
78 -OD -> OD 6.207517
79 -Agit -> Agit 6.144930
80 -Med -> Med 5.284052
81 -Anti -> Anti 5.278606
82 -Temp -> Temp 5.208476
83 -Air -> Air 4.805077
84 -O -> O 4.440768
85 -Gtype -> Gtype 4.358978
86 -Gversion -> Gversion 4.158001
87 -Phase -> Phase 4.098995
88 -Technique -> Technique 4.090708
89 -Supp -> Supp 4.012852
90 -O -> Supp 2.068480
91 -Gtype -> Supp 1.861974
92 -pH -> pH 1.651755
93 -O -> Technique 1.423652
94 -Air -> O 1.413050
95 -O -> Gtype 1.235571
96 -O -> Anti 1.042265
97 -Substrain -> Gtype 0.832252
98 -Med -> O 0.806110
99 -O -> Temp 0.755910
100 -Temp -> O 0.540542
101 -Technique -> Air 0.454746
102 -O -> Gversion 0.402020
103 -Supp -> O 0.347334
104 -O -> Med 0.334881
105 -OD -> Phase 0.330860
106 -Phase -> O 0.243437
107 -Gtype -> pH 0.053400
108 -O -> OD 0.004380
109 -O -> Phase 0.002932
110 -Technique -> O -0.000992
111 -Gtype -> Med -0.027797
112 -Supp -> Air -0.028399
113 -Gtype -> O -0.156530
114 -OD -> O -0.230762
115 -O -> Air -0.339608
116 -Gtype -> OD -0.384678
117 -Agit -> O -0.523470
118 -Supp -> Med -0.770936
119 -Med -> Supp -0.862383
120 -Phase -> OD -0.954560
121 -Substrain -> O -1.080979
122 -
123 -
124 -Top positive:
125 -8.207743 Supp b'lemma:Iron'
126 -8.126913 O b'lemma:_'
127 -7.668488 Air b'lemma:anaerobic'
128 -7.430711 Air b'lemma:aerobic'
129 -7.087261 O b'lemma:1'
130 -6.741673 Technique b'lemma:ChIP-exo'
131 -6.330636 Supp b'lemma:nitrate'
132 -6.316340 Strain b'lemma:k-12'
133 -6.184951 Air b'-1:lemma:ChIP-Seq'
134 -6.044256 Substrain b'lemma:mg1655'
135 -6.022814 O b'lemma:2'
136 -5.884584 O b'lemma:rpob'
137 -5.829789 Phase b'lemma:stationary'
138 -5.778215 O b'lemma:3'
139 -5.775900 Med b'lemma:MOPS'
140 -5.472627 Technique b'lemma:chipseq'
141 -5.452821 Gtype b'lemma:type'
142 -5.385754 Gversion b'lemma:nc'
143 -5.283474 Technique b'lemma:ChIP-Seq'
144 -5.207906 Gversion b'lemma:asm584v2'
145 -5.127213 Phase b'lemma:mid-log'
146 -5.064325 O b'postag:IN'
147 -5.025536 O b'-1:lemma:ChIP-exo'
148 -5.020720 O b'lemma:Custom'
149 -4.808679 Supp b'lemma:pq'
150 -4.770459 O b'lemma:\xcf\x8332'
151 -4.677547 O b'lemma:b'
152 -4.677327 Air b'lemma:Aerobic'
153 -4.623206 Gtype b'lemma:\xce\xb4cra'
154 -4.570334 OD b'lemma:od600'
155 -4.480021 O b'lemma:rep1'
156 -4.422817 Supp b'lemma:nh4cl'
157 -4.411192 Supp b'+1:lemma:\xc2\xb5m'
158 -4.371069 Med b'lemma:LB'
159 -4.342307 O b'lemma:a'
160 -4.339830 Gtype b'lemma:flag-tag'
161 -4.339830 Gtype b'-1:lemma:c-terminal'
162 -4.307469 O b'-1:lemma:tag'
163 -4.290727 Gtype b'+1:lemma:type'
164 -4.284775 Med b'lemma:lb'
165 -4.262695 Gtype b'-1:lemma:\xe2\x88\x86'
166 -4.262594 Temp b'-1:lemma:sample'
167 -4.220453 O b'lemma:rep2'
168 -4.087831 O b'postag::'
169 -4.058385 Gversion b'-1:lemma:nc'
170 -4.009221 O b'lemma:rep3'
171 -3.965243 Gtype b'lemma:arca8myc'
172 -3.958883 Supp b'lemma:glucose'
173 -3.925260 Technique b'lemma:rna-seq'
174 -3.899283 O b'lemma:Cra'
175 -3.849955 OD b'lemma:od450'
176 -3.714897 Gtype b'lemma:delta-arca'
177 -3.673709 Gtype b'lemma:wt'
178 -3.659796 Technique b'lemma:chip-seq'
179 -3.528015 Gtype b'lemma:fnr8myc'
180 -3.489859 O b'+1:lemma:od600'
181 -3.484744 Supp b'lemma:Fe'
182 -3.480788 Gtype b'lemma:nsrr'
183 -3.465328 O b'lemma:.'
184 -3.465328 O b'postag:.'
185 -3.447372 O b'-1:lemma:type'
186 -3.439488 Supp b'lemma:acetate'
187 -3.385749 Anti b'+1:lemma:antibody'
188 -3.365979 Gtype b'lemma:\xe2\x88\x86'
189 -3.364067 Vess b'lemma:flask'
190 -3.364067 Vess b'-1:lemma:warm'
191 -3.286848 Supp b'lemma:no3'
192 -3.283119 O b'-1:lemma:Aerobic'
193 -3.269163 Supp b'lemma:arginine'
194 -3.232797 Technique b'lemma:rnaseq'
195 -3.230473 O b'postag:VBN'
196 -3.182859 Supp b'lemma:fructose'
197 -3.165112 Med b'+1:lemma:0.4'
198 -3.163288 O b'lemma:-'
199 -3.124487 Supp b'lemma:dpd'
200 -3.038568 Air b'postag:RB'
201 -3.018509 Gtype b'lemma:\xce\xb4fur'
202 -3.008077 Supp b'lemma:rifampicin'
203 -3.002475 Gtype b'-1:lemma:rpob'
204 -3.000763 Gtype b'lemma:delta-fnr'
205 -2.976036 pH b'lemma:ph5'
206 -2.976036 pH b'+1:lemma:.5'
207 -2.958886 Anti b'lemma:none'
208 -2.909966 Temp b'-1:lemma:\xcf\x8332'
209 -2.844862 Gtype b'+1:lemma:flagtag'
210 -2.832159 O b'postag:CC'
211 -2.773852 Supp b'+1:lemma:1'
212 -2.760087 O b'-1:lemma:glucose'
213 -2.714759 Gversion b'lemma:u00096'
214 -2.714759 Gversion b'+1:lemma:.2'
215 -2.713598 O b'lemma:chip'
216 -2.709955 Temp b'lemma:\xc2\xb0c'
217 -2.688829 Gversion b'lemma:000913'
218 -2.679944 Anti b'lemma:seqa'
219 -2.679837 Gtype b'+1:lemma:ph5'
220 -2.659927 O b'-1:lemma:anaerobic'
221 -2.645999 Gtype b'+1:lemma:with'
222 -2.632697 O b'-1:lemma:0.3-0.35'
223 -2.615260 OD b'+1:lemma:stationary'
224 -2.610232 Gtype b'+1:lemma:pq'
225 -2.600969 O b'lemma:CEL'
226 -2.583139 Supp b'+1:lemma:2'
227 -2.577577 Med b'+1:lemma:minimal'
228 -2.529370 Med b'lemma:m63'
229 -2.523009 Strain b'+1:lemma:substr'
230 -2.501031 Gtype b'-1:lemma:ptac'
231 -2.491778 Technique b'-1:lemma:IP'
232 -2.481774 Gversion b'lemma:chip-seq'
233 -2.430079 Gtype b'lemma:wild-type'
234 -2.409612 Supp b'-1:lemma:\xc2\xb5m'
235 -2.407221 Temp b'-1:lemma:37'
236 -2.376179 Supp b'-1:lemma:+'
237 -2.370422 O b'postag:DT'
238 -2.364816 O b'lemma:s'
239 -2.361663 pH b'lemma:.5'
240 -2.361663 pH b'-1:lemma:ph5'
241 -2.337980 Gversion b'lemma:.2'
242 -2.337980 Gversion b'-1:lemma:u00096'
243 -2.298988 Anti b'lemma:anti-rpos'
244 -2.276207 O b'+1:postag:NNP'
245 -2.273430 Temp b'-1:lemma:43'
246 -2.257383 Supp b'-1:lemma:Cra'
247 -2.255470 O b'+1:lemma:pq'
248 -2.250731 Anti b'lemma:anti-myc'
249 -2.208950 Technique b'-1:lemma:chip-exo'
250 -2.195872 O b'lemma:or'
251 -2.186698 Supp b'lemma:of'
252 -2.185972 Temp b'-1:lemma:30'
253 -2.185682 O b'+1:lemma:chip-seq'
254 -2.166108 Technique b'+1:lemma:chip-exo'
255 -2.160343 Supp b'lemma:iptg'
256 -2.149961 O b'lemma:with'
257 -2.149623 O b'-1:lemma:lb'
258 -2.147543 Supp b'lemma:nacl'
259 -2.136781 O b'postag:VBG'
260 -2.134337 O b'+1:postag:RB'
261 -2.118014 O b'-1:lemma:l1'
262 -2.103907 Med b'+1:lemma:2.0'
263 -2.053399 Med b'lemma:L'
264 -2.053399 Med b'+1:lemma:broth'
265 -2.047116 Air b'-1:lemma:-'
266 -2.037292 OD b'lemma:0.3'
267 -2.025848 Supp b'lemma:20'
268 -2.016272 O b'lemma:culture'
269 -2.002299 O b'lemma:affyexp'
270 -1.995623 Med b'lemma:media'
271 -1.991975 Med b'+1:lemma:g/l'
272 -1.991131 Supp b'-1:lemma:with'
273 -1.944808 Gtype b'lemma:\xce\xb4ompr'
274 -1.919423 O b'+1:lemma:sparging'
275 -1.902878 Phase b'-1:lemma:mid-log'
276 -1.879469 O b'-1:lemma:0.3'
277 -1.876614 Med b'-1:lemma:glucose'
278 -1.873867 Phase b'lemma:exponentially'
279 -1.862283 Supp b'+1:lemma:_'
280 -1.850019 O b'lemma:genotype/variation'
281 -1.840505 Air b'lemma:anaerobically'
282 -1.834219 Supp b'lemma:Leu'
283 -1.824637 Gversion b'postag:CD'
284 -1.808661 Technique b'-1:lemma:1'
285 -1.807281 Med b'+1:lemma:supplement'
286 -1.791313 Gtype b'lemma:\xce\xb4soxs'
287 -1.787667 O b'lemma:oxyr'
288 -1.777332 Temp b'lemma:43'
289 -1.758917 OD b'+1:lemma:phase'
290 -1.745787 Gtype b'lemma:pk4854'
291 -1.741695 pH b'+1:postag:CD'
292 -1.718033 O b'lemma:at'
293 -1.697274 Gtype b'lemma:ptac'
294 -1.696614 Temp b'+1:lemma:\xc2\xb0c'
295 -1.693293 Gtype b'-1:lemma:_'
296 -1.690544 O b'lemma:Fur'
297 -1.683055 Phase b'+1:postag:NNS'
298 -1.671604 Technique b'-1:lemma:_'
299 -1.638397 O b'+1:lemma:coli'
300 -1.637347 O b'-1:lemma:\xc2\xb0c'
301 -1.637198 Gtype b'+1:lemma:_'
302 -1.626675 O b'lemma:condition'
303 -1.625147 O b'lemma:ompr'
304 -1.620349 O b'-1:lemma:dpd'
305 -1.606845 Gtype b'postag:-RRB-'
306 -1.599013 O b'+1:lemma:condition'
307 -1.593871 O b'-1:lemma:media'
308 -1.586989 Gtype b'lemma:deltaseqa'
309 -1.586989 Gtype b'-1:lemma:old'
310 -1.581118 Gtype b'+1:postag::'
311 -1.574655 Supp b'lemma:2h'
312 -1.574655 Supp b'-1:lemma:additional'
313 -1.572066 Supp b'lemma:Adenine'
314 -1.555644 Supp b'lemma:0.2'
315 -1.553939 Med b'lemma:glucose'
316 -1.551370 Air b'-1:lemma:co2'
317 -1.550089 O b'-1:lemma:stpa'
318 -1.547031 Phase b'-1:lemma:until'
319 -1.545602 O b'lemma:escherichia'
320 -1.534407 Phase b'+1:lemma:for'
321 -1.534111 O b'lemma:to'
322 -1.534111 O b'postag:TO'
323 -1.506351 Air b'-1:postag:CD'
324 -1.505075 OD b'-1:lemma:~'
325 -
326 -
327 -Top negative:
328 -0.092498 O b'+1:postag:CD'
329 -0.092371 Anti b'lemma:9e10'
330 -0.092371 Anti b'+1:lemma:myc'
331 -0.092365 Agit b'-1:lemma:at'
332 -0.088750 OD b'postag:CD'
333 -0.084799 Agit b'lemma:at'
334 -0.079600 Gtype b'lemma:knock-out'
335 -0.079374 O b'+1:lemma:rnase'
336 -0.077611 OD b'-1:postag:CC'
337 -0.072829 Supp b'+1:postag:IN'
338 -0.069820 Gtype b'lemma:-rcb-'
339 -0.069801 Air b'-1:lemma:5'
340 -0.066910 Supp b'lemma:\xc2\xb5m'
341 -0.066375 O b'-1:lemma:k-12'
342 -0.064827 O b'+1:postag:FW'
343 -0.064097 O b'+1:lemma:ml'
344 -0.062110 Gtype b'-1:lemma:-lcb-'
345 -0.062110 Gtype b'+1:lemma:-rcb-'
346 -0.058601 OD b'postag:VBD'
347 -0.056775 O b'-1:lemma:or'
348 -0.054708 Anti b'-1:lemma:myc'
349 -0.054377 O b'lemma:4'
350 -0.053900 Supp b'+1:postag:RB'
351 -0.051178 O b'+1:lemma:genbank'
352 -0.049268 OD b'+1:postag:VBD'
353 -0.049094 Temp b'+1:lemma:rep1'
354 -0.045714 Temp b'-1:postag:VB'
355 -0.036759 O b'-1:lemma:and'
356 -0.035785 Gtype b'lemma:vector'
357 -0.034778 Gtype b'+1:postag:JJ'
358 -0.032455 Air b'lemma:n2'
359 -0.031453 O b'+1:lemma:anaerobically'
360 -0.031113 Supp b'lemma:1g/l'
361 -0.028939 Anti b'-1:postag:JJ'
362 -0.025208 O b'+1:postag:-LRB-'
363 -0.022522 Supp b'lemma:feso4'
364 -0.019983 Anti b'-1:postag:NNP'
365 -0.019451 O b'lemma:short'
366 -0.017590 O b'-1:postag:VBD'
367 -0.016416 OD b'-1:postag:JJ'
368 -0.016240 Gtype b'lemma:soxs-8myc'
369 -0.016240 Gtype b'lemma:soxr-8myc'
370 -0.015907 Med b'-1:lemma:in'
371 -0.010217 O b'lemma:build'
372 -0.009692 Gtype b'+1:lemma:strain'
373 -0.007708 O b'-1:lemma:wp009'
374 -0.006568 Supp b'+1:postag:CD'
375 -0.005939 Phase b'postag:RB'
376 -0.005863 OD b'-1:lemma:at'
377 -0.005806 O b'+1:postag:JJ'
378 -0.005343 O b'+1:lemma:_'
379 -0.005004 O b'-1:lemma:genbank'
380 -0.004892 O b'-1:lemma:for'
381 -0.004437 O b'-1:postag:JJ'
382 -0.003005 O b'-1:lemma:0.4'
383 -0.002748 Phase b'+1:postag:RB'
384 -0.002320 O b'+1:lemma:wt'
385 -0.002265 Temp b'-1:postag:CD'
386 -0.001918 Gtype b'-1:postag:-LRB-'
387 -0.001584 OD b'+1:lemma:aerobically'
388 -0.001566 Gtype b'lemma:cra'
389 -0.001535 O b'lemma:and'
390 -0.001302 Anti b'+1:lemma:tag'
391 -0.001258 Air b'+1:lemma:-'
392 -0.000559 O b'+1:lemma:for'
393 -0.000503 OD b'-1:postag:VBN'
394 -0.000466 Temp b'-1:postag:NNS'
395 -0.000335 O b'-1:lemma:one'
396 -0.000284 O b'lemma:acetate'
397 -0.000236 OD b'+1:lemma:\xce\xb4soxr'
398 -0.000229 Anti b'lemma:tag'
399 -0.000227 OD b'-1:lemma:\xce\xb4oxyr'
400 -0.000204 OD b'lemma:\xce\xb4soxr'
401 -0.000192 Phase b'-1:lemma:to'
402 -0.000192 Phase b'-1:postag:TO'
403 -0.000121 OD b'postag:IN'
404 -0.000100 O b'-1:lemma:genotype/variation'
405 -0.000080 Air b'+1:postag::'
406 -0.000059 O b'+1:lemma:to'
407 -0.000059 O b'+1:postag:TO'
408 --0.000037 Gtype b'postag:CD'
409 --0.000039 O b'+1:lemma:rep1'
410 --0.000061 O b'-1:lemma:0.1'
411 --0.000130 O b'+1:lemma:phase'
412 --0.000176 Agit b'postag:NN'
413 --0.000245 OD b'postag:JJ'
414 --0.000457 O b'-1:lemma:1'
415 --0.000503 Air b'postag:CC'
416 --0.000998 O b'+1:lemma:aerobically'
417 --0.001059 Air b'-1:postag:-LRB-'
418 --0.001093 Air b'-1:lemma:-lrb-'
419 --0.001565 Supp b'+1:postag:VBN'
420 --0.002159 O b'+1:lemma:95'
421 --0.002175 O b'-1:lemma:,'
422 --0.002175 O b'-1:postag:,'
423 --0.003091 Phase b'-1:postag:NN'
424 --0.003612 O b'+1:lemma:300'
425 --0.004687 O b'lemma:grow'
426 --0.005564 Phase b'+1:postag:NN'
427 --0.005730 O b'-1:lemma:rpob'
428 --0.005960 O b'-1:lemma:0.2'
429 --0.008901 OD b'+1:postag:CD'
430 --0.013960 Gtype b'-1:postag:NN'
431 --0.019448 Supp b'-1:postag:NN'
432 --0.021094 Supp b'postag:CC'
433 --0.021674 Air b'+1:lemma:n2'
434 --0.023055 Air b'-1:postag:VBN'
435 --0.029602 O b'+1:lemma:c'
436 --0.029927 Gtype b'+1:lemma:-lrb-'
437 --0.031078 Gtype b'-1:postag:CD'
438 --0.032455 Supp b'+1:lemma:-rrb-'
439 --0.043025 Med b'postag:CD'
440 --0.044063 Air b'-1:lemma:n2'
441 --0.051827 O b'+1:lemma:5'
442 --0.052288 Air b'postag:CD'
443 --0.053147 O b'lemma:e.'
444 --0.054046 O b'-1:lemma:sample'
445 --0.055910 Supp b'+1:lemma:rifampicin'
446 --0.073647 Anti b'+1:postag:JJ'
447 --0.076109 Phase b'-1:lemma:at'
448 --0.081733 OD b'+1:postag:-LRB-'
449 --0.092924 O b'-1:postag:VBN'
450 --0.093020 Supp b'+1:postag:-RRB-'
451 --0.100297 Med b'+1:postag:IN'
452 --0.133555 O b'lemma:20'
453 --0.147319 O b'-1:lemma:of'
454 --0.160013 O b'+1:lemma:0.3'
455 --0.162627 Gversion b'+1:postag:NN'
456 --0.171877 Temp b'postag:JJ'
457 --0.175078 Supp b'-1:lemma:%'
458 --0.185069 Med b'-1:postag:NN'
459 --0.188392 pH b'postag:NN'
460 --0.188459 O b'-1:lemma:-lrb-'
461 --0.202621 O b'+1:lemma:%'
462 --0.230099 O b'lemma:phase'
463 --0.232998 O b'+1:postag:NNS'
464 --0.236077 O b'+1:lemma:+'
465 --0.253923 O b'-1:lemma:from'
466 --0.255483 Phase b'postag:JJ'
467 --0.274761 O b'+1:lemma:.'
468 --0.274761 O b'+1:postag:.'
469 --0.290238 O b'+1:lemma:-rrb-'
470 --0.300427 O b'-1:postag:IN'
471 --0.308229 O b'-1:postag:-LRB-'
472 --0.318766 O b'lemma:anaerobically'
473 --0.351102 Temp b'postag:NN'
474 --0.388853 O b'lemma:0.3'
475 --0.414731 O b'+1:postag:VBG'
476 --0.420993 O b'-1:lemma:~'
477 --0.452810 Med b'+1:postag:NN'
478 --0.476044 O b'lemma:dissolve'
479 --0.483565 O b'+1:lemma:fecl2'
480 --0.484516 O b'-1:lemma:od600'
481 --0.490291 O b'+1:postag:IN'
482 --0.498743 O b'lemma:od600'
483 --0.515814 Air b'-1:postag:JJ'
484 --0.522065 O b'+1:postag:-RRB-'
485 --0.532128 Temp b'+1:lemma:to'
486 --0.532128 Temp b'+1:postag:TO'
487 --0.532162 Technique b'-1:postag::'
488 --0.533136 Supp b'+1:lemma:acetate'
489 --0.537346 O b'-1:lemma:37'
490 --0.567786 O b'lemma:fecl2'
491 --0.603831 O b'lemma:media'
492 --0.607413 O b'lemma:of'
493 --0.627428 O b'lemma:2h'
494 --0.627428 O b'-1:lemma:additional'
495 --0.674938 O b'lemma:37'
496 --0.691254 O b'lemma:0.2'
497 --0.693796 OD b'lemma:-lrb-'
498 --0.703078 O b'lemma:0.1'
499 --0.748625 OD b'+1:postag:NN'
500 --0.774790 O b'-1:lemma:grow'
501 --0.776043 O b'+1:lemma:g/l'
502 --0.814594 O b'+1:lemma:cell'
503 --0.834196 Anti b'postag:NNP'
504 --0.858627 O b'-1:lemma:ompr'
505 --0.928203 O b'-1:postag::'
506 --0.939567 O b'lemma:mid-log'
507 --0.989255 O b'-1:lemma:dissolve'
508 --0.989255 O b'+1:lemma:methanol'
509 --1.014879 O b'+1:lemma:supplement'
510 --1.026773 O b'-1:lemma:nsrr'
511 --1.030867 O b'lemma:wt'
512 --1.084034 O b'lemma:methanol'
513 --1.094856 O b'-1:lemma:co2'
514 --1.182260 O b'-1:lemma:IP'
515 --1.208078 O b'-1:postag:VBG'
516 --1.228784 Air b'postag:NN'
517 --1.321954 Air b'+1:postag:JJ'
518 --1.408887 Supp b'postag:JJ'
519 --1.451813 O b'lemma:rifampicin'
520 --1.529403 O b'+1:lemma:at'
521 --1.607126 O b'+1:lemma:in'
522 --1.625216 OD b'postag:-LRB-'
523 --2.150760 O b'+1:lemma:2'
524 --2.335073 O b'+1:lemma:1'
525 --2.385540 O b'-1:lemma:2'
526 --4.052103 O b'-1:lemma::'
527 --4.159550 O b'-1:lemma:_'
528 -
1 +********** TRAINING AND TESTING REPORT **********
2 +Training file: training-data-set-70.txt
3 +
4 +best params:{'c1': 0.16617627893415826, 'c2': 0.016246283722594547}
5 +best CV score:0.8677299702871124
6 +model size: 0.09M
7 +
8 +Flat F1: 0.8100263815531699
9 + precision recall f1-score support
10 +
11 + OD 1.000 0.818 0.900 22
12 + pH 1.000 1.000 1.000 8
13 + Technique 1.000 0.913 0.955 23
14 + Med 1.000 0.943 0.971 53
15 + Temp 0.923 0.828 0.873 29
16 + Vess 1.000 1.000 1.000 1
17 + Agit 0.000 0.000 0.000 0
18 + Phase 0.882 1.000 0.938 15
19 + Air 0.565 0.377 0.452 69
20 + Anti 1.000 1.000 1.000 11
21 + Strain 0.000 0.000 0.000 1
22 + Gtype 0.889 0.847 0.867 85
23 + Substrain 0.000 0.000 0.000 0
24 + Supp 0.811 0.799 0.805 134
25 + Gversion 0.000 0.000 0.000 0
26 +
27 +avg / total 0.845 0.783 0.810 451
28 +
29 +
30 +Top likely transitions:
31 +Agit -> Agit 6.716949
32 +Temp -> Temp 6.219197
33 +OD -> OD 5.656758
34 +Med -> Med 5.510885
35 +Supp -> Supp 5.091598
36 +Anti -> Anti 4.770668
37 +Gversion -> Gversion 4.530576
38 +Phase -> Phase 4.343162
39 +Air -> Air 4.176421
40 +Gtype -> Gtype 3.872949
41 +O -> O 3.576273
42 +Technique -> Technique 3.464421
43 +pH -> pH 3.115258
44 +O -> Technique 0.821082
45 +Substrain -> Gtype 0.704368
46 +O -> Supp 0.589038
47 +Air -> O 0.511427
48 +Gtype -> Supp 0.510592
49 +Gtype -> Air 0.474170
50 +Temp -> O 0.189513
51 +O -> Gtype 0.176860
52 +Supp -> O 0.145242
53 +Technique -> Air 0.118103
54 +Med -> O 0.093609
55 +O -> Anti 0.090099
56 +Phase -> O 0.002296
57 +O -> Temp 0.002073
58 +O -> Phase 0.000043
59 +O -> Med -0.015745
60 +Gtype -> Med -0.042610
61 +Supp -> Med -0.045443
62 +O -> OD -0.113818
63 +Air -> Supp -0.115743
64 +Technique -> pH -0.124518
65 +OD -> Air -0.194892
66 +Gversion -> O -0.196158
67 +Gtype -> Technique -0.579025
68 +Technique -> O -0.829124
69 +O -> Air -0.902346
70 +Gtype -> O -0.925779
71 +Med -> Supp -1.463243
72 +Substrain -> O -1.475265
73 +
74 +
75 +Top unlikely transitions:
76 +Agit -> Agit 6.716949
77 +Temp -> Temp 6.219197
78 +OD -> OD 5.656758
79 +Med -> Med 5.510885
80 +Supp -> Supp 5.091598
81 +Anti -> Anti 4.770668
82 +Gversion -> Gversion 4.530576
83 +Phase -> Phase 4.343162
84 +Air -> Air 4.176421
85 +Gtype -> Gtype 3.872949
86 +O -> O 3.576273
87 +Technique -> Technique 3.464421
88 +pH -> pH 3.115258
89 +O -> Technique 0.821082
90 +Substrain -> Gtype 0.704368
91 +O -> Supp 0.589038
92 +Air -> O 0.511427
93 +Gtype -> Supp 0.510592
94 +Gtype -> Air 0.474170
95 +Temp -> O 0.189513
96 +O -> Gtype 0.176860
97 +Supp -> O 0.145242
98 +Technique -> Air 0.118103
99 +Med -> O 0.093609
100 +O -> Anti 0.090099
101 +Phase -> O 0.002296
102 +O -> Temp 0.002073
103 +O -> Phase 0.000043
104 +O -> Med -0.015745
105 +Gtype -> Med -0.042610
106 +Supp -> Med -0.045443
107 +O -> OD -0.113818
108 +Air -> Supp -0.115743
109 +Technique -> pH -0.124518
110 +OD -> Air -0.194892
111 +Gversion -> O -0.196158
112 +Gtype -> Technique -0.579025
113 +Technique -> O -0.829124
114 +O -> Air -0.902346
115 +Gtype -> O -0.925779
116 +Med -> Supp -1.463243
117 +Substrain -> O -1.475265
118 +
119 +
120 +Top positive:
121 +6.433973 Technique b'lemma[:2]:Ch'
122 +6.360815 O b'lemma:2'
123 +5.662452 Anti b'-2:lemma:antibody'
124 +5.635583 O b'lemma:1'
125 +5.375548 O b'-2:lemma:_'
126 +5.334062 O b'lemma:3'
127 +4.328011 Gtype b'lemma[:1]:\xce\xb4'
128 +4.274267 O b'lemma[:2]:re'
129 +4.227305 Phase b'lemma:mid-log'
130 +4.196090 Air b'lemma[:2]:ae'
131 +3.698810 Gtype b'-1:lemma:\xe2\x88\x86'
132 +3.689545 Substrain b'lemma[:2]:mg'
133 +3.405547 Air b'lemma:anaerobic'
134 +3.375450 Technique b'lemma:chipseq'
135 +3.355381 O b'-2:lemma:medium'
136 +3.263554 O b'lemma:with'
137 +3.228684 O b'lemma:b'
138 +3.212301 Technique b'lemma[:2]:rn'
139 +3.141015 Supp b'lemma:acetate'
140 +3.091356 Phase b'-2:lemma:phase'
141 +3.034572 Gtype b'lemma:type'
142 +3.034572 Gtype b'lemma[:2]:ty'
143 +3.019205 O b'-1:lemma:tag'
144 +2.976419 Air b'lemma[:2]:an'
145 +2.958977 O b'+2:lemma:\xc2\xb0c'
146 +2.937672 O b'lemma[:2]:ge'
147 +2.921253 O b'lemma[:1]:h'
148 +2.903272 Gtype b'-2:lemma:genotype/variation'
149 +2.893999 Supp b'lemma:arginine'
150 +2.891850 O b'lemma:-'
151 +2.870735 Supp b'-1:lemma:with'
152 +2.863673 Gtype b'+1:lemma:type'
153 +2.803093 Supp b'lemma:pq'
154 +2.803093 Supp b'lemma[:2]:pq'
155 +2.800209 O b'lemma:a'
156 +2.752078 Med b'+2:postag:CC'
157 +2.708393 Gtype b'lemma[:2]:pk'
158 +2.703014 Supp b'-1:lemma:Cra'
159 +2.629891 O b'lemma:_'
160 +2.629891 O b'lemma[:1]:_'
161 +2.596183 Supp b'lemma:Iron'
162 +2.596183 Supp b'lemma[:2]:Ir'
163 +2.596183 Supp b'-2:lemma:Anaerobic'
164 +2.569027 O b'+2:lemma:70'
165 +2.544018 Supp b'+2:lemma:iptg'
166 +2.496912 OD b'lemma[:1]:o'
167 +2.467329 Supp b'+1:lemma:\xc2\xb5m'
168 +2.456900 O b'lemma:.'
169 +2.456900 O b'postag:.'
170 +2.456900 O b'postag[:1]:.'
171 +2.453094 O b'+1:lemma:pq'
172 +2.442390 O b'-1:lemma:ChIP-exo'
173 +2.433484 Technique b'lemma[:2]:ch'
174 +2.399879 Anti b'+2:lemma:antibody'
175 +2.363621 Air b'lemma:Aerobic'
176 +2.363621 Air b'lemma[:2]:Ae'
177 +2.358981 Gtype b'-2:lemma:delta'
178 +2.342573 O b'-2:lemma:myc'
179 +2.331321 Supp b'lemma:no3'
180 +2.313202 Supp b'lemma:rifampicin'
181 +2.312753 Anti b'+1:lemma:antibody'
182 +2.297741 Supp b'lemma[:2]:ri'
183 +2.281621 Air b'-2:lemma:IP'
184 +2.278366 Med b'lemma:MOPS'
185 +2.278366 Med b'lemma[:1]:M'
186 +2.278366 Med b'lemma[:2]:MO'
187 +2.270655 OD b'lemma[:2]:od'
188 +2.263438 Gversion b'lemma:chip-seq'
189 +2.231180 O b'-1:lemma:glucose'
190 +2.206950 Gtype b'lemma:wt'
191 +2.206950 Gtype b'lemma[:2]:wt'
192 +2.187730 Supp b'lemma[:2]:gl'
193 +2.186178 pH b'+1:postag:CD'
194 +2.183027 Technique b'-1:lemma:input'
195 +2.179683 O b'lemma[:1]:-'
196 +2.172484 Air b'-1:lemma:ChIP-Seq'
197 +2.160518 Phase b'lemma:stationary'
198 +2.150044 Phase b'lemma[:2]:ex'
199 +2.145423 O b'postag:IN'
200 +2.145423 O b'postag[:1]:I'
201 +2.145423 O b'postag[:2]:IN'
202 +2.135783 O b'-1:lemma:lb'
203 +2.115167 O b'-1:lemma:anaerobic'
204 +2.106797 O b'lemma:rpob'
205 +2.094643 O b'+2:lemma:cra'
206 +2.046836 Gtype b'-2:postag:DT'
207 +2.035645 Gtype b'lemma:nsrr'
208 +2.035645 Gtype b'lemma[:2]:ns'
209 +2.034890 Technique b'lemma[:1]:C'
210 +2.033641 O b'+1:postag:RB'
211 +2.013660 Supp b'+1:lemma:1'
212 +2.011345 Supp b'lemma:fructose'
213 +2.002182 Supp b'-2:lemma:media'
214 +1.998148 Gtype b'hGreek'
215 +1.992371 Temp b'-1:lemma:\xcf\x8332'
216 +1.980657 O b'postag::'
217 +1.980657 O b'postag[:1]::'
218 +1.979866 Supp b'-1:lemma:final'
219 +1.974647 Med b'+2:lemma:b2'
220 +1.964961 Temp b'-1:lemma:sample'
221 +1.959365 Strain b'+1:lemma:substr'
222 +1.959365 Strain b'-2:lemma:str'
223 +1.931532 Temp b'-2:lemma:\xcf\x8332'
224 +1.926204 pH b'lemma[:2]:ph'
225 +1.924918 Supp b'-2:lemma:agent'
226 +1.911949 Supp b'lemma[:1]:n'
227 +1.895649 Supp b'+2:lemma:rifampicin'
228 +1.895108 Temp b'+2:postag:DT'
229 +1.894074 Air b'-1:lemma:-'
230 +1.892359 Gtype b'lemma:\xe2\x88\x86'
231 +1.892359 Gtype b'lemma[:1]:\xe2\x88\x86'
232 +1.886561 O b'-1:lemma:media'
233 +1.878120 Gtype b'lemma[:1]:w'
234 +1.849654 Air b'-1:lemma:co2'
235 +1.819415 Supp b'-1:lemma:+'
236 +1.819234 Med b'lemma:L'
237 +1.819234 Med b'+1:lemma:broth'
238 +1.811008 Anti b'lemma[:2]:an'
239 +1.807476 O b'-1:lemma:0.3'
240 +1.795731 O b'-1:postag:NNS'
241 +1.794762 O b'postag:CC'
242 +1.794762 O b'postag[:2]:CC'
243 +1.793009 Gtype b'-1:postag:VBG'
244 +1.774172 O b'lemma[:1]:C'
245 +1.769427 Temp b'lemma[:1]:3'
246 +1.750065 Med b'lemma:broth'
247 +1.750065 Med b'-1:lemma:L'
248 +1.750065 Med b'lemma[:2]:br'
249 +1.731860 Air b'lemma[:1]:A'
250 +1.729863 Supp b'-1:postag:CC'
251 +1.711219 Gtype b'+1:lemma:with'
252 +1.710940 O b'+1:postag:NNP'
253 +1.706914 O b'+1:lemma:coli'
254 +1.705143 Phase b'lemma[:1]:e'
255 +1.701557 O b'lemma:chip'
256 +1.688302 Gtype b'lemma[:2]:ar'
257 +1.687398 Gtype b'-1:lemma:_'
258 +1.679707 Supp b'-2:lemma:induce'
259 +1.674594 O b'+1:lemma:250'
260 +1.667872 O b'-2:lemma:ChIP-Seq'
261 +1.653279 Gtype b'+1:lemma::'
262 +1.627724 O b'lemma:A'
263 +1.622722 Supp b'lemma[:2]:ac'
264 +1.617166 O b'postag:VBN'
265 +1.614130 Substrain b'lemma[:1]:m'
266 +1.610355 Gtype b'-2:lemma:genotype'
267 +1.606189 O b'+2:postag:JJ'
268 +1.605995 O b'lemma:0.4'
269 +1.600992 Substrain b'+1:lemma:phtpg'
270 +1.591094 O b'-1:lemma:Aerobic'
271 +1.589843 Supp b'-1:lemma:_'
272 +1.579672 Air b'+1:postag:IN'
273 +1.566124 Temp b'lemma:43'
274 +1.566124 Temp b'lemma[:2]:43'
275 +1.563526 O b'-1:lemma:type'
276 +1.558846 Supp b'lemma[:2]:30'
277 +1.552158 O b'-1:lemma:aerobically'
278 +1.551882 Gversion b'lemma:nc'
279 +1.551882 Gversion b'lemma[:2]:nc'
280 +1.536623 Supp b'+1:lemma:_'
281 +1.536256 O b'-1:lemma:\xc2\xb0c'
282 +1.524621 Air b'lemma[:1]:a'
283 +1.511586 Temp b'-1:lemma:43'
284 +1.506306 O b'lemma[:1]:b'
285 +1.506103 Gtype b'lemma[:2]:wi'
286 +1.498210 Supp b'+1:lemma:2'
287 +1.491309 Gtype b'+1:lemma:flagtag'
288 +1.490390 Med b'+1:lemma:0.4'
289 +1.485550 O b'+2:lemma:fructose'
290 +1.479904 Supp b'lemma:Leu'
291 +1.479904 Supp b'lemma[:2]:Le'
292 +1.479904 Supp b'-2:lemma:Lrp'
293 +1.475818 Supp b'lemma:glucose'
294 +1.472393 Gtype b'lemma[:2]:fl'
295 +1.471237 Gtype b'-1:lemma:rpob'
296 +1.464668 Med b'lemma:lb'
297 +1.464668 Med b'lemma[:2]:lb'
298 +1.462458 O b'+1:lemma:mid-log'
299 +1.460719 Med b'+2:lemma:b1'
300 +1.459376 O b'lemma[:2]:ha'
301 +1.450388 Supp b'lemma[:1]:I'
302 +1.442333 Gtype b'-1:lemma:vector'
303 +1.442007 Med b'+1:lemma:g/l'
304 +1.435558 Supp b'lemma[:2]:ni'
305 +1.434864 O b'lemma:ml'
306 +1.434864 O b'lemma[:2]:ml'
307 +1.431207 Technique b'symb'
308 +1.424801 O b'lemma[:1]:r'
309 +1.421918 Supp b'+2:lemma:mid-log'
310 +1.413708 O b'lemma[:1]:s'
311 +1.383477 O b'-2:postag:FW'
312 +1.383257 O b'-1:lemma:into'
313 +1.382919 O b'lemma[:2]:ga'
314 +1.354991 O b'lemma[:1]:c'
315 +1.346926 Med b'+1:lemma:minimal'
316 +1.336028 Gtype b'lemma[:1]:f'
317 +1.335008 O b'+1:postag:VBN'
318 +1.329569 pH b'lemma:ph5'
319 +1.329569 pH b'+1:lemma:.5'
320 +1.326705 Gtype b'-2:lemma:affyexp'
321 +
322 +
323 +Top negative:
324 +-0.155596 Supp b'-1:lemma:10'
325 +-0.157470 O b'+2:lemma:ph'
326 +-0.158631 Supp b'lemma[:1]:s'
327 +-0.159053 O b'-1:lemma:from'
328 +-0.160270 Supp b'-1:lemma:-lrb-'
329 +-0.160524 Gtype b'+2:postag:CD'
330 +-0.161112 Air b'postag[:1]:N'
331 +-0.161112 Air b'postag[:2]:NN'
332 +-0.161768 pH b'postag:NN'
333 +-0.161818 OD b'symb'
334 +-0.167771 Supp b'-2:lemma:treat'
335 +-0.176292 O b'lemma:co2'
336 +-0.177197 O b'-1:lemma:g/l'
337 +-0.181198 O b'-1:lemma:1m'
338 +-0.181198 O b'+2:lemma:7.6'
339 +-0.186508 O b'-2:lemma:genome'
340 +-0.193058 Supp b'+2:lemma:-rrb-'
341 +-0.194306 Gtype b'lemma[:1]:h'
342 +-0.194450 Supp b'-1:postag:-LRB-'
343 +-0.195692 Anti b'symb'
344 +-0.197135 O b'-2:lemma:of'
345 +-0.201423 O b'-2:lemma:-lrb-'
346 +-0.201718 O b'-1:lemma:0.2'
347 +-0.207096 Temp b'postag[:1]:N'
348 +-0.207096 Temp b'postag[:2]:NN'
349 +-0.208637 Temp b'-2:postag:NN'
350 +-0.210816 Technique b'-2:postag:NN'
351 +-0.212139 O b'lemma:in'
352 +-0.215720 Supp b'+2:postag:-RRB-'
353 +-0.227268 O b'+2:lemma:-rrb-'
354 +-0.229192 O b'lemma:anaerobic'
355 +-0.229556 O b'+1:lemma:.'
356 +-0.229556 O b'+1:postag:.'
357 +-0.229949 Vess b'hUpper'
358 +-0.229949 Vess b'hLower'
359 +-0.232026 O b'lemma[:1]:n'
360 +-0.239837 O b'lemma:30'
361 +-0.244559 O b'lemma:anaerobically'
362 +-0.245601 Phase b'+1:postag:NN'
363 +-0.249673 O b'-2:lemma:aerobically'
364 +-0.251037 O b'-2:lemma:a'
365 +-0.251989 O b'lemma[:1]:d'
366 +-0.252202 Supp b'lemma[:1]:a'
367 +-0.253068 O b'-2:postag:-LRB-'
368 +-0.258564 O b'+1:lemma:mm'
369 +-0.260363 O b'-1:lemma:fresh'
370 +-0.261060 O b'-2:lemma:anaerobically'
371 +-0.262340 Air b'-1:lemma:or'
372 +-0.263528 pH b'postag[:1]:N'
373 +-0.263528 pH b'postag[:2]:NN'
374 +-0.265074 O b'-2:postag::'
375 +-0.265217 O b'-2:lemma:IP'
376 +-0.269304 Med b'+1:postag:NN'
377 +-0.285401 O b'-2:lemma:rpob'
378 +-0.295781 Supp b'lemma[:2]:an'
379 +-0.296045 O b'lemma[:2]:ar'
380 +-0.296575 O b'-2:lemma:fresh'
381 +-0.301913 O b'lemma:media'
382 +-0.307515 O b'lemma[:2]:gl'
383 +-0.308163 O b'-1:postag:IN'
384 +-0.311903 O b'-1:lemma:mm'
385 +-0.312159 O b'-2:lemma:nh4cl'
386 +-0.322974 Anti b'+2:postag:JJ'
387 +-0.325164 Supp b'-2:postag:JJ'
388 +-0.328654 Supp b'-1:postag:NNP'
389 +-0.332535 O b'-1:lemma:of'
390 +-0.341258 O b'lemma:methanol'
391 +-0.341258 O b'-2:lemma:dissolve'
392 +-0.346421 Supp b'+2:lemma:glucose'
393 +-0.353210 Technique b'-1:postag::'
394 +-0.357081 O b'+1:lemma:supplement'
395 +-0.362827 O b'lemma:2h'
396 +-0.362827 O b'-1:lemma:additional'
397 +-0.362827 O b'lemma[:2]:2h'
398 +-0.373258 O b'-1:lemma:final'
399 +-0.373355 O b'+2:lemma:at'
400 +-0.376466 Supp b'+1:postag:NNS'
401 +-0.379434 O b'-1:lemma:IP'
402 +-0.379949 O b'lemma[:1]:0'
403 +-0.380927 O b'-2:lemma:phase'
404 +-0.384075 O b'lemma:glucose'
405 +-0.384929 Med b'-1:postag:NN'
406 +-0.387171 O b'lemma[:1]:k'
407 +-0.388425 O b'lemma:\xe2\x88\x86'
408 +-0.388425 O b'lemma[:1]:\xe2\x88\x86'
409 +-0.390156 Temp b'postag:NN'
410 +-0.390965 O b'+1:lemma:g/l'
411 +-0.410576 Med b'-1:postag:CD'
412 +-0.411791 O b'+1:lemma:1m'
413 +-0.411791 O b'-2:lemma:vol'
414 +-0.418447 Gtype b'+1:lemma:-rrb-'
415 +-0.418498 O b'-1:lemma:rpob'
416 +-0.422355 O b'-2:lemma:until'
417 +-0.434852 Technique b'postag:NN'
418 +-0.435566 Supp b'postag:JJ'
419 +-0.439076 Supp b'postag[:1]:J'
420 +-0.439076 Supp b'postag[:2]:JJ'
421 +-0.442452 O b'-1:lemma:30'
422 +-0.455337 Med b'+2:postag:VBN'
423 +-0.455366 Air b'postag:NN'
424 +-0.461874 O b'+2:lemma:fnr'
425 +-0.467110 O b'-2:lemma:supplement'
426 +-0.468087 O b'-1:lemma:dissolve'
427 +-0.468087 O b'+1:lemma:methanol'
428 +-0.486893 Gtype b'-2:lemma:\xe2\x88\x86'
429 +-0.493653 O b'lemma[:1]:L'
430 +-0.497715 O b'+2:lemma:10'
431 +-0.498822 O b'lemma:of'
432 +-0.498822 O b'lemma[:2]:of'
433 +-0.507436 O b'lemma[:2]:0.'
434 +-0.510139 Med b'+1:postag:IN'
435 +-0.513295 O b'+2:lemma:tag'
436 +-0.514818 O b'+1:lemma:+'
437 +-0.532828 O b'-1:lemma:\xe2\x88\x86'
438 +-0.536622 O b'+2:lemma:mid-log'
439 +-0.538561 Supp b'+1:lemma:-lrb-'
440 +-0.543996 O b'+2:lemma:.'
441 +-0.543996 O b'+2:postag:.'
442 +-0.557797 Supp b'+1:postag:-LRB-'
443 +-0.568152 O b'+2:lemma:a'
444 +-0.585265 O b'-2:lemma:pahse'
445 +-0.590510 O b'-2:lemma:glucose'
446 +-0.590875 O b'+1:lemma:until'
447 +-0.605869 O b'-1:lemma:nsrr'
448 +-0.609882 O b'-2:lemma:dpd'
449 +-0.616188 Phase b'-1:postag:JJ'
450 +-0.618132 Air b'-1:postag:JJ'
451 +-0.624517 O b'-2:postag:SYM'
452 +-0.626955 Gtype b'lemma[:1]:c'
453 +-0.627961 Anti b'+2:lemma:polyclonal'
454 +-0.635434 Med b'symb'
455 +-0.635949 Phase b'postag[:1]:J'
456 +-0.635949 Phase b'postag[:2]:JJ'
457 +-0.636258 OD b'hUpper'
458 +-0.636258 OD b'hLower'
459 +-0.636750 O b'lemma[:2]:ri'
460 +-0.647062 O b'+1:postag:IN'
461 +-0.654730 O b'-2:lemma:2'
462 +-0.655657 Phase b'postag:JJ'
463 +-0.655964 Supp b'symb'
464 +-0.660356 O b'+2:lemma:+'
465 +-0.661231 O b'+1:lemma:2.0'
466 +-0.662145 O b'-2:lemma:media'
467 +-0.666872 O b'+2:lemma:b'
468 +-0.675694 Anti b'+1:lemma:anti-fur'
469 +-0.688911 O b'-1:lemma:co2'
470 +-0.690102 Gtype b'postag[:1]:V'
471 +-0.690102 Gtype b'postag[:2]:VB'
472 +-0.694375 Gtype b'lemma[:1]:r'
473 +-0.706144 O b'lemma[:2]:me'
474 +-0.718038 O b'lemma:mid-log'
475 +-0.724228 O b'lemma:rifampicin'
476 +-0.735529 O b'-2:lemma::'
477 +-0.743194 Med b'-2:postag:VBN'
478 +-0.786989 Supp b'+1:lemma:,'
479 +-0.786989 Supp b'+1:postag:,'
480 +-0.789461 O b'-2:postag:RB'
481 +-0.815790 Agit b'hUpper'
482 +-0.815790 Agit b'hLower'
483 +-0.824637 O b'+2:postag:-RRB-'
484 +-0.828411 O b'-1:lemma:cra'
485 +-0.834312 O b'+1:lemma:at'
486 +-0.864833 O b'-1:lemma:vol'
487 +-0.864833 O b'-2:lemma:1/100'
488 +-0.864833 O b'+2:lemma:1m'
489 +-0.896137 O b'-2:postag:DT'
490 +-0.903408 Phase b'hUpper'
491 +-0.903408 Phase b'hLower'
492 +-0.954592 Gtype b'lemma[:1]:a'
493 +-0.958219 Gtype b'+2:lemma:cra'
494 +-0.959188 O b'-1:lemma:ph'
495 +-1.006021 O b'-2:lemma:0.3'
496 +-1.010964 O b'lemma[:2]:ae'
497 +-1.026041 Med b'-2:lemma:grow'
498 +-1.037767 O b'-1:postag::'
499 +-1.062839 O b'-1:lemma:sample'
500 +-1.105188 Supp b'lemma[:1]:c'
501 +-1.107601 OD b'+1:postag:NN'
502 +-1.109127 Agit b'symb'
503 +-1.130040 Supp b'+2:postag:CD'
504 +-1.149221 O b'lemma:0.3'
505 +-1.151210 O b'-1:lemma:1'
506 +-1.172944 O b'lemma[:2]:30'
507 +-1.211332 O b'+2:lemma:then'
508 +-1.263528 Supp b'+2:lemma:fructose'
509 +-1.346921 O b'+2:lemma:rifampicin'
510 +-1.394447 O b'postag:VBP'
511 +-1.459260 Supp b'+2:lemma:1'
512 +-1.504864 Anti b'postag:NNP'
513 +-1.616873 O b'-1:lemma:2'
514 +-1.627873 Supp b'+2:lemma:2'
515 +-1.790611 O b'-1:postag:VBG'
516 +-1.925758 O b'-2:lemma:rifampicin'
517 +-2.014829 O b'+1:lemma:in'
518 +-2.028945 OD b'+2:lemma:aerobically'
519 +-2.287808 O b'+1:lemma:1'
520 +-2.798978 O b'+1:lemma:2'
521 +-2.902688 O b'lemma[:2]:fl'
522 +-3.487913 O b'-1:lemma::'
523 +-4.880856 O b'-1:lemma:_'
524 +
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.2615074589465166, 'c2': 0.00276705652339924}
5 -best CV score:0.816301419715609
6 -model size: 0.07M
7 -
8 -Flat F1: 0.8270102352867752
9 - precision recall f1-score support
10 -
11 - OD 0.652 0.405 0.500 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.957 1.000 0.978 22
14 - Med 1.000 0.912 0.954 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.810 0.758 0.783 62
20 - Anti 1.000 1.000 1.000 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.845 0.877 0.861 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.881 0.706 0.784 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.870 0.796 0.827 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.901670
32 -OD -> OD 6.662115
33 -Temp -> Temp 5.932826
34 -Med -> Med 5.616057
35 -Supp -> Supp 4.930556
36 -Air -> Air 4.771871
37 -Anti -> Anti 4.504604
38 -Gversion -> Gversion 4.501000
39 -Phase -> Phase 4.124266
40 -Technique -> Technique 4.076096
41 -Gtype -> Gtype 3.973576
42 -O -> O 3.951466
43 -pH -> pH 2.018763
44 -O -> Supp 1.197390
45 -O -> Technique 1.079203
46 -Gtype -> Supp 1.043942
47 -Air -> O 0.963896
48 -Supp -> O 0.612092
49 -Substrain -> Gtype 0.476807
50 -O -> Gtype 0.437647
51 -Med -> O 0.335890
52 -Phase -> O 0.267800
53 -OD -> Phase 0.245045
54 -Temp -> O 0.202449
55 -O -> Anti 0.134070
56 -Technique -> Air 0.008370
57 -O -> Temp 0.000020
58 -OD -> Air -0.031556
59 -Gtype -> OD -0.047613
60 -Phase -> OD -0.296269
61 -Gtype -> O -0.463165
62 -OD -> O -0.559048
63 -Technique -> O -0.753141
64 -O -> Air -0.928594
65 -Agit -> O -1.028076
66 -Med -> Supp -1.262808
67 -Substrain -> O -1.295585
68 -
69 -
70 -Top unlikely transitions:
71 -Agit -> Agit 6.901670
72 -OD -> OD 6.662115
73 -Temp -> Temp 5.932826
74 -Med -> Med 5.616057
75 -Supp -> Supp 4.930556
76 -Air -> Air 4.771871
77 -Anti -> Anti 4.504604
78 -Gversion -> Gversion 4.501000
79 -Phase -> Phase 4.124266
80 -Technique -> Technique 4.076096
81 -Gtype -> Gtype 3.973576
82 -O -> O 3.951466
83 -pH -> pH 2.018763
84 -O -> Supp 1.197390
85 -O -> Technique 1.079203
86 -Gtype -> Supp 1.043942
87 -Air -> O 0.963896
88 -Supp -> O 0.612092
89 -Substrain -> Gtype 0.476807
90 -O -> Gtype 0.437647
91 -Med -> O 0.335890
92 -Phase -> O 0.267800
93 -OD -> Phase 0.245045
94 -Temp -> O 0.202449
95 -O -> Anti 0.134070
96 -Technique -> Air 0.008370
97 -O -> Temp 0.000020
98 -OD -> Air -0.031556
99 -Gtype -> OD -0.047613
100 -Phase -> OD -0.296269
101 -Gtype -> O -0.463165
102 -OD -> O -0.559048
103 -Technique -> O -0.753141
104 -O -> Air -0.928594
105 -Agit -> O -1.028076
106 -Med -> Supp -1.262808
107 -Substrain -> O -1.295585
108 -
109 -
110 -Top positive:
111 -7.812637 O b'lemma:1'
112 -6.504281 O b'lemma:3'
113 -6.400430 O b'word[:2]:re'
114 -6.304930 Technique b'word[:2]:Ch'
115 -6.279826 Air b'word[:2]:Ae'
116 -5.852043 O b'lemma:2'
117 -5.816867 O b'-2:lemma:_'
118 -5.295700 Anti b'-2:lemma:antibody'
119 -5.063616 Phase b'lemma:stationary'
120 -4.995551 Air b'lemma:anaerobic'
121 -4.918388 O b'lemma:a'
122 -4.801031 O b'+2:lemma:\xc2\xb0c'
123 -4.623525 O b'postag:IN'
124 -4.395080 Gtype b'-1:lemma:\xe2\x88\x86'
125 -4.294827 Phase b'lemma:mid-log'
126 -4.288438 Gtype b'-2:lemma:genotype/variation'
127 -4.244795 Technique b'word[:2]:RN'
128 -4.131863 O b'postag::'
129 -4.115454 Temp b'-1:lemma:sample'
130 -3.937161 O b'+2:lemma:cra'
131 -3.620368 O b'lemma:.'
132 -3.620368 O b'postag:.'
133 -3.598727 Gtype b'lemma:type'
134 -3.598727 Gtype b'word[:2]:ty'
135 -3.574166 Gtype b'word[:1]:\xce\x94'
136 -3.565566 Gtype b'word[:2]:Fl'
137 -3.545115 O b'word[:1]:S'
138 -3.473665 O b'word[:1]:G'
139 -3.465522 Med b'word[:2]:LB'
140 -3.406689 O b'-1:lemma:tag'
141 -3.343307 O b'word[:2]:ge'
142 -3.313070 O b'postag:VBN'
143 -3.293280 Supp b'lemma:nitrate'
144 -3.293280 Supp b'word[:2]:ni'
145 -3.264010 O b'+2:lemma:fructose'
146 -3.240524 O b'+1:postag:RB'
147 -3.140733 Supp b'lemma:arginine'
148 -3.120877 O b'word[:1]:B'
149 -3.061754 Air b'word[:2]:An'
150 -3.016856 Supp b'+1:lemma:1'
151 -2.979008 OD b'word[:2]:OD'
152 -2.975113 O b'word[:2]:Rp'
153 -2.916749 Supp b'+1:lemma:\xc2\xb5m'
154 -2.856866 Supp b'word[:1]:I'
155 -2.771072 Temp b'word[:1]:3'
156 -2.740905 Anti b'+1:lemma:antibody'
157 -2.679770 O b'lemma:_'
158 -2.679770 O b'word[:1]:_'
159 -2.661062 Med b'word[:1]:M'
160 -2.651438 Supp b'-2:lemma:shake'
161 -2.637158 Supp b'+1:lemma:2'
162 -2.593344 Med b'lemma:MOPS'
163 -2.593344 Med b'word[:2]:MO'
164 -2.551429 O b'postag:DT'
165 -2.548355 O b'+1:postag:VBP'
166 -2.546726 Gtype b'-2:lemma:delta'
167 -2.530641 Anti b'+2:lemma:antibody'
168 -2.523357 Supp b'lemma:Iron'
169 -2.523357 Supp b'word[:2]:Ir'
170 -2.523357 Supp b'-2:lemma:Anaerobic'
171 -2.503256 Gtype b'word[:1]:d'
172 -2.469925 OD b'word[:1]:O'
173 -2.458839 O b'word[:2]:Cr'
174 -2.448696 O b'-1:lemma:Aerobic'
175 -2.435690 Med b'+2:lemma:with'
176 -2.412032 Supp b'word[:2]:Fe'
177 -2.383646 O b'+2:lemma:chipseq'
178 -2.330968 O b'postag:CC'
179 -2.321337 O b'lemma:purr'
180 -2.315130 Phase b'-2:lemma:phase'
181 -2.313990 Air b'word[:1]:A'
182 -2.307788 Air b'-1:lemma:co2'
183 -2.270559 Gtype b'lemma:nsrr'
184 -2.270559 Gtype b'word[:2]:Ns'
185 -2.230916 O b'-2:lemma:medium'
186 -2.219186 O b'lemma:b'
187 -2.212270 O b'lemma:rpob'
188 -2.211847 Supp b'lemma:acetate'
189 -2.208823 Gtype b'-1:lemma:rpob'
190 -2.193351 Gtype b'+2:lemma:glucose'
191 -2.188714 Supp b'-2:lemma:purr'
192 -2.167125 Substrain b'lemma:mg1655'
193 -2.167125 Substrain b'word[:2]:MG'
194 -2.162173 Supp b'-2:lemma:Lrp'
195 -2.153258 pH b'lemma:ph5'
196 -2.153258 pH b'+1:lemma:.5'
197 -2.127429 Gversion b'lemma:chip-seq'
198 -2.119617 O b'-1:lemma:anaerobic'
199 -2.097711 Gtype b'+1:lemma:type'
200 -2.093597 Gtype b'lemma:\xe2\x88\x86'
201 -2.093597 Gtype b'word[:1]:\xe2\x88\x86'
202 -2.073634 Med b'word[:1]:L'
203 -2.067738 Substrain b'word[:1]:M'
204 -2.066496 Temp b'+1:lemma:\xc2\xb0c'
205 -2.028277 O b'word[:2]:Lr'
206 -1.996518 O b'word[:1]:-'
207 -1.987484 O b'-1:lemma:media'
208 -1.972620 pH b'+1:postag:CD'
209 -1.963565 Supp b'+1:lemma:_'
210 -1.929849 O b'word[:2]:Cu'
211 -1.926238 Gtype b'word[:1]:W'
212 -1.923997 O b'-1:lemma:glucose'
213 -1.920206 Supp b'-1:lemma:Cra'
214 -1.885222 Supp b'+2:lemma:rifampicin'
215 -1.838859 Temp b'-1:lemma:\xcf\x8332'
216 -1.835835 O b'-1:lemma:lb'
217 -1.834634 O b'word[:2]:ch'
218 -1.831989 O b'-2:lemma:myc'
219 -1.820007 Supp b'-1:lemma:with'
220 -1.819919 Supp b'word[:2]:gl'
221 -1.813003 Strain b'lemma:k-12'
222 -1.813003 Strain b'word[:2]:K-'
223 -1.800422 O b'+1:lemma:od600'
224 -1.786685 Supp b'lemma:pq'
225 -1.786685 Supp b'word[:2]:PQ'
226 -1.786098 Supp b'-2:lemma:supplement'
227 -1.773090 O b'lemma:argr'
228 -1.754463 Supp b'-1:postag:CC'
229 -1.752010 Temp b'lemma:43'
230 -1.752010 Temp b'word[:2]:43'
231 -1.748609 Gtype b'-2:lemma:genotype'
232 -1.713554 Supp b'word[:1]:N'
233 -1.705522 Med b'+1:lemma:0.4'
234 -1.705477 Gtype b'-2:postag:DT'
235 -1.699311 O b'lemma:with'
236 -1.697768 Temp b'-2:lemma:\xcf\x8332'
237 -1.696162 Supp b'word[:1]:\xc2\xb5'
238 -1.684853 Supp b'+2:lemma:for'
239 -1.669736 Med b'+2:lemma:b2'
240 -1.659149 Strain b'word[:1]:K'
241 -1.656653 O b'lemma:A'
242 -1.642261 Gtype b'+1:lemma:with'
243 -1.639045 O b'-1:lemma:0.3'
244 -1.637590 O b'-1:lemma:type'
245 -1.629911 Agit b'-2:postag:IN'
246 -1.626799 Supp b'lemma:fructose'
247 -1.598539 Gtype b'word[:2]:cr'
248 -1.562458 Air b'+2:lemma:37'
249 -1.560840 O b'+1:postag:NNP'
250 -1.545322 O b'+1:lemma:nacl'
251 -1.535808 Air b'postag:RB'
252 -1.534546 pH b'word[:2]:pH'
253 -1.526850 Air b'word[:2]:an'
254 -1.494453 Supp b'+1:lemma:hour'
255 -1.493417 Gtype b'hGreek'
256 -1.485107 Gtype b'lemma:wt'
257 -1.475865 O b'lemma:Nac'
258 -1.465086 O b'-2:lemma:~'
259 -1.460815 O b'postag:VBD'
260 -1.455969 OD b'+1:lemma:stationary'
261 -1.446469 Air b'-2:postag:CD'
262 -1.436964 O b'word[:1]:c'
263 -1.435630 Technique b'word[:1]:R'
264 -1.424956 Temp b'-1:lemma:43'
265 -1.424148 Gtype b'+1:lemma:flagtag'
266 -1.422205 OD b'word[:2]:0.'
267 -1.409582 Gtype b'postag:JJ'
268 -1.404450 O b'word[:1]:R'
269 -1.388050 Gversion b'lemma:nc'
270 -1.388050 Gversion b'word[:2]:NC'
271 -1.382998 O b'-2:lemma:co2'
272 -1.376458 O b'+1:lemma:chip-seq'
273 -1.376458 O b'word[:2]:In'
274 -1.373329 Anti b'word[:2]:an'
275 -1.361226 Gtype b'lemma:arca8myc'
276 -1.361226 Gtype b'-2:lemma:chip-arca'
277 -1.348605 O b'word[:1]:E'
278 -1.340934 Supp b'lemma:dpd'
279 -1.340934 Supp b'word[:2]:DP'
280 -1.336435 O b'+1:postag::'
281 -1.336267 O b'+1:postag:VBZ'
282 -1.332234 O b'word[:2]:fo'
283 -1.326668 Gversion b'word[:2]:Ch'
284 -1.308053 Gtype b'-1:lemma:_'
285 -1.306772 Supp b'-1:lemma:+'
286 -1.299920 O b'+2:postag:JJ'
287 -1.288650 Supp b'lemma:rifampicin'
288 -1.282895 OD b'word[:1]:0'
289 -1.279050 Air b'word[:1]:a'
290 -1.278342 Supp b'word[:2]:ri'
291 -1.276274 Air b'-1:lemma:ChIP-Seq'
292 -1.270749 Air b'-2:lemma:IP'
293 -1.268696 Gtype b'word[:1]:F'
294 -1.267720 Air b'-2:lemma:%'
295 -1.250226 Vess b'lemma:flask'
296 -1.250226 Vess b'-1:lemma:warm'
297 -1.250226 Vess b'word[:2]:fl'
298 -1.250226 Vess b'-2:lemma:pre'
299 -1.250226 Vess b'+2:lemma:43'
300 -1.248294 Technique b'-1:postag:CD'
301 -1.241744 Med b'+1:lemma:minimal'
302 -1.240037 Supp b'-2:lemma:for'
303 -1.238645 O b'word[:2]:or'
304 -1.231304 Gversion b'-2:postag:VB'
305 -1.230809 O b'lemma:Custom'
306 -1.221416 Supp b'lemma:no3'
307 -1.221416 Supp b'word[:2]:NO'
308 -1.208975 O b'lemma:-'
309 -1.208565 Supp b'-1:postag:CD'
310 -1.196345 Gtype b'-2:postag:NNS'
311 -
312 -
313 -Top negative:
314 --0.020651 Vess b'hLower'
315 --0.021405 Gtype b'word[:1]:g'
316 --0.022102 Temp b'hGreek'
317 --0.023747 Air b'-1:lemma:or'
318 --0.024998 O b'+1:lemma:phase'
319 --0.026006 O b'-1:lemma:of'
320 --0.026445 Technique b'lemma:chip-seq'
321 --0.027849 O b'-1:lemma:the'
322 --0.028545 O b'-1:lemma:-lrb-'
323 --0.028751 O b'+1:postag:CD'
324 --0.029296 O b'+1:lemma:-rrb-'
325 --0.033680 O b'lemma:150'
326 --0.033680 O b'+1:lemma:mg/ml'
327 --0.033680 O b'word[:2]:15'
328 --0.033680 O b'-2:lemma:concentration'
329 --0.033737 Supp b'hGreek'
330 --0.037022 OD b'+1:postag:CD'
331 --0.037317 O b'-1:lemma:g/l'
332 --0.040115 Supp b'+2:postag:NNS'
333 --0.040221 O b'+1:lemma:supplement'
334 --0.040832 O b'-2:lemma:of'
335 --0.040980 OD b'postag:JJ'
336 --0.042683 O b'-1:lemma:rifampicin'
337 --0.044489 Phase b'+1:postag:NN'
338 --0.045601 O b'+1:lemma:-lrb-'
339 --0.046663 O b'word[:1]:p'
340 --0.050360 Supp b'-2:postag:NN'
341 --0.052075 Air b'postag:-RRB-'
342 --0.052075 Air b'word[:2]:-R'
343 --0.055278 O b'+1:lemma:95'
344 --0.056644 O b'word[:2]:an'
345 --0.056812 O b'word[:2]:WT'
346 --0.058247 Air b'lemma:-rrb-'
347 --0.058272 Temp b'postag:NN'
348 --0.060275 Supp b'-1:postag:NN'
349 --0.068834 O b'word[:1]:g'
350 --0.075194 O b'lemma:0.1'
351 --0.075978 O b'+1:lemma:300'
352 --0.078371 Med b'-2:postag:NNP'
353 --0.085484 O b'-1:lemma:mm'
354 --0.090665 Med b'postag:NN'
355 --0.095552 Anti b'symb'
356 --0.097859 O b'-1:lemma:IP'
357 --0.098451 Gtype b'postag:NNP'
358 --0.098891 O b'+2:lemma:iptg'
359 --0.099213 O b'+2:lemma:anaerobically'
360 --0.100378 O b'-1:postag:-LRB-'
361 --0.100648 Air b'-1:postag:CC'
362 --0.102134 Phase b'-2:postag:NN'
363 --0.104356 O b'-2:lemma:30'
364 --0.104398 O b'-2:lemma:aerobically'
365 --0.104525 O b'-2:postag:-LRB-'
366 --0.112855 O b'-1:postag:VBN'
367 --0.129315 pH b'postag:NN'
368 --0.130801 O b'lemma:dissolve'
369 --0.130801 O b'+2:lemma:methanol'
370 --0.132204 Gversion b'-1:postag:NN'
371 --0.135249 O b'+2:lemma:-rrb-'
372 --0.136494 Temp b'-2:postag:NN'
373 --0.140087 Air b'postag:CC'
374 --0.143197 Anti b'+1:postag:JJ'
375 --0.145931 O b'lemma:dpd'
376 --0.145931 O b'word[:2]:DP'
377 --0.146304 O b'+1:lemma:minimal'
378 --0.149480 O b'+2:lemma:mg1655'
379 --0.153199 O b'lemma:glucose'
380 --0.156279 O b'word[:2]:OD'
381 --0.167599 O b'-2:lemma:anaerobically'
382 --0.169441 O b'+2:lemma:.'
383 --0.169441 O b'+2:postag:.'
384 --0.176081 O b'-2:lemma:and'
385 --0.176601 O b'word[:2]:gl'
386 --0.178983 O b'word[:2]:30'
387 --0.182343 Supp b'-2:lemma:-lrb-'
388 --0.182989 Gtype b'+2:lemma:,'
389 --0.182989 Gtype b'+2:postag:,'
390 --0.187940 O b'-2:postag:RB'
391 --0.188522 Gtype b'-1:postag:NN'
392 --0.193161 Supp b'-2:postag:-LRB-'
393 --0.195209 O b'+1:postag:VBG'
394 --0.195524 Gtype b'-1:lemma:,'
395 --0.195524 Gtype b'-1:postag:,'
396 --0.196160 O b'-2:postag:-RRB-'
397 --0.205382 O b'lemma:media'
398 --0.205997 O b'+1:lemma:+'
399 --0.207188 O b'-2:postag:VBG'
400 --0.214958 O b'-1:postag:IN'
401 --0.216865 O b'+2:lemma:fnr'
402 --0.220433 O b'-1:lemma:iptg'
403 --0.225687 OD b'+2:postag:CD'
404 --0.226895 Anti b'+1:lemma:anti-fur'
405 --0.227678 O b'+1:lemma:hour'
406 --0.227891 O b'+1:lemma:\xc2\xb0c'
407 --0.233240 O b'+1:postag:-RRB-'
408 --0.234954 O b'+1:lemma:until'
409 --0.238139 O b'lemma:2h'
410 --0.238139 O b'-1:lemma:additional'
411 --0.238139 O b'word[:2]:2h'
412 --0.240394 Med b'-2:lemma:grow'
413 --0.240644 O b'+1:lemma:cell'
414 --0.240717 O b'lemma:20'
415 --0.241598 Air b'+1:postag:JJ'
416 --0.243020 Air b'+2:postag:IN'
417 --0.249072 O b'+1:lemma:.'
418 --0.249072 O b'+1:postag:.'
419 --0.270838 O b'lemma:aerobically'
420 --0.270838 O b'word[:2]:ae'
421 --0.272076 O b'-2:lemma:IP'
422 --0.276552 Anti b'+2:postag:JJ'
423 --0.282858 O b'word[:2]:mg'
424 --0.291041 O b'+1:lemma:_'
425 --0.299542 O b'-2:postag:DT'
426 --0.314381 O b'word[:1]:F'
427 --0.315135 O b'+2:lemma:medium'
428 --0.316365 O b'lemma:k-12'
429 --0.316365 O b'word[:2]:K-'
430 --0.323941 O b'-1:lemma:rpob'
431 --0.324142 O b'+1:lemma:g/l'
432 --0.324651 OD b'-2:postag:JJ'
433 --0.330410 Med b'+1:postag:NN'
434 --0.337573 O b'lemma:anaerobically'
435 --0.342544 O b'word[:2]:ri'
436 --0.349990 Supp b'+2:lemma:-rrb-'
437 --0.361823 O b'-1:lemma:mid-log'
438 --0.376409 O b'-1:lemma:nsrr'
439 --0.377222 Anti b'+2:lemma:polyclonal'
440 --0.377621 O b'-1:lemma:grow'
441 --0.387403 O b'-2:lemma:rpob'
442 --0.393536 O b'-1:lemma:37'
443 --0.397261 Supp b'+2:postag:-RRB-'
444 --0.408344 O b'word[:1]:K'
445 --0.411343 O b'-1:lemma:0.2'
446 --0.413533 O b'lemma:phase'
447 --0.415095 O b'word[:2]:Fe'
448 --0.418603 Supp b'-2:postag:JJ'
449 --0.422914 O b'lemma:rifampicin'
450 --0.425448 O b'-2:lemma:a'
451 --0.436504 O b'-2:lemma::'
452 --0.440069 Med b'-1:postag:NN'
453 --0.450178 Supp b'+2:lemma:2'
454 --0.452858 O b'lemma:of'
455 --0.452858 O b'word[:2]:of'
456 --0.456778 Supp b'lemma:2'
457 --0.464475 Agit b'symb'
458 --0.477506 Supp b'+2:postag:NN'
459 --0.480481 O b'word[:2]:0.'
460 --0.484144 O b'+2:lemma:rifampicin'
461 --0.495023 OD b'+1:postag:NN'
462 --0.495729 O b'lemma:methanol'
463 --0.495729 O b'-2:lemma:dissolve'
464 --0.498568 O b'-1:lemma:dissolve'
465 --0.498568 O b'+1:lemma:methanol'
466 --0.501386 O b'postag:RB'
467 --0.501736 O b'-2:lemma:50'
468 --0.505561 Agit b'hUpper'
469 --0.505561 Agit b'hLower'
470 --0.507205 O b'+1:postag:NNS'
471 --0.510498 O b'+2:postag:-RRB-'
472 --0.539348 O b'+2:postag:RB'
473 --0.550860 O b'word[:1]:0'
474 --0.576925 Med b'+1:postag:IN'
475 --0.579947 O b'lemma:mid-log'
476 --0.589847 O b'word[:1]:d'
477 --0.639331 Phase b'hUpper'
478 --0.639331 Phase b'hLower'
479 --0.644727 O b'+1:postag:IN'
480 --0.678795 Med b'symb'
481 --0.717017 Med b'-2:postag:VBN'
482 --0.751995 Supp b'word[:2]:an'
483 --0.759518 O b'-1:lemma:co2'
484 --0.776028 O b'-1:postag:VBG'
485 --0.792743 O b'-2:lemma:supplement'
486 --0.794523 O b'word[:2]:me'
487 --0.883371 O b'word[:2]:ce'
488 --0.883506 O b'lemma:wt'
489 --0.888247 O b'+2:lemma:mid-log'
490 --0.920374 O b'word[:2]:Ch'
491 --0.968528 O b'word[:1]:N'
492 --1.043344 O b'-2:lemma:rifampicin'
493 --1.053670 Gtype b'word[:1]:C'
494 --1.081691 Supp b'symb'
495 --1.097239 O b'word[:1]:\xce\x94'
496 --1.146299 Air b'-1:postag:JJ'
497 --1.205559 O b'-2:lemma:phase'
498 --1.226939 Phase b'postag:JJ'
499 --1.279089 O b'-1:postag::'
500 --1.306934 O b'word[:1]:P'
501 --1.435763 Air b'postag:NN'
502 --1.552893 Supp b'postag:JJ'
503 --1.656010 O b'+1:lemma:in'
504 --1.838496 O b'-1:lemma:2'
505 --1.866172 Technique b'postag:NN'
506 --2.005093 O b'+1:lemma:at'
507 --2.021343 Anti b'postag:NNP'
508 --2.209344 Supp b'+2:postag:CD'
509 --2.425446 O b'+1:lemma:2'
510 --2.700819 O b'+1:lemma:1'
511 --2.961178 OD b'word[:1]:-'
512 --3.613008 O b'-1:lemma::'
513 --5.053367 O b'-1:lemma:_'
514 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.09511707500453928, 'c2': 0.0519939941697524}
5 -best CV score:0.7998412075268018
6 -model size: 0.08M
7 -
8 -Flat F1: 0.7932328849300371
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.889 0.842 0.865 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.444 0.615 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.863 0.774 0.816 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.869 0.684 0.765 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.877 0.742 0.793 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 5.749772
32 -Agit -> Agit 5.688189
33 -Temp -> Temp 5.111918
34 -Anti -> Anti 4.939494
35 -Med -> Med 4.868494
36 -Air -> Air 4.689503
37 -O -> O 4.416867
38 -Gversion -> Gversion 4.266419
39 -Gtype -> Gtype 4.185164
40 -Phase -> Phase 3.973215
41 -Supp -> Supp 3.799309
42 -Technique -> Technique 3.093180
43 -pH -> pH 2.189243
44 -O -> Supp 1.935389
45 -Gtype -> Supp 1.770914
46 -Substrain -> Gtype 1.755994
47 -Air -> O 1.607275
48 -O -> Gtype 1.391276
49 -O -> Technique 1.205509
50 -Technique -> Air 0.988264
51 -Gtype -> pH 0.880145
52 -O -> Temp 0.803834
53 -O -> Anti 0.795385
54 -Med -> O 0.789203
55 -OD -> Phase 0.519647
56 -Temp -> O 0.509435
57 -Gtype -> Air 0.467309
58 -Phase -> O 0.450923
59 -O -> Gversion 0.422170
60 -Supp -> O 0.376214
61 -O -> pH 0.285778
62 -O -> Strain 0.277519
63 -O -> Med 0.183463
64 -O -> Vess 0.108208
65 -Anti -> O 0.032635
66 -Gtype -> O 0.000074
67 -O -> Agit -0.011460
68 -Anti -> Supp -0.011497
69 -Air -> Temp -0.016955
70 -O -> Phase -0.028542
71 -Gversion -> Technique -0.030101
72 -OD -> Supp -0.066876
73 -Technique -> O -0.067595
74 -Gversion -> Supp -0.135604
75 -Anti -> Gtype -0.143013
76 -Air -> Supp -0.157667
77 -Air -> Med -0.174826
78 -Gtype -> Phase -0.197920
79 -Med -> Air -0.205361
80 -OD -> Gtype -0.211062
81 -
82 -
83 -Top unlikely transitions:
84 -O -> Med 0.183463
85 -O -> Vess 0.108208
86 -Anti -> O 0.032635
87 -Gtype -> O 0.000074
88 -O -> Agit -0.011460
89 -Anti -> Supp -0.011497
90 -Air -> Temp -0.016955
91 -O -> Phase -0.028542
92 -Gversion -> Technique -0.030101
93 -OD -> Supp -0.066876
94 -Technique -> O -0.067595
95 -Gversion -> Supp -0.135604
96 -Anti -> Gtype -0.143013
97 -Air -> Supp -0.157667
98 -Air -> Med -0.174826
99 -Gtype -> Phase -0.197920
100 -Med -> Air -0.205361
101 -OD -> Gtype -0.211062
102 -Supp -> Temp -0.212874
103 -Supp -> pH -0.213431
104 -Supp -> Phase -0.219962
105 -Gversion -> Air -0.225808
106 -Temp -> Med -0.253881
107 -Supp -> Anti -0.265528
108 -Gtype -> Technique -0.268918
109 -Technique -> Supp -0.284128
110 -Phase -> Technique -0.303684
111 -Anti -> OD -0.378454
112 -Air -> OD -0.388802
113 -Gtype -> Gversion -0.434612
114 -Supp -> Gversion -0.461142
115 -Supp -> Gtype -0.480734
116 -Supp -> Technique -0.490490
117 -Supp -> OD -0.493041
118 -Gtype -> Med -0.540343
119 -OD -> Med -0.546645
120 -OD -> O -0.581637
121 -Supp -> Air -0.585456
122 -OD -> Air -0.600309
123 -O -> Air -0.604701
124 -Gtype -> Anti -0.624686
125 -Agit -> O -0.663403
126 -Substrain -> O -0.867732
127 -Gtype -> OD -0.893986
128 -Technique -> OD -0.928156
129 -Technique -> pH -0.950458
130 -Technique -> Gtype -0.973255
131 -Supp -> Med -1.074321
132 -Med -> Supp -1.297374
133 -Phase -> OD -1.457940
134 -
135 -
136 -Top positive:
137 -6.617235 O b'lemma:_'
138 -5.661937 O b'lemma:1'
139 -5.054136 Air b'lemma:anaerobic'
140 -4.862395 O b'lemma:2'
141 -4.817668 Strain b'lemma:k-12'
142 -4.770160 Technique b'lemma:ChIP-exo'
143 -4.675717 Supp b'lemma:Iron'
144 -4.608643 Air b'lemma:aerobic'
145 -4.570021 Technique b'lemma:chipseq'
146 -4.467942 Phase b'lemma:stationary'
147 -4.467649 O b'postag:IN'
148 -4.445501 O b'lemma:rpob'
149 -4.351529 Supp b'lemma:pq'
150 -4.293076 Phase b'lemma:mid-log'
151 -4.284291 O b'lemma:3'
152 -4.120140 Supp b'lemma:nh4cl'
153 -4.041253 Supp b'lemma:glucose'
154 -4.028882 Substrain b'lemma:mg1655'
155 -3.913121 Gtype b'lemma:\xce\xb4cra'
156 -3.860061 Air b'-1:lemma:ChIP-Seq'
157 -3.841678 O b'lemma:rep1'
158 -3.777629 Gtype b'lemma:wt'
159 -3.746035 Gtype b'lemma:arca8myc'
160 -3.726494 Gtype b'lemma:flag-tag'
161 -3.726494 Gtype b'-1:lemma:c-terminal'
162 -3.686798 Supp b'+1:lemma:\xc2\xb5m'
163 -3.646788 O b'postag::'
164 -3.631452 Gtype b'-1:lemma:\xe2\x88\x86'
165 -3.621528 Gversion b'lemma:asm584v2'
166 -3.593824 O b'lemma:rep2'
167 -3.590555 Air b'lemma:Aerobic'
168 -3.573506 Supp b'lemma:nitrate'
169 -3.508451 Med b'lemma:lb'
170 -3.458882 O b'-1:lemma:tag'
171 -3.422575 O b'lemma:b'
172 -3.405411 O b'lemma:Cra'
173 -3.384112 O b'lemma:a'
174 -3.334968 Med b'lemma:LB'
175 -3.334210 Supp b'lemma:acetate'
176 -3.282677 O b'lemma:rep3'
177 -3.251111 Supp b'lemma:no3'
178 -3.227141 O b'-1:lemma:ChIP-exo'
179 -3.219816 Supp b'lemma:dpd'
180 -3.209926 OD b'lemma:od600'
181 -3.208899 Technique b'lemma:rna-seq'
182 -3.204074 Gtype b'lemma:delta-arca'
183 -3.194919 O b'lemma:.'
184 -3.194919 O b'postag:.'
185 -3.124102 Gtype b'lemma:fnr8myc'
186 -3.110051 O b'lemma:\xcf\x8332'
187 -3.081376 Supp b'lemma:Fe'
188 -3.079283 Gtype b'lemma:\xe2\x88\x86'
189 -3.065167 O b'lemma:Custom'
190 -3.058600 Gtype b'lemma:type'
191 -3.022678 Technique b'lemma:chip-seq'
192 -3.000186 Med b'lemma:MOPS'
193 -2.991397 O b'lemma:CEL'
194 -2.914578 Gversion b'lemma:nc'
195 -2.867833 Technique b'lemma:rnaseq'
196 -2.848233 Supp b'+1:lemma:1'
197 -2.835201 Anti b'lemma:none'
198 -2.827074 Gtype b'+1:lemma:type'
199 -2.826416 O b'-1:lemma:Aerobic'
200 -2.786406 O b'+1:postag:RB'
201 -2.776930 pH b'lemma:ph5'
202 -2.776930 pH b'+1:lemma:.5'
203 -2.774438 O b'+1:lemma:od600'
204 -2.765842 Gtype b'+1:lemma:with'
205 -2.764772 Technique b'lemma:ChIP-Seq'
206 -2.754976 Supp b'lemma:fructose'
207 -2.736514 O b'postag:VBN'
208 -2.708858 Med b'+1:lemma:0.4'
209 -2.677396 Anti b'lemma:seqa'
210 -2.673247 Vess b'lemma:flask'
211 -2.673247 Vess b'-1:lemma:warm'
212 -2.663413 Air b'postag:RB'
213 -2.650175 OD b'lemma:od450'
214 -2.624313 Supp b'lemma:rifampicin'
215 -2.613050 Gtype b'lemma:delta-fnr'
216 -2.611370 O b'lemma:-'
217 -2.593952 Gtype b'lemma:\xce\xb4fur'
218 -2.563276 Supp b'-1:lemma:Cra'
219 -2.543682 O b'-1:lemma:0.3-0.35'
220 -2.528111 Gtype b'lemma:nsrr'
221 -2.524519 Supp b'+1:lemma:2'
222 -2.523387 Gtype b'lemma:wild-type'
223 -2.492162 Gversion b'lemma:chip-seq'
224 -2.476148 Temp b'lemma:\xc2\xb0c'
225 -2.467250 Supp b'+1:lemma:Deficient'
226 -2.437288 Anti b'+1:lemma:antibody'
227 -2.432769 Technique b'-1:lemma:IP'
228 -2.424289 Supp b'lemma:arginine'
229 -2.423238 O b'lemma:affyexp'
230 -2.417028 Med b'lemma:m63'
231 -2.413930 Gversion b'lemma:u00096'
232 -2.413930 Gversion b'+1:lemma:.2'
233 -2.398644 Gversion b'lemma:.2'
234 -2.398644 Gversion b'-1:lemma:u00096'
235 -2.392020 Gversion b'-1:lemma:nc'
236 -2.383653 Gversion b'lemma:000913'
237 -2.375231 O b'lemma:s'
238 -2.367385 Med b'+1:lemma:minimal'
239 -2.347384 Strain b'+1:lemma:substr'
240 -2.340890 O b'-1:lemma:anaerobic'
241 -2.334292 O b'-1:lemma:glucose'
242 -2.302375 O b'lemma:or'
243 -2.301832 Supp b'+1:lemma:_'
244 -2.293105 O b'lemma:with'
245 -2.236084 pH b'+1:postag:CD'
246 -2.207764 Gtype b'-1:lemma:ptac'
247 -2.195074 Gtype b'lemma:\xce\xb4soxs'
248 -2.178906 Gtype b'+1:lemma:flagtag'
249 -2.176058 Temp b'+1:lemma:\xc2\xb0c'
250 -2.168855 O b'lemma:oxyr'
251 -2.168601 O b'-1:lemma:type'
252 -2.157843 O b'-1:lemma:stpa'
253 -2.149393 Gtype b'+1:lemma:pq'
254 -2.146677 Phase b'-1:lemma:mid-log'
255 -2.131005 O b'lemma:chip-arca'
256 -2.119123 O b'-1:lemma:lb'
257 -2.094710 O b'postag:CC'
258 -2.091261 pH b'lemma:.5'
259 -2.091261 pH b'-1:lemma:ph5'
260 -2.082804 Med b'+1:lemma:2.0'
261 -2.061762 Anti b'lemma:anti-myc'
262 -2.057834 Gtype b'lemma:WT'
263 -2.055720 O b'lemma:argr'
264 -2.042900 O b'lemma:chip'
265 -2.041455 Gtype b'-1:lemma:rpob'
266 -2.037173 Temp b'-1:lemma:43'
267 -2.035435 Supp b'lemma:nacl'
268 -2.034038 O b'postag:SYM'
269 -2.032965 Temp b'lemma:43'
270 -2.008638 Med b'+1:lemma:+'
271 -1.996466 Gtype b'lemma:\xce\xb4ompr'
272 -1.985063 Supp b'lemma:iptg'
273 -1.984597 Technique b'-1:lemma:chip-exo'
274 -1.979684 O b'+1:lemma:pq'
275 -1.976317 O b'postag:DT'
276 -1.966888 Temp b'-1:lemma:sample'
277 -1.963356 O b'lemma:ompr'
278 -1.961470 Phase b'lemma:phase'
279 -1.956222 Gtype b'lemma:ptac'
280 -1.954916 Supp b'lemma:Leu'
281 -1.930644 O b'lemma:chip-fnr'
282 -1.929006 Air b'-1:lemma:-'
283 -1.928521 Air b'-1:postag:CD'
284 -1.924588 Supp b'-1:lemma:\xc2\xb5m'
285 -1.923822 Temp b'-1:lemma:37'
286 -1.914522 Air b'lemma:anaerobically'
287 -1.914101 O b'lemma:purr'
288 -1.913285 Anti b'lemma:anti-rpos'
289 -1.908434 O b'+1:lemma:mid-log'
290 -1.907365 Gtype b'+1:lemma:_'
291 -1.901978 Supp b'+1:lemma:hour'
292 -1.884890 Technique b'postag:NNP'
293 -1.883342 Technique b'+1:lemma:chip-exo'
294 -1.879749 O b'lemma:Fur'
295 -1.875921 Supp b'-1:lemma:+'
296 -1.873441 Technique b'-1:lemma:input'
297 -1.872859 Substrain b'+1:lemma:phtpg'
298 -1.868639 Air b'lemma:Anaerobic'
299 -1.868217 Supp b'-1:lemma:with'
300 -1.854650 O b'-1:lemma:l1'
301 -1.843125 O b'+1:lemma:anti-fur'
302 -1.840890 Gtype b'lemma:pk4854'
303 -1.835897 Gtype b'lemma:deltaseqa'
304 -1.835897 Gtype b'-1:lemma:old'
305 -1.834676 O b'lemma:Lrp'
306 -1.815094 Gtype b'+1:lemma:ph5'
307 -1.812550 Temp b'-1:lemma:\xcf\x8332'
308 -1.812482 O b'postag:VBG'
309 -1.802963 Gversion b'+1:lemma:000913'
310 -1.799635 Gtype b'-1:lemma:nsrr'
311 -1.789000 Med b'postag:NNP'
312 -1.788228 Air b'-1:lemma:co2'
313 -1.780588 Gtype b'+1:lemma:aerobic'
314 -1.779977 O b'lemma:culture'
315 -1.779785 Gtype b'-1:lemma::'
316 -1.774675 O b'lemma:genotype/variation'
317 -1.769006 Air b'-1:postag::'
318 -1.759945 Supp b'-1:lemma:mm'
319 -1.755681 Temp b'lemma:37'
320 -1.748053 Phase b'+1:lemma:for'
321 -1.747688 Supp b'lemma:Adenine'
322 -1.745141 OD b'+1:lemma:stationary'
323 -1.744193 O b'lemma:at'
324 -1.744117 Med b'-1:lemma:ml'
325 -1.735692 O b'+1:lemma:43'
326 -1.733011 Supp b'+1:lemma:and'
327 -1.727139 O b'+1:lemma:chip-seq'
328 -1.724866 Med b'lemma:glucose'
329 -1.721249 Supp b'lemma:20'
330 -1.704065 Gtype b'-1:lemma:_'
331 -1.687377 Supp b'+1:lemma:respiratory'
332 -1.681655 Med b'lemma:L'
333 -1.681655 Med b'+1:lemma:broth'
334 -1.672214 Gversion b'lemma:_'
335 -1.650800 Med b'lemma:broth'
336 -1.650800 Med b'-1:lemma:L'
337 -
338 -
339 -Top negative:
340 --0.005569 OD b'+1:lemma:0.4'
341 --0.005746 Gtype b'-1:lemma:,'
342 --0.005746 Gtype b'-1:postag:,'
343 --0.005870 Gtype b'+1:postag:NNS'
344 --0.006749 Supp b'lemma:mm'
345 --0.007678 Air b'lemma:70'
346 --0.007875 O b'+1:lemma:25'
347 --0.007908 O b'+1:lemma:pahse'
348 --0.013446 Gtype b'-1:postag:NNP'
349 --0.017395 O b'-1:lemma:,'
350 --0.017395 O b'-1:postag:,'
351 --0.018516 Supp b'-1:postag:NN'
352 --0.022449 Phase b'+1:postag:NN'
353 --0.024166 Air b'-1:postag:CC'
354 --0.027647 Air b'-1:lemma:or'
355 --0.028887 O b'lemma:o2'
356 --0.030271 Supp b'postag:CD'
357 --0.031072 Air b'postag:CC'
358 --0.032381 Supp b'-1:postag:NNP'
359 --0.032995 Air b'+1:lemma:-lrb-'
360 --0.033529 O b'lemma:pahse'
361 --0.034814 O b'+1:lemma:-lcb-'
362 --0.035317 O b'+1:lemma:~'
363 --0.037498 O b'lemma:dpd'
364 --0.038911 O b'-1:lemma:mm'
365 --0.039919 O b'-1:postag:VBP'
366 --0.044315 OD b'postag:IN'
367 --0.051484 O b'-1:lemma:n2'
368 --0.055584 OD b'+1:postag:CD'
369 --0.055696 O b'+1:lemma:95'
370 --0.055992 Air b'-1:lemma:anaerobically'
371 --0.056642 O b'-1:lemma:with'
372 --0.061370 Gtype b'+1:lemma:-lrb-'
373 --0.068768 O b'+1:lemma:minimal'
374 --0.069489 Supp b'lemma:and'
375 --0.082415 O b'lemma:aerobically'
376 --0.086345 Air b'+1:postag:-LRB-'
377 --0.088098 O b'lemma:mg/ml'
378 --0.088098 O b'-1:lemma:150'
379 --0.094403 Supp b'+1:postag:-RRB-'
380 --0.096341 O b'lemma:medium'
381 --0.108911 OD b'+1:lemma:and'
382 --0.114634 OD b'postag:JJ'
383 --0.117058 O b'-1:lemma:20'
384 --0.118245 O b'lemma:grow'
385 --0.125516 O b'+1:lemma:_'
386 --0.127227 O b'+1:lemma:antibody'
387 --0.129539 O b'+1:lemma:b'
388 --0.129952 O b'-1:lemma:the'
389 --0.131173 Gversion b'+1:postag:NN'
390 --0.134503 O b'+1:lemma:phase'
391 --0.137711 Med b'postag:CD'
392 --0.142578 O b'+1:lemma:5'
393 --0.148353 O b'+1:lemma:mg1655'
394 --0.150243 O b'lemma:\xc2\xb0c'
395 --0.158759 O b'lemma:glucose'
396 --0.159456 Supp b'+1:lemma:glucose'
397 --0.162765 Technique b'-1:lemma::'
398 --0.163159 O b'postag:RB'
399 --0.165065 Med b'+1:postag:NN'
400 --0.165350 Gtype b'+1:lemma:cra'
401 --0.166969 OD b'+1:postag:CC'
402 --0.170125 O b'-1:lemma:o2'
403 --0.173691 O b'-1:lemma:e.'
404 --0.178574 Gtype b'-1:postag:CD'
405 --0.178685 O b'+1:lemma:-rrb-'
406 --0.181033 O b'lemma:co2'
407 --0.184801 Anti b'+1:postag:JJ'
408 --0.192236 O b'lemma:e.'
409 --0.196425 O b'lemma:mg1655'
410 --0.198559 Gtype b'postag:CD'
411 --0.208272 O b'-1:postag:IN'
412 --0.209806 O b'+1:lemma:.'
413 --0.209806 O b'+1:postag:.'
414 --0.218423 Med b'-1:postag:IN'
415 --0.219166 O b'lemma:30'
416 --0.219834 Supp b'+1:postag:IN'
417 --0.227296 O b'-1:lemma:um'
418 --0.227296 O b'+1:lemma:paraquat'
419 --0.229687 O b'-1:postag:VBN'
420 --0.236380 Med b'-1:postag:NN'
421 --0.239831 O b'-1:lemma:chip-exo'
422 --0.242289 O b'-1:lemma:of'
423 --0.246361 O b'+1:lemma:%'
424 --0.247802 O b'-1:lemma:-lrb-'
425 --0.249050 O b'-1:lemma:iptg'
426 --0.249812 O b'+1:lemma:dissolve'
427 --0.255335 O b'-1:lemma:mid-log'
428 --0.259151 O b'-1:lemma:0.1'
429 --0.264441 O b'+1:lemma:0.4'
430 --0.269854 Gtype b'lemma:delta'
431 --0.270560 O b'+1:lemma:rep1'
432 --0.279580 Supp b'+1:postag:VBN'
433 --0.287048 Air b'postag:CD'
434 --0.290077 Gtype b'+1:lemma:\xe2\x88\x86'
435 --0.292771 O b'lemma:m63'
436 --0.294023 O b'-1:lemma:from'
437 --0.312557 Gtype b'-1:postag:DT'
438 --0.318799 O b'+1:lemma:until'
439 --0.329610 Supp b'-1:lemma:%'
440 --0.342219 Temp b'postag:JJ'
441 --0.343713 Phase b'-1:lemma:at'
442 --0.349210 O b'+1:lemma:shake'
443 --0.355247 O b'-1:postag:-LRB-'
444 --0.370779 O b'-1:lemma:rifampicin'
445 --0.403678 O b'+1:lemma:Aerobic'
446 --0.404389 Temp b'-1:lemma:\xc2\xb0c'
447 --0.409312 O b'+1:postag:-RRB-'
448 --0.410591 O b'-1:lemma:g/l'
449 --0.411118 O b'+1:postag:IN'
450 --0.411360 Gtype b'lemma:_'
451 --0.413583 Supp b'postag:CC'
452 --0.421267 O b'lemma:lb'
453 --0.426132 O b'+1:lemma:cell'
454 --0.436831 pH b'postag:NN'
455 --0.446628 Gtype b'-1:postag:SYM'
456 --0.450017 O b'-1:lemma:grow'
457 --0.451231 Supp b'+1:lemma:rifampicin'
458 --0.454808 O b'+1:lemma:c'
459 --0.459381 O b'lemma:phase'
460 --0.461745 O b'-1:lemma:30'
461 --0.462999 O b'-1:lemma:cra'
462 --0.486521 Temp b'+1:lemma:to'
463 --0.486521 Temp b'+1:postag:TO'
464 --0.490929 O b'lemma:150'
465 --0.490929 O b'+1:lemma:mg/ml'
466 --0.500528 O b'-1:lemma:until'
467 --0.504446 Technique b'-1:postag::'
468 --0.510873 O b'lemma:purify'
469 --0.517449 Phase b'postag:JJ'
470 --0.518655 O b'+1:lemma:\xc2\xb0c'
471 --0.519475 O b'+1:postag:NNS'
472 --0.532580 Med b'+1:postag:IN'
473 --0.557262 O b'-1:lemma:od600'
474 --0.567606 O b'-1:lemma:~'
475 --0.586909 O b'+1:lemma:arginine'
476 --0.591624 Anti b'+1:lemma:anti-fur'
477 --0.595260 O b'-1:lemma:\xe2\x88\x86'
478 --0.619039 O b'+1:lemma:300'
479 --0.633916 OD b'lemma:-lrb-'
480 --0.639826 O b'-1:lemma:1'
481 --0.645911 Temp b'postag:NN'
482 --0.655433 O b'lemma:dissolve'
483 --0.668333 O b'+1:lemma:0.3'
484 --0.706553 Phase b'-1:postag:JJ'
485 --0.715634 O b'lemma:anaerobic'
486 --0.728858 O b'lemma:media'
487 --0.729613 OD b'postag:-LRB-'
488 --0.740187 O b'lemma:fecl2'
489 --0.754262 O b'-1:lemma:0.2'
490 --0.784045 O b'lemma:anaerobically'
491 --0.786214 O b'lemma:20'
492 --0.787962 Supp b'+1:lemma:acetate'
493 --0.788691 Air b'-1:postag:JJ'
494 --0.793632 O b'lemma:od600'
495 --0.801628 O b'lemma:0.3'
496 --0.804157 O b'+1:lemma:fecl2'
497 --0.826218 O b'lemma:\xe2\x88\x86'
498 --0.840032 O b'-1:lemma:ml'
499 --0.841125 O b'lemma:mid-log'
500 --0.845143 O b'lemma:of'
501 --0.852270 O b'-1:postag:VBG'
502 --0.883031 O b'lemma:0.1'
503 --0.909031 O b'postag:VBP'
504 --0.912966 O b'lemma:\xce\xb4fur'
505 --0.938631 O b'lemma:2h'
506 --0.938631 O b'-1:lemma:additional'
507 --0.944242 O b'+1:postag:VBG'
508 --0.987279 O b'lemma:0.2'
509 --0.990573 O b'+1:lemma:at'
510 --1.010504 O b'+1:lemma:in'
511 --1.029267 O b'lemma:k-12'
512 --1.051923 O b'lemma:37'
513 --1.077459 O b'-1:lemma:co2'
514 --1.077853 OD b'+1:postag:NN'
515 --1.086493 O b'-1:lemma:sample'
516 --1.089368 O b'-1:lemma:ompr'
517 --1.092223 O b'+1:lemma:g/l'
518 --1.092574 O b'+1:lemma:supplement'
519 --1.150032 O b'+1:lemma:hour'
520 --1.170208 O b'-1:lemma:dissolve'
521 --1.170208 O b'+1:lemma:methanol'
522 --1.203200 O b'-1:lemma:rpob'
523 --1.305820 O b'lemma:wt'
524 --1.316586 O b'lemma:methanol'
525 --1.391650 O b'+1:lemma:+'
526 --1.397786 O b'-1:lemma:37'
527 --1.435566 Air b'+1:postag:JJ'
528 --1.436410 Supp b'postag:JJ'
529 --1.476904 Anti b'postag:NNP'
530 --1.478116 O b'lemma:rifampicin'
531 --1.558593 O b'-1:postag::'
532 --1.634246 O b'-1:lemma:nsrr'
533 --1.646012 Air b'postag:NN'
534 --1.659601 O b'-1:lemma:IP'
535 --1.726878 O b'-1:lemma:2'
536 --1.877977 O b'+1:lemma:2'
537 --2.024414 O b'+1:lemma:1'
538 --2.949869 O b'-1:lemma::'
539 --3.377496 O b'-1:lemma:_'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.05263895498644954, 'c2': 0.02804820165832339}
5 -best CV score:0.7981312956863408
6 -model size: 0.09M
7 -
8 -Flat F1: 0.7933473757323906
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.891 0.860 0.875 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.667 0.800 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.862 0.764 0.810 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.865 0.662 0.750 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.876 0.742 0.793 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 5.994059
32 -Agit -> Agit 5.826737
33 -Anti -> Anti 5.330943
34 -Temp -> Temp 5.278651
35 -Med -> Med 5.155905
36 -Air -> Air 5.151014
37 -O -> O 4.730130
38 -Gversion -> Gversion 4.652874
39 -Gtype -> Gtype 4.444237
40 -Phase -> Phase 4.365358
41 -Supp -> Supp 3.958563
42 -Technique -> Technique 3.244440
43 -pH -> pH 2.428819
44 -Substrain -> Gtype 1.967210
45 -O -> Supp 1.913743
46 -Gtype -> Supp 1.740880
47 -Air -> O 1.659369
48 -O -> Gtype 1.420322
49 -O -> Technique 1.309639
50 -Technique -> Air 1.158163
51 -O -> Temp 0.988819
52 -O -> Anti 0.871063
53 -Gtype -> pH 0.641717
54 -Gtype -> Air 0.619648
55 -Med -> O 0.556187
56 -O -> Strain 0.535992
57 -O -> Gversion 0.475143
58 -OD -> Phase 0.435748
59 -O -> Vess 0.303971
60 -O -> pH 0.293252
61 -Temp -> O 0.145912
62 -Phase -> O 0.144558
63 -O -> Med 0.109253
64 -O -> Phase 0.077950
65 -Supp -> O 0.021525
66 -Technique -> Gversion -0.000001
67 -Gversion -> O -0.000068
68 -Phase -> Air -0.004607
69 -OD -> Temp -0.005059
70 -Gversion -> Supp -0.027403
71 -O -> OD -0.027425
72 -Gversion -> Technique -0.034949
73 -Gtype -> Temp -0.040921
74 -OD -> Anti -0.049114
75 -Phase -> Med -0.090487
76 -Air -> Gtype -0.096190
77 -Anti -> Gtype -0.108763
78 -Phase -> Supp -0.111803
79 -Gversion -> Air -0.130125
80 -OD -> Technique -0.144622
81 -
82 -
83 -Top unlikely transitions:
84 -O -> OD -0.027425
85 -Gversion -> Technique -0.034949
86 -Gtype -> Temp -0.040921
87 -OD -> Anti -0.049114
88 -Phase -> Med -0.090487
89 -Air -> Gtype -0.096190
90 -Anti -> Gtype -0.108763
91 -Phase -> Supp -0.111803
92 -Gversion -> Air -0.130125
93 -OD -> Technique -0.144622
94 -Gtype -> O -0.160542
95 -Anti -> Supp -0.167912
96 -Technique -> O -0.178664
97 -Med -> Air -0.260175
98 -Air -> Supp -0.311671
99 -Technique -> Supp -0.328788
100 -Supp -> pH -0.334244
101 -Gtype -> Phase -0.336838
102 -OD -> Supp -0.350765
103 -Supp -> Temp -0.356972
104 -Supp -> Anti -0.385974
105 -Gtype -> Technique -0.399293
106 -Phase -> Technique -0.412086
107 -Air -> Med -0.416009
108 -Anti -> OD -0.424355
109 -Supp -> Phase -0.431186
110 -Supp -> Gversion -0.522870
111 -Gtype -> Gversion -0.540870
112 -OD -> Gtype -0.561901
113 -Air -> OD -0.573132
114 -Gtype -> Med -0.615085
115 -OD -> Med -0.650842
116 -Agit -> O -0.652718
117 -Temp -> Med -0.665555
118 -Supp -> OD -0.692627
119 -Supp -> Air -0.710531
120 -OD -> Air -0.714126
121 -Gtype -> Anti -0.719364
122 -O -> Air -0.739232
123 -Supp -> Technique -0.742109
124 -OD -> O -0.790102
125 -Supp -> Gtype -0.840885
126 -Gtype -> OD -0.945945
127 -Substrain -> O -1.070813
128 -Technique -> OD -1.137041
129 -Technique -> pH -1.137389
130 -Technique -> Gtype -1.148877
131 -Supp -> Med -1.256562
132 -Med -> Supp -1.723937
133 -Phase -> OD -1.987759
134 -
135 -
136 -Top positive:
137 -7.644011 O b'lemma:_'
138 -6.383258 O b'lemma:1'
139 -5.640911 Supp b'lemma:Iron'
140 -5.580127 Air b'lemma:anaerobic'
141 -5.538092 O b'lemma:2'
142 -5.534391 Phase b'lemma:stationary'
143 -5.531429 Strain b'lemma:k-12'
144 -5.334010 Air b'lemma:aerobic'
145 -5.315871 Technique b'lemma:ChIP-exo'
146 -5.203179 O b'lemma:rpob'
147 -5.145510 Technique b'lemma:chipseq'
148 -5.013569 O b'lemma:3'
149 -4.948545 Supp b'lemma:pq'
150 -4.940685 Phase b'lemma:mid-log'
151 -4.780713 O b'postag:IN'
152 -4.581631 Supp b'lemma:glucose'
153 -4.547719 O b'lemma:rep1'
154 -4.536211 Supp b'lemma:nh4cl'
155 -4.513208 Gtype b'lemma:\xce\xb4cra'
156 -4.467672 Gversion b'lemma:asm584v2'
157 -4.425282 Substrain b'lemma:mg1655'
158 -4.379515 Supp b'lemma:nitrate'
159 -4.372720 Air b'-1:lemma:ChIP-Seq'
160 -4.334136 O b'lemma:rep2'
161 -4.323892 Gtype b'lemma:flag-tag'
162 -4.323892 Gtype b'-1:lemma:c-terminal'
163 -4.316408 Gtype b'lemma:wt'
164 -4.285662 O b'-1:lemma:tag'
165 -4.263890 Gtype b'lemma:arca8myc'
166 -4.176799 Supp b'+1:lemma:\xc2\xb5m'
167 -4.127621 O b'lemma:Cra'
168 -4.095187 Air b'lemma:Aerobic'
169 -4.064385 O b'lemma:rep3'
170 -4.064266 Med b'lemma:LB'
171 -4.025844 Med b'lemma:MOPS'
172 -4.002900 Gtype b'-1:lemma:\xe2\x88\x86'
173 -3.910979 Supp b'lemma:acetate'
174 -3.828208 O b'lemma:b'
175 -3.803370 Med b'lemma:lb'
176 -3.794793 Technique b'lemma:rna-seq'
177 -3.753341 O b'lemma:Custom'
178 -3.719844 O b'lemma:a'
179 -3.708016 Gtype b'lemma:delta-arca'
180 -3.699048 O b'postag::'
181 -3.664175 Supp b'lemma:no3'
182 -3.664047 O b'lemma:\xcf\x8332'
183 -3.607483 Supp b'lemma:Fe'
184 -3.591964 O b'lemma:.'
185 -3.591964 O b'postag:.'
186 -3.579521 Anti b'lemma:none'
187 -3.563841 Gtype b'lemma:fnr8myc'
188 -3.562162 O b'-1:lemma:ChIP-exo'
189 -3.561181 Technique b'lemma:chip-seq'
190 -3.510825 OD b'lemma:od600'
191 -3.412358 O b'+1:postag:RB'
192 -3.407419 Anti b'lemma:seqa'
193 -3.382318 Gtype b'lemma:\xe2\x88\x86'
194 -3.361106 O b'-1:lemma:Aerobic'
195 -3.358125 Supp b'lemma:rifampicin'
196 -3.350656 O b'+1:lemma:od600'
197 -3.328644 O b'lemma:CEL'
198 -3.323042 Technique b'lemma:rnaseq'
199 -3.290496 Supp b'lemma:dpd'
200 -3.262134 OD b'lemma:od450'
201 -3.253879 Supp b'-1:lemma:Cra'
202 -3.220056 Gtype b'lemma:type'
203 -3.206772 O b'lemma:-'
204 -3.203626 Gversion b'lemma:nc'
205 -3.187192 Gtype b'lemma:delta-fnr'
206 -3.177788 Gtype b'+1:lemma:type'
207 -3.162794 O b'lemma:with'
208 -3.147705 Gversion b'lemma:chip-seq'
209 -3.138667 Gtype b'+1:lemma:with'
210 -3.108383 O b'postag:VBN'
211 -3.087768 Supp b'+1:lemma:1'
212 -3.068972 Med b'+1:lemma:0.4'
213 -3.017094 Supp b'+1:lemma:Deficient'
214 -3.016316 O b'-1:lemma:0.3-0.35'
215 -2.982857 pH b'lemma:ph5'
216 -2.982857 pH b'+1:lemma:.5'
217 -2.980416 Gtype b'lemma:nsrr'
218 -2.966737 Gtype b'lemma:\xce\xb4fur'
219 -2.958372 Supp b'lemma:fructose'
220 -2.936801 Technique b'lemma:ChIP-Seq'
221 -2.931957 Vess b'lemma:flask'
222 -2.931957 Vess b'-1:lemma:warm'
223 -2.915047 Supp b'+1:lemma:2'
224 -2.894349 O b'-1:lemma:anaerobic'
225 -2.885376 O b'lemma:for'
226 -2.880024 Supp b'lemma:arginine'
227 -2.839562 Gtype b'lemma:wild-type'
228 -2.812453 Med b'lemma:m63'
229 -2.747567 Technique b'-1:lemma:IP'
230 -2.716324 O b'lemma:s'
231 -2.710552 O b'lemma:or'
232 -2.702444 Anti b'lemma:anti-myc'
233 -2.699635 Temp b'lemma:\xc2\xb0c'
234 -2.695860 Anti b'+1:lemma:antibody'
235 -2.689645 Supp b'+1:lemma:_'
236 -2.688117 Gversion b'lemma:u00096'
237 -2.688117 Gversion b'+1:lemma:.2'
238 -2.683722 Air b'postag:RB'
239 -2.679633 O b'-1:lemma:glucose'
240 -2.678210 Gversion b'lemma:.2'
241 -2.678210 Gversion b'-1:lemma:u00096'
242 -2.667116 O b'lemma:affyexp'
243 -2.664622 Gversion b'-1:lemma:nc'
244 -2.661661 O b'-1:lemma:type'
245 -2.656183 O b'lemma:oxyr'
246 -2.655810 O b'-1:lemma:lb'
247 -2.647789 O b'lemma:ompr'
248 -2.637892 O b'lemma:chip-arca'
249 -2.603431 Med b'+1:lemma:minimal'
250 -2.589326 Gtype b'-1:lemma:ptac'
251 -2.588251 Gtype b'lemma:WT'
252 -2.566964 Strain b'+1:lemma:substr'
253 -2.543192 O b'-1:lemma:stpa'
254 -2.539508 Gtype b'+1:lemma:flagtag'
255 -2.514377 O b'+1:lemma:pq'
256 -2.486626 Gtype b'+1:lemma:pq'
257 -2.461810 OD b'+1:lemma:stationary'
258 -2.450698 Gtype b'lemma:\xce\xb4soxs'
259 -2.426559 Gtype b'lemma:\xce\xb4ompr'
260 -2.397900 Gversion b'lemma:000913'
261 -2.394523 Supp b'lemma:nacl'
262 -2.361674 O b'lemma:argr'
263 -2.356992 Air b'lemma:Anaerobic'
264 -2.355669 Temp b'-1:lemma:43'
265 -2.353172 Med b'+1:lemma:2.0'
266 -2.352039 O b'+1:lemma:anti-fur'
267 -2.331818 O b'+1:lemma:o.d.'
268 -2.323083 Temp b'lemma:43'
269 -2.321749 Phase b'+1:lemma:for'
270 -2.320521 O b'lemma:purr'
271 -2.319735 pH b'+1:postag:CD'
272 -2.319685 Temp b'-1:lemma:37'
273 -2.310705 Supp b'lemma:Leu'
274 -2.304466 Gtype b'+1:lemma:ph5'
275 -2.301687 Gtype b'lemma:pk4854'
276 -2.298021 Temp b'-1:lemma:sample'
277 -2.282513 O b'lemma:Lrp'
278 -2.279986 Gtype b'lemma:deltaseqa'
279 -2.279986 Gtype b'-1:lemma:old'
280 -2.277445 O b'lemma:chip'
281 -2.262228 Supp b'lemma:iptg'
282 -2.240490 Supp b'+1:lemma:hour'
283 -2.233231 O b'postag:SYM'
284 -2.231698 Technique b'-1:lemma:input'
285 -2.231669 O b'lemma:Fur'
286 -2.229136 O b'postag:CC'
287 -2.217992 Temp b'lemma:37'
288 -2.213326 Gtype b'lemma:ptac'
289 -2.205755 Temp b'+1:lemma:\xc2\xb0c'
290 -2.205719 O b'+1:lemma:chip-seq'
291 -2.201154 Technique b'-1:lemma:chip-exo'
292 -2.196645 Air b'lemma:anaerobically'
293 -2.188408 Supp b'-1:lemma:+'
294 -2.180623 Supp b'lemma:methanol'
295 -2.171324 Supp b'lemma:Adenine'
296 -2.152039 O b'+1:lemma:mid-log'
297 -2.130944 Technique b'+1:lemma:chip-exo'
298 -2.125495 Substrain b'+1:lemma:phtpg'
299 -2.122905 Anti b'lemma:anti-rpos'
300 -2.120769 Gtype b'+1:lemma:aerobic'
301 -2.119993 O b'postag:DT'
302 -2.097185 Air b'-1:lemma:-'
303 -2.073983 Temp b'-1:lemma:\xcf\x8332'
304 -2.068525 Gversion b'+1:lemma:000913'
305 -2.068199 OD b'-1:lemma:~'
306 -2.065247 Med b'+1:lemma:+'
307 -2.062691 Technique b'postag:NNP'
308 -2.062117 O b'lemma:soxs'
309 -2.062117 O b'lemma:soxr'
310 -2.060943 O b'lemma:genotype/variation'
311 -2.059647 Gtype b'-1:lemma:rpob'
312 -2.054988 Phase b'-1:lemma:until'
313 -2.053193 pH b'lemma:.5'
314 -2.053193 pH b'-1:lemma:ph5'
315 -2.050691 Supp b'-1:lemma:\xc2\xb5m'
316 -2.046419 Med b'lemma:glucose'
317 -2.038553 O b'-1:lemma:\xc2\xb0c'
318 -2.035969 Med b'postag:NNP'
319 -2.034678 Phase b'lemma:phase'
320 -2.030470 Phase b'-1:lemma:mid-log'
321 -2.021890 Air b'-1:postag::'
322 -2.005361 Air b'-1:lemma:co2'
323 -1.997853 Supp b'-1:lemma:with'
324 -1.995559 O b'-1:lemma:0.3'
325 -1.991909 Gversion b'lemma:_'
326 -1.982945 Gtype b'-1:lemma:_'
327 -1.980389 Med b'lemma:L'
328 -1.980389 Med b'+1:lemma:broth'
329 -1.966184 O b'lemma:chip-fnr'
330 -1.958899 O b'-1:lemma:l1'
331 -1.952668 Gtype b'-1:lemma::'
332 -1.932594 O b'postag:VBG'
333 -1.930427 Med b'-1:lemma:ml'
334 -1.925115 O b'lemma:culture'
335 -1.919503 Vess b'-1:postag:VBN'
336 -1.917264 Supp b'+1:lemma:and'
337 -
338 -
339 -Top negative:
340 --0.017822 O b'+1:lemma:or'
341 --0.020587 OD b'+1:lemma:-lrb-'
342 --0.021122 Supp b'-1:lemma:-'
343 --0.021949 Air b'-1:postag:CC'
344 --0.024119 Gtype b'+1:lemma:2'
345 --0.033734 O b'lemma:25'
346 --0.035304 OD b'+1:postag:CD'
347 --0.036590 O b'+1:lemma:25'
348 --0.037058 Gtype b'-1:postag:NNP'
349 --0.039077 O b'-1:postag:IN'
350 --0.044840 OD b'+1:postag:-LRB-'
351 --0.045413 O b'+1:lemma:mm'
352 --0.045740 O b'+1:lemma:-lcb-'
353 --0.046719 O b'-1:lemma:the'
354 --0.047082 O b'+1:lemma:grow'
355 --0.048829 O b'lemma:mg/ml'
356 --0.048829 O b'-1:lemma:150'
357 --0.049033 Air b'postag:CC'
358 --0.054246 Gtype b'+1:lemma:b'
359 --0.057570 O b'+1:lemma:from'
360 --0.060387 O b'+1:lemma:phase'
361 --0.065418 O b'+1:lemma:strain'
362 --0.068947 O b'-1:lemma:delta'
363 --0.070877 O b'+1:lemma:mg1655'
364 --0.071913 O b'lemma:medium'
365 --0.073052 OD b'+1:lemma:0.4'
366 --0.083440 O b'+1:lemma:o2'
367 --0.083866 Supp b'-1:postag:NNP'
368 --0.086428 O b'lemma:cell'
369 --0.091253 O b'-1:lemma:with'
370 --0.092801 O b'-1:lemma:of'
371 --0.096980 O b'+1:lemma:5'
372 --0.102374 O b'-1:postag:DT'
373 --0.109084 Med b'-1:postag:NN'
374 --0.110663 O b'+1:lemma:-rrb-'
375 --0.111886 O b'-1:lemma:iptg'
376 --0.115712 O b'+1:lemma:shake'
377 --0.116030 OD b'lemma:~'
378 --0.118522 O b'+1:lemma:antibody'
379 --0.128341 Phase b'+1:postag:NN'
380 --0.134706 Gversion b'+1:postag:NN'
381 --0.136331 Gtype b'+1:lemma:cra'
382 --0.136540 Gtype b'+1:postag:NNS'
383 --0.140781 Med b'+1:postag:NN'
384 --0.141957 O b'-1:lemma:fresh'
385 --0.142025 Technique b'-1:lemma::'
386 --0.149157 O b'lemma:o2'
387 --0.156748 O b'-1:lemma:25'
388 --0.157167 O b'-1:lemma:mm'
389 --0.158228 O b'-1:lemma:chip-exo'
390 --0.160848 O b'+1:lemma:b'
391 --0.164065 Phase b'-1:lemma:at'
392 --0.166899 O b'+1:lemma:until'
393 --0.170597 Supp b'+1:lemma:glucose'
394 --0.179542 Med b'+1:postag:NNS'
395 --0.182950 O b'-1:lemma:n2'
396 --0.183589 O b'lemma:nacl'
397 --0.187748 Supp b'lemma:and'
398 --0.194897 Air b'-1:lemma:or'
399 --0.195731 O b'-1:lemma:e.'
400 --0.198544 O b'-1:lemma:grow'
401 --0.202051 O b'-1:postag:VBN'
402 --0.206509 Anti b'+1:postag:JJ'
403 --0.209400 Supp b'-1:lemma:and'
404 --0.216443 O b'-1:lemma:-lrb-'
405 --0.219626 Supp b'+1:postag:IN'
406 --0.222298 O b'+1:lemma:0.4'
407 --0.224028 Supp b'-1:postag:VBG'
408 --0.227080 Gtype b'postag:CD'
409 --0.240844 O b'+1:lemma:_'
410 --0.248019 O b'+1:lemma:.'
411 --0.248019 O b'+1:postag:.'
412 --0.252029 O b'lemma:n2'
413 --0.254610 O b'lemma:30'
414 --0.266756 Temp b'-1:lemma:\xc2\xb0c'
415 --0.270952 O b'lemma:co2'
416 --0.272046 O b'lemma:grow'
417 --0.282947 O b'lemma:\xc2\xb0c'
418 --0.283749 O b'-1:lemma:um'
419 --0.283749 O b'+1:lemma:paraquat'
420 --0.285506 O b'-1:postag:-LRB-'
421 --0.286217 OD b'+1:postag:CC'
422 --0.286759 Gtype b'-1:postag:CD'
423 --0.288124 pH b'postag:NN'
424 --0.308133 O b'lemma:e.'
425 --0.310367 O b'-1:lemma:mid-log'
426 --0.312184 O b'-1:lemma:20'
427 --0.313374 Air b'postag:CD'
428 --0.319126 O b'lemma:minimal'
429 --0.319471 Supp b'postag:CC'
430 --0.340367 O b'lemma:phase'
431 --0.348342 O b'+1:lemma:cell'
432 --0.348640 O b'-1:lemma:g/l'
433 --0.348662 Temp b'postag:JJ'
434 --0.352296 O b'-1:lemma:0.1'
435 --0.359633 O b'-1:lemma:from'
436 --0.362174 O b'+1:lemma:%'
437 --0.363822 O b'postag:RB'
438 --0.381740 Supp b'+1:postag:VBN'
439 --0.396234 O b'-1:lemma:rifampicin'
440 --0.397794 Med b'-1:postag:IN'
441 --0.400686 O b'lemma:mg1655'
442 --0.402514 Gtype b'lemma:_'
443 --0.409362 O b'-1:lemma:30'
444 --0.421905 Gtype b'-1:postag:SYM'
445 --0.422755 O b'+1:postag:IN'
446 --0.428375 O b'lemma:m63'
447 --0.433573 O b'+1:postag:-RRB-'
448 --0.446895 Temp b'postag:NN'
449 --0.463213 O b'+1:lemma:rep1'
450 --0.476889 O b'+1:lemma:Aerobic'
451 --0.478443 Gtype b'lemma:delta'
452 --0.482787 Gtype b'+1:lemma:\xe2\x88\x86'
453 --0.485877 O b'lemma:lb'
454 --0.514632 O b'-1:lemma:until'
455 --0.518078 Gtype b'-1:postag:DT'
456 --0.525623 O b'lemma:media'
457 --0.525890 Technique b'-1:postag::'
458 --0.549894 Supp b'-1:lemma:%'
459 --0.558083 O b'-1:lemma:o2'
460 --0.565131 Temp b'+1:lemma:to'
461 --0.565131 Temp b'+1:postag:TO'
462 --0.574257 OD b'+1:lemma:and'
463 --0.594559 OD b'+1:postag:NN'
464 --0.604948 O b'-1:lemma:od600'
465 --0.612232 O b'+1:lemma:arginine'
466 --0.614534 O b'lemma:purify'
467 --0.619152 O b'lemma:150'
468 --0.619152 O b'+1:lemma:mg/ml'
469 --0.621956 OD b'lemma:-lrb-'
470 --0.622235 O b'-1:lemma:cra'
471 --0.632733 Med b'+1:postag:IN'
472 --0.667988 O b'+1:lemma:\xc2\xb0c'
473 --0.701676 O b'+1:lemma:0.3'
474 --0.702720 Anti b'+1:lemma:anti-fur'
475 --0.715537 O b'+1:lemma:300'
476 --0.717529 O b'-1:lemma:\xe2\x88\x86'
477 --0.723154 O b'+1:postag:NNS'
478 --0.743940 O b'lemma:of'
479 --0.750458 OD b'postag:-LRB-'
480 --0.756537 O b'lemma:dissolve'
481 --0.780462 O b'lemma:od600'
482 --0.795527 O b'lemma:0.1'
483 --0.801265 O b'+1:lemma:c'
484 --0.803646 O b'lemma:20'
485 --0.821445 O b'-1:lemma:1'
486 --0.826457 O b'-1:lemma:~'
487 --0.832694 O b'lemma:dpd'
488 --0.832795 Supp b'+1:lemma:rifampicin'
489 --0.871325 O b'-1:lemma:0.2'
490 --0.881067 O b'-1:lemma:co2'
491 --0.888371 Phase b'postag:JJ'
492 --0.896433 Supp b'+1:lemma:acetate'
493 --0.904708 Air b'-1:postag:JJ'
494 --0.921787 O b'lemma:\xe2\x88\x86'
495 --0.945637 O b'-1:postag:VBG'
496 --0.954150 O b'+1:lemma:fecl2'
497 --0.973569 O b'lemma:0.3'
498 --0.992597 O b'lemma:anaerobic'
499 --1.028824 O b'lemma:anaerobically'
500 --1.041899 O b'lemma:0.2'
501 --1.042250 O b'lemma:k-12'
502 --1.074389 O b'+1:lemma:supplement'
503 --1.076645 O b'lemma:2h'
504 --1.076645 O b'-1:lemma:additional'
505 --1.091822 O b'-1:lemma:dissolve'
506 --1.091822 O b'+1:lemma:methanol'
507 --1.154399 O b'lemma:mid-log'
508 --1.157754 O b'lemma:\xce\xb4fur'
509 --1.158951 OD b'postag:JJ'
510 --1.162611 O b'+1:lemma:g/l'
511 --1.185695 O b'+1:lemma:in'
512 --1.190815 Phase b'-1:postag:JJ'
513 --1.231014 O b'lemma:fecl2'
514 --1.238272 O b'+1:postag:VBG'
515 --1.266384 O b'lemma:37'
516 --1.270093 O b'postag:VBP'
517 --1.297913 O b'-1:lemma:rpob'
518 --1.310368 O b'+1:lemma:at'
519 --1.315321 O b'-1:lemma:sample'
520 --1.439337 O b'-1:lemma:37'
521 --1.450525 O b'-1:lemma:ml'
522 --1.462231 O b'-1:postag::'
523 --1.474342 O b'-1:lemma:ompr'
524 --1.487270 O b'lemma:wt'
525 --1.575446 Supp b'postag:JJ'
526 --1.641300 Air b'+1:postag:JJ'
527 --1.665695 Air b'postag:NN'
528 --1.677781 O b'-1:lemma:IP'
529 --1.786584 O b'+1:lemma:+'
530 --1.796122 Anti b'postag:NNP'
531 --1.854444 O b'lemma:rifampicin'
532 --1.946910 O b'-1:lemma:nsrr'
533 --1.979248 O b'lemma:methanol'
534 --2.077182 O b'-1:lemma:2'
535 --2.088516 O b'+1:lemma:hour'
536 --2.183645 O b'+1:lemma:2'
537 --2.789864 O b'+1:lemma:1'
538 --3.511399 O b'-1:lemma::'
539 --3.697135 O b'-1:lemma:_'
540 -
1 +********** TRAINING AND TESTING REPORT **********
2 +Training file: training-data-set-70.txt
3 +
4 +best params:{'c1': 0.07838162718183349, 'c2': 0.05887606797757319}
5 +best CV score:0.87030448615518
6 +model size: 0.16M
7 +
8 +Flat F1: 0.7823412170507693
9 + precision recall f1-score support
10 +
11 + OD 1.000 0.818 0.900 22
12 + pH 1.000 1.000 1.000 8
13 + Technique 1.000 0.913 0.955 23
14 + Med 1.000 0.925 0.961 53
15 + Temp 0.917 0.759 0.830 29
16 + Vess 1.000 1.000 1.000 1
17 + Agit 0.000 0.000 0.000 0
18 + Phase 0.875 0.933 0.903 15
19 + Air 0.556 0.362 0.439 69
20 + Anti 1.000 1.000 1.000 11
21 + Strain 0.000 0.000 0.000 1
22 + Gtype 0.849 0.859 0.854 85
23 + Substrain 0.000 0.000 0.000 0
24 + Supp 0.686 0.813 0.744 134
25 + Gversion 0.000 0.000 0.000 0
26 +
27 +avg / total 0.798 0.778 0.782 451
28 +
29 +
30 +Top likely transitions:
31 +Temp -> Temp 4.911417
32 +OD -> OD 4.541853
33 +Med -> Med 4.405893
34 +Supp -> Supp 4.305413
35 +Agit -> Agit 4.272648
36 +Anti -> Anti 3.837258
37 +O -> O 3.787660
38 +Gtype -> Gtype 3.752687
39 +Gversion -> Gversion 3.628661
40 +Air -> Air 3.521236
41 +Phase -> Phase 3.320009
42 +Technique -> Technique 2.966375
43 +pH -> pH 2.362986
44 +Substrain -> Gtype 1.121355
45 +O -> Technique 0.896285
46 +Gtype -> Supp 0.860650
47 +O -> Supp 0.689540
48 +O -> Gtype 0.595827
49 +Gtype -> Air 0.530941
50 +Technique -> Air 0.501834
51 +Air -> O 0.490782
52 +Gtype -> pH 0.392258
53 +Temp -> O 0.195983
54 +Med -> O 0.164949
55 +Supp -> O 0.068384
56 +O -> Temp 0.032340
57 +O -> pH 0.007653
58 +O -> Strain -0.003076
59 +Gversion -> Gtype -0.013131
60 +Gversion -> Air -0.016755
61 +Supp -> Anti -0.028664
62 +Vess -> O -0.036195
63 +Agit -> Supp -0.042183
64 +Gtype -> Phase -0.047540
65 +Supp -> Technique -0.060640
66 +Supp -> pH -0.062714
67 +O -> Phase -0.068478
68 +Technique -> OD -0.069783
69 +Supp -> OD -0.073453
70 +O -> Agit -0.079631
71 +Phase -> Air -0.079705
72 +Anti -> Med -0.089699
73 +Anti -> Gtype -0.095119
74 +Gtype -> Gversion -0.100232
75 +Temp -> Air -0.116744
76 +OD -> O -0.129801
77 +Phase -> Med -0.135688
78 +Air -> Agit -0.138019
79 +Phase -> O -0.139580
80 +pH -> Supp -0.141124
81 +
82 +
83 +Top unlikely transitions:
84 +Supp -> Technique -0.060640
85 +Supp -> pH -0.062714
86 +O -> Phase -0.068478
87 +Technique -> OD -0.069783
88 +Supp -> OD -0.073453
89 +O -> Agit -0.079631
90 +Phase -> Air -0.079705
91 +Anti -> Med -0.089699
92 +Anti -> Gtype -0.095119
93 +Gtype -> Gversion -0.100232
94 +Temp -> Air -0.116744
95 +OD -> O -0.129801
96 +Phase -> Med -0.135688
97 +Air -> Agit -0.138019
98 +Phase -> O -0.139580
99 +pH -> Supp -0.141124
100 +Air -> Temp -0.146478
101 +OD -> Supp -0.177929
102 +Gversion -> O -0.195235
103 +Med -> Air -0.218392
104 +Technique -> Supp -0.218928
105 +O -> OD -0.220859
106 +Anti -> O -0.227867
107 +Anti -> Supp -0.241653
108 +Temp -> Med -0.265069
109 +Air -> Gtype -0.270959
110 +Gversion -> Supp -0.271472
111 +Phase -> OD -0.278093
112 +O -> Med -0.292957
113 +Supp -> Phase -0.310262
114 +Agit -> O -0.315551
115 +Technique -> O -0.317964
116 +Agit -> Air -0.327189
117 +Air -> Phase -0.332685
118 +Supp -> Gtype -0.386391
119 +Gtype -> Technique -0.394676
120 +Supp -> Air -0.403362
121 +Gtype -> Anti -0.428993
122 +Phase -> Supp -0.440098
123 +Air -> Supp -0.449326
124 +Technique -> pH -0.462944
125 +Air -> Med -0.469469
126 +OD -> Air -0.509283
127 +Gtype -> Med -0.621751
128 +Supp -> Med -0.659958
129 +Gtype -> O -0.671881
130 +O -> Air -0.712510
131 +Technique -> Gtype -1.006943
132 +Substrain -> O -1.077790
133 +Med -> Supp -1.486790
134 +
135 +
136 +Top positive:
137 +4.124249 Anti b'-2:lemma:antibody'
138 +3.641687 Air b'word:Aerobic'
139 +3.497811 O b'-2:lemma:_'
140 +3.258366 Air b'lemma:anaerobic'
141 +3.145552 O b'lemma:_'
142 +3.145552 O b'word:_'
143 +3.024671 Gtype b'-2:lemma:genotype/variation'
144 +2.928771 Air b'postag:RB'
145 +2.783339 Technique b'word:ChIP-Seq'
146 +2.697083 O b'lemma:2'
147 +2.697083 O b'word:2'
148 +2.670728 Phase b'-2:lemma:phase'
149 +2.637125 O b'postag::'
150 +2.618748 O b'word:Cra'
151 +2.610104 Technique b'word:ChIP-exo'
152 +2.571728 O b'lemma:1'
153 +2.571728 O b'word:1'
154 +2.511177 O b'postag:IN'
155 +2.472685 Gtype b'-2:lemma:genotype'
156 +2.396386 Supp b'lemma:pq'
157 +2.396386 Supp b'word:PQ'
158 +2.337247 O b'lemma:.'
159 +2.337247 O b'postag:.'
160 +2.337247 O b'word:.'
161 +2.332296 Technique b'lemma:rna-seq'
162 +2.320371 Gtype b'word:WT'
163 +2.309222 Gtype b'lemma:wt'
164 +2.274976 O b'-2:lemma:flagtag'
165 +2.273949 Technique b'word:ChIPSeq'
166 +2.258997 Technique b'lemma:ChIP-exo'
167 +2.199264 Air b'word:Anaerobic'
168 +2.142635 O b'-1:lemma:ChIP-exo'
169 +2.096906 Supp b'lemma:nh4cl'
170 +2.072818 Phase b'lemma:mid-log'
171 +2.072818 Phase b'word:mid-log'
172 +2.053563 Gtype b'lemma:wild-type'
173 +2.044128 O b'lemma:rpob'
174 +2.044128 O b'word:RpoB'
175 +2.020270 O b'postag:VBN'
176 +2.020107 O b'lemma:3'
177 +2.020107 O b'word:3'
178 +2.011865 Supp b'-1:word:Cra'
179 +1.983566 Gtype b'lemma:type'
180 +1.983566 Gtype b'word:type'
181 +1.975796 O b'lemma:-'
182 +1.975796 O b'word:-'
183 +1.959537 O b'-2:lemma:medium'
184 +1.955236 Gtype b'-2:lemma:affyexp'
185 +1.942868 Gtype b'lemma:\xce\xb4cra'
186 +1.939375 Gtype b'word:\xce\x94cra'
187 +1.938173 Technique b'lemma:chipseq'
188 +1.890561 Supp b'lemma:Iron'
189 +1.890561 Supp b'word:Iron'
190 +1.890561 Supp b'+1:word:Deficient'
191 +1.890561 Supp b'-2:lemma:Anaerobic'
192 +1.874088 Supp b'lemma:acetate'
193 +1.874088 Supp b'word:acetate'
194 +1.819674 pH b'+1:postag:CD'
195 +1.788257 O b'lemma:b'
196 +1.788257 O b'word:B'
197 +1.782368 O b'word:A'
198 +1.774988 O b'+2:lemma:\xc2\xb0c'
199 +1.768402 O b'+2:postag:JJ'
200 +1.762269 Gtype b'lemma:\xe2\x88\x86'
201 +1.762269 Gtype b'word:\xe2\x88\x86'
202 +1.746520 Med b'lemma:MOPS'
203 +1.746520 Med b'word:MOPS'
204 +1.723641 Supp b'+2:lemma:iptg'
205 +1.722034 Air b'lemma:Aerobic'
206 +1.705697 O b'-1:word:Aerobic'
207 +1.703316 Anti b'+2:lemma:antibody'
208 +1.702891 O b'postag:CC'
209 +1.699990 Supp b'-1:lemma:with'
210 +1.699990 Supp b'-1:word:with'
211 +1.688533 Supp b'lemma:glucose'
212 +1.688533 Supp b'word:glucose'
213 +1.674465 Supp b'lemma:no3'
214 +1.674465 Supp b'word:NO3'
215 +1.666479 Supp b'lemma:nacl'
216 +1.666479 Supp b'word:NaCl'
217 +1.641938 Supp b'lemma:arginine'
218 +1.638237 Substrain b'lemma:mg1655'
219 +1.638237 Substrain b'word:MG1655'
220 +1.637725 Supp b'+1:lemma:\xc2\xb5m'
221 +1.637725 Supp b'+1:word:\xc2\xb5M'
222 +1.636903 Med b'isUpper'
223 +1.611838 O b'+1:postag:NNP'
224 +1.611343 O b'lemma:a'
225 +1.607795 Technique b'+2:lemma:ph5'
226 +1.602510 Air b'word:anaerobic'
227 +1.599293 O b'+1:postag:RB'
228 +1.590988 Gtype b'-1:lemma:\xe2\x88\x86'
229 +1.590988 Gtype b'-1:word:\xe2\x88\x86'
230 +1.589631 Gtype b'-2:postag:DT'
231 +1.583352 Med b'+2:postag:CC'
232 +1.579250 O b'isLower'
233 +1.578231 Gtype b'+2:lemma:glucose'
234 +1.552685 Gtype b'+1:lemma:type'
235 +1.552685 Gtype b'+1:word:type'
236 +1.528892 Substrain b'-2:lemma:substr'
237 +1.515887 Supp b'lemma:nitrate'
238 +1.515887 Supp b'word:nitrate'
239 +1.503178 O b'-1:lemma:tag'
240 +1.473485 Gtype b'lemma:\xce\xb4soxr'
241 +1.473485 Gtype b'word:\xce\x94soxR'
242 +1.456677 O b'-1:word:tag'
243 +1.455346 Gtype b'lemma:flag-tag'
244 +1.455346 Gtype b'-1:lemma:c-terminal'
245 +1.455346 Gtype b'word:Flag-tag'
246 +1.455346 Gtype b'-1:word:C-terminal'
247 +1.451462 Technique b'word:RNA-Seq'
248 +1.434331 Supp b'-1:lemma:Cra'
249 +1.432730 O b'+1:word:ChIP-Seq'
250 +1.426572 O b'-1:lemma:anaerobic'
251 +1.425108 Gtype b'lemma:\xce\xb4fur'
252 +1.425108 Gtype b'word:\xce\x94fur'
253 +1.425025 Technique b'lemma:rnaseq'
254 +1.425025 Technique b'word:RNASeq'
255 +1.416012 O b'postag:VBG'
256 +1.415750 Gversion b'-2:lemma:nc'
257 +1.408974 Gversion b'lemma:chip-seq'
258 +1.379843 O b'+1:lemma:arca-8myc'
259 +1.379843 O b'+1:word:ArcA-8myc'
260 +1.374672 O b'lemma:with'
261 +1.374672 O b'word:with'
262 +1.374577 O b'lemma:Cra'
263 +1.373182 Gversion b'word:ChIP-Seq'
264 +1.372454 Gtype b'-2:lemma:delta'
265 +1.369100 O b'+2:lemma:cra'
266 +1.367463 O b'-1:lemma:0.3'
267 +1.367463 O b'-1:word:0.3'
268 +1.366576 O b'-2:lemma:myc'
269 +1.365144 O b'lemma:ompr'
270 +1.365144 O b'word:OmpR'
271 +1.358116 Supp b'-1:postag:CC'
272 +1.351356 Gtype b'postag:JJ'
273 +1.340661 Strain b'+1:lemma:substr'
274 +1.340661 Strain b'+1:word:substr'
275 +1.340661 Strain b'-2:lemma:str'
276 +1.337333 Gtype b'+1:lemma:with'
277 +1.337333 Gtype b'+1:word:with'
278 +1.331237 Supp b'-2:lemma:agent'
279 +1.319017 Air b'+1:postag:IN'
280 +1.313717 O b'lemma:harbor'
281 +1.313717 O b'word:harboring'
282 +1.311281 Technique b'-1:lemma:chip-exo'
283 +1.310088 Air b'lemma:aerobic'
284 +1.301908 Temp b'isNumber'
285 +1.296057 O b'lemma:chip'
286 +1.294021 Med b'+2:lemma:b2'
287 +1.290231 O b'+1:lemma:pq'
288 +1.290231 O b'+1:word:PQ'
289 +1.288968 Supp b'-2:lemma:media'
290 +1.285093 O b'-1:lemma:lb'
291 +1.285093 O b'-1:word:LB'
292 +1.284396 O b'-1:lemma:glucose'
293 +1.284396 O b'-1:word:glucose'
294 +1.281083 O b'-1:lemma:media'
295 +1.281083 O b'-1:word:media'
296 +1.280357 Med b'lemma:lb'
297 +1.280357 Med b'word:LB'
298 +1.277491 O b'+2:lemma:70'
299 +1.276083 Supp b'lemma:Leu'
300 +1.276083 Supp b'word:Leu'
301 +1.276083 Supp b'-2:lemma:Lrp'
302 +1.266271 Supp b'-2:lemma:induce'
303 +1.263127 Phase b'lemma:exponential'
304 +1.263127 Phase b'word:exponential'
305 +1.263127 Phase b'lemma:stationary'
306 +1.263127 Phase b'word:stationary'
307 +1.250254 Air b'-1:lemma:ChIP-Seq'
308 +1.250254 Air b'-1:word:ChIP-Seq'
309 +1.245392 Air b'-2:lemma:IP'
310 +1.237417 OD b'postag:CD'
311 +1.227048 Supp b'-1:lemma:+'
312 +1.227048 Supp b'-1:word:+'
313 +1.225001 Gtype b'-1:postag:VBG'
314 +1.222768 O b'lemma:Custom'
315 +1.222768 O b'word:Custom'
316 +1.222690 Strain b'lemma:k-12'
317 +1.222690 Strain b'word:K-12'
318 +1.211762 Gversion b'-2:lemma:build'
319 +1.207468 Supp b'+1:lemma:1'
320 +1.207468 Supp b'+1:word:1'
321 +1.200932 Air b'-1:lemma:-'
322 +1.200932 Air b'-1:word:-'
323 +1.200071 Gversion b'lemma:nc'
324 +1.200071 Gversion b'word:NC'
325 +1.192535 O b'+2:lemma:fructose'
326 +1.191869 Gtype b'postag:NN'
327 +1.189235 pH b'lemma:ph5'
328 +1.189235 pH b'+1:lemma:.5'
329 +1.189235 pH b'word:pH5'
330 +1.189235 pH b'+1:word:.5'
331 +1.180856 O b'lemma:at'
332 +1.174453 Supp b'lemma:rifampicin'
333 +1.174453 Supp b'word:rifampicin'
334 +1.166521 O b'lemma:argr'
335 +1.166521 O b'word:ArgR'
336 +1.162681 OD b'-1:postag:IN'
337 +
338 +
339 +Top negative:
340 +-0.311652 O b'+1:word:supplemented'
341 +-0.312640 O b'-2:lemma:control'
342 +-0.323532 O b'lemma:minimal'
343 +-0.323532 O b'word:minimal'
344 +-0.323844 O b'-1:lemma:ph'
345 +-0.323844 O b'-1:word:pH'
346 +-0.324956 O b'lemma:37'
347 +-0.324956 O b'word:37'
348 +-0.328081 O b'-1:lemma:cra'
349 +-0.328436 O b'lemma:methanol'
350 +-0.328436 O b'word:methanol'
351 +-0.328436 O b'-2:lemma:dissolve'
352 +-0.332352 O b'-1:lemma:37'
353 +-0.332352 O b'-1:word:37'
354 +-0.337835 Anti b'+1:lemma:anti-fur'
355 +-0.337835 Anti b'+1:word:anti-Fur'
356 +-0.338497 O b'+1:lemma:1m'
357 +-0.338497 O b'+1:word:1M'
358 +-0.338497 O b'-2:lemma:vol'
359 +-0.340286 O b'+2:lemma:add'
360 +-0.348253 Supp b'-1:lemma:10'
361 +-0.348253 Supp b'-1:word:10'
362 +-0.355580 O b'-2:lemma:10'
363 +-0.356547 O b'-2:lemma:minimal'
364 +-0.359288 O b'-1:lemma:ml'
365 +-0.359288 O b'-1:word:ml'
366 +-0.361424 O b'-1:lemma:dissolve'
367 +-0.361424 O b'+1:lemma:methanol'
368 +-0.361424 O b'-1:word:dissolved'
369 +-0.361424 O b'+1:word:methanol'
370 +-0.367262 Substrain b'isLower'
371 +-0.367703 Supp b'postag:CC'
372 +-0.367998 O b'-1:lemma:co2'
373 +-0.367998 O b'-1:word:CO2'
374 +-0.370364 O b'+2:lemma:-rrb-'
375 +-0.374065 O b'-2:lemma:genome'
376 +-0.375208 Supp b'-2:lemma:.'
377 +-0.375208 Supp b'-2:postag:.'
378 +-0.378770 O b'+2:lemma:at'
379 +-0.385912 O b'-1:lemma:fresh'
380 +-0.385912 O b'-1:word:fresh'
381 +-0.389093 Strain b'isLower'
382 +-0.389489 Temp b'-2:postag:NN'
383 +-0.390296 O b'lemma:aerobic'
384 +-0.391758 O b'-2:lemma:aerobically'
385 +-0.393460 O b'-1:lemma:2'
386 +-0.393460 O b'-1:word:2'
387 +-0.397723 O b'+1:lemma:mm'
388 +-0.397723 O b'+1:word:mM'
389 +-0.398729 O b'-1:lemma:rpob'
390 +-0.398729 O b'-1:word:RpoB'
391 +-0.401643 O b'-1:lemma:mm'
392 +-0.401643 O b'-1:word:mM'
393 +-0.402690 Supp b'-2:lemma:grow'
394 +-0.403521 O b'-2:lemma:pahse'
395 +-0.404104 O b'-1:lemma:grow'
396 +-0.411213 O b'lemma:nitrogen'
397 +-0.411213 O b'word:nitrogen'
398 +-0.411373 O b'+1:lemma:+'
399 +-0.411373 O b'+1:word:+'
400 +-0.415137 Gtype b'-2:postag:CD'
401 +-0.424176 O b'+1:word:ChIP-exo'
402 +-0.437712 O b'-2:postag:SYM'
403 +-0.445165 Supp b'+1:lemma:,'
404 +-0.445165 Supp b'+1:postag:,'
405 +-0.445165 Supp b'+1:word:,'
406 +-0.453707 O b'lemma:fructose'
407 +-0.453707 O b'word:fructose'
408 +-0.457985 O b'-2:lemma:nh4cl'
409 +-0.460272 O b'lemma:anaerobically'
410 +-0.460272 O b'word:anaerobically'
411 +-0.460899 O b'+2:lemma:reference'
412 +-0.461152 O b'lemma:2h'
413 +-0.461152 O b'-1:lemma:additional'
414 +-0.461152 O b'word:2h'
415 +-0.461152 O b'-1:word:additional'
416 +-0.465651 O b'-2:lemma:rpob'
417 +-0.467210 O b'lemma:anaerobic'
418 +-0.482841 Supp b'+1:lemma:-lrb-'
419 +-0.482841 Supp b'+1:word:-LRB-'
420 +-0.487123 O b'-1:lemma:\xe2\x88\x86'
421 +-0.487123 O b'-1:word:\xe2\x88\x86'
422 +-0.490214 O b'lemma:aerobically'
423 +-0.490214 O b'word:aerobically'
424 +-0.493650 O b'lemma:of'
425 +-0.493650 O b'word:of'
426 +-0.498710 O b'+2:lemma:mid-log'
427 +-0.499349 O b'-1:lemma:30'
428 +-0.499349 O b'-1:word:30'
429 +-0.499545 O b'+2:lemma:fnr'
430 +-0.506778 Supp b'+1:postag:-LRB-'
431 +-0.511585 O b'word:ChIP-exo'
432 +-0.513406 O b'-1:lemma:chip-exo'
433 +-0.517504 Supp b'+2:lemma:glucose'
434 +-0.518174 O b'+1:lemma:g/l'
435 +-0.518174 O b'+1:word:g/L'
436 +-0.520916 O b'-2:lemma:anaerobically'
437 +-0.530292 O b'+2:postag:-RRB-'
438 +-0.531458 Med b'-1:postag:NN'
439 +-0.532473 O b'lemma:nh4cl'
440 +-0.535293 O b'-2:lemma:IP'
441 +-0.538050 Gtype b'-2:lemma:\xe2\x88\x86'
442 +-0.542753 pH b'isUpper'
443 +-0.559582 O b'lemma:glucose'
444 +-0.559582 O b'word:glucose'
445 +-0.563071 O b'-2:lemma:dpd'
446 +-0.568245 O b'+1:lemma:until'
447 +-0.568245 O b'+1:word:until'
448 +-0.569455 Supp b'-2:postag:NNS'
449 +-0.569843 Air b'+1:postag:JJ'
450 +-0.573996 O b'lemma:\xce\xb4fur'
451 +-0.573996 O b'word:\xce\x94fur'
452 +-0.574100 O b'+1:postag:IN'
453 +-0.583141 O b'+1:lemma:in'
454 +-0.583141 O b'+1:word:in'
455 +-0.584211 O b'lemma:30'
456 +-0.584211 O b'word:30'
457 +-0.587080 Agit b'isUpper'
458 +-0.591540 Supp b'-1:postag:NNP'
459 +-0.595806 O b'-1:postag::'
460 +-0.599170 O b'-2:lemma:phase'
461 +-0.601235 O b'+2:lemma:b'
462 +-0.602048 O b'+2:lemma:then'
463 +-0.608335 O b'-1:lemma:1'
464 +-0.608335 O b'-1:word:1'
465 +-0.608384 Anti b'isUpper'
466 +-0.617575 O b'-2:lemma:until'
467 +-0.617630 O b'lemma:mid-log'
468 +-0.617630 O b'word:mid-log'
469 +-0.621155 O b'-2:lemma:fresh'
470 +-0.626295 O b'-2:lemma:media'
471 +-0.635986 Phase b'isUpper'
472 +-0.639041 O b'+2:lemma:250'
473 +-0.644310 Supp b'-2:postag:JJ'
474 +-0.653651 O b'+1:lemma:at'
475 +-0.653651 O b'+1:word:at'
476 +-0.658042 Supp b'-2:lemma:treat'
477 +-0.664028 Med b'+2:postag:VBN'
478 +-0.670366 O b'-1:lemma:nsrr'
479 +-0.670366 O b'-1:word:NsrR'
480 +-0.670591 O b'-2:postag:DT'
481 +-0.674143 O b'-1:lemma:vol'
482 +-0.674143 O b'-1:word:vol'
483 +-0.674143 O b'-2:lemma:1/100'
484 +-0.674143 O b'+2:lemma:1m'
485 +-0.698342 Med b'-2:postag:VBN'
486 +-0.715097 O b'+1:lemma:2.0'
487 +-0.715097 O b'+1:word:2.0'
488 +-0.721531 pH b'isLower'
489 +-0.742327 O b'-1:lemma:sample'
490 +-0.752266 O b'lemma:nitrate'
491 +-0.752266 O b'word:nitrate'
492 +-0.767047 O b'-2:lemma::'
493 +-0.787116 O b'lemma:rifampicin'
494 +-0.787116 O b'word:rifampicin'
495 +-0.792673 O b'+2:lemma:rifampicin'
496 +-0.797812 O b'+1:postag:VBG'
497 +-0.816000 O b'lemma:wt'
498 +-0.816563 O b'-1:lemma:IP'
499 +-0.816563 O b'-1:word:IP'
500 +-0.834409 O b'lemma:0.3'
501 +-0.834409 O b'word:0.3'
502 +-0.837034 Supp b'+2:postag:CD'
503 +-0.838689 O b'postag:VBP'
504 +-0.840231 Technique b'isNumber'
505 +-0.846346 Air b'postag:NN'
506 +-0.850091 Gtype b'postag:VBG'
507 +-0.854432 O b'-2:postag:RB'
508 +-0.883296 Gtype b'isLower'
509 +-0.888784 O b'lemma:media'
510 +-0.888784 O b'word:media'
511 +-0.895754 Gversion b'isLower'
512 +-0.904522 Temp b'postag:NN'
513 +-0.924495 O b'+2:lemma:+'
514 +-0.935152 Gtype b'+2:lemma:cra'
515 +-0.943613 Gtype b'isNumber'
516 +-0.975059 O b'postag:RB'
517 +-1.021612 Med b'-2:lemma:grow'
518 +-1.024421 Anti b'+2:lemma:polyclonal'
519 +-1.031484 O b'-2:lemma:rifampicin'
520 +-1.059929 O b'+1:lemma:1'
521 +-1.059929 O b'+1:word:1'
522 +-1.084068 Supp b'+2:lemma:fructose'
523 +-1.123084 Technique b'isLower'
524 +-1.132053 O b'-2:lemma:0.3'
525 +-1.168749 Supp b'+2:lemma:1'
526 +-1.183772 OD b'+1:postag:NN'
527 +-1.263288 OD b'+2:lemma:aerobically'
528 +-1.270174 Supp b'+2:lemma:2'
529 +-1.329893 Anti b'postag:NNP'
530 +-1.366300 O b'+1:lemma:2'
531 +-1.366300 O b'+1:word:2'
532 +-1.389405 Phase b'-1:postag:JJ'
533 +-1.607302 Supp b'postag:JJ'
534 +-1.676382 O b'-1:postag:VBG'
535 +-1.773723 O b'-1:lemma::'
536 +-1.773723 O b'-1:word::'
537 +-1.857508 Phase b'postag:JJ'
538 +-1.945074 O b'-1:lemma:_'
539 +-1.945074 O b'-1:word:_'
540 +
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.34336652460986966, 'c2': 0.023606219975479584}
5 -best CV score:0.8168890593472544
6 -model size: 0.09M
7 -
8 -Flat F1: 0.8128223676488701
9 - precision recall f1-score support
10 -
11 - OD 0.652 0.405 0.500 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.917 1.000 0.957 22
14 - Med 1.000 0.860 0.925 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.789 0.882 19
19 - Air 0.793 0.742 0.767 62
20 - Anti 0.900 1.000 0.947 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.933 0.783 0.851 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.887 0.691 0.777 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.885 0.758 0.813 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 6.265824
32 -Agit -> Agit 5.869478
33 -Temp -> Temp 5.488519
34 -Med -> Med 5.144823
35 -Air -> Air 4.771777
36 -Supp -> Supp 4.593228
37 -Anti -> Anti 4.550151
38 -Gversion -> Gversion 4.348826
39 -Gtype -> Gtype 4.225492
40 -Technique -> Technique 3.988233
41 -O -> O 3.774876
42 -Phase -> Phase 3.702756
43 -Gtype -> Supp 1.903024
44 -pH -> pH 1.848213
45 -O -> Supp 1.594685
46 -O -> Technique 0.980723
47 -Air -> O 0.980311
48 -O -> Gtype 0.683784
49 -Med -> O 0.581107
50 -Substrain -> Gtype 0.524869
51 -Technique -> Air 0.483765
52 -OD -> Phase 0.447540
53 -Supp -> O 0.422763
54 -Temp -> O 0.383324
55 -Gtype -> pH 0.198547
56 -O -> Anti 0.179783
57 -Gtype -> Air 0.052812
58 -O -> Agit -0.004958
59 -Technique -> pH -0.041609
60 -Anti -> O -0.097695
61 -Gtype -> O -0.117083
62 -Technique -> O -0.151878
63 -Phase -> OD -0.322970
64 -O -> Air -0.457974
65 -OD -> O -0.476767
66 -Substrain -> O -0.946090
67 -Med -> Supp -0.949223
68 -Agit -> O -1.116660
69 -
70 -
71 -Top unlikely transitions:
72 -OD -> OD 6.265824
73 -Agit -> Agit 5.869478
74 -Temp -> Temp 5.488519
75 -Med -> Med 5.144823
76 -Air -> Air 4.771777
77 -Supp -> Supp 4.593228
78 -Anti -> Anti 4.550151
79 -Gversion -> Gversion 4.348826
80 -Gtype -> Gtype 4.225492
81 -Technique -> Technique 3.988233
82 -O -> O 3.774876
83 -Phase -> Phase 3.702756
84 -Gtype -> Supp 1.903024
85 -pH -> pH 1.848213
86 -O -> Supp 1.594685
87 -O -> Technique 0.980723
88 -Air -> O 0.980311
89 -O -> Gtype 0.683784
90 -Med -> O 0.581107
91 -Substrain -> Gtype 0.524869
92 -Technique -> Air 0.483765
93 -OD -> Phase 0.447540
94 -Supp -> O 0.422763
95 -Temp -> O 0.383324
96 -Gtype -> pH 0.198547
97 -O -> Anti 0.179783
98 -Gtype -> Air 0.052812
99 -O -> Agit -0.004958
100 -Technique -> pH -0.041609
101 -Anti -> O -0.097695
102 -Gtype -> O -0.117083
103 -Technique -> O -0.151878
104 -Phase -> OD -0.322970
105 -O -> Air -0.457974
106 -OD -> O -0.476767
107 -Substrain -> O -0.946090
108 -Med -> Supp -0.949223
109 -Agit -> O -1.116660
110 -
111 -
112 -Top positive:
113 -6.357696 Air b'word:Aerobic'
114 -5.077540 Air b'lemma:anaerobic'
115 -4.552250 Anti b'-2:lemma:antibody'
116 -4.360948 O b'-2:lemma:_'
117 -4.109534 Supp b'lemma:nh4cl'
118 -4.096460 Technique b'word:ChIP-Seq'
119 -3.897866 O b'-2:lemma:flagtag'
120 -3.611278 Gtype b'-2:lemma:genotype/variation'
121 -3.568906 O b'postag:IN'
122 -3.460895 O b'lemma:_'
123 -3.460895 O b'word:_'
124 -3.428391 O b'lemma:1'
125 -3.428391 O b'word:1'
126 -3.423275 Technique b'lemma:rna-seq'
127 -3.314745 Med b'word:LB'
128 -3.281392 Technique b'word:ChIP-exo'
129 -3.278176 O b'-1:lemma:ChIP-exo'
130 -3.237196 O b'lemma:rpob'
131 -3.237196 O b'word:RpoB'
132 -3.225531 Supp b'lemma:nitrate'
133 -3.225531 Supp b'word:nitrate'
134 -3.161794 O b'postag::'
135 -3.139068 Air b'word:Anaerobic'
136 -3.139066 O b'+2:lemma:\xc2\xb0c'
137 -3.077701 Gtype b'lemma:type'
138 -3.077701 Gtype b'word:type'
139 -3.075219 Technique b'word:ChIPSeq'
140 -2.840391 O b'lemma:2'
141 -2.840391 O b'word:2'
142 -2.815117 Gtype b'-2:lemma:delta'
143 -2.722376 O b'lemma:3'
144 -2.722376 O b'word:3'
145 -2.706348 O b'word:Cra'
146 -2.634028 O b'+1:postag:RB'
147 -2.495581 Substrain b'lemma:mg1655'
148 -2.495581 Substrain b'word:MG1655'
149 -2.448736 Med b'+2:lemma:with'
150 -2.443674 Gtype b'-2:lemma:affyexp'
151 -2.381962 O b'lemma:.'
152 -2.381962 O b'postag:.'
153 -2.381962 O b'word:.'
154 -2.367230 Strain b'lemma:k-12'
155 -2.367230 Strain b'word:K-12'
156 -2.361973 Gtype b'lemma:wild-type'
157 -2.355120 Phase b'lemma:mid-log'
158 -2.355120 Phase b'word:mid-log'
159 -2.319375 Gtype b'-2:lemma:genotype'
160 -2.302990 Supp b'lemma:no3'
161 -2.302990 Supp b'word:NO3'
162 -2.291837 Med b'lemma:MOPS'
163 -2.291837 Med b'word:MOPS'
164 -2.228985 Technique b'lemma:ChIP-exo'
165 -2.205076 Supp b'-2:lemma:supplement'
166 -2.202918 Supp b'+1:lemma:\xc2\xb5m'
167 -2.202918 Supp b'+1:word:\xc2\xb5M'
168 -2.172606 Gtype b'+1:lemma:type'
169 -2.172606 Gtype b'+1:word:type'
170 -2.164705 Gtype b'+2:lemma:glucose'
171 -2.129804 Gtype b'-1:lemma:\xe2\x88\x86'
172 -2.129804 Gtype b'-1:word:\xe2\x88\x86'
173 -2.103445 Anti b'+2:lemma:antibody'
174 -2.089681 Air b'postag:RB'
175 -2.074019 Technique b'+2:lemma:ph5'
176 -2.072624 O b'+2:lemma:fructose'
177 -2.067658 OD b'lemma:od600'
178 -2.067658 OD b'word:OD600'
179 -2.038104 Supp b'-2:lemma:shake'
180 -2.013357 Supp b'lemma:Iron'
181 -2.013357 Supp b'word:Iron'
182 -2.013357 Supp b'+1:word:Deficient'
183 -2.013357 Supp b'-2:lemma:Anaerobic'
184 -1.980749 O b'+1:word:ChIP-Seq'
185 -1.962748 O b'postag:CC'
186 -1.930693 Supp b'lemma:pq'
187 -1.930693 Supp b'word:PQ'
188 -1.924374 O b'-1:word:Aerobic'
189 -1.923374 O b'word:A'
190 -1.922702 O b'lemma:b'
191 -1.922702 O b'word:B'
192 -1.917919 Supp b'-2:lemma:purr'
193 -1.903045 O b'+1:postag:NNP'
194 -1.888802 O b'+1:postag:VBP'
195 -1.886279 Gtype b'lemma:wt'
196 -1.882619 Phase b'-2:lemma:phase'
197 -1.877260 Phase b'lemma:stationary'
198 -1.877260 Phase b'word:stationary'
199 -1.875788 O b'-2:lemma:~'
200 -1.867119 O b'postag:DT'
201 -1.857025 Technique b'lemma:chipseq'
202 -1.833096 O b'postag:VBN'
203 -1.829071 Gversion b'-2:lemma:nc'
204 -1.818881 Gtype b'word:WT'
205 -1.787639 O b'lemma:culture'
206 -1.786961 O b'-1:lemma:tag'
207 -1.786604 Gtype b'postag:-RRB-'
208 -1.737297 Supp b'-1:word:Cra'
209 -1.734300 O b'-2:lemma:mg/ml'
210 -1.722597 O b'-2:lemma:medium'
211 -1.711409 Technique b'lemma:rnaseq'
212 -1.711409 Technique b'word:RNASeq'
213 -1.696030 O b'lemma:chip'
214 -1.694223 O b'lemma:-'
215 -1.694223 O b'word:-'
216 -1.694171 Supp b'-2:lemma:for'
217 -1.691174 O b'lemma:Custom'
218 -1.691174 O b'word:Custom'
219 -1.681320 O b'word:Lrp'
220 -1.673790 Gtype b'postag:JJ'
221 -1.647891 O b'isLower'
222 -1.643397 Gtype b'lemma:nsrr'
223 -1.643397 Gtype b'word:NsrR'
224 -1.632308 Supp b'lemma:arginine'
225 -1.604616 O b'lemma:a'
226 -1.600294 Gtype b'lemma:\xce\xb4cra'
227 -1.596463 Gtype b'word:\xce\x94cra'
228 -1.580527 Med b'+2:lemma:b2'
229 -1.575286 O b'-1:lemma:lb'
230 -1.556401 Temp b'-1:word:sample'
231 -1.544845 O b'+2:lemma:polyclonal'
232 -1.543849 Med b'isUpper'
233 -1.541896 Supp b'+2:lemma:rifampicin'
234 -1.535125 Supp b'lemma:glucose'
235 -1.535125 Supp b'word:glucose'
236 -1.524619 pH b'+1:postag:CD'
237 -1.521913 Supp b'-1:postag:CC'
238 -1.517190 O b'+2:lemma:chipseq'
239 -1.503740 Supp b'-2:lemma:Lrp'
240 -1.457179 O b'-2:lemma:co2'
241 -1.447917 O b'-1:lemma:anaerobic'
242 -1.447594 Temp b'-1:lemma:sample'
243 -1.439709 Gtype b'lemma:\xe2\x88\x86'
244 -1.439709 Gtype b'word:\xe2\x88\x86'
245 -1.437966 Temp b'isNumber'
246 -1.431128 Supp b'lemma:acetate'
247 -1.431128 Supp b'word:acetate'
248 -1.427889 Supp b'+1:lemma:2'
249 -1.427889 Supp b'+1:word:2'
250 -1.392397 Gversion b'lemma:nc'
251 -1.392397 Gversion b'word:NC'
252 -1.390556 pH b'lemma:ph5'
253 -1.390556 pH b'+1:lemma:.5'
254 -1.390556 pH b'word:pH5'
255 -1.390556 pH b'+1:word:.5'
256 -1.384470 Supp b'lemma:iptg'
257 -1.384470 Supp b'word:IPTG'
258 -1.365812 O b'-2:lemma:\xe2\x88\x86'
259 -1.364153 Air b'+2:postag:NNP'
260 -1.333446 Gtype b'+1:lemma:with'
261 -1.333446 Gtype b'+1:word:with'
262 -1.324361 Gtype b'-2:postag::'
263 -1.306165 O b'+2:postag:JJ'
264 -1.289867 Gtype b'-2:postag:DT'
265 -1.281577 Gversion b'lemma:chip-seq'
266 -1.270110 Gversion b'+2:lemma:000913'
267 -1.267124 Vess b'lemma:flask'
268 -1.267124 Vess b'-1:lemma:warm'
269 -1.267124 Vess b'word:flask'
270 -1.267124 Vess b'-1:word:warmed'
271 -1.267124 Vess b'-2:lemma:pre'
272 -1.267124 Vess b'+2:lemma:43'
273 -1.263332 O b'+1:postag::'
274 -1.249814 O b'isNumber'
275 -1.246752 Air b'-2:postag:CD'
276 -1.242966 Supp b'+1:lemma:1'
277 -1.242966 Supp b'+1:word:1'
278 -1.216506 Supp b'lemma:fructose'
279 -1.216506 Supp b'word:fructose'
280 -1.209634 Med b'lemma:media'
281 -1.209634 Med b'word:media'
282 -1.202005 O b'-1:lemma:media'
283 -1.202005 O b'-1:word:media'
284 -1.199774 Med b'+2:lemma:medium'
285 -1.187094 Gtype b'-1:lemma:rpob'
286 -1.187094 Gtype b'-1:word:RpoB'
287 -1.183792 Supp b'lemma:dpd'
288 -1.183792 Supp b'word:DPD'
289 -1.180639 Air b'+2:lemma:37'
290 -1.176560 Anti b'+1:lemma:antibody'
291 -1.176560 Anti b'+1:word:antibody'
292 -1.169611 O b'-1:word:tag'
293 -1.165769 Gtype b'lemma:flag-tag'
294 -1.165769 Gtype b'-1:lemma:c-terminal'
295 -1.165769 Gtype b'word:Flag-tag'
296 -1.165769 Gtype b'-1:word:C-terminal'
297 -1.164325 Agit b'-2:postag:IN'
298 -1.148652 O b'-2:lemma:mid-log'
299 -1.147844 Gtype b'postag:NN'
300 -1.145961 Phase b'isLower'
301 -1.133253 O b'-2:lemma:ChIP-Seq'
302 -1.129704 Temp b'-2:lemma:\xcf\x8332'
303 -1.125804 Med b'+1:lemma:0.4'
304 -1.125804 Med b'+1:word:0.4'
305 -1.122954 Temp b'isUpper'
306 -1.117074 Temp b'lemma:43'
307 -1.117074 Temp b'word:43'
308 -1.113876 Med b'+1:postag:JJ'
309 -1.094450 Air b'-1:lemma:ChIP-Seq'
310 -1.094450 Air b'-1:word:ChIP-Seq'
311 -1.088461 Air b'-2:lemma:IP'
312 -1.083576 Supp b'+1:lemma:_'
313 -
314 -
315 -Top negative:
316 --0.031330 O b'-1:word:~'
317 --0.033235 Air b'+2:lemma:and'
318 --0.033826 Air b'-2:lemma:n2'
319 --0.033868 Temp b'+1:lemma:to'
320 --0.033868 Temp b'+1:postag:TO'
321 --0.033868 Temp b'+1:word:to'
322 --0.034239 O b'-2:lemma:-lrb-'
323 --0.034758 OD b'+2:postag:CD'
324 --0.034948 O b'+2:lemma:reference'
325 --0.046088 Air b'-1:postag:RB'
326 --0.047770 Temp b'+2:lemma:to'
327 --0.047770 Temp b'+2:postag:TO'
328 --0.048579 O b'-1:lemma:rpob'
329 --0.048579 O b'-1:word:RpoB'
330 --0.051599 Supp b'+1:lemma:-rrb-'
331 --0.051599 Supp b'+1:word:-RRB-'
332 --0.055182 O b'+2:lemma:anaerobically'
333 --0.055535 Air b'-1:lemma:,'
334 --0.055535 Air b'-1:postag:,'
335 --0.055535 Air b'-1:word:,'
336 --0.056326 OD b'+1:postag:CD'
337 --0.059220 O b'+1:word:cells'
338 --0.061552 O b'+1:word:ChIP-exo'
339 --0.064402 O b'lemma:fecl2'
340 --0.064402 O b'word:FeCl2'
341 --0.066340 Supp b'+1:postag:-RRB-'
342 --0.068654 Air b'-2:postag:CC'
343 --0.073218 Temp b'isLower'
344 --0.075683 O b'-2:lemma:%'
345 --0.080063 Supp b'postag:CC'
346 --0.081265 O b'-1:lemma:the'
347 --0.081974 Air b'postag:CD'
348 --0.082604 O b'-2:lemma:anaerobically'
349 --0.084445 Gtype b'-2:postag:IN'
350 --0.085948 O b'lemma:grow'
351 --0.086016 O b'lemma:20'
352 --0.086016 O b'word:20'
353 --0.087663 OD b'+2:postag:-LRB-'
354 --0.088450 pH b'postag:NN'
355 --0.089437 O b'-1:word:the'
356 --0.090217 O b'+1:lemma:mg1655'
357 --0.090217 O b'+1:word:MG1655'
358 --0.090497 O b'+1:lemma:300'
359 --0.090497 O b'+1:word:300'
360 --0.091900 O b'+1:lemma:fecl2'
361 --0.091900 O b'+1:word:FeCl2'
362 --0.091900 O b'-2:lemma:0.1'
363 --0.095208 Air b'+2:postag:IN'
364 --0.097435 O b'+1:postag:-RRB-'
365 --0.102615 Gtype b'+2:lemma:,'
366 --0.102615 Gtype b'+2:postag:,'
367 --0.104429 O b'-1:lemma:iptg'
368 --0.104429 O b'-1:word:IPTG'
369 --0.104998 O b'+1:lemma:.'
370 --0.104998 O b'+1:postag:.'
371 --0.104998 O b'+1:word:.'
372 --0.107677 O b'lemma:k-12'
373 --0.107677 O b'word:K-12'
374 --0.113262 O b'-2:lemma:cell'
375 --0.116418 Supp b'-2:postag:IN'
376 --0.122812 O b'+2:lemma:-rrb-'
377 --0.124242 Supp b'-1:postag:NNP'
378 --0.126377 Anti b'+1:lemma:anti-fur'
379 --0.126377 Anti b'+1:word:anti-Fur'
380 --0.154570 O b'-1:postag:-LRB-'
381 --0.156192 O b'-2:postag:VBG'
382 --0.158047 O b'-2:postag:-LRB-'
383 --0.163530 Phase b'-2:postag:NN'
384 --0.165038 O b'-1:postag:VBN'
385 --0.172203 O b'-2:lemma:to'
386 --0.172203 O b'-2:postag:TO'
387 --0.175281 O b'+2:lemma:b'
388 --0.177331 O b'-2:lemma::'
389 --0.178997 O b'-1:lemma:37'
390 --0.178997 O b'-1:word:37'
391 --0.180982 Supp b'isUpper'
392 --0.196878 O b'lemma:dissolve'
393 --0.196878 O b'word:dissolved'
394 --0.196878 O b'+2:lemma:methanol'
395 --0.207471 Gtype b'-1:postag:NN'
396 --0.209158 Air b'isLower'
397 --0.211564 O b'+2:lemma:mg1655'
398 --0.216055 O b'+1:lemma:phase'
399 --0.216055 O b'+1:word:phase'
400 --0.218804 Anti b'+2:lemma:polyclonal'
401 --0.225020 Temp b'-2:postag:NN'
402 --0.226672 O b'+1:lemma:g/l'
403 --0.226672 O b'+1:word:g/L'
404 --0.236399 O b'-2:lemma:minimal'
405 --0.242119 Technique b'isNumber'
406 --0.243045 Air b'+1:postag:JJ'
407 --0.244256 Supp b'-2:postag:NN'
408 --0.247335 O b'lemma:2h'
409 --0.247335 O b'-1:lemma:additional'
410 --0.247335 O b'word:2h'
411 --0.247335 O b'-1:word:additional'
412 --0.249741 Air b'-1:postag:JJ'
413 --0.253398 O b'+1:word:hours'
414 --0.261331 O b'-2:lemma:50'
415 --0.267379 O b'+1:lemma:supplement'
416 --0.267379 O b'+1:word:supplemented'
417 --0.268909 O b'word:WT'
418 --0.273891 O b'+2:postag:RB'
419 --0.274312 O b'lemma:anaerobically'
420 --0.274312 O b'word:anaerobically'
421 --0.295438 Phase b'isUpper'
422 --0.297401 O b'+2:lemma:+'
423 --0.299315 O b'-1:lemma:co2'
424 --0.299315 O b'-1:word:CO2'
425 --0.310768 O b'-1:lemma:IP'
426 --0.310768 O b'-1:word:IP'
427 --0.319418 Anti b'+2:postag:JJ'
428 --0.325955 Supp b'+2:lemma:-rrb-'
429 --0.334787 Med b'+1:postag:NN'
430 --0.341329 O b'lemma:37'
431 --0.341329 O b'word:37'
432 --0.342615 O b'-1:lemma:dissolve'
433 --0.342615 O b'+1:lemma:methanol'
434 --0.342615 O b'-1:word:dissolved'
435 --0.342615 O b'+1:word:methanol'
436 --0.346343 O b'+1:postag:NNS'
437 --0.346399 Agit b'isUpper'
438 --0.361710 O b'lemma:methanol'
439 --0.361710 O b'word:methanol'
440 --0.361710 O b'-2:lemma:dissolve'
441 --0.365689 O b'+2:postag:-RRB-'
442 --0.371703 O b'lemma:media'
443 --0.371703 O b'word:media'
444 --0.375913 Med b'+1:postag:IN'
445 --0.375941 O b'-2:lemma:supplement'
446 --0.389209 O b'-1:lemma:nsrr'
447 --0.389209 O b'-1:word:NsrR'
448 --0.391437 Phase b'postag:JJ'
449 --0.407412 O b'-2:lemma:IP'
450 --0.420031 Supp b'+2:postag:NNS'
451 --0.428280 O b'lemma:glucose'
452 --0.428280 O b'word:glucose'
453 --0.431094 O b'-2:postag:RB'
454 --0.438906 Supp b'+2:postag:-RRB-'
455 --0.441532 O b'lemma:wt'
456 --0.462990 OD b'lemma:-lrb-'
457 --0.462990 OD b'word:-LRB-'
458 --0.468593 O b'-2:lemma:a'
459 --0.475940 O b'+1:postag:VBG'
460 --0.483738 Gtype b'isUpper'
461 --0.485302 OD b'-2:postag:JJ'
462 --0.500326 O b'+2:lemma:medium'
463 --0.515103 O b'-2:postag:DT'
464 --0.547995 O b'+1:lemma:in'
465 --0.547995 O b'+1:word:in'
466 --0.556608 O b'lemma:rifampicin'
467 --0.556608 O b'word:rifampicin'
468 --0.582146 OD b'isNumber'
469 --0.583100 O b'-1:postag:IN'
470 --0.592764 O b'lemma:phase'
471 --0.592764 O b'word:phase'
472 --0.595239 O b'lemma:mid-log'
473 --0.595239 O b'word:mid-log'
474 --0.605400 O b'lemma:of'
475 --0.605400 O b'word:of'
476 --0.607669 O b'-1:lemma:grow'
477 --0.614149 Temp b'postag:NN'
478 --0.632028 Supp b'+2:lemma:2'
479 --0.641055 Supp b'-2:postag:JJ'
480 --0.646532 OD b'+1:postag:NN'
481 --0.649552 O b'-1:lemma:sample'
482 --0.673065 O b'-2:lemma:rpob'
483 --0.685360 Supp b'+2:postag:NN'
484 --0.718536 Gversion b'isLower'
485 --0.726489 O b'+2:lemma:rifampicin'
486 --0.728168 Med b'-2:postag:VBN'
487 --0.728191 O b'-1:postag::'
488 --0.732227 O b'-1:lemma:2'
489 --0.732227 O b'-1:word:2'
490 --0.751907 Technique b'isLower'
491 --0.756257 O b'+1:postag:IN'
492 --0.788494 O b'postag:RB'
493 --0.793328 O b'+1:lemma:at'
494 --0.793328 O b'+1:word:at'
495 --0.803395 Med b'-1:postag:NN'
496 --0.840583 O b'-1:postag:VBG'
497 --0.849074 O b'word:cells'
498 --0.860641 O b'+2:lemma:mid-log'
499 --0.885639 Gtype b'isLower'
500 --0.907497 OD b'postag:-LRB-'
501 --0.937466 O b'-2:lemma:rifampicin'
502 --0.975829 Gtype b'isNumber'
503 --1.088007 O b'-2:lemma:phase'
504 --1.095557 Air b'postag:NN'
505 --1.113735 O b'+1:lemma:2'
506 --1.113735 O b'+1:word:2'
507 --1.264849 Anti b'postag:NNP'
508 --1.412293 O b'+1:lemma:1'
509 --1.412293 O b'+1:word:1'
510 --1.493591 Supp b'postag:JJ'
511 --1.991234 O b'-1:lemma::'
512 --1.991234 O b'-1:word::'
513 --2.151194 Supp b'+2:postag:CD'
514 --2.386492 O b'-1:lemma:_'
515 --2.386492 O b'-1:word:_'
516 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.18334620784152844, 'c2': 0.008065728975440238}
5 -best CV score:0.7992328667891142
6 -model size: 0.06M
7 -
8 -Flat F1: 0.7861345162985679
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.800 0.842 0.821 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.939 0.742 0.829 62
20 - Anti 0.571 0.444 0.500 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.866 0.792 0.828 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.802 0.654 0.721 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.863 0.738 0.786 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.441317
32 -OD -> OD 6.198142
33 -Temp -> Temp 5.464759
34 -Anti -> Anti 5.428002
35 -Med -> Med 5.387458
36 -Air -> Air 5.209961
37 -Phase -> Phase 4.695053
38 -O -> O 4.548631
39 -Gversion -> Gversion 4.547965
40 -Gtype -> Gtype 4.475060
41 -Supp -> Supp 4.114913
42 -Technique -> Technique 4.082736
43 -pH -> pH 1.944903
44 -O -> Supp 1.807640
45 -Air -> O 1.622322
46 -Gtype -> Supp 1.534817
47 -Substrain -> Gtype 1.344174
48 -O -> Technique 1.336522
49 -O -> Gtype 1.245629
50 -O -> Anti 0.936139
51 -Technique -> Air 0.714948
52 -O -> Temp 0.637848
53 -Med -> O 0.459165
54 -O -> Gversion 0.360936
55 -Temp -> O 0.204109
56 -OD -> Phase 0.159046
57 -O -> Med 0.104640
58 -Supp -> O 0.075713
59 -Phase -> O 0.056846
60 -Gtype -> pH 0.037916
61 -O -> Strain 0.016408
62 -O -> OD -0.000411
63 -Technique -> O -0.074489
64 -OD -> Air -0.121140
65 -Technique -> Gtype -0.135273
66 -Gtype -> Med -0.165067
67 -Supp -> Air -0.232833
68 -Technique -> OD -0.233483
69 -Gtype -> O -0.424837
70 -Gtype -> Anti -0.430777
71 -OD -> O -0.542516
72 -Supp -> Med -0.717785
73 -O -> Air -0.775058
74 -Agit -> O -0.784243
75 -Gtype -> OD -0.845217
76 -Substrain -> O -1.160866
77 -Med -> Supp -1.461608
78 -Phase -> OD -1.657661
79 -
80 -
81 -Top unlikely transitions:
82 -Agit -> Agit 6.441317
83 -OD -> OD 6.198142
84 -Temp -> Temp 5.464759
85 -Anti -> Anti 5.428002
86 -Med -> Med 5.387458
87 -Air -> Air 5.209961
88 -Phase -> Phase 4.695053
89 -O -> O 4.548631
90 -Gversion -> Gversion 4.547965
91 -Gtype -> Gtype 4.475060
92 -Supp -> Supp 4.114913
93 -Technique -> Technique 4.082736
94 -pH -> pH 1.944903
95 -O -> Supp 1.807640
96 -Air -> O 1.622322
97 -Gtype -> Supp 1.534817
98 -Substrain -> Gtype 1.344174
99 -O -> Technique 1.336522
100 -O -> Gtype 1.245629
101 -O -> Anti 0.936139
102 -Technique -> Air 0.714948
103 -O -> Temp 0.637848
104 -Med -> O 0.459165
105 -O -> Gversion 0.360936
106 -Temp -> O 0.204109
107 -OD -> Phase 0.159046
108 -O -> Med 0.104640
109 -Supp -> O 0.075713
110 -Phase -> O 0.056846
111 -Gtype -> pH 0.037916
112 -O -> Strain 0.016408
113 -O -> OD -0.000411
114 -Technique -> O -0.074489
115 -OD -> Air -0.121140
116 -Technique -> Gtype -0.135273
117 -Gtype -> Med -0.165067
118 -Supp -> Air -0.232833
119 -Technique -> OD -0.233483
120 -Gtype -> O -0.424837
121 -Gtype -> Anti -0.430777
122 -OD -> O -0.542516
123 -Supp -> Med -0.717785
124 -O -> Air -0.775058
125 -Agit -> O -0.784243
126 -Gtype -> OD -0.845217
127 -Substrain -> O -1.160866
128 -Med -> Supp -1.461608
129 -Phase -> OD -1.657661
130 -
131 -
132 -Top positive:
133 -8.540612 Supp b'lemma:Iron'
134 -8.329515 O b'lemma:_'
135 -7.954212 Air b'lemma:anaerobic'
136 -7.558303 Air b'lemma:aerobic'
137 -7.425659 Supp b'lemma:nitrate'
138 -7.188063 O b'lemma:1'
139 -7.151953 Technique b'lemma:ChIP-exo'
140 -6.868721 Phase b'lemma:stationary'
141 -6.736734 Strain b'lemma:k-12'
142 -6.164335 O b'lemma:rpob'
143 -6.164166 Air b'-1:lemma:ChIP-Seq'
144 -6.145220 Phase b'lemma:mid-log'
145 -6.083537 O b'lemma:2'
146 -6.046633 Technique b'lemma:chipseq'
147 -5.843991 Substrain b'lemma:mg1655'
148 -5.625605 Gversion b'lemma:asm584v2'
149 -5.595675 Supp b'lemma:pq'
150 -5.579787 O b'lemma:3'
151 -5.528331 Gtype b'lemma:type'
152 -5.458452 O b'-1:lemma:ChIP-exo'
153 -5.389356 Med b'lemma:MOPS'
154 -5.261442 O b'-1:lemma:tag'
155 -5.221290 Gtype b'lemma:\xce\xb4cra'
156 -5.207575 O b'lemma:\xcf\x8332'
157 -5.185393 OD b'lemma:od600'
158 -5.129342 O b'lemma:Custom'
159 -5.077322 O b'lemma:rep1'
160 -5.062790 Air b'lemma:Aerobic'
161 -5.039230 Gtype b'lemma:flag-tag'
162 -5.039230 Gtype b'-1:lemma:c-terminal'
163 -4.960492 O b'lemma:b'
164 -4.944484 Med b'lemma:LB'
165 -4.895657 O b'lemma:rep2'
166 -4.895123 Gversion b'lemma:nc'
167 -4.892927 O b'postag:IN'
168 -4.878845 Supp b'+1:lemma:\xc2\xb5m'
169 -4.777473 Supp b'lemma:nh4cl'
170 -4.733229 O b'lemma:rep3'
171 -4.700693 Technique b'lemma:ChIP-Seq'
172 -4.522919 Gtype b'-1:lemma:\xe2\x88\x86'
173 -4.506447 O b'lemma:a'
174 -4.486239 Gtype b'lemma:delta-arca'
175 -4.484173 Gtype b'+1:lemma:type'
176 -4.469270 Temp b'-1:lemma:sample'
177 -4.466501 Gtype b'lemma:arca8myc'
178 -4.444728 O b'lemma:Cra'
179 -4.370578 Supp b'lemma:glucose'
180 -4.315203 Technique b'lemma:rna-seq'
181 -4.281493 O b'postag::'
182 -4.229592 Gtype b'lemma:wt'
183 -4.150659 Supp b'lemma:Fe'
184 -4.147004 OD b'lemma:od450'
185 -4.134772 O b'-1:lemma:Aerobic'
186 -4.128050 Gtype b'lemma:fnr8myc'
187 -4.061029 Med b'lemma:lb'
188 -3.983457 Gversion b'-1:lemma:nc'
189 -3.979082 Anti b'lemma:none'
190 -3.866545 Gtype b'lemma:delta-fnr'
191 -3.851958 Supp b'lemma:acetate'
192 -3.765754 Supp b'lemma:dpd'
193 -3.751043 Gtype b'lemma:\xe2\x88\x86'
194 -3.745952 Technique b'lemma:chip-seq'
195 -3.717926 Supp b'lemma:no3'
196 -3.687851 Supp b'lemma:arginine'
197 -3.686242 Anti b'lemma:seqa'
198 -3.685360 O b'lemma:.'
199 -3.685360 O b'postag:.'
200 -3.654301 O b'+1:lemma:od600'
201 -3.652925 Technique b'lemma:rnaseq'
202 -3.626342 Gtype b'lemma:\xce\xb4fur'
203 -3.609455 Gtype b'lemma:nsrr'
204 -3.595076 O b'-1:lemma:0.3-0.35'
205 -3.582662 O b'lemma:-'
206 -3.473034 Supp b'lemma:rifampicin'
207 -3.422494 Gtype b'lemma:wild-type'
208 -3.383395 Supp b'lemma:fructose'
209 -3.373092 O b'+1:postag:RB'
210 -3.370884 Vess b'lemma:flask'
211 -3.370884 Vess b'-1:lemma:warm'
212 -3.350883 Med b'+1:lemma:0.4'
213 -3.305547 O b'-1:lemma:type'
214 -3.282833 Anti b'+1:lemma:antibody'
215 -3.274554 O b'lemma:CEL'
216 -3.202139 Gtype b'lemma:\xce\xb4ompr'
217 -3.201589 pH b'lemma:ph5'
218 -3.201589 pH b'+1:lemma:.5'
219 -3.179454 OD b'+1:lemma:stationary'
220 -3.176547 Strain b'+1:lemma:substr'
221 -3.170822 O b'-1:lemma:glucose'
222 -3.142788 Technique b'+1:lemma:chip-exo'
223 -3.131035 Med b'lemma:m63'
224 -3.104780 Gversion b'lemma:chip-seq'
225 -3.102061 O b'lemma:chip'
226 -3.089303 Med b'+1:lemma:minimal'
227 -3.068476 O b'-1:lemma:0.3'
228 -3.053453 O b'-1:lemma:anaerobic'
229 -2.941730 Gtype b'+1:lemma:with'
230 -2.941090 Temp b'-1:lemma:\xcf\x8332'
231 -2.924228 O b'lemma:or'
232 -2.920487 Gversion b'lemma:u00096'
233 -2.920487 Gversion b'+1:lemma:.2'
234 -2.919801 Anti b'lemma:anti-myc'
235 -2.909988 Gtype b'+1:lemma:pq'
236 -2.906926 O b'postag:VBN'
237 -2.903384 Air b'lemma:anaerobically'
238 -2.892016 Technique b'-1:lemma:IP'
239 -2.855009 Temp b'-1:lemma:37'
240 -2.841195 Gtype b'-1:lemma:ptac'
241 -2.840168 Gtype b'+1:lemma:ph5'
242 -2.824282 O b'lemma:with'
243 -2.811989 Supp b'-1:lemma:Cra'
244 -2.803863 Supp b'+1:lemma:1'
245 -2.775638 Gtype b'-1:lemma:rpob'
246 -2.742550 Gversion b'lemma:.2'
247 -2.742550 Gversion b'-1:lemma:u00096'
248 -2.725585 Supp b'lemma:nacl'
249 -2.718890 O b'postag:CC'
250 -2.663906 Med b'lemma:media'
251 -2.648781 Supp b'+1:lemma:2'
252 -2.634231 O b'+1:postag:NNP'
253 -2.619387 Anti b'lemma:anti-rpos'
254 -2.617733 Med b'-1:lemma:ml'
255 -2.607952 O b'lemma:s'
256 -2.604146 Med b'+1:lemma:2.0'
257 -2.596931 Supp b'lemma:iptg'
258 -2.582684 O b'lemma:oxyr'
259 -2.582365 Supp b'-1:lemma:+'
260 -2.553826 Technique b'-1:lemma:chip-exo'
261 -2.553515 Temp b'-1:lemma:43'
262 -2.539094 Gtype b'lemma:pk4854'
263 -2.536990 Gversion b'lemma:000913'
264 -2.536605 O b'postag:DT'
265 -2.518305 O b'+1:lemma:chip-seq'
266 -2.477235 Supp b'-1:lemma:\xc2\xb5m'
267 -2.471748 Gtype b'+1:lemma:flagtag'
268 -2.466305 O b'+1:lemma:pq'
269 -2.452553 Supp b'+1:lemma:_'
270 -2.440883 O b'-1:lemma:lb'
271 -2.436674 Gtype b'lemma:\xce\xb4soxs'
272 -2.430228 pH b'lemma:.5'
273 -2.430228 pH b'-1:lemma:ph5'
274 -2.426250 O b'-1:lemma:l1'
275 -2.384757 Temp b'lemma:43'
276 -2.377779 O b'lemma:for'
277 -2.359688 Temp b'lemma:\xc2\xb0c'
278 -2.350893 O b'postag:VBG'
279 -2.345463 Supp b'lemma:Leu'
280 -2.342569 Gtype b'lemma:ptac'
281 -2.329995 Med b'lemma:L'
282 -2.329995 Med b'+1:lemma:broth'
283 -2.326782 Air b'postag:RB'
284 -2.308974 O b'lemma:Lrp'
285 -2.261997 O b'-1:lemma:stpa'
286 -2.261829 O b'lemma:affyexp'
287 -2.235812 OD b'-1:lemma:~'
288 -2.218246 Med b'lemma:glucose'
289 -2.195328 Gtype b'lemma:deltaseqa'
290 -2.195328 Gtype b'-1:lemma:old'
291 -2.183473 Air b'-1:lemma:-'
292 -2.179368 O b'+1:lemma:sparging'
293 -2.167113 O b'lemma:ompr'
294 -2.162481 Gtype b'-1:lemma:nsrr'
295 -2.144923 O b'lemma:chip-arca'
296 -2.136602 Phase b'+1:lemma:for'
297 -2.135598 Supp b'+1:lemma:hour'
298 -2.135317 Med b'+1:lemma:supplement'
299 -2.126541 Gtype b'+1:lemma:_'
300 -2.123397 O b'-1:lemma:media'
301 -2.105149 O b'+1:lemma:o.d.'
302 -2.089279 Phase b'-1:lemma:until'
303 -2.080166 Supp b'lemma:20'
304 -2.074063 O b'lemma:Fur'
305 -2.064834 Technique b'-1:lemma:input'
306 -2.043986 Gtype b'-1:lemma:phtpg'
307 -2.037910 Supp b'+1:lemma:Deficient'
308 -2.037801 Supp b'-1:lemma:with'
309 -2.030413 Med b'+1:lemma:g/l'
310 -2.023253 O b'-1:lemma:\xc2\xb0c'
311 -2.015889 O b'lemma:culture'
312 -2.012914 Supp b'lemma:Adenine'
313 -1.961151 O b'lemma:condition'
314 -1.959484 OD b'lemma:0.3'
315 -1.954444 O b'lemma:at'
316 -1.926198 Gtype b'lemma:WT'
317 -1.917991 Med b'+1:lemma:+'
318 -1.914469 Technique b'+1:lemma:rna-seq'
319 -1.908781 O b'+1:lemma:mid-log'
320 -1.905871 Supp b'+1:lemma:and'
321 -1.900742 Med b'-1:lemma:glucose'
322 -1.887953 O b'lemma:soxs'
323 -1.887953 O b'lemma:soxr'
324 -1.887594 OD b'+1:lemma:phase'
325 -1.885281 O b'lemma:purr'
326 -1.881926 O b'lemma:argr'
327 -1.870206 Supp b'lemma:methanol'
328 -1.855988 Air b'lemma:Anaerobic'
329 -1.848701 Temp b'lemma:37'
330 -1.821308 OD b'-1:lemma:about'
331 -1.790114 Vess b'-1:postag:VBN'
332 -1.778495 Substrain b'+1:lemma:phtpg'
333 -
334 -
335 -Top negative:
336 -0.008475 O b'+1:lemma:source'
337 -0.008182 Supp b'-1:postag:VBN'
338 -0.007577 OD b'lemma:0.3-0.35'
339 -0.006822 O b'-1:lemma:escherichia'
340 -0.006285 Gtype b'+1:lemma:ryhb'
341 -0.006132 O b'lemma:250'
342 -0.006049 Gtype b'lemma:-rcb-'
343 -0.005285 Supp b'-1:postag:NN'
344 -0.004330 Air b'-1:postag:RB'
345 -0.003915 O b'-1:lemma:total'
346 -0.003749 O b'+1:lemma:total'
347 -0.003385 OD b'-1:lemma:coli'
348 -0.003150 Med b'+1:lemma:,'
349 -0.003150 Med b'+1:postag:,'
350 -0.002999 Supp b'-1:lemma:1g/l'
351 -0.002933 Air b'-1:lemma:,'
352 -0.002933 Air b'-1:postag:,'
353 -0.002755 Gtype b'+1:postag:CD'
354 -0.002753 O b'lemma:fructose'
355 -0.002509 O b'lemma:fresh'
356 -0.002233 O b'-1:lemma:no3'
357 -0.001827 O b'-1:lemma:95'
358 -0.001712 Gtype b'+1:lemma:chip'
359 -0.001566 Phase b'+1:postag:RB'
360 -0.001444 O b'-1:lemma:l2'
361 -0.001388 O b'-1:postag:DT'
362 -0.001213 Phase b'-1:postag:IN'
363 -0.001197 Phase b'+1:lemma:aerobically'
364 -0.000889 O b'lemma:contain'
365 -0.000863 Gversion b'-1:postag::'
366 -0.000854 Temp b'-1:postag:NN'
367 -0.000693 O b'lemma:total'
368 -0.000497 Gtype b'lemma:input'
369 -0.000476 O b'+1:lemma:wash'
370 -0.000274 Agit b'+1:postag:NN'
371 -0.000249 Temp b'-1:postag:NNS'
372 -0.000240 O b'lemma:minute'
373 -0.000192 O b'lemma:w0002'
374 -0.000188 Supp b'+1:postag:JJ'
375 -0.000170 O b'lemma:95'
376 -0.000154 O b'-1:postag:VBD'
377 -0.000117 Gtype b'postag::'
378 -0.000115 O b'+1:lemma:for'
379 -0.000056 O b'-1:lemma:Fur'
380 -0.000047 Air b'+1:postag::'
381 -0.000047 O b'-1:lemma:in'
382 -0.000045 O b'lemma:hour'
383 -0.000020 O b'-1:lemma:be'
384 -0.000020 Supp b'+1:lemma:respiratory'
385 -0.000003 O b'+1:lemma:ChIP-Seq'
386 -0.000000 Phase b'-1:lemma:to'
387 -0.000000 Phase b'-1:postag:TO'
388 --0.000012 O b'+1:lemma:phase'
389 --0.000031 O b'lemma:\xc2\xb0c'
390 --0.000095 O b'+1:lemma:c'
391 --0.000192 OD b'-1:lemma:a'
392 --0.000224 OD b'+1:lemma:0.4'
393 --0.000561 OD b'-1:postag:DT'
394 --0.000675 O b'lemma:anaerobic'
395 --0.001077 Gtype b'+1:lemma:2'
396 --0.001543 Supp b'lemma:and'
397 --0.001755 Air b'-1:lemma:aerobically'
398 --0.002433 O b'+1:lemma:aerobically'
399 --0.002622 OD b'+1:postag:-LRB-'
400 --0.003351 O b'lemma:o2'
401 --0.003461 Supp b'lemma:mm'
402 --0.003669 Med b'+1:postag:IN'
403 --0.003709 OD b'postag:IN'
404 --0.003711 O b'-1:lemma:mm'
405 --0.004712 O b'-1:postag:-RRB-'
406 --0.005352 Supp b'+1:lemma:-rrb-'
407 --0.005698 Supp b'+1:postag:-RRB-'
408 --0.006752 O b'+1:lemma:grow'
409 --0.010187 Air b'-1:lemma:and'
410 --0.010327 Med b'postag:JJ'
411 --0.011310 O b'-1:postag:VBN'
412 --0.014869 Gtype b'-1:postag:NNP'
413 --0.017264 O b'+1:lemma:rep1'
414 --0.019988 O b'-1:lemma:1'
415 --0.020468 Air b'postag:CC'
416 --0.024010 O b'-1:lemma:,'
417 --0.024010 O b'-1:postag:,'
418 --0.032490 Air b'+1:postag:-LRB-'
419 --0.038677 Air b'+1:lemma:-lrb-'
420 --0.042409 Gtype b'-1:postag:NN'
421 --0.045287 O b'+1:lemma:0.4'
422 --0.048558 OD b'postag:JJ'
423 --0.052074 O b'-1:lemma:e.'
424 --0.054143 O b'+1:lemma:or'
425 --0.055074 O b'+1:lemma:\xc2\xb0c'
426 --0.057686 Gtype b'-1:postag:CD'
427 --0.059261 O b'lemma:grow'
428 --0.064670 Air b'-1:postag:CC'
429 --0.085677 Phase b'-1:postag:NN'
430 --0.088185 O b'+1:lemma:300'
431 --0.091727 O b'-1:lemma:o2'
432 --0.094970 O b'lemma:n2'
433 --0.095466 O b'-1:lemma:0.1'
434 --0.100732 O b'-1:lemma:30'
435 --0.104433 O b'+1:lemma:arginine'
436 --0.107064 O b'+1:lemma:5'
437 --0.119788 Med b'postag:CD'
438 --0.121641 O b'+1:lemma:until'
439 --0.126774 OD b'+1:postag:CD'
440 --0.129423 Anti b'+1:postag:JJ'
441 --0.131961 Supp b'+1:postag:VBN'
442 --0.134047 Supp b'postag:CC'
443 --0.137677 Gtype b'postag:CD'
444 --0.149809 O b'-1:lemma:from'
445 --0.150140 Temp b'postag:JJ'
446 --0.157105 O b'-1:lemma:-lrb-'
447 --0.163836 O b'+1:lemma:.'
448 --0.163836 O b'+1:postag:.'
449 --0.176704 O b'lemma:co2'
450 --0.183646 O b'-1:lemma:cra'
451 --0.186855 Med b'+1:postag:NN'
452 --0.194451 O b'+1:lemma:-rrb-'
453 --0.195654 O b'lemma:\xce\xb4fur'
454 --0.204517 O b'+1:postag:IN'
455 --0.207835 O b'-1:lemma:the'
456 --0.220665 O b'-1:lemma:of'
457 --0.229001 Phase b'+1:postag:NN'
458 --0.237611 pH b'postag:NN'
459 --0.240067 O b'-1:postag:IN'
460 --0.271765 Phase b'-1:lemma:at'
461 --0.272351 O b'+1:postag:NNS'
462 --0.288235 O b'-1:lemma:sample'
463 --0.292134 O b'lemma:lb'
464 --0.307663 O b'postag:RB'
465 --0.309475 O b'-1:lemma:ml'
466 --0.310188 Air b'-1:lemma:or'
467 --0.311946 O b'+1:lemma:%'
468 --0.326171 O b'-1:postag:-LRB-'
469 --0.346740 O b'lemma:dissolve'
470 --0.377272 Med b'-1:postag:NN'
471 --0.382593 Temp b'postag:NN'
472 --0.388931 O b'lemma:od600'
473 --0.389222 Air b'postag:CD'
474 --0.434666 O b'-1:lemma:0.2'
475 --0.436034 Gversion b'+1:postag:NN'
476 --0.444684 O b'-1:lemma:~'
477 --0.447800 Phase b'-1:postag:JJ'
478 --0.479171 O b'-1:lemma:od600'
479 --0.501180 O b'+1:lemma:0.3'
480 --0.508699 O b'lemma:20'
481 --0.510331 O b'lemma:phase'
482 --0.515267 Supp b'+1:lemma:rifampicin'
483 --0.563739 O b'-1:lemma:grow'
484 --0.564966 OD b'+1:postag:NN'
485 --0.590510 O b'lemma:anaerobically'
486 --0.599810 O b'-1:lemma:rpob'
487 --0.601743 O b'-1:lemma:37'
488 --0.610426 O b'+1:postag:-RRB-'
489 --0.616300 O b'lemma:0.3'
490 --0.638052 O b'-1:postag::'
491 --0.643137 Phase b'postag:JJ'
492 --0.663649 Air b'-1:postag:JJ'
493 --0.669047 O b'+1:lemma:fecl2'
494 --0.674359 Technique b'-1:postag::'
495 --0.688223 O b'lemma:37'
496 --0.710522 Temp b'+1:lemma:to'
497 --0.710522 Temp b'+1:postag:TO'
498 --0.719253 O b'+1:postag:VBG'
499 --0.763315 OD b'lemma:-lrb-'
500 --0.811771 O b'+1:lemma:cell'
501 --0.814345 Supp b'+1:lemma:acetate'
502 --0.815613 O b'lemma:of'
503 --0.847971 Supp b'-1:lemma:%'
504 --0.882271 O b'-1:lemma:co2'
505 --0.885833 O b'lemma:fecl2'
506 --0.926916 O b'lemma:0.2'
507 --0.956430 O b'+1:lemma:g/l'
508 --0.983784 O b'-1:postag:VBG'
509 --0.983894 O b'lemma:0.1'
510 --1.010718 O b'+1:lemma:hour'
511 --1.016547 OD b'postag:-LRB-'
512 --1.050740 O b'lemma:mid-log'
513 --1.054828 O b'-1:lemma:dissolve'
514 --1.054828 O b'+1:lemma:methanol'
515 --1.099862 O b'lemma:2h'
516 --1.099862 O b'-1:lemma:additional'
517 --1.167797 O b'+1:lemma:+'
518 --1.232705 Anti b'postag:NNP'
519 --1.359414 Air b'+1:postag:JJ'
520 --1.434137 O b'-1:lemma:IP'
521 --1.480595 O b'-1:lemma:ompr'
522 --1.489420 O b'+1:lemma:in'
523 --1.499340 O b'+1:lemma:at'
524 --1.520824 O b'lemma:wt'
525 --1.526038 O b'+1:lemma:supplement'
526 --1.551927 Air b'postag:NN'
527 --1.631005 O b'-1:lemma:nsrr'
528 --1.648045 O b'lemma:methanol'
529 --1.709156 O b'lemma:rifampicin'
530 --1.751173 Supp b'postag:JJ'
531 --2.001540 O b'-1:lemma:2'
532 --2.347334 O b'+1:lemma:2'
533 --2.780459 O b'+1:lemma:1'
534 --3.924496 O b'-1:lemma:_'
535 --4.403653 O b'-1:lemma::'
536 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.04677173929140849, 'c2': 0.02379834069563392}
5 -best CV score:0.7990064924027899
6 -model size: 0.09M
7 -
8 -Flat F1: 0.7946783128458758
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.897 0.912 0.904 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.444 0.615 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.863 0.774 0.816 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.865 0.662 0.750 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.877 0.746 0.795 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.134641
32 -OD -> OD 5.677741
33 -Anti -> Anti 5.362057
34 -Temp -> Temp 5.263270
35 -Med -> Med 5.132754
36 -O -> O 4.728785
37 -Air -> Air 4.725974
38 -Gversion -> Gversion 4.440261
39 -Phase -> Phase 4.387821
40 -Gtype -> Gtype 4.174708
41 -Supp -> Supp 3.913450
42 -Technique -> Technique 3.154023
43 -pH -> pH 2.449543
44 -O -> Supp 1.770580
45 -Gtype -> Supp 1.668161
46 -Substrain -> Gtype 1.640169
47 -Air -> O 1.249366
48 -O -> Gtype 1.164153
49 -O -> Technique 1.104849
50 -O -> Temp 0.933808
51 -Technique -> Air 0.909479
52 -Gtype -> pH 0.842607
53 -O -> Anti 0.645228
54 -Gtype -> Air 0.522992
55 -O -> Strain 0.463558
56 -Med -> O 0.403658
57 -O -> Gversion 0.351834
58 -Phase -> O 0.234348
59 -O -> pH 0.165655
60 -O -> Phase 0.095939
61 -Temp -> O 0.048543
62 -O -> Vess 0.041922
63 -O -> Med 0.035257
64 -OD -> Phase 0.028957
65 -Anti -> O 0.009316
66 -OD -> Anti -0.000732
67 -Phase -> Air -0.015739
68 -Technique -> Gversion -0.018772
69 -Phase -> Med -0.022546
70 -Phase -> Gtype -0.022549
71 -Supp -> Vess -0.030895
72 -Anti -> Med -0.033179
73 -pH -> Supp -0.040764
74 -Supp -> O -0.040968
75 -OD -> Temp -0.042912
76 -O -> OD -0.068011
77 -Gversion -> Gtype -0.074143
78 -Med -> Gtype -0.079772
79 -OD -> Technique -0.093206
80 -Gversion -> Technique -0.100359
81 -
82 -
83 -Top unlikely transitions:
84 -OD -> Technique -0.093206
85 -Gversion -> Technique -0.100359
86 -Gversion -> O -0.108780
87 -Gtype -> Temp -0.110250
88 -Gtype -> Phase -0.170695
89 -Gversion -> Supp -0.170820
90 -Anti -> Supp -0.187552
91 -Gtype -> O -0.225882
92 -Air -> Temp -0.230459
93 -Technique -> O -0.233549
94 -Anti -> Gtype -0.271657
95 -Supp -> pH -0.276160
96 -Supp -> Phase -0.284897
97 -Air -> Gtype -0.305208
98 -Gversion -> Air -0.325062
99 -Med -> Air -0.325731
100 -Technique -> Supp -0.334858
101 -Air -> Phase -0.349173
102 -OD -> Supp -0.354028
103 -Gtype -> Technique -0.374277
104 -Supp -> Temp -0.396374
105 -Phase -> Technique -0.429552
106 -Supp -> Anti -0.516081
107 -Air -> Med -0.526139
108 -Anti -> OD -0.539948
109 -Supp -> Gversion -0.628938
110 -Temp -> Med -0.632351
111 -OD -> Med -0.653167
112 -Air -> Supp -0.653757
113 -Gtype -> Gversion -0.690790
114 -Supp -> Gtype -0.708051
115 -OD -> Gtype -0.713878
116 -Gtype -> Med -0.724292
117 -Supp -> OD -0.756035
118 -OD -> Air -0.790987
119 -Supp -> Technique -0.797069
120 -Air -> OD -0.800777
121 -OD -> O -0.818966
122 -Supp -> Air -0.835352
123 -Agit -> O -0.856989
124 -Gtype -> Anti -0.935186
125 -O -> Air -0.982462
126 -Technique -> OD -1.202863
127 -Technique -> pH -1.218760
128 -Gtype -> OD -1.289303
129 -Substrain -> O -1.293089
130 -Supp -> Med -1.346101
131 -Technique -> Gtype -1.361871
132 -Med -> Supp -1.701189
133 -Phase -> OD -2.114354
134 -
135 -
136 -Top positive:
137 -7.534104 O b'lemma:_'
138 -6.628671 O b'lemma:1'
139 -6.331443 Phase b'lemma:stationary'
140 -6.147039 Supp b'lemma:Iron'
141 -5.873757 Strain b'lemma:k-12'
142 -5.867898 Air b'lemma:anaerobic'
143 -5.663960 O b'lemma:2'
144 -5.524127 Technique b'lemma:ChIP-exo'
145 -5.510347 O b'lemma:rpob'
146 -5.509700 Air b'lemma:aerobic'
147 -5.383908 Technique b'lemma:chipseq'
148 -5.138707 Supp b'lemma:pq'
149 -5.111571 O b'lemma:3'
150 -4.862319 Air b'-1:lemma:ChIP-Seq'
151 -4.820668 Phase b'lemma:mid-log'
152 -4.756582 Supp b'lemma:nitrate'
153 -4.733587 O b'lemma:rep1'
154 -4.695668 Supp b'lemma:nh4cl'
155 -4.657172 Gtype b'lemma:\xce\xb4cra'
156 -4.653346 Gversion b'lemma:asm584v2'
157 -4.604440 O b'-1:lemma:tag'
158 -4.598239 Gtype b'lemma:flag-tag'
159 -4.598239 Gtype b'-1:lemma:c-terminal'
160 -4.560223 Supp b'lemma:glucose'
161 -4.518418 O b'lemma:rep2'
162 -4.442957 Substrain b'lemma:mg1655'
163 -4.384855 O b'postag:IN'
164 -4.373803 Gtype b'lemma:arca8myc'
165 -4.288264 O b'lemma:rep3'
166 -4.280619 Gtype b'lemma:wt'
167 -4.244271 Supp b'+1:lemma:\xc2\xb5m'
168 -4.243033 O b'lemma:Cra'
169 -4.226369 Med b'lemma:MOPS'
170 -4.201990 Air b'lemma:Aerobic'
171 -4.134023 Med b'lemma:LB'
172 -4.091845 Med b'lemma:lb'
173 -4.032302 Supp b'lemma:acetate'
174 -3.973554 O b'lemma:b'
175 -3.942411 OD b'lemma:od600'
176 -3.928969 Gtype b'lemma:delta-arca'
177 -3.863545 Supp b'lemma:no3'
178 -3.858283 O b'lemma:\xcf\x8332'
179 -3.832869 O b'lemma:a'
180 -3.823681 Gtype b'lemma:fnr8myc'
181 -3.816982 Technique b'lemma:rna-seq'
182 -3.782384 Gtype b'-1:lemma:\xe2\x88\x86'
183 -3.739595 Anti b'lemma:none'
184 -3.727287 Supp b'lemma:Fe'
185 -3.715581 O b'+1:postag:RB'
186 -3.678487 Supp b'lemma:dpd'
187 -3.659984 O b'lemma:.'
188 -3.659984 O b'postag:.'
189 -3.648715 O b'-1:lemma:ChIP-exo'
190 -3.614582 Technique b'lemma:chip-seq'
191 -3.583103 Gtype b'lemma:\xe2\x88\x86'
192 -3.579453 O b'lemma:Custom'
193 -3.579229 Supp b'lemma:rifampicin'
194 -3.576123 O b'-1:lemma:Aerobic'
195 -3.569749 Anti b'lemma:seqa'
196 -3.487112 O b'lemma:-'
197 -3.459968 Gtype b'lemma:type'
198 -3.455121 Supp b'lemma:fructose'
199 -3.452777 O b'postag::'
200 -3.447911 Technique b'lemma:rnaseq'
201 -3.441629 O b'lemma:CEL'
202 -3.393478 Gtype b'+1:lemma:type'
203 -3.377102 OD b'lemma:od450'
204 -3.366350 Supp b'-1:lemma:Cra'
205 -3.356047 Gversion b'lemma:chip-seq'
206 -3.319052 O b'+1:lemma:od600'
207 -3.292164 Gtype b'lemma:delta-fnr'
208 -3.267801 Gtype b'+1:lemma:with'
209 -3.173282 Gversion b'lemma:nc'
210 -3.159588 Supp b'lemma:arginine'
211 -3.157495 Supp b'+1:lemma:Deficient'
212 -3.142138 Supp b'+1:lemma:1'
213 -3.110124 Med b'+1:lemma:0.4'
214 -3.070894 pH b'lemma:ph5'
215 -3.070894 pH b'+1:lemma:.5'
216 -3.055480 O b'postag:VBN'
217 -3.042474 O b'-1:lemma:glucose'
218 -3.026214 Gtype b'lemma:wild-type'
219 -3.023824 O b'-1:lemma:0.3-0.35'
220 -3.014842 Vess b'lemma:flask'
221 -3.014842 Vess b'-1:lemma:warm'
222 -3.008710 Gtype b'lemma:\xce\xb4fur'
223 -3.002326 Air b'postag:RB'
224 -2.997223 O b'-1:lemma:anaerobic'
225 -2.995282 Strain b'+1:lemma:substr'
226 -2.984104 Technique b'lemma:ChIP-Seq'
227 -2.963817 O b'-1:lemma:lb'
228 -2.963222 O b'lemma:affyexp'
229 -2.932438 O b'lemma:with'
230 -2.930598 O b'lemma:chip-arca'
231 -2.927299 O b'lemma:or'
232 -2.924379 Med b'lemma:m63'
233 -2.907457 Anti b'lemma:anti-myc'
234 -2.863249 O b'lemma:oxyr'
235 -2.862524 O b'lemma:s'
236 -2.860715 Gtype b'lemma:nsrr'
237 -2.848040 Med b'+1:lemma:minimal'
238 -2.835399 Gversion b'lemma:u00096'
239 -2.835399 Gversion b'+1:lemma:.2'
240 -2.784084 Gversion b'lemma:.2'
241 -2.784084 Gversion b'-1:lemma:u00096'
242 -2.759399 O b'lemma:argr'
243 -2.748921 Supp b'+1:lemma:2'
244 -2.745607 Gtype b'lemma:\xce\xb4soxs'
245 -2.734894 Gtype b'lemma:WT'
246 -2.724494 Supp b'+1:lemma:_'
247 -2.724148 Gtype b'-1:lemma:ptac'
248 -2.708775 O b'lemma:ompr'
249 -2.704416 O b'-1:lemma:type'
250 -2.702036 Temp b'lemma:\xc2\xb0c'
251 -2.697776 Air b'lemma:anaerobically'
252 -2.689994 O b'-1:lemma:stpa'
253 -2.680820 O b'+1:lemma:anti-fur'
254 -2.655921 Air b'lemma:Anaerobic'
255 -2.655797 Supp b'-1:lemma:+'
256 -2.622529 Technique b'-1:lemma:IP'
257 -2.621136 Med b'+1:lemma:2.0'
258 -2.617145 Gversion b'lemma:000913'
259 -2.616146 Gtype b'lemma:\xce\xb4ompr'
260 -2.590492 Gversion b'+1:lemma:000913'
261 -2.585180 Temp b'-1:lemma:43'
262 -2.573573 O b'lemma:purr'
263 -2.573022 Supp b'lemma:nacl'
264 -2.569061 Gtype b'+1:lemma:flagtag'
265 -2.519791 O b'+1:lemma:pq'
266 -2.506876 Anti b'+1:lemma:antibody'
267 -2.476869 O b'lemma:for'
268 -2.476779 OD b'+1:lemma:stationary'
269 -2.468830 Gversion b'-1:lemma:nc'
270 -2.462372 Supp b'lemma:Leu'
271 -2.457208 O b'lemma:Lrp'
272 -2.436354 Anti b'lemma:anti-rpos'
273 -2.425547 Gtype b'lemma:ptac'
274 -2.423670 O b'lemma:Fur'
275 -2.407480 Technique b'-1:lemma:chip-exo'
276 -2.398179 Gtype b'lemma:pk4854'
277 -2.385757 O b'+1:lemma:o.d.'
278 -2.379658 Technique b'-1:lemma:input'
279 -2.376821 O b'+1:lemma:chip-seq'
280 -2.371298 O b'lemma:chip'
281 -2.356254 Gtype b'+1:lemma:pq'
282 -2.346453 Substrain b'+1:lemma:phtpg'
283 -2.325961 Supp b'lemma:Adenine'
284 -2.324750 Gtype b'lemma:deltaseqa'
285 -2.324750 Gtype b'-1:lemma:old'
286 -2.319652 O b'-1:lemma:dpd'
287 -2.309116 Temp b'lemma:43'
288 -2.274038 Phase b'lemma:phase'
289 -2.271043 O b'lemma:2-3'
290 -2.257073 O b'lemma:soxs'
291 -2.257073 O b'lemma:soxr'
292 -2.244724 Gtype b'-1:lemma:rpob'
293 -2.229381 Technique b'+1:lemma:chip-exo'
294 -2.222498 Temp b'-1:lemma:\xcf\x8332'
295 -2.216473 Phase b'-1:lemma:mid-log'
296 -2.208114 Air b'-1:lemma:-'
297 -2.198129 O b'postag:SYM'
298 -2.197977 Temp b'-1:lemma:sample'
299 -2.197671 pH b'lemma:.5'
300 -2.197671 pH b'-1:lemma:ph5'
301 -2.191655 O b'lemma:pt7'
302 -2.179497 Temp b'-1:lemma:37'
303 -2.163485 O b'lemma:at'
304 -2.159035 O b'-1:lemma:l1'
305 -2.157894 Med b'lemma:L'
306 -2.157894 Med b'+1:lemma:broth'
307 -2.155748 Gtype b'+1:lemma:ph5'
308 -2.154483 Supp b'+1:lemma:hour'
309 -2.149987 Med b'postag:NNP'
310 -2.130185 Gtype b'lemma:\xce\xb4oxyr'
311 -2.128728 Technique b'postag:NNP'
312 -2.120879 Gtype b'+1:lemma:aerobic'
313 -2.119345 O b'+1:lemma:43'
314 -2.118846 Temp b'+1:lemma:\xc2\xb0c'
315 -2.117976 O b'postag:DT'
316 -2.112237 Gtype b'lemma:\xce\xb4soxr'
317 -2.103111 O b'lemma:chip-fnr'
318 -2.095565 Gtype b'-1:lemma:_'
319 -2.095139 Air b'lemma:anerobically'
320 -2.088059 pH b'+1:postag:CD'
321 -2.082289 Vess b'-1:postag:VBN'
322 -2.082182 Air b'+1:lemma:at'
323 -2.072000 Supp b'-1:lemma:\xc2\xb5m'
324 -2.063372 O b'lemma:culture'
325 -2.052919 Supp b'+1:postag:CC'
326 -2.051661 Gtype b'+1:lemma:_'
327 -2.042397 Supp b'lemma:iptg'
328 -2.038377 OD b'-1:lemma:~'
329 -2.032972 Air b'-1:postag::'
330 -2.032763 Med b'lemma:broth'
331 -2.032763 Med b'-1:lemma:L'
332 -2.015625 O b'lemma:genotype/variation'
333 -2.011175 Phase b'+1:lemma:for'
334 -2.009864 Med b'lemma:glucose'
335 -2.006608 Med b'+1:lemma:+'
336 -2.006544 O b'postag:CC'
337 -
338 -
339 -Top negative:
340 --0.030705 O b'-1:lemma:chip-exo'
341 --0.033076 OD b'lemma:~'
342 --0.042809 Gtype b'lemma:control'
343 --0.044545 O b'-1:postag:DT'
344 --0.050305 O b'-1:lemma:rna'
345 --0.052149 Supp b'-1:postag:NN'
346 --0.059299 O b'lemma:paraquat'
347 --0.061867 Med b'-1:postag:NN'
348 --0.063794 O b'-1:lemma:mm'
349 --0.064411 OD b'+1:lemma:and'
350 --0.065739 Supp b'-1:postag:JJ'
351 --0.067296 Med b'-1:postag:CD'
352 --0.068394 Air b'-1:postag:CC'
353 --0.071978 O b'+1:lemma:-rrb-'
354 --0.072542 Phase b'-1:lemma:at'
355 --0.072594 O b'+1:lemma:5'
356 --0.073614 Phase b'+1:postag:NN'
357 --0.074214 O b'+1:lemma:-lcb-'
358 --0.078588 O b'+1:lemma:delta'
359 --0.080091 O b'-1:lemma:the'
360 --0.084524 O b'-1:lemma:of'
361 --0.084670 O b'-1:lemma:fresh'
362 --0.092681 Gtype b'+1:lemma:cra'
363 --0.094545 Air b'-1:lemma:or'
364 --0.098369 O b'lemma:o2'
365 --0.102102 Air b'postag:CD'
366 --0.103275 OD b'postag:JJ'
367 --0.104224 O b'-1:lemma:with'
368 --0.110720 Supp b'lemma:and'
369 --0.116486 O b'lemma:mg/ml'
370 --0.116486 O b'-1:lemma:150'
371 --0.117260 Technique b'-1:lemma::'
372 --0.123127 Med b'postag:-LRB-'
373 --0.125962 O b'-1:lemma:affinity'
374 --0.126151 Med b'lemma:-lrb-'
375 --0.132649 Supp b'-1:lemma:and'
376 --0.137087 OD b'+1:lemma:0.4'
377 --0.138413 O b'-1:lemma:delta'
378 --0.138623 O b'+1:lemma:mg1655'
379 --0.144390 O b'lemma:medium'
380 --0.147406 O b'lemma:e.'
381 --0.149940 O b'-1:postag:VBN'
382 --0.171711 O b'-1:postag:IN'
383 --0.171840 O b'+1:lemma:mm'
384 --0.172335 O b'-1:lemma:iptg'
385 --0.172927 O b'lemma:pahse'
386 --0.174410 O b'-1:lemma:e.'
387 --0.180259 O b'+1:lemma:0.4'
388 --0.184212 Gtype b'-1:postag:DT'
389 --0.192140 O b'lemma:aerobically'
390 --0.195145 O b'-1:lemma:20'
391 --0.196338 O b'-1:lemma:-lrb-'
392 --0.202283 O b'+1:lemma:shake'
393 --0.203197 O b'lemma:co2'
394 --0.203279 O b'+1:lemma:antibody'
395 --0.217474 Gversion b'+1:postag:NN'
396 --0.221749 O b'-1:lemma:o2'
397 --0.225204 Supp b'+1:postag:IN'
398 --0.227101 O b'lemma:n2'
399 --0.229126 O b'+1:lemma:.'
400 --0.229126 O b'+1:postag:.'
401 --0.229774 Gtype b'postag:CD'
402 --0.229916 O b'+1:lemma:minimal'
403 --0.234531 Gtype b'-1:postag:CD'
404 --0.235270 Supp b'-1:postag:NNP'
405 --0.241460 O b'-1:lemma:n2'
406 --0.246278 Supp b'-1:postag:VBG'
407 --0.247884 O b'-1:lemma:mid-log'
408 --0.249629 O b'lemma:grow'
409 --0.256652 Anti b'+1:postag:JJ'
410 --0.258827 O b'-1:postag:-LRB-'
411 --0.259766 OD b'+1:lemma:mid-log'
412 --0.260676 O b'lemma:30'
413 --0.262198 O b'lemma:lb'
414 --0.264023 Med b'+1:postag:NN'
415 --0.264423 O b'postag:RB'
416 --0.274539 O b'+1:lemma:b'
417 --0.274643 O b'+1:lemma:rep1'
418 --0.276742 O b'-1:lemma:um'
419 --0.276742 O b'+1:lemma:paraquat'
420 --0.279342 Med b'+1:postag:NNS'
421 --0.286088 O b'+1:lemma:phase'
422 --0.286355 O b'lemma:nacl'
423 --0.288644 Med b'postag:CD'
424 --0.291831 Temp b'postag:JJ'
425 --0.292363 O b'+1:lemma:or'
426 --0.292909 O b'+1:lemma:_'
427 --0.309719 O b'-1:lemma:minimal'
428 --0.310879 O b'lemma:minimal'
429 --0.316065 O b'-1:lemma:0.1'
430 --0.317315 O b'lemma:glucose'
431 --0.331509 O b'lemma:\xc2\xb0c'
432 --0.335559 O b'-1:lemma:from'
433 --0.337031 Gtype b'lemma:_'
434 --0.367204 O b'-1:lemma:od600'
435 --0.376428 O b'+1:lemma:Aerobic'
436 --0.392320 Supp b'postag:CC'
437 --0.394063 Med b'-1:postag:IN'
438 --0.397299 O b'-1:lemma:g/l'
439 --0.400353 O b'+1:postag:IN'
440 --0.411740 O b'+1:postag:-RRB-'
441 --0.414297 Supp b'+1:lemma:glucose'
442 --0.417115 O b'-1:lemma:grow'
443 --0.434939 O b'+1:lemma:cell'
444 --0.455419 Technique b'-1:postag::'
445 --0.464919 O b'+1:lemma:dissolve'
446 --0.465860 O b'+1:lemma:%'
447 --0.466338 O b'+1:lemma:until'
448 --0.481860 O b'-1:lemma:rifampicin'
449 --0.483707 pH b'postag:NN'
450 --0.485247 Gtype b'-1:postag:SYM'
451 --0.501917 Gtype b'lemma:delta'
452 --0.503189 O b'lemma:mg1655'
453 --0.508938 Gtype b'+1:lemma:\xe2\x88\x86'
454 --0.518932 OD b'+1:postag:NN'
455 --0.534335 O b'-1:lemma:until'
456 --0.547846 Supp b'+1:postag:VBN'
457 --0.575194 O b'-1:lemma:cra'
458 --0.583475 OD b'lemma:-lrb-'
459 --0.585808 Supp b'+1:lemma:rifampicin'
460 --0.587062 Med b'+1:postag:IN'
461 --0.591031 O b'lemma:phase'
462 --0.604967 O b'-1:lemma:\xe2\x88\x86'
463 --0.607989 O b'lemma:m63'
464 --0.609363 O b'+1:lemma:300'
465 --0.622369 Temp b'-1:lemma:\xc2\xb0c'
466 --0.627260 Temp b'postag:NN'
467 --0.639822 O b'lemma:od600'
468 --0.640212 O b'lemma:150'
469 --0.640212 O b'+1:lemma:mg/ml'
470 --0.652984 OD b'postag:-LRB-'
471 --0.673873 Temp b'+1:lemma:to'
472 --0.673873 Temp b'+1:postag:TO'
473 --0.674063 O b'+1:lemma:c'
474 --0.677850 O b'lemma:purify'
475 --0.683914 O b'lemma:of'
476 --0.689091 O b'+1:postag:NNS'
477 --0.698464 O b'-1:lemma:1'
478 --0.705692 O b'-1:lemma:30'
479 --0.714318 O b'lemma:dissolve'
480 --0.716763 O b'lemma:dpd'
481 --0.740206 O b'+1:lemma:\xc2\xb0c'
482 --0.752744 O b'+1:lemma:arginine'
483 --0.788403 Phase b'-1:postag:JJ'
484 --0.834026 O b'-1:lemma:~'
485 --0.843212 O b'lemma:k-12'
486 --0.849778 O b'-1:lemma:co2'
487 --0.851042 O b'+1:lemma:0.3'
488 --0.909147 O b'lemma:media'
489 --0.910481 Air b'-1:postag:JJ'
490 --0.915586 O b'lemma:20'
491 --0.923944 O b'lemma:\xe2\x88\x86'
492 --0.924668 O b'lemma:anaerobically'
493 --0.929792 O b'+1:lemma:fecl2'
494 --0.940939 Anti b'+1:lemma:anti-fur'
495 --0.942359 Supp b'-1:lemma:%'
496 --0.975994 O b'+1:lemma:supplement'
497 --0.981045 O b'lemma:mid-log'
498 --0.985760 O b'-1:lemma:dissolve'
499 --0.985760 O b'+1:lemma:methanol'
500 --0.991880 O b'lemma:anaerobic'
501 --1.004133 O b'-1:lemma:0.2'
502 --1.047975 O b'-1:postag:VBG'
503 --1.056100 O b'lemma:\xce\xb4fur'
504 --1.058032 O b'lemma:2h'
505 --1.058032 O b'-1:lemma:additional'
506 --1.065496 O b'lemma:0.3'
507 --1.108652 O b'lemma:0.1'
508 --1.114961 O b'+1:postag:VBG'
509 --1.137551 Supp b'+1:lemma:acetate'
510 --1.154485 O b'lemma:0.2'
511 --1.248669 O b'+1:lemma:at'
512 --1.249902 O b'lemma:fecl2'
513 --1.259624 O b'-1:lemma:rpob'
514 --1.282405 O b'+1:lemma:in'
515 --1.300959 O b'postag:VBP'
516 --1.307774 O b'-1:postag::'
517 --1.330717 Air b'+1:postag:JJ'
518 --1.343057 O b'+1:lemma:g/l'
519 --1.370626 O b'lemma:37'
520 --1.394308 O b'-1:lemma:sample'
521 --1.451537 O b'-1:lemma:ompr'
522 --1.539969 Supp b'postag:JJ'
523 --1.574060 Air b'postag:NN'
524 --1.626564 O b'lemma:rifampicin'
525 --1.646551 Phase b'postag:JJ'
526 --1.690746 O b'-1:lemma:ml'
527 --1.723948 Anti b'postag:NNP'
528 --1.752448 O b'-1:lemma:37'
529 --1.808172 O b'-1:lemma:nsrr'
530 --1.877830 O b'-1:lemma:IP'
531 --1.901078 O b'lemma:wt'
532 --1.911145 O b'+1:lemma:+'
533 --2.060304 O b'-1:lemma:2'
534 --2.238911 O b'lemma:methanol'
535 --2.346827 O b'+1:lemma:2'
536 --2.515820 O b'+1:lemma:hour'
537 --2.737658 O b'+1:lemma:1'
538 --3.430701 O b'-1:lemma:_'
539 --3.751199 O b'-1:lemma::'
540 -
1 +********** TRAINING AND TESTING REPORT **********
2 +Training file: training-data-set-70.txt
3 +
4 +best params:{'c1': 0.04223966754804299, 'c2': 0.014836666503726496}
5 +best CV score:0.879077327666518
6 +model size: 0.17M
7 +
8 +Flat F1: 0.7889011067174645
9 + precision recall f1-score support
10 +
11 + OD 1.000 0.818 0.900 22
12 + pH 1.000 1.000 1.000 8
13 + Technique 1.000 0.913 0.955 23
14 + Med 1.000 0.962 0.981 53
15 + Temp 0.923 0.828 0.873 29
16 + Vess 1.000 1.000 1.000 1
17 + Agit 0.000 0.000 0.000 0
18 + Phase 0.882 1.000 0.938 15
19 + Air 0.556 0.362 0.439 69
20 + Anti 1.000 1.000 1.000 11
21 + Strain 0.000 0.000 0.000 1
22 + Gtype 0.864 0.824 0.843 85
23 + Substrain 0.000 0.000 0.000 0
24 + Supp 0.716 0.791 0.752 134
25 + Gversion 0.000 0.000 0.000 0
26 +
27 +avg / total 0.811 0.776 0.789 451
28 +
29 +
30 +Top likely transitions:
31 +Temp -> Temp 6.132401
32 +Agit -> Agit 5.867978
33 +Med -> Med 5.493382
34 +Anti -> Anti 4.899201
35 +Gversion -> Gversion 4.720775
36 +OD -> OD 4.580439
37 +Gtype -> Gtype 4.270714
38 +Supp -> Supp 4.146870
39 +O -> O 4.001305
40 +Phase -> Phase 3.777096
41 +Air -> Air 3.280795
42 +Technique -> Technique 3.042386
43 +pH -> pH 2.638890
44 +Substrain -> Gtype 0.639428
45 +O -> Technique 0.597359
46 +O -> Gtype 0.301586
47 +Med -> O 0.113620
48 +Gtype -> Air 0.032970
49 +Air -> O 0.023112
50 +Temp -> O 0.007528
51 +O -> Temp 0.000729
52 +Agit -> O -0.000016
53 +Supp -> Technique -0.000031
54 +O -> Strain -0.002771
55 +Phase -> Air -0.018013
56 +Technique -> OD -0.019361
57 +Supp -> OD -0.031281
58 +pH -> Supp -0.038004
59 +Air -> Gtype -0.060170
60 +OD -> Supp -0.078565
61 +Anti -> Gtype -0.100971
62 +Gtype -> Phase -0.118162
63 +Gtype -> Anti -0.120765
64 +Air -> Agit -0.147345
65 +Air -> Temp -0.149520
66 +Anti -> Air -0.164013
67 +Gversion -> Supp -0.166044
68 +Anti -> O -0.170392
69 +Gtype -> OD -0.173948
70 +Anti -> Supp -0.206647
71 +Air -> Technique -0.220913
72 +Technique -> Gtype -0.276956
73 +Supp -> Phase -0.297344
74 +Air -> Phase -0.306210
75 +O -> Supp -0.348583
76 +O -> Med -0.368131
77 +Phase -> OD -0.382985
78 +O -> Phase -0.399249
79 +OD -> Air -0.479222
80 +Phase -> Supp -0.503166
81 +
82 +
83 +Top unlikely transitions:
84 +Agit -> O -0.000016
85 +Supp -> Technique -0.000031
86 +O -> Strain -0.002771
87 +Phase -> Air -0.018013
88 +Technique -> OD -0.019361
89 +Supp -> OD -0.031281
90 +pH -> Supp -0.038004
91 +Air -> Gtype -0.060170
92 +OD -> Supp -0.078565
93 +Anti -> Gtype -0.100971
94 +Gtype -> Phase -0.118162
95 +Gtype -> Anti -0.120765
96 +Air -> Agit -0.147345
97 +Air -> Temp -0.149520
98 +Anti -> Air -0.164013
99 +Gversion -> Supp -0.166044
100 +Anti -> O -0.170392
101 +Gtype -> OD -0.173948
102 +Anti -> Supp -0.206647
103 +Air -> Technique -0.220913
104 +Technique -> Gtype -0.276956
105 +Supp -> Phase -0.297344
106 +Air -> Phase -0.306210
107 +O -> Supp -0.348583
108 +O -> Med -0.368131
109 +Phase -> OD -0.382985
110 +O -> Phase -0.399249
111 +OD -> Air -0.479222
112 +Phase -> Supp -0.503166
113 +Supp -> Air -0.513142
114 +Phase -> O -0.522452
115 +Air -> Med -0.532689
116 +Gtype -> Med -0.539650
117 +Technique -> Supp -0.572989
118 +Gtype -> Technique -0.595348
119 +Temp -> Med -0.595579
120 +Supp -> Gtype -0.613937
121 +Agit -> Air -0.625302
122 +OD -> O -0.641071
123 +Gversion -> O -0.641193
124 +Technique -> pH -0.782400
125 +Supp -> O -0.786822
126 +Supp -> Med -0.932343
127 +Air -> Supp -0.964410
128 +Technique -> O -1.106191
129 +O -> OD -1.374945
130 +Gtype -> O -1.475612
131 +Substrain -> O -1.620808
132 +Med -> Supp -1.753990
133 +O -> Air -1.843623
134 +
135 +
136 +Top positive:
137 +5.458764 Anti b'-2:lemma:antibody'
138 +4.034933 O b'-2:lemma:_'
139 +3.995360 Technique b'lemma[:2]:Ch'
140 +3.737588 O b'lemma[:2]:re'
141 +3.686472 Gtype b'lemma[:1]:\xce\xb4'
142 +3.552793 Phase b'-2:lemma:phase'
143 +3.469041 Air b'word:Aerobic'
144 +3.439462 O b'lemma:2'
145 +3.439462 O b'word:2'
146 +3.243564 Air b'lemma:anaerobic'
147 +3.182295 Supp b'-1:word:Cra'
148 +3.047566 Gtype b'-2:lemma:genotype/variation'
149 +3.006963 O b'-2:lemma:medium'
150 +2.984615 O b'lemma:1'
151 +2.984615 O b'word:1'
152 +2.738121 O b'lemma:-'
153 +2.738121 O b'word:-'
154 +2.718196 O b'+1:postag:RB'
155 +2.700586 O b'word:Cra'
156 +2.653876 Supp b'+2:lemma:iptg'
157 +2.620648 O b'lemma:with'
158 +2.620648 O b'word:with'
159 +2.599865 O b'lemma:_'
160 +2.599865 O b'lemma[:1]:_'
161 +2.599865 O b'word:_'
162 +2.575314 Med b'+2:postag:CC'
163 +2.571913 Supp b'lemma:arginine'
164 +2.568347 O b'word:A'
165 +2.546240 Gtype b'lemma[:2]:pk'
166 +2.527855 O b'lemma:3'
167 +2.527855 O b'word:3'
168 +2.379121 O b'-1:lemma:ChIP-exo'
169 +2.355972 O b'lemma[:2]:ge'
170 +2.355054 Technique b'lemma[:2]:rn'
171 +2.341062 Supp b'lemma:pq'
172 +2.341062 Supp b'lemma[:2]:pq'
173 +2.341062 Supp b'word:PQ'
174 +2.297430 O b'+2:lemma:cra'
175 +2.280338 O b'+2:lemma:\xc2\xb0c'
176 +2.251142 O b'+2:lemma:70'
177 +2.245883 Gtype b'word:WT'
178 +2.241264 Air b'word:Anaerobic'
179 +2.237739 Supp b'+2:lemma:for'
180 +2.234179 Anti b'+2:lemma:antibody'
181 +2.153589 O b'-1:lemma:tag'
182 +2.117142 O b'lemma[:1]:h'
183 +2.088934 Air b'lemma[:2]:ae'
184 +2.076795 Technique b'word:ChIPSeq'
185 +2.068935 Gtype b'hGreek'
186 +2.047132 O b'-2:lemma:mid-log'
187 +2.041924 O b'lemma:.'
188 +2.041924 O b'postag:.'
189 +2.041924 O b'postag[:1]:.'
190 +2.041924 O b'word:.'
191 +2.032495 Gtype b'-1:lemma:\xe2\x88\x86'
192 +2.032495 Gtype b'-1:word:\xe2\x88\x86'
193 +2.016938 Gtype b'lemma[:1]:w'
194 +2.000225 O b'+2:lemma:fructose'
195 +1.992930 Supp b'-1:lemma:with'
196 +1.992930 Supp b'-1:word:with'
197 +1.991763 Gtype b'-2:lemma:delta'
198 +1.990954 Substrain b'lemma[:2]:mg'
199 +1.983708 Phase b'+2:lemma:o.d.'
200 +1.977886 Supp b'-1:lemma:Cra'
201 +1.960916 Phase b'lemma:mid-log'
202 +1.960916 Phase b'word:mid-log'
203 +1.958437 Phase b'lemma[:2]:ex'
204 +1.945077 Supp b'-1:postag:CC'
205 +1.944452 Substrain b'lemma[:1]:m'
206 +1.940793 Gtype b'lemma:type'
207 +1.940793 Gtype b'lemma[:2]:ty'
208 +1.940793 Gtype b'word:type'
209 +1.931978 Technique b'lemma:chipseq'
210 +1.906924 O b'+1:postag:NNP'
211 +1.904357 O b'lemma:b'
212 +1.904357 O b'word:B'
213 +1.900770 O b'-1:word:tag'
214 +1.894287 Technique b'lemma:ChIP-exo'
215 +1.866276 Technique b'lemma[:1]:C'
216 +1.856571 O b'-1:word:Aerobic'
217 +1.849985 Supp b'lemma:Iron'
218 +1.849985 Supp b'lemma[:2]:Ir'
219 +1.849985 Supp b'word:Iron'
220 +1.849985 Supp b'+1:word:Deficient'
221 +1.849985 Supp b'-2:lemma:Anaerobic'
222 +1.843831 Supp b'lemma:acetate'
223 +1.843831 Supp b'word:acetate'
224 +1.843349 Air b'lemma[:1]:A'
225 +1.840981 Supp b'-2:lemma:media'
226 +1.831812 Technique b'lemma[:2]:ch'
227 +1.820538 Gtype b'-2:postag:DT'
228 +1.819950 Supp b'-1:lemma:+'
229 +1.819950 Supp b'-1:word:+'
230 +1.813584 Air b'lemma[:1]:a'
231 +1.788160 Gversion b'word:ChIP-Seq'
232 +1.786490 Gtype b'-2:lemma:genotype'
233 +1.771090 Gtype b'+1:lemma:type'
234 +1.771090 Gtype b'+1:word:type'
235 +1.765859 Gtype b'-2:lemma:affyexp'
236 +1.729836 Gversion b'lemma:chip-seq'
237 +1.715972 Air b'lemma[:2]:an'
238 +1.702637 O b'-2:lemma:myc'
239 +1.701777 O b'-2:lemma:flagtag'
240 +1.685559 Supp b'-2:lemma:agent'
241 +1.676248 Supp b'lemma[:1]:n'
242 +1.665235 Technique b'symb'
243 +1.650041 Technique b'-1:lemma:chip-exo'
244 +1.645472 O b'-1:lemma:anaerobic'
245 +1.628175 Gtype b'lemma[:2]:ar'
246 +1.620209 Supp b'postag:VBP'
247 +1.612275 O b'isLower'
248 +1.611690 O b'+1:lemma:pq'
249 +1.611690 O b'+1:word:PQ'
250 +1.609561 Supp b'lemma[:1]:I'
251 +1.608561 O b'-1:lemma:media'
252 +1.608561 O b'-1:word:media'
253 +1.597175 Med b'isUpper'
254 +1.593363 Gtype b'lemma:wt'
255 +1.593363 Gtype b'lemma[:2]:wt'
256 +1.593216 Med b'+2:lemma:b2'
257 +1.592123 Supp b'-2:lemma:induce'
258 +1.590184 Air b'lemma:Aerobic'
259 +1.590184 Air b'lemma[:2]:Ae'
260 +1.571628 Phase b'lemma:stationary'
261 +1.571628 Phase b'word:stationary'
262 +1.555960 Gtype b'lemma[:1]:f'
263 +1.552005 Med b'lemma:MOPS'
264 +1.552005 Med b'lemma[:1]:M'
265 +1.552005 Med b'lemma[:2]:MO'
266 +1.552005 Med b'word:MOPS'
267 +1.545220 Technique b'word:ChIP-Seq'
268 +1.544051 Supp b'lemma[:2]:gl'
269 +1.540691 O b'-1:lemma:0.3'
270 +1.540691 O b'-1:word:0.3'
271 +1.540357 Supp b'-2:lemma:argr'
272 +1.535458 Gtype b'symb'
273 +1.531560 O b'-2:lemma:fructose'
274 +1.530754 O b'-1:lemma:lb'
275 +1.530754 O b'-1:word:LB'
276 +1.528067 Supp b'-1:lemma:final'
277 +1.528067 Supp b'-1:word:final'
278 +1.513494 Phase b'-2:lemma:until'
279 +1.493341 Supp b'lemma:fructose'
280 +1.493341 Supp b'word:fructose'
281 +1.491583 Technique b'-1:lemma:input'
282 +1.491583 Technique b'-1:word:Input'
283 +1.487376 Supp b'lemma[:2]:ac'
284 +1.472895 pH b'+1:postag:CD'
285 +1.458550 O b'-1:lemma:glucose'
286 +1.458550 O b'-1:word:glucose'
287 +1.450710 Gtype b'-1:postag:VBG'
288 +1.450118 Air b'-1:postag::'
289 +1.449701 Supp b'+1:lemma:\xc2\xb5m'
290 +1.449701 Supp b'+1:word:\xc2\xb5M'
291 +1.430882 O b'+1:lemma:mid-log'
292 +1.430882 O b'+1:word:mid-log'
293 +1.420013 Strain b'+1:lemma:substr'
294 +1.420013 Strain b'+1:word:substr'
295 +1.420013 Strain b'-2:lemma:str'
296 +1.408799 O b'lemma:Custom'
297 +1.408799 O b'lemma[:2]:Cu'
298 +1.408799 O b'word:Custom'
299 +1.401545 O b'lemma:chip'
300 +1.400074 O b'lemma[:1]:C'
301 +1.398389 Gtype b'lemma[:2]:wi'
302 +1.394023 O b'lemma:rpob'
303 +1.394023 O b'word:RpoB'
304 +1.389762 Supp b'-2:lemma:supplement'
305 +1.388021 Supp b'lemma[:2]:ni'
306 +1.387197 Phase b'lemma[:1]:e'
307 +1.380149 Air b'postag:RB'
308 +1.380149 Air b'postag[:1]:R'
309 +1.380149 Air b'postag[:2]:RB'
310 +1.378405 O b'lemma:a'
311 +1.377531 O b'+1:word:ChIP-Seq'
312 +1.375054 Technique b'+2:lemma:ph5'
313 +1.371660 Anti b'+1:lemma:antibody'
314 +1.371660 Anti b'+1:word:antibody'
315 +1.355865 O b'postag:VBN'
316 +1.352947 OD b'lemma:0.3'
317 +1.352947 OD b'word:0.3'
318 +1.351689 Phase b'+1:lemma:phase'
319 +1.351689 Phase b'+1:word:phase'
320 +1.350446 pH b'lemma[:2]:ph'
321 +1.341756 O b'isNumber'
322 +1.330917 Supp b'+1:lemma:1'
323 +1.330917 Supp b'+1:word:1'
324 +1.327538 Gversion b'-2:lemma:build'
325 +1.323732 O b'lemma:ompr'
326 +1.323732 O b'word:OmpR'
327 +1.322881 Air b'+1:postag:IN'
328 +1.322130 Temp b'-1:lemma:43'
329 +1.322130 Temp b'-1:word:43'
330 +1.298940 O b'-1:lemma:aerobically'
331 +1.298940 O b'-1:word:aerobically'
332 +1.297300 OD b'lemma[:1]:o'
333 +1.295797 Med b'+1:lemma:0.4'
334 +1.295797 Med b'+1:word:0.4'
335 +1.282176 O b'+2:postag:JJ'
336 +1.271164 O b'+2:lemma:polyclonal'
337 +
338 +
339 +Top negative:
340 +-0.367697 Supp b'-1:postag:-LRB-'
341 +-0.371915 O b'-2:lemma:fresh'
342 +-0.376710 O b'+2:lemma:fnr'
343 +-0.377206 O b'lemma:2h'
344 +-0.377206 O b'-1:lemma:additional'
345 +-0.377206 O b'lemma[:2]:2h'
346 +-0.377206 O b'word:2h'
347 +-0.377206 O b'-1:word:additional'
348 +-0.379729 O b'-2:postag:-LRB-'
349 +-0.380849 Air b'-1:postag:JJ'
350 +-0.381928 Strain b'isLower'
351 +-0.382657 Med b'-1:postag:IN'
352 +-0.383403 O b'-2:lemma:at'
353 +-0.384281 Technique b'postag:NN'
354 +-0.389220 O b'-1:lemma:until'
355 +-0.389220 O b'-1:word:until'
356 +-0.393047 O b'lemma[:1]:4'
357 +-0.393058 O b'+2:lemma:follow'
358 +-0.393999 O b'-1:lemma:control'
359 +-0.393999 O b'-1:word:control'
360 +-0.395395 O b'lemma[:2]:0.'
361 +-0.396201 O b'-2:lemma:minimal'
362 +-0.397167 O b'lemma:37'
363 +-0.397167 O b'lemma[:2]:37'
364 +-0.397167 O b'word:37'
365 +-0.397928 Gtype b'lemma[:1]:g'
366 +-0.404533 O b'lemma:glucose'
367 +-0.404533 O b'word:glucose'
368 +-0.408273 O b'lemma:30'
369 +-0.408273 O b'word:30'
370 +-0.409885 O b'-2:lemma:supplement'
371 +-0.411648 O b'+1:lemma:mm'
372 +-0.411648 O b'+1:word:mM'
373 +-0.412683 O b'+2:lemma:at'
374 +-0.413401 O b'-2:lemma:of'
375 +-0.419317 O b'-2:postag:RB'
376 +-0.420417 Temp b'isLower'
377 +-0.424626 O b'+1:lemma:phase'
378 +-0.424626 O b'+1:word:phase'
379 +-0.426973 Supp b'lemma[:1]:s'
380 +-0.427251 O b'lemma:wt'
381 +-0.427251 O b'lemma[:2]:wt'
382 +-0.434566 O b'+2:lemma:mid-log'
383 +-0.434970 O b'lemma[:1]:0'
384 +-0.440663 O b'-1:lemma:37'
385 +-0.440663 O b'-1:word:37'
386 +-0.441568 Temp b'-2:postag:NN'
387 +-0.443930 O b'lemma[:1]:\xce\xb4'
388 +-0.458877 O b'-1:lemma:mm'
389 +-0.458877 O b'-1:word:mM'
390 +-0.463660 Supp b'+1:postag:NNS'
391 +-0.463834 O b'lemma:media'
392 +-0.463834 O b'word:media'
393 +-0.464229 O b'-2:lemma:a'
394 +-0.482105 O b'-1:lemma:\xe2\x88\x86'
395 +-0.482105 O b'-1:word:\xe2\x88\x86'
396 +-0.485832 O b'+1:word:ChIP-exo'
397 +-0.487845 Supp b'hGreek'
398 +-0.488218 O b'-2:lemma:nh4cl'
399 +-0.497873 Supp b'+2:postag:NNP'
400 +-0.503699 O b'-2:lemma:genome'
401 +-0.505194 O b'+2:lemma:b'
402 +-0.506273 O b'-1:lemma:IP'
403 +-0.506273 O b'-1:word:IP'
404 +-0.506359 O b'-1:lemma:nsrr'
405 +-0.506359 O b'-1:word:NsrR'
406 +-0.506668 O b'lemma[:1]:L'
407 +-0.507329 O b'+1:postag:VBG'
408 +-0.511337 O b'+1:lemma:2.0'
409 +-0.511337 O b'+1:word:2.0'
410 +-0.514855 Gtype b'lemma[:1]:h'
411 +-0.521122 Med b'-1:postag:NN'
412 +-0.525468 O b'+1:lemma:until'
413 +-0.525468 O b'+1:word:until'
414 +-0.529295 Med b'postag[:1]:C'
415 +-0.531677 O b'+1:lemma:+'
416 +-0.531677 O b'+1:word:+'
417 +-0.535215 O b'lemma[:2]:ar'
418 +-0.537907 O b'lemma[:2]:gl'
419 +-0.550679 Air b'isLower'
420 +-0.551345 O b'-1:lemma:ml'
421 +-0.551345 O b'-1:word:ml'
422 +-0.555528 Supp b'+1:lemma:,'
423 +-0.555528 Supp b'+1:postag:,'
424 +-0.555528 Supp b'+1:word:,'
425 +-0.562680 Gtype b'lemma[:1]:s'
426 +-0.564487 O b'lemma[:1]:p'
427 +-0.574109 Agit b'symb'
428 +-0.582388 O b'-2:postag:DT'
429 +-0.587178 O b'-2:lemma:rpob'
430 +-0.589072 O b'+2:lemma:.'
431 +-0.589072 O b'+2:postag:.'
432 +-0.595658 O b'+1:lemma:g/l'
433 +-0.595658 O b'+1:word:g/L'
434 +-0.596954 O b'-2:postag:SYM'
435 +-0.599195 O b'-1:lemma:rpob'
436 +-0.599195 O b'-1:word:RpoB'
437 +-0.604186 O b'+2:lemma:250'
438 +-0.608815 Supp b'+1:lemma:-lrb-'
439 +-0.608815 Supp b'+1:word:-LRB-'
440 +-0.609845 Anti b'isUpper'
441 +-0.610591 Technique b'isNumber'
442 +-0.617650 O b'-1:lemma:co2'
443 +-0.617650 O b'-1:word:CO2'
444 +-0.622948 Supp b'+1:postag:-LRB-'
445 +-0.641001 Agit b'hUpper'
446 +-0.641001 Agit b'hLower'
447 +-0.645491 O b'+1:postag:IN'
448 +-0.647159 Gtype b'postag[:1]:V'
449 +-0.647159 Gtype b'postag[:2]:VB'
450 +-0.659968 O b'lemma[:2]:ri'
451 +-0.661117 Anti b'+2:postag:JJ'
452 +-0.661585 O b'-1:lemma:1'
453 +-0.661585 O b'-1:word:1'
454 +-0.666026 O b'lemma:mid-log'
455 +-0.666026 O b'word:mid-log'
456 +-0.667310 O b'-2:lemma:pahse'
457 +-0.680963 Anti b'+2:lemma:polyclonal'
458 +-0.685918 Supp b'-1:postag:NNP'
459 +-0.698925 Supp b'-2:postag:JJ'
460 +-0.704054 O b'lemma[:1]:d'
461 +-0.707980 Gtype b'-2:lemma:\xe2\x88\x86'
462 +-0.710771 O b'+2:postag:-RRB-'
463 +-0.713877 O b'+1:lemma:at'
464 +-0.713877 O b'+1:word:at'
465 +-0.722406 O b'-2:lemma::'
466 +-0.722643 O b'lemma:rifampicin'
467 +-0.722643 O b'word:rifampicin'
468 +-0.728674 Med b'-2:postag:VBN'
469 +-0.732685 Supp b'-2:lemma:treat'
470 +-0.742976 Anti b'+1:lemma:anti-fur'
471 +-0.742976 Anti b'+1:word:anti-Fur'
472 +-0.744610 O b'lemma[:1]:k'
473 +-0.745118 O b'-2:lemma:aerobically'
474 +-0.745353 O b'lemma:anaerobic'
475 +-0.747402 O b'+1:lemma:in'
476 +-0.747402 O b'+1:word:in'
477 +-0.757568 O b'+2:lemma:tag'
478 +-0.766874 O b'lemma[:1]:I'
479 +-0.768100 O b'-1:postag::'
480 +-0.770179 O b'-1:lemma:2'
481 +-0.770179 O b'-1:word:2'
482 +-0.779152 Gtype b'isNumber'
483 +-0.782788 Technique b'isLower'
484 +-0.789896 Phase b'hUpper'
485 +-0.789896 Phase b'hLower'
486 +-0.799453 O b'lemma[:1]:n'
487 +-0.803431 pH b'isLower'
488 +-0.809089 O b'-2:postag::'
489 +-0.822848 O b'-2:lemma:dpd'
490 +-0.835295 Supp b'lemma[:2]:an'
491 +-0.862215 O b'-2:lemma:phase'
492 +-0.867939 Gtype b'lemma[:1]:c'
493 +-0.884275 Supp b'+2:lemma:glucose'
494 +-0.904915 Gtype b'lemma[:1]:a'
495 +-0.913465 O b'-1:lemma:vol'
496 +-0.913465 O b'-1:word:vol'
497 +-0.913465 O b'-2:lemma:1/100'
498 +-0.913465 O b'+2:lemma:1m'
499 +-0.930521 Supp b'+2:postag:CD'
500 +-0.948465 O b'-2:lemma:rifampicin'
501 +-0.960959 O b'-2:lemma:until'
502 +-0.973929 O b'+2:lemma:+'
503 +-0.989863 OD b'+1:postag:NN'
504 +-0.993812 Med b'symb'
505 +-1.066464 Gtype b'+2:lemma:cra'
506 +-1.076108 Gtype b'isUpper'
507 +-1.103829 O b'lemma[:2]:ae'
508 +-1.145933 Supp b'-2:lemma:grow'
509 +-1.165009 O b'+2:lemma:then'
510 +-1.184152 Phase b'postag[:1]:J'
511 +-1.184152 Phase b'postag[:2]:JJ'
512 +-1.216149 Gtype b'lemma[:1]:r'
513 +-1.241717 O b'+2:lemma:rifampicin'
514 +-1.245965 Gversion b'isLower'
515 +-1.248268 O b'lemma[:2]:30'
516 +-1.250676 O b'+1:lemma:1'
517 +-1.250676 O b'+1:word:1'
518 +-1.261488 Phase b'postag:JJ'
519 +-1.293329 Anti b'postag:NNP'
520 +-1.311043 Supp b'lemma[:1]:c'
521 +-1.361957 O b'-1:lemma:sample'
522 +-1.486502 Phase b'-1:postag:JJ'
523 +-1.506572 Supp b'+2:lemma:1'
524 +-1.518267 Supp b'+2:lemma:2'
525 +-1.561744 O b'-2:lemma:0.3'
526 +-1.581023 O b'-2:lemma:media'
527 +-1.615538 Med b'-2:lemma:grow'
528 +-1.662192 O b'+1:lemma:2'
529 +-1.662192 O b'+1:word:2'
530 +-1.765435 Med b'+2:postag:VBN'
531 +-1.789575 Supp b'+2:lemma:fructose'
532 +-1.949737 O b'postag:VBP'
533 +-2.303519 O b'-1:postag:VBG'
534 +-2.349341 O b'lemma[:2]:fl'
535 +-2.351661 OD b'+2:lemma:aerobically'
536 +-2.480527 O b'-1:lemma::'
537 +-2.480527 O b'-1:word::'
538 +-2.674521 O b'-1:lemma:_'
539 +-2.674521 O b'-1:word:_'
540 +
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.37575104918065877, 'c2': 0.014068909404949474}
5 -best CV score:0.8255861440832887
6 -model size: 0.09M
7 -
8 -Flat F1: 0.8259332647953259
9 - precision recall f1-score support
10 -
11 - OD 0.652 0.405 0.500 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 1.000 1.000 1.000 22
14 - Med 1.000 0.912 0.954 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.807 0.742 0.773 62
20 - Anti 0.900 1.000 0.947 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.883 0.858 0.871 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.887 0.691 0.777 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.880 0.785 0.826 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 7.084434
32 -Agit -> Agit 6.186786
33 -Temp -> Temp 5.929541
34 -Air -> Air 5.333804
35 -Med -> Med 5.303931
36 -Supp -> Supp 4.741743
37 -Gversion -> Gversion 4.640552
38 -Anti -> Anti 4.494565
39 -Phase -> Phase 4.151550
40 -Gtype -> Gtype 4.131202
41 -Technique -> Technique 3.603317
42 -O -> O 3.497598
43 -pH -> pH 1.761638
44 -O -> Supp 1.456972
45 -Gtype -> Supp 1.262299
46 -Air -> O 1.158446
47 -O -> Technique 0.833897
48 -OD -> Phase 0.824018
49 -O -> Gtype 0.581942
50 -Temp -> O 0.517869
51 -Med -> O 0.476850
52 -Substrain -> Gtype 0.368872
53 -Supp -> O 0.290899
54 -Technique -> Air 0.268494
55 -O -> Anti 0.125794
56 -O -> Gversion 0.041462
57 -O -> OD 0.003049
58 -Gtype -> Air 0.000025
59 -O -> Air -0.236692
60 -Gtype -> O -0.409359
61 -OD -> O -0.632212
62 -Med -> Supp -0.705455
63 -Technique -> O -0.720532
64 -Substrain -> O -0.793543
65 -Agit -> O -0.912986
66 -
67 -
68 -Top unlikely transitions:
69 -OD -> OD 7.084434
70 -Agit -> Agit 6.186786
71 -Temp -> Temp 5.929541
72 -Air -> Air 5.333804
73 -Med -> Med 5.303931
74 -Supp -> Supp 4.741743
75 -Gversion -> Gversion 4.640552
76 -Anti -> Anti 4.494565
77 -Phase -> Phase 4.151550
78 -Gtype -> Gtype 4.131202
79 -Technique -> Technique 3.603317
80 -O -> O 3.497598
81 -pH -> pH 1.761638
82 -O -> Supp 1.456972
83 -Gtype -> Supp 1.262299
84 -Air -> O 1.158446
85 -O -> Technique 0.833897
86 -OD -> Phase 0.824018
87 -O -> Gtype 0.581942
88 -Temp -> O 0.517869
89 -Med -> O 0.476850
90 -Substrain -> Gtype 0.368872
91 -Supp -> O 0.290899
92 -Technique -> Air 0.268494
93 -O -> Anti 0.125794
94 -O -> Gversion 0.041462
95 -O -> OD 0.003049
96 -Gtype -> Air 0.000025
97 -O -> Air -0.236692
98 -Gtype -> O -0.409359
99 -OD -> O -0.632212
100 -Med -> Supp -0.705455
101 -Technique -> O -0.720532
102 -Substrain -> O -0.793543
103 -Agit -> O -0.912986
104 -
105 -
106 -Top positive:
107 -5.026788 Anti b'-2:lemma:antibody'
108 -4.581170 O b'word[:2]:re'
109 -4.532914 O b'-2:lemma:_'
110 -4.141075 Technique b'word[:2]:Ch'
111 -4.000190 Air b'lemma:anaerobic'
112 -3.925942 O b'word[:2]:Rp'
113 -3.588650 O b'lemma:1'
114 -3.588650 O b'word:1'
115 -3.545521 O b'postag::'
116 -3.537943 O b'postag:IN'
117 -3.493406 O b'+2:lemma:\xc2\xb0c'
118 -3.393325 Gtype b'-2:lemma:genotype/variation'
119 -3.329554 O b'word:A'
120 -3.068046 Gtype b'word[:1]:\xce\x94'
121 -3.034385 O b'word[:1]:G'
122 -3.015992 O b'word[:1]:S'
123 -2.836526 Supp b'word[:2]:Fe'
124 -2.820630 Air b'word[:2]:Ae'
125 -2.820630 Air b'word:Aerobic'
126 -2.738575 Gtype b'word[:2]:Fl'
127 -2.722116 Air b'word[:1]:A'
128 -2.638126 Temp b'word[:1]:3'
129 -2.523318 O b'lemma:3'
130 -2.523318 O b'word:3'
131 -2.522986 O b'postag:CC'
132 -2.473237 O b'lemma:2'
133 -2.473237 O b'word:2'
134 -2.468222 O b'postag:VBN'
135 -2.391799 Gtype b'-2:lemma:delta'
136 -2.346345 O b'word[:1]:B'
137 -2.285720 Gtype b'lemma:type'
138 -2.285720 Gtype b'word[:2]:ty'
139 -2.285720 Gtype b'word:type'
140 -2.284112 Gtype b'+2:lemma:glucose'
141 -2.211360 Technique b'word[:2]:RN'
142 -2.182686 O b'+1:postag:RB'
143 -2.177098 O b'postag:DT'
144 -2.169923 Phase b'lemma:stationary'
145 -2.169923 Phase b'word:stationary'
146 -2.155319 Anti b'+2:lemma:antibody'
147 -2.151791 O b'lemma:.'
148 -2.151791 O b'postag:.'
149 -2.151791 O b'word:.'
150 -2.145140 Gtype b'-1:lemma:\xe2\x88\x86'
151 -2.145140 Gtype b'-1:word:\xe2\x88\x86'
152 -2.134554 Supp b'-2:lemma:supplement'
153 -2.134313 O b'-1:word:Aerobic'
154 -2.089564 OD b'word[:2]:OD'
155 -2.068607 Supp b'lemma:arginine'
156 -2.061542 O b'isLower'
157 -2.024477 Supp b'lemma:nitrate'
158 -2.024477 Supp b'word[:2]:ni'
159 -2.024477 Supp b'word:nitrate'
160 -1.995233 O b'word[:2]:ge'
161 -1.977149 O b'-1:lemma:tag'
162 -1.954967 O b'+2:lemma:cra'
163 -1.948541 O b'+2:lemma:fructose'
164 -1.925028 Med b'word[:1]:L'
165 -1.908907 Med b'word[:1]:M'
166 -1.872648 Supp b'word[:1]:I'
167 -1.862418 Med b'+2:lemma:with'
168 -1.818612 Phase b'lemma:mid-log'
169 -1.818612 Phase b'word:mid-log'
170 -1.808244 Temp b'-1:word:sample'
171 -1.800900 Supp b'+1:word:hours'
172 -1.794367 O b'lemma:_'
173 -1.794367 O b'word[:1]:_'
174 -1.794367 O b'word:_'
175 -1.771399 O b'-2:lemma:~'
176 -1.768285 Temp b'-1:lemma:sample'
177 -1.765360 OD b'word[:1]:O'
178 -1.739074 O b'word[:2]:ch'
179 -1.734592 Gtype b'word[:1]:d'
180 -1.733152 Supp b'-1:word:Cra'
181 -1.720079 O b'+1:word:ChIP-Seq'
182 -1.719613 O b'+1:postag:VBP'
183 -1.680129 Technique b'word[:1]:R'
184 -1.672356 O b'+2:lemma:chipseq'
185 -1.646401 Supp b'-1:postag:CC'
186 -1.634591 Air b'+2:lemma:37'
187 -1.616241 Gtype b'-2:postag:DT'
188 -1.602328 Supp b'+1:lemma:\xc2\xb5m'
189 -1.602328 Supp b'+1:word:\xc2\xb5M'
190 -1.563258 Gtype b'word[:1]:W'
191 -1.536685 Air b'word[:1]:a'
192 -1.524926 Supp b'-2:lemma:purr'
193 -1.515693 Air b'word[:2]:An'
194 -1.515693 Air b'word:Anaerobic'
195 -1.512353 Supp b'+2:lemma:rifampicin'
196 -1.503664 Med b'word[:1]:g'
197 -1.496011 Supp b'word[:1]:N'
198 -1.494242 O b'-1:lemma:anaerobic'
199 -1.482358 O b'-1:lemma:lb'
200 -1.476473 Gtype b'lemma:nsrr'
201 -1.476473 Gtype b'word[:2]:Ns'
202 -1.476473 Gtype b'word:NsrR'
203 -1.475408 pH b'+1:postag:CD'
204 -1.464474 Supp b'word[:2]:gl'
205 -1.459471 Air b'word[:2]:an'
206 -1.449561 O b'-1:word:tag'
207 -1.441346 O b'-2:lemma:medium'
208 -1.436637 Gtype b'-2:postag:NNS'
209 -1.405198 Phase b'-2:lemma:phase'
210 -1.403755 Supp b'word[:1]:\xc2\xb5'
211 -1.381552 Technique b'word[:1]:C'
212 -1.367426 O b'word[:1]:C'
213 -1.358817 Anti b'word[:2]:an'
214 -1.352736 Supp b'+1:lemma:2'
215 -1.352736 Supp b'+1:word:2'
216 -1.338532 Technique b'symb'
217 -1.327081 pH b'lemma:ph5'
218 -1.327081 pH b'+1:lemma:.5'
219 -1.327081 pH b'word:pH5'
220 -1.327081 pH b'+1:word:.5'
221 -1.320139 O b'lemma:-'
222 -1.320139 O b'word:-'
223 -1.312227 OD b'word[:2]:0.'
224 -1.306758 Air b'-2:postag:CD'
225 -1.306653 Technique b'lemma:ChIP-exo'
226 -1.294854 Supp b'+1:lemma:1'
227 -1.294854 Supp b'+1:word:1'
228 -1.291466 Gtype b'hGreek'
229 -1.288351 Gtype b'lemma:wt'
230 -1.281820 Med b'isUpper'
231 -1.280384 O b'word[:2]:Cu'
232 -1.273897 Strain b'lemma:k-12'
233 -1.273897 Strain b'word[:2]:K-'
234 -1.273897 Strain b'word:K-12'
235 -1.263759 Supp b'lemma:pq'
236 -1.263759 Supp b'word[:2]:PQ'
237 -1.263759 Supp b'word:PQ'
238 -1.262897 Gversion b'postag:CD'
239 -1.260684 Substrain b'lemma:mg1655'
240 -1.260684 Substrain b'word[:2]:MG'
241 -1.260684 Substrain b'word:MG1655'
242 -1.257247 Med b'+2:lemma:b2'
243 -1.250577 Gtype b'word[:2]:cr'
244 -1.245268 Supp b'lemma:Iron'
245 -1.245268 Supp b'word[:2]:Ir'
246 -1.245268 Supp b'word:Iron'
247 -1.245268 Supp b'+1:word:Deficient'
248 -1.245268 Supp b'-2:lemma:Anaerobic'
249 -1.242618 Gtype b'postag:JJ'
250 -1.229834 Gversion b'lemma:chip-seq'
251 -1.223343 O b'+2:postag:JJ'
252 -1.202557 O b'lemma:a'
253 -1.198655 Gtype b'+1:lemma:type'
254 -1.198655 Gtype b'+1:word:type'
255 -1.198344 Strain b'word[:1]:K'
256 -1.192715 Gtype b'lemma:\xe2\x88\x86'
257 -1.192715 Gtype b'word[:1]:\xe2\x88\x86'
258 -1.192715 Gtype b'word:\xe2\x88\x86'
259 -1.191305 O b'+2:lemma:of'
260 -1.187697 Med b'lemma:MOPS'
261 -1.187697 Med b'word[:2]:MO'
262 -1.187697 Med b'word:MOPS'
263 -1.171501 Substrain b'word[:1]:M'
264 -1.171059 Air b'postag:RB'
265 -1.169190 Med b'word[:2]:LB'
266 -1.169190 Med b'word:LB'
267 -1.154631 Gversion b'word:ChIP-Seq'
268 -1.142086 O b'isNumber'
269 -1.141002 Gversion b'-2:lemma:build'
270 -1.140702 Gtype b'-2:lemma:genotype'
271 -1.126546 Technique b'+2:lemma:ph5'
272 -1.113495 O b'+1:postag:NNP'
273 -1.108444 O b'-2:lemma:fructose'
274 -1.100127 O b'-2:lemma:co2'
275 -1.093797 O b'-2:lemma:\xe2\x88\x86'
276 -1.087633 Supp b'+1:lemma:_'
277 -1.087633 Supp b'+1:word:_'
278 -1.087387 O b'word[:1]:H'
279 -1.079339 Anti b'+1:lemma:antibody'
280 -1.079339 Anti b'+1:word:antibody'
281 -1.053803 Supp b'lemma:acetate'
282 -1.053803 Supp b'word:acetate'
283 -1.052666 Supp b'-1:postag:CD'
284 -1.041028 Anti b'-2:lemma:polymerase'
285 -1.026459 O b'+1:postag:VBN'
286 -1.021797 O b'-2:lemma:mid-log'
287 -1.014372 Gtype b'-1:lemma:rpob'
288 -1.014372 Gtype b'-1:word:RpoB'
289 -0.999828 O b'+1:postag:VBZ'
290 -0.999620 Gversion b'+1:postag:CD'
291 -0.998043 O b'word[:2]:Cr'
292 -0.998043 O b'word:Cra'
293 -0.994250 Supp b'word[:2]:0.'
294 -0.985843 O b'lemma:purr'
295 -0.985843 O b'word:PurR'
296 -0.983781 Supp b'word[:1]:1'
297 -0.980764 Gtype b'-2:postag::'
298 -0.978629 O b'lemma:b'
299 -0.978629 O b'word:B'
300 -0.978589 O b'-1:lemma:media'
301 -0.978589 O b'-1:word:media'
302 -0.978508 O b'lemma:at'
303 -0.969017 O b'word[:1]:c'
304 -0.967404 O b'word[:1]:R'
305 -0.958802 O b'word[:1]:E'
306 -0.953468 O b'+1:postag::'
307 -
308 -
309 -Top negative:
310 --0.052044 O b'+1:lemma:-rrb-'
311 --0.052044 O b'+1:word:-RRB-'
312 --0.056554 O b'word[:2]:ce'
313 --0.060548 Phase b'-2:postag:NN'
314 --0.062690 Supp b'+2:lemma:glucose'
315 --0.064571 Agit b'symb'
316 --0.065267 O b'+1:lemma:_'
317 --0.065267 O b'+1:word:_'
318 --0.068598 O b'-1:lemma:rpob'
319 --0.068598 O b'-1:word:RpoB'
320 --0.068684 Gtype b'lemma:_'
321 --0.068684 Gtype b'word[:1]:_'
322 --0.068684 Gtype b'word:_'
323 --0.074203 Air b'+2:lemma:and'
324 --0.074727 O b'-1:lemma:iptg'
325 --0.074727 O b'-1:word:IPTG'
326 --0.074850 OD b'+1:postag:CD'
327 --0.077216 O b'+2:lemma:+'
328 --0.078067 Temp b'+2:lemma:to'
329 --0.078067 Temp b'+2:postag:TO'
330 --0.079117 O b'+2:lemma:mg1655'
331 --0.079758 O b'word[:2]:30'
332 --0.080740 Anti b'+2:postag:JJ'
333 --0.083302 Air b'-1:postag:RB'
334 --0.083969 O b'-2:lemma:anaerobically'
335 --0.084742 Supp b'isNumber'
336 --0.086180 O b'+2:lemma:anaerobically'
337 --0.092175 O b'-2:postag:-LRB-'
338 --0.095060 O b'word[:1]:F'
339 --0.097644 Air b'postag:CC'
340 --0.099744 O b'lemma:k-12'
341 --0.099744 O b'word[:2]:K-'
342 --0.099744 O b'word:K-12'
343 --0.106457 O b'lemma:media'
344 --0.106457 O b'word:media'
345 --0.108219 O b'+1:lemma:until'
346 --0.108219 O b'+1:word:until'
347 --0.108963 Supp b'lemma:2'
348 --0.108963 Supp b'word:2'
349 --0.110990 OD b'+1:postag:IN'
350 --0.111975 Gtype b'-1:postag:NN'
351 --0.112503 O b'+1:word:cells'
352 --0.113137 Gtype b'-1:lemma:,'
353 --0.113137 Gtype b'-1:postag:,'
354 --0.113137 Gtype b'-1:word:,'
355 --0.116950 O b'-1:lemma:37'
356 --0.116950 O b'-1:word:37'
357 --0.117677 O b'-1:word:the'
358 --0.120669 O b'+1:lemma:supplement'
359 --0.120669 O b'+1:word:supplemented'
360 --0.121823 O b'+1:postag:-RRB-'
361 --0.121829 O b'word[:1]:p'
362 --0.129179 O b'+2:lemma:-rrb-'
363 --0.130177 O b'-1:lemma:mid-log'
364 --0.130177 O b'-1:word:mid-log'
365 --0.133448 O b'-1:lemma:the'
366 --0.133564 O b'word[:2]:Fe'
367 --0.134575 O b'+1:lemma:cell'
368 --0.135676 O b'-1:lemma:nsrr'
369 --0.135676 O b'-1:word:NsrR'
370 --0.136278 Med b'-2:lemma:grow'
371 --0.137702 OD b'-2:postag:JJ'
372 --0.138850 O b'+2:lemma:a'
373 --0.139158 O b'postag:NN'
374 --0.141309 Air b'-2:postag:RB'
375 --0.142269 Temp b'-2:postag:NN'
376 --0.150696 Air b'-2:postag:CC'
377 --0.152422 OD b'postag:CD'
378 --0.155346 Gtype b'isNumber'
379 --0.157347 O b'lemma:phase'
380 --0.157347 O b'word:phase'
381 --0.158371 Supp b'hGreek'
382 --0.162404 O b'+2:lemma:medium'
383 --0.163618 O b'-2:postag:-RRB-'
384 --0.166539 O b'+2:postag:RB'
385 --0.168007 Supp b'+2:postag:NNS'
386 --0.169738 O b'lemma:of'
387 --0.169738 O b'word[:2]:of'
388 --0.169738 O b'word:of'
389 --0.172303 O b'+2:lemma:.'
390 --0.172303 O b'+2:postag:.'
391 --0.172600 O b'-1:lemma:sample'
392 --0.178258 O b'+1:word:hours'
393 --0.185213 Anti b'+2:lemma:polyclonal'
394 --0.186446 O b'word[:2]:OD'
395 --0.187064 O b'+1:lemma:g/l'
396 --0.187064 O b'+1:word:g/L'
397 --0.189574 O b'lemma:2h'
398 --0.189574 O b'-1:lemma:additional'
399 --0.189574 O b'word[:2]:2h'
400 --0.189574 O b'word:2h'
401 --0.189574 O b'-1:word:additional'
402 --0.189977 O b'-1:postag:-LRB-'
403 --0.192454 O b'+1:lemma:.'
404 --0.192454 O b'+1:postag:.'
405 --0.192454 O b'+1:word:.'
406 --0.198550 Gtype b'+2:lemma:,'
407 --0.198550 Gtype b'+2:postag:,'
408 --0.199077 Supp b'+2:lemma:-rrb-'
409 --0.209538 Supp b'+2:postag:-RRB-'
410 --0.216556 O b'lemma:methanol'
411 --0.216556 O b'word:methanol'
412 --0.216556 O b'-2:lemma:dissolve'
413 --0.222399 O b'+2:lemma:b'
414 --0.230362 Supp b'-2:postag:JJ'
415 --0.230473 O b'-1:lemma:dissolve'
416 --0.230473 O b'+1:lemma:methanol'
417 --0.230473 O b'-1:word:dissolved'
418 --0.230473 O b'+1:word:methanol'
419 --0.246071 Temp b'postag:NN'
420 --0.253325 O b'-1:lemma:grow'
421 --0.262317 Temp b'isLower'
422 --0.263799 O b'word[:2]:gl'
423 --0.265145 OD b'isLower'
424 --0.271959 O b'-2:lemma:50'
425 --0.277605 O b'-2:postag:RB'
426 --0.294527 O b'+2:lemma:rifampicin'
427 --0.296283 Supp b'isUpper'
428 --0.303601 O b'+1:postag:VBG'
429 --0.305609 Gtype b'postag:NNP'
430 --0.306835 O b'-2:postag:DT'
431 --0.307435 O b'word[:2]:ri'
432 --0.308156 O b'-1:lemma:co2'
433 --0.308156 O b'-1:word:CO2'
434 --0.308934 Med b'+1:postag:NN'
435 --0.312777 O b'-1:postag:IN'
436 --0.331437 O b'-2:lemma:a'
437 --0.342737 O b'word[:1]:K'
438 --0.345243 Anti b'+1:lemma:anti-fur'
439 --0.345243 Anti b'+1:word:anti-Fur'
440 --0.357708 Agit b'hUpper'
441 --0.357708 Agit b'hLower'
442 --0.360267 Supp b'word[:2]:an'
443 --0.374118 O b'+1:postag:NNS'
444 --0.375266 O b'-2:postag:VBG'
445 --0.382105 Phase b'postag:JJ'
446 --0.396801 Med b'symb'
447 --0.399800 O b'word[:1]:g'
448 --0.401641 Med b'-2:postag:NNP'
449 --0.404890 OD b'+1:postag:NN'
450 --0.415691 Phase b'hUpper'
451 --0.415691 Phase b'hLower'
452 --0.419849 O b'lemma:rifampicin'
453 --0.419849 O b'word:rifampicin'
454 --0.451527 O b'word[:1]:N'
455 --0.494122 Supp b'+2:lemma:2'
456 --0.511421 OD b'+2:postag:NN'
457 --0.530842 O b'-2:lemma:supplement'
458 --0.535189 O b'lemma:wt'
459 --0.537729 O b'word:cells'
460 --0.557817 OD b'+2:postag:CD'
461 --0.562708 Med b'-1:postag:NN'
462 --0.567600 O b'-2:lemma::'
463 --0.588931 O b'+2:postag:-RRB-'
464 --0.588979 Air b'isLower'
465 --0.648905 O b'postag:RB'
466 --0.650990 O b'+2:lemma:mid-log'
467 --0.653045 O b'-2:lemma:rpob'
468 --0.658979 Air b'-1:postag:JJ'
469 --0.664709 Supp b'+2:postag:NN'
470 --0.715070 O b'-1:postag:VBG'
471 --0.728681 Med b'-2:postag:VBN'
472 --0.764375 O b'+1:lemma:in'
473 --0.764375 O b'+1:word:in'
474 --0.781477 O b'word[:1]:0'
475 --0.789024 OD b'isNumber'
476 --0.793942 O b'lemma:mid-log'
477 --0.793942 O b'word:mid-log'
478 --0.808561 O b'word[:1]:\xce\x94'
479 --0.808585 Med b'+1:postag:IN'
480 --0.828064 O b'+1:lemma:at'
481 --0.828064 O b'+1:word:at'
482 --0.852882 O b'+1:postag:IN'
483 --0.863301 O b'word[:1]:P'
484 --0.887183 Gversion b'isLower'
485 --0.892329 O b'-2:lemma:rifampicin'
486 --0.892363 O b'word[:2]:me'
487 --0.923638 O b'+1:lemma:2'
488 --0.923638 O b'+1:word:2'
489 --0.926320 O b'-1:lemma:2'
490 --0.926320 O b'-1:word:2'
491 --0.953731 Gtype b'isUpper'
492 --0.983394 Gtype b'word[:1]:C'
493 --0.991482 O b'word[:1]:d'
494 --1.050165 O b'-2:lemma:phase'
495 --1.081955 Supp b'symb'
496 --1.100341 Anti b'postag:NNP'
497 --1.101751 O b'+1:lemma:1'
498 --1.101751 O b'+1:word:1'
499 --1.313954 O b'-1:postag::'
500 --1.342158 Technique b'postag:NN'
501 --1.383899 O b'word[:2]:Ch'
502 --1.392025 Supp b'postag:JJ'
503 --1.498805 Air b'postag:NN'
504 --1.634162 O b'-1:lemma::'
505 --1.634162 O b'-1:word::'
506 --2.037586 O b'-1:lemma:_'
507 --2.037586 O b'-1:word:_'
508 --2.050665 Supp b'+2:postag:CD'
509 --3.447085 OD b'word[:1]:-'
510 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.005890787510878062, 'c2': 0.06901405430753309}
5 -best CV score:0.800439058983579
6 -model size: 0.13M
7 -
8 -Flat F1: 0.7875530357193007
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.889 0.842 0.865 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.444 0.615 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.862 0.764 0.810 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.865 0.662 0.750 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.875 0.733 0.788 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 5.295300
32 -Med -> Med 4.817027
33 -Air -> Air 4.541687
34 -Temp -> Temp 4.477980
35 -Anti -> Anti 4.403961
36 -Agit -> Agit 4.189406
37 -O -> O 4.155711
38 -Gversion -> Gversion 3.926573
39 -Phase -> Phase 3.764540
40 -Gtype -> Gtype 3.728193
41 -Supp -> Supp 3.500024
42 -Technique -> Technique 2.523454
43 -pH -> pH 2.120930
44 -O -> Supp 1.644804
45 -Substrain -> Gtype 1.553365
46 -Gtype -> Supp 1.549696
47 -Air -> O 1.305073
48 -O -> Gtype 1.048094
49 -Technique -> Air 1.030180
50 -O -> Technique 0.933161
51 -O -> Temp 0.764897
52 -Gtype -> pH 0.723788
53 -Med -> O 0.647341
54 -Gtype -> Air 0.646357
55 -O -> Anti 0.639501
56 -OD -> Phase 0.283925
57 -O -> Strain 0.281301
58 -Phase -> O 0.224883
59 -O -> Gversion 0.199014
60 -O -> Vess 0.165133
61 -O -> pH 0.164399
62 -Supp -> O 0.147494
63 -Temp -> O 0.060602
64 -O -> Med 0.024988
65 -pH -> Vess -0.000034
66 -Gversion -> Strain -0.000143
67 -Agit -> Anti -0.005756
68 -Strain -> Gversion -0.006189
69 -Vess -> O -0.008273
70 -Vess -> Technique -0.009171
71 -Substrain -> Phase -0.009186
72 -Temp -> Substrain -0.014198
73 -Med -> Strain -0.014524
74 -Vess -> Med -0.015908
75 -Med -> Agit -0.017755
76 -Agit -> Gversion -0.019478
77 -Med -> Vess -0.019502
78 -Gversion -> Agit -0.021787
79 -Substrain -> Med -0.022015
80 -pH -> Agit -0.023370
81 -
82 -
83 -Top unlikely transitions:
84 -Gversion -> Gtype -0.449091
85 -Anti -> Supp -0.469341
86 -Technique -> O -0.471772
87 -Air -> Gtype -0.471801
88 -OD -> Anti -0.472176
89 -Med -> Air -0.493933
90 -Gversion -> Supp -0.505303
91 -Air -> Temp -0.514758
92 -Anti -> Gtype -0.526422
93 -Technique -> Gversion -0.527475
94 -OD -> Supp -0.540365
95 -Gversion -> Air -0.543215
96 -Gversion -> Technique -0.557808
97 -OD -> Technique -0.562317
98 -Anti -> OD -0.572231
99 -Air -> Supp -0.574414
100 -Gtype -> Phase -0.589533
101 -Supp -> pH -0.634245
102 -Air -> Med -0.635679
103 -OD -> Med -0.653630
104 -O -> Air -0.677094
105 -Supp -> Phase -0.687344
106 -Gtype -> Technique -0.694977
107 -Technique -> Supp -0.714796
108 -OD -> Temp -0.724798
109 -Supp -> Temp -0.735059
110 -Gtype -> Gversion -0.783076
111 -Temp -> Med -0.785893
112 -Phase -> Technique -0.787474
113 -OD -> Gtype -0.788802
114 -Gtype -> Med -0.799774
115 -Air -> OD -0.822597
116 -Supp -> Anti -0.844375
117 -Supp -> Air -0.856507
118 -OD -> O -0.872397
119 -Supp -> OD -0.885971
120 -Supp -> Gversion -0.902285
121 -Gtype -> Anti -0.919969
122 -Gtype -> OD -0.936809
123 -Agit -> O -0.963196
124 -Supp -> Gtype -0.973061
125 -Supp -> Technique -0.989494
126 -OD -> Air -1.170906
127 -Technique -> OD -1.195273
128 -Technique -> Gtype -1.215623
129 -Substrain -> O -1.241298
130 -Supp -> Med -1.319744
131 -Technique -> pH -1.339939
132 -Med -> Supp -1.354155
133 -Phase -> OD -1.507830
134 -
135 -
136 -Top positive:
137 -6.001404 O b'lemma:_'
138 -5.108046 O b'lemma:1'
139 -4.607885 Air b'lemma:anaerobic'
140 -4.487322 O b'lemma:2'
141 -4.403039 Strain b'lemma:k-12'
142 -4.353066 Technique b'lemma:ChIP-exo'
143 -4.261832 Technique b'lemma:chipseq'
144 -4.120645 Air b'lemma:aerobic'
145 -4.097041 Supp b'lemma:Iron'
146 -4.006566 O b'lemma:rpob'
147 -3.971422 Supp b'lemma:nh4cl'
148 -3.946783 Supp b'lemma:pq'
149 -3.920412 Supp b'lemma:glucose'
150 -3.913288 O b'postag:IN'
151 -3.777202 O b'lemma:3'
152 -3.702196 Gtype b'lemma:arca8myc'
153 -3.696052 O b'lemma:rep1'
154 -3.694299 Gtype b'lemma:wt'
155 -3.684859 Phase b'lemma:stationary'
156 -3.619890 Gtype b'lemma:flag-tag'
157 -3.619890 Gtype b'-1:lemma:c-terminal'
158 -3.561287 Gtype b'lemma:\xce\xb4cra'
159 -3.436909 Substrain b'lemma:mg1655'
160 -3.399977 Gtype b'-1:lemma:\xe2\x88\x86'
161 -3.390171 O b'lemma:rep2'
162 -3.367223 Supp b'lemma:acetate'
163 -3.313496 Supp b'+1:lemma:\xc2\xb5m'
164 -3.310220 Phase b'lemma:mid-log'
165 -3.304995 Gversion b'lemma:asm584v2'
166 -3.270028 O b'lemma:Cra'
167 -3.220110 Supp b'lemma:no3'
168 -3.184611 O b'lemma:b'
169 -3.183606 O b'postag::'
170 -3.173832 Supp b'lemma:nitrate'
171 -3.172458 Air b'-1:lemma:ChIP-Seq'
172 -3.117942 O b'lemma:a'
173 -3.086615 Gtype b'lemma:delta-arca'
174 -3.060393 Med b'lemma:LB'
175 -3.052585 O b'lemma:.'
176 -3.052585 O b'postag:.'
177 -3.040998 O b'-1:lemma:tag'
178 -3.039527 Air b'lemma:Aerobic'
179 -3.034395 O b'lemma:rep3'
180 -3.030474 Med b'lemma:lb'
181 -3.013829 Supp b'lemma:Fe'
182 -2.993252 Technique b'lemma:rna-seq'
183 -2.946753 Supp b'lemma:dpd'
184 -2.934731 Gtype b'lemma:fnr8myc'
185 -2.888684 Technique b'lemma:chip-seq'
186 -2.845234 Supp b'lemma:fructose'
187 -2.833231 OD b'lemma:od600'
188 -2.824550 O b'-1:lemma:Aerobic'
189 -2.820328 Gtype b'lemma:\xe2\x88\x86'
190 -2.817149 O b'lemma:\xcf\x8332'
191 -2.807553 O b'-1:lemma:ChIP-exo'
192 -2.800013 O b'+1:postag:RB'
193 -2.767317 Supp b'+1:lemma:1'
194 -2.763849 Technique b'lemma:rnaseq'
195 -2.736019 Anti b'lemma:none'
196 -2.735616 Med b'lemma:MOPS'
197 -2.704042 O b'postag:VBN'
198 -2.692426 Anti b'lemma:seqa'
199 -2.674687 O b'lemma:CEL'
200 -2.641978 Med b'+1:lemma:0.4'
201 -2.538323 O b'lemma:Custom'
202 -2.532184 OD b'lemma:od450'
203 -2.528303 Gtype b'lemma:type'
204 -2.515549 Gtype b'+1:lemma:type'
205 -2.508151 O b'lemma:-'
206 -2.506162 Gtype b'lemma:delta-fnr'
207 -2.494354 pH b'lemma:ph5'
208 -2.494354 pH b'+1:lemma:.5'
209 -2.483580 Gversion b'lemma:nc'
210 -2.472529 Supp b'lemma:rifampicin'
211 -2.439115 Air b'postag:RB'
212 -2.437715 Supp b'+1:lemma:Deficient'
213 -2.432663 Gtype b'lemma:nsrr'
214 -2.426483 O b'lemma:affyexp'
215 -2.426224 Vess b'lemma:flask'
216 -2.426224 Vess b'-1:lemma:warm'
217 -2.409664 Gtype b'lemma:\xce\xb4fur'
218 -2.401638 Supp b'-1:lemma:Cra'
219 -2.397836 Gversion b'lemma:chip-seq'
220 -2.376616 Gtype b'+1:lemma:with'
221 -2.376328 Supp b'+1:lemma:2'
222 -2.352749 O b'+1:lemma:od600'
223 -2.350360 Temp b'lemma:\xc2\xb0c'
224 -2.340801 Supp b'+1:lemma:_'
225 -2.340243 Supp b'lemma:arginine'
226 -2.296460 O b'lemma:chip-arca'
227 -2.263142 O b'-1:lemma:glucose'
228 -2.259312 Gtype b'lemma:wild-type'
229 -2.256120 O b'lemma:with'
230 -2.252353 Gversion b'lemma:.2'
231 -2.252353 Gversion b'-1:lemma:u00096'
232 -2.250177 Gtype b'lemma:WT'
233 -2.244062 O b'lemma:s'
234 -2.242532 Technique b'lemma:ChIP-Seq'
235 -2.236704 Gtype b'-1:lemma:_'
236 -2.235688 O b'lemma:argr'
237 -2.232314 Gversion b'lemma:u00096'
238 -2.232314 Gversion b'+1:lemma:.2'
239 -2.227051 Med b'lemma:m63'
240 -2.196925 Gversion b'lemma:000913'
241 -2.195820 O b'-1:lemma:stpa'
242 -2.190615 O b'lemma:oxyr'
243 -2.167202 O b'-1:lemma:anaerobic'
244 -2.153126 Gtype b'-1:lemma:ptac'
245 -2.138902 pH b'+1:postag:CD'
246 -2.137252 Strain b'+1:lemma:substr'
247 -2.135331 Gtype b'lemma:\xce\xb4soxs'
248 -2.132696 Technique b'-1:lemma:IP'
249 -2.130445 O b'+1:lemma:pq'
250 -2.121844 O b'lemma:or'
251 -2.120627 Med b'+1:lemma:2.0'
252 -2.119248 O b'-1:lemma:0.3-0.35'
253 -2.102124 Anti b'lemma:anti-myc'
254 -2.099119 Gtype b'+1:lemma:pq'
255 -2.097053 Gversion b'-1:lemma:nc'
256 -2.095915 O b'postag:SYM'
257 -2.087696 Gtype b'+1:lemma:flagtag'
258 -2.068537 Phase b'lemma:phase'
259 -2.039522 O b'-1:lemma:lb'
260 -2.034656 O b'lemma:ompr'
261 -2.020219 Supp b'lemma:nacl'
262 -2.011236 O b'+1:lemma:anti-fur'
263 -2.002622 O b'lemma:purr'
264 -1.989136 Gtype b'lemma:ptac'
265 -1.986425 O b'lemma:Lrp'
266 -1.986041 Air b'lemma:anaerobically'
267 -1.984872 Technique b'postag:NNP'
268 -1.982619 Supp b'lemma:Leu'
269 -1.963147 Air b'-1:lemma:_'
270 -1.960508 Air b'-1:lemma:-'
271 -1.951971 O b'lemma:chip'
272 -1.946660 Gtype b'lemma:deltaseqa'
273 -1.946660 Gtype b'-1:lemma:old'
274 -1.941357 Technique b'-1:lemma:chip-exo'
275 -1.929969 Anti b'+1:lemma:antibody'
276 -1.926992 Phase b'-1:lemma:mid-log'
277 -1.917242 Gtype b'-1:lemma:rpob'
278 -1.913616 Substrain b'+1:lemma:phtpg'
279 -1.907553 Temp b'-1:lemma:37'
280 -1.902343 O b'-1:lemma:type'
281 -1.899563 Gtype b'lemma:\xce\xb4ompr'
282 -1.896818 Gtype b'+1:lemma:aerobic'
283 -1.896130 Supp b'lemma:iptg'
284 -1.891122 Air b'lemma:Anaerobic'
285 -1.888582 Gtype b'lemma:pk4854'
286 -1.885003 Temp b'lemma:43'
287 -1.884992 Med b'+1:lemma:+'
288 -1.883373 Gtype b'+1:lemma:ph5'
289 -1.883065 Air b'-1:postag::'
290 -1.880978 O b'postag:DT'
291 -1.869735 O b'postag:CC'
292 -1.867667 Supp b'-1:lemma:with'
293 -1.859135 Supp b'-1:lemma:\xc2\xb5m'
294 -1.850190 Temp b'+1:lemma:\xc2\xb0c'
295 -1.849895 Vess b'-1:postag:VBN'
296 -1.830649 O b'+1:lemma:43'
297 -1.826705 Supp b'+1:lemma:respiratory'
298 -1.826425 Med b'postag:NNP'
299 -1.818906 O b'lemma:culture'
300 -1.815650 Med b'-1:lemma:ml'
301 -1.814335 Gtype b'-1:lemma:nsrr'
302 -1.807866 Technique b'-1:lemma:input'
303 -1.801111 pH b'lemma:.5'
304 -1.801111 pH b'-1:lemma:ph5'
305 -1.799448 Supp b'lemma:Adenine'
306 -1.798437 Air b'+1:lemma:at'
307 -1.797384 O b'lemma:genotype/variation'
308 -1.795853 Temp b'-1:lemma:43'
309 -1.792969 O b'lemma:Fur'
310 -1.792070 Technique b'-1:lemma:_'
311 -1.790333 O b'+1:lemma:chip-seq'
312 -1.785178 Gversion b'+1:lemma:000913'
313 -1.777548 Anti b'lemma:anti-rpos'
314 -1.772627 Supp b'+1:lemma:hour'
315 -1.771735 O b'lemma:chip-fnr'
316 -1.766973 Technique b'+1:lemma:chip-exo'
317 -1.765244 Supp b'lemma:methanol'
318 -1.753576 OD b'+1:lemma:stationary'
319 -1.735182 O b'lemma:for'
320 -1.733859 Vess b'+1:lemma:at'
321 -1.726551 O b'lemma:pt7'
322 -1.711211 O b'postag:VBG'
323 -1.709643 O b'-1:lemma:\xc2\xb0c'
324 -1.699026 Temp b'lemma:37'
325 -1.698654 Gtype b'+1:lemma:,'
326 -1.698654 Gtype b'+1:postag:,'
327 -1.691558 Gtype b'+1:lemma:_'
328 -1.691282 O b'lemma:soxs'
329 -1.691282 O b'lemma:soxr'
330 -1.691054 Supp b'lemma:20'
331 -1.680349 Gversion b'postag:CD'
332 -1.680242 O b'+1:lemma:mid-log'
333 -1.676394 O b'lemma:at'
334 -1.671037 Supp b'-1:lemma:+'
335 -1.657960 Phase b'+1:lemma:for'
336 -1.657799 Technique b'-1:lemma:rna-seq'
337 -
338 -
339 -Top negative:
340 --0.138337 OD b'postag:IN'
341 --0.140202 O b'lemma:n2'
342 --0.141199 Gtype b'-1:lemma:-lrb-'
343 --0.141513 Med b'postag:-LRB-'
344 --0.142816 O b'lemma:aerobically'
345 --0.148531 Technique b'+1:postag:JJ'
346 --0.153818 Gtype b'postag:VBG'
347 --0.163124 Supp b'postag:CD'
348 --0.169140 O b'-1:lemma:of'
349 --0.172938 O b'+1:lemma:2.0'
350 --0.175379 Technique b'-1:lemma::'
351 --0.175946 Supp b'-1:lemma:%'
352 --0.176380 O b'-1:postag:-LRB-'
353 --0.177032 OD b'+1:postag:CD'
354 --0.186317 O b'+1:lemma:pahse'
355 --0.188005 OD b'+1:postag:NNS'
356 --0.189604 Med b'+1:lemma:m9'
357 --0.194248 Gtype b'postag:CD'
358 --0.196879 Med b'-1:lemma:MOPS'
359 --0.200307 O b'+1:lemma:purify'
360 --0.202100 Med b'-1:postag:NN'
361 --0.209858 O b'-1:lemma:delta'
362 --0.209949 O b'lemma:10'
363 --0.214403 OD b'+1:lemma:0.4'
364 --0.215059 O b'lemma:co2'
365 --0.217010 Phase b'postag:JJ'
366 --0.220806 Med b'postag:CD'
367 --0.221059 Gtype b'-1:lemma:,'
368 --0.221059 Gtype b'-1:postag:,'
369 --0.227070 O b'lemma:mg/ml'
370 --0.227070 O b'-1:lemma:150'
371 --0.228793 O b'-1:lemma:grow'
372 --0.241460 Supp b'lemma:and'
373 --0.241888 O b'lemma:medium'
374 --0.246141 Gtype b'+1:lemma:2'
375 --0.251300 Gtype b'postag:NNS'
376 --0.251694 O b'+1:lemma:sample'
377 --0.253709 Supp b'+1:postag:IN'
378 --0.255442 Gtype b'-1:lemma:-'
379 --0.263468 O b'+1:postag:-RRB-'
380 --0.271432 Gtype b'+1:postag:NNS'
381 --0.278350 Air b'postag:CD'
382 --0.280151 O b'postag:RB'
383 --0.286504 O b'-1:lemma:purify'
384 --0.287229 Supp b'-1:postag:VBG'
385 --0.291292 O b'+1:lemma:%'
386 --0.295935 OD b'+1:lemma:in'
387 --0.296047 O b'-1:lemma:rna'
388 --0.296196 Gtype b'lemma:ompr'
389 --0.297998 O b'+1:lemma:phase'
390 --0.299404 Phase b'-1:lemma:at'
391 --0.304065 O b'lemma:30'
392 --0.305817 O b'+1:lemma:-lcb-'
393 --0.308356 O b'-1:lemma:20'
394 --0.308695 O b'+1:lemma:mg1655'
395 --0.311346 O b'+1:lemma:delta'
396 --0.313799 O b'-1:postag:VBP'
397 --0.315020 O b'lemma:e.'
398 --0.315230 O b'-1:lemma:e.'
399 --0.319138 Gtype b'+1:lemma:-lrb-'
400 --0.321739 Anti b'+1:postag:JJ'
401 --0.322662 O b'-1:lemma:30'
402 --0.329200 O b'lemma:nacl'
403 --0.329442 Gtype b'+1:lemma:cra'
404 --0.332012 O b'-1:lemma:o2'
405 --0.332558 O b'+1:lemma:from'
406 --0.333621 Gtype b'+1:lemma:a'
407 --0.335398 O b'+1:lemma:cell'
408 --0.339984 O b'lemma:pahse'
409 --0.350806 O b'-1:lemma:fresh'
410 --0.364120 O b'+1:lemma:dissolve'
411 --0.372799 O b'+1:lemma:minimal'
412 --0.374219 Supp b'+1:postag:VBN'
413 --0.377677 Gtype b'-1:postag:CD'
414 --0.390295 O b'+1:postag:IN'
415 --0.390779 Med b'-1:postag:CD'
416 --0.399008 Technique b'-1:postag::'
417 --0.401291 O b'+1:lemma:strain'
418 --0.405578 O b'-1:lemma:affinity'
419 --0.411039 O b'lemma:minimal'
420 --0.413767 O b'lemma:8'
421 --0.418867 O b'-1:lemma:rifampicin'
422 --0.420435 Med b'+1:postag:NNS'
423 --0.421888 O b'-1:lemma:iptg'
424 --0.426304 O b'-1:lemma:0.1'
425 --0.427748 O b'-1:lemma:um'
426 --0.427748 O b'+1:lemma:paraquat'
427 --0.432025 Supp b'+1:lemma:glucose'
428 --0.439327 OD b'+1:postag:CC'
429 --0.440292 Gtype b'+1:lemma:b'
430 --0.444597 Med b'+1:postag:NN'
431 --0.449089 O b'+1:lemma:shake'
432 --0.454608 O b'-1:lemma:from'
433 --0.468184 O b'lemma:of'
434 --0.472171 O b'lemma:\xc2\xb0c'
435 --0.475747 O b'lemma:phase'
436 --0.483124 O b'-1:lemma:mid-log'
437 --0.485719 O b'+1:lemma:until'
438 --0.487110 Temp b'postag:JJ'
439 --0.495708 O b'-1:lemma:chip-exo'
440 --0.495761 O b'-1:lemma:cra'
441 --0.499278 Temp b'+1:lemma:to'
442 --0.499278 Temp b'+1:postag:TO'
443 --0.502976 O b'+1:lemma:rep1'
444 --0.516570 O b'lemma:150'
445 --0.516570 O b'+1:lemma:mg/ml'
446 --0.517552 OD b'+1:lemma:and'
447 --0.526042 O b'lemma:dissolve'
448 --0.528223 O b'lemma:m63'
449 --0.532678 O b'lemma:glucose'
450 --0.539809 O b'-1:lemma:mm'
451 --0.555116 O b'+1:lemma:Aerobic'
452 --0.560647 Supp b'postag:CC'
453 --0.568048 O b'+1:lemma:b'
454 --0.574891 O b'+1:lemma:300'
455 --0.583571 O b'+1:lemma:c'
456 --0.591151 O b'-1:lemma:g/l'
457 --0.591330 Temp b'-1:lemma:\xc2\xb0c'
458 --0.600038 O b'+1:postag:NNS'
459 --0.602099 OD b'postag:JJ'
460 --0.605582 pH b'postag:NN'
461 --0.607566 OD b'+1:lemma:mid-log'
462 --0.610267 O b'lemma:lb'
463 --0.612280 O b'lemma:purify'
464 --0.617785 Gtype b'lemma:_'
465 --0.625835 O b'+1:lemma:0.4'
466 --0.638498 O b'+1:lemma:arginine'
467 --0.643623 OD b'lemma:-lrb-'
468 --0.644126 Gtype b'-1:postag:SYM'
469 --0.658568 Temp b'postag:NN'
470 --0.658731 Gtype b'+1:lemma:\xe2\x88\x86'
471 --0.661085 O b'+1:lemma:fecl2'
472 --0.669040 O b'lemma:mg1655'
473 --0.672673 O b'lemma:dpd'
474 --0.698443 Supp b'+1:lemma:rifampicin'
475 --0.713908 O b'-1:lemma:until'
476 --0.714588 O b'-1:lemma:od600'
477 --0.721807 Gtype b'-1:postag:DT'
478 --0.723775 Gtype b'lemma:delta'
479 --0.727392 OD b'postag:-LRB-'
480 --0.754913 O b'-1:lemma:1'
481 --0.773161 OD b'+1:postag:NN'
482 --0.785912 Anti b'+1:lemma:anti-fur'
483 --0.798212 O b'+1:lemma:0.3'
484 --0.806842 O b'lemma:anaerobically'
485 --0.817840 O b'lemma:od600'
486 --0.828895 Phase b'-1:postag:JJ'
487 --0.832410 O b'+1:lemma:in'
488 --0.838317 Med b'+1:postag:IN'
489 --0.843570 O b'+1:lemma:\xc2\xb0c'
490 --0.853228 O b'+1:lemma:at'
491 --0.895416 Air b'-1:postag:JJ'
492 --0.900736 O b'lemma:media'
493 --0.902081 O b'-1:lemma:\xe2\x88\x86'
494 --0.906592 O b'lemma:0.3'
495 --0.918504 O b'-1:lemma:0.2'
496 --0.931732 O b'+1:postag:VBG'
497 --0.943156 O b'lemma:0.1'
498 --0.954406 O b'-1:lemma:dissolve'
499 --0.954406 O b'+1:lemma:methanol'
500 --0.966339 Supp b'+1:lemma:acetate'
501 --0.995930 O b'lemma:fecl2'
502 --1.003164 O b'lemma:20'
503 --1.026277 O b'lemma:mid-log'
504 --1.053295 O b'-1:lemma:ompr'
505 --1.054899 O b'lemma:anaerobic'
506 --1.057596 O b'lemma:2h'
507 --1.057596 O b'-1:lemma:additional'
508 --1.080282 O b'+1:lemma:g/l'
509 --1.082820 O b'lemma:0.2'
510 --1.104495 O b'-1:lemma:~'
511 --1.121867 O b'-1:lemma:ml'
512 --1.127613 O b'lemma:k-12'
513 --1.175804 O b'lemma:\xe2\x88\x86'
514 --1.176063 O b'lemma:\xce\xb4fur'
515 --1.192468 O b'+1:lemma:supplement'
516 --1.233751 O b'-1:postag:VBG'
517 --1.236448 O b'postag:VBP'
518 --1.249871 O b'-1:lemma:sample'
519 --1.284753 O b'-1:lemma:rpob'
520 --1.294533 O b'-1:lemma:co2'
521 --1.310574 O b'lemma:37'
522 --1.338283 O b'-1:postag::'
523 --1.367124 Anti b'postag:NNP'
524 --1.397494 O b'-1:lemma:37'
525 --1.398009 Supp b'postag:JJ'
526 --1.437506 Air b'+1:postag:JJ'
527 --1.540588 O b'lemma:wt'
528 --1.569408 O b'-1:lemma:2'
529 --1.577711 O b'+1:lemma:+'
530 --1.615554 O b'+1:lemma:hour'
531 --1.616588 O b'lemma:methanol'
532 --1.673269 O b'lemma:rifampicin'
533 --1.677284 O b'-1:lemma:IP'
534 --1.688519 O b'-1:lemma:nsrr'
535 --1.716711 Air b'postag:NN'
536 --1.806551 O b'+1:lemma:2'
537 --1.992901 O b'+1:lemma:1'
538 --2.768062 O b'-1:lemma:_'
539 --2.825339 O b'-1:lemma::'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.16058815571126603, 'c2': 0.009129664457456948}
5 -best CV score:0.7991895289243558
6 -model size: 0.07M
7 -
8 -Flat F1: 0.7842038431135264
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.800 0.842 0.821 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.780 0.742 0.760 62
20 - Anti 0.571 0.444 0.500 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.872 0.774 0.820 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.823 0.684 0.747 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.850 0.744 0.784 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.719064
32 -OD -> OD 6.323533
33 -Temp -> Temp 5.626965
34 -Med -> Med 5.518631
35 -Anti -> Anti 5.387568
36 -Air -> Air 5.306006
37 -Gtype -> Gtype 4.649741
38 -O -> O 4.602569
39 -Phase -> Phase 4.554949
40 -Gversion -> Gversion 4.497882
41 -Supp -> Supp 4.147792
42 -Technique -> Technique 4.061262
43 -pH -> pH 2.238372
44 -O -> Supp 1.895496
45 -Air -> O 1.750002
46 -Gtype -> Supp 1.554366
47 -Substrain -> Gtype 1.504459
48 -O -> Gtype 1.372037
49 -O -> Technique 1.353039
50 -Technique -> Air 0.944695
51 -O -> Anti 0.631594
52 -O -> Temp 0.503749
53 -Med -> O 0.429416
54 -O -> Gversion 0.344788
55 -OD -> Phase 0.332615
56 -Temp -> O 0.259256
57 -O -> Med 0.223793
58 -Gtype -> Air 0.098960
59 -Supp -> O 0.061572
60 -O -> Phase 0.048636
61 -Gtype -> pH 0.031023
62 -Phase -> O 0.028306
63 -O -> Strain 0.026662
64 -OD -> Air -0.000013
65 -Technique -> O -0.002223
66 -Technique -> Gtype -0.072225
67 -Supp -> Air -0.245156
68 -Technique -> OD -0.270904
69 -OD -> Med -0.284259
70 -Gtype -> Med -0.389196
71 -Gtype -> O -0.401680
72 -OD -> O -0.570578
73 -Agit -> O -0.633985
74 -Gtype -> Anti -0.634022
75 -O -> Air -0.700283
76 -Gtype -> OD -0.910835
77 -Supp -> Med -0.967944
78 -Substrain -> O -1.090330
79 -Med -> Supp -1.725214
80 -Phase -> OD -1.762859
81 -
82 -
83 -Top unlikely transitions:
84 -Agit -> Agit 6.719064
85 -OD -> OD 6.323533
86 -Temp -> Temp 5.626965
87 -Med -> Med 5.518631
88 -Anti -> Anti 5.387568
89 -Air -> Air 5.306006
90 -Gtype -> Gtype 4.649741
91 -O -> O 4.602569
92 -Phase -> Phase 4.554949
93 -Gversion -> Gversion 4.497882
94 -Supp -> Supp 4.147792
95 -Technique -> Technique 4.061262
96 -pH -> pH 2.238372
97 -O -> Supp 1.895496
98 -Air -> O 1.750002
99 -Gtype -> Supp 1.554366
100 -Substrain -> Gtype 1.504459
101 -O -> Gtype 1.372037
102 -O -> Technique 1.353039
103 -Technique -> Air 0.944695
104 -O -> Anti 0.631594
105 -O -> Temp 0.503749
106 -Med -> O 0.429416
107 -O -> Gversion 0.344788
108 -OD -> Phase 0.332615
109 -Temp -> O 0.259256
110 -O -> Med 0.223793
111 -Gtype -> Air 0.098960
112 -Supp -> O 0.061572
113 -O -> Phase 0.048636
114 -Gtype -> pH 0.031023
115 -Phase -> O 0.028306
116 -O -> Strain 0.026662
117 -OD -> Air -0.000013
118 -Technique -> O -0.002223
119 -Technique -> Gtype -0.072225
120 -Supp -> Air -0.245156
121 -Technique -> OD -0.270904
122 -OD -> Med -0.284259
123 -Gtype -> Med -0.389196
124 -Gtype -> O -0.401680
125 -OD -> O -0.570578
126 -Agit -> O -0.633985
127 -Gtype -> Anti -0.634022
128 -O -> Air -0.700283
129 -Gtype -> OD -0.910835
130 -Supp -> Med -0.967944
131 -Substrain -> O -1.090330
132 -Med -> Supp -1.725214
133 -Phase -> OD -1.762859
134 -
135 -
136 -Top positive:
137 -8.837637 Phase b'lemma:stationary'
138 -8.799335 Supp b'lemma:Iron'
139 -8.611049 O b'lemma:_'
140 -7.279883 O b'lemma:1'
141 -6.932654 Supp b'lemma:nitrate'
142 -6.880712 Air b'lemma:anaerobic'
143 -6.848692 Strain b'lemma:k-12'
144 -6.839307 Air b'lemma:aerobic'
145 -6.789788 Technique b'lemma:ChIP-exo'
146 -6.727217 Phase b'lemma:mid-log'
147 -6.413420 O b'lemma:rpob'
148 -5.946980 O b'lemma:2'
149 -5.848343 Technique b'lemma:chipseq'
150 -5.826514 Substrain b'lemma:mg1655'
151 -5.584982 Supp b'lemma:pq'
152 -5.578193 O b'-1:lemma:tag'
153 -5.564380 Gtype b'lemma:\xce\xb4cra'
154 -5.533718 Air b'-1:lemma:ChIP-Seq'
155 -5.522763 Gversion b'lemma:asm584v2'
156 -5.497653 O b'lemma:3'
157 -5.471837 Med b'lemma:MOPS'
158 -5.411070 O b'lemma:\xcf\x8332'
159 -5.308684 Gtype b'lemma:type'
160 -5.245931 O b'-1:lemma:ChIP-exo'
161 -5.210520 O b'lemma:rep1'
162 -5.173302 Air b'lemma:Aerobic'
163 -4.949891 O b'lemma:rep2'
164 -4.893059 Med b'lemma:LB'
165 -4.891835 O b'lemma:b'
166 -4.883141 O b'postag:IN'
167 -4.880173 Gtype b'lemma:flag-tag'
168 -4.880173 Gtype b'-1:lemma:c-terminal'
169 -4.852218 O b'lemma:rep3'
170 -4.830297 OD b'lemma:od600'
171 -4.826485 Supp b'lemma:nh4cl'
172 -4.743281 Technique b'lemma:ChIP-Seq'
173 -4.722036 O b'lemma:Custom'
174 -4.717849 Gversion b'lemma:nc'
175 -4.701135 Gtype b'+1:lemma:type'
176 -4.682123 O b'postag::'
177 -4.648660 Gtype b'-1:lemma:\xe2\x88\x86'
178 -4.639269 Supp b'+1:lemma:\xc2\xb5m'
179 -4.607690 O b'lemma:a'
180 -4.570893 Med b'lemma:lb'
181 -4.466395 O b'lemma:Cra'
182 -4.390246 Supp b'lemma:glucose'
183 -4.349340 Gtype b'lemma:arca8myc'
184 -4.320335 Gtype b'lemma:wt'
185 -4.311807 Gtype b'lemma:delta-arca'
186 -4.197474 Technique b'lemma:rna-seq'
187 -4.168693 O b'-1:lemma:Aerobic'
188 -4.160315 Supp b'lemma:Fe'
189 -4.109646 Gtype b'lemma:fnr8myc'
190 -4.033076 OD b'lemma:od450'
191 -3.947930 Gversion b'-1:lemma:nc'
192 -3.908993 Anti b'lemma:none'
193 -3.885757 O b'-1:lemma:0.3-0.35'
194 -3.879994 Technique b'lemma:rnaseq'
195 -3.842850 Supp b'lemma:dpd'
196 -3.840223 Supp b'lemma:rifampicin'
197 -3.804681 Vess b'lemma:flask'
198 -3.804681 Vess b'-1:lemma:warm'
199 -3.791974 Supp b'lemma:no3'
200 -3.760306 O b'lemma:.'
201 -3.760306 O b'postag:.'
202 -3.728479 Technique b'lemma:chip-seq'
203 -3.712550 Gtype b'lemma:\xe2\x88\x86'
204 -3.655598 Gtype b'lemma:delta-fnr'
205 -3.646988 Supp b'lemma:acetate'
206 -3.634096 Gtype b'lemma:\xce\xb4fur'
207 -3.586071 Gtype b'lemma:nsrr'
208 -3.578964 OD b'+1:lemma:stationary'
209 -3.567614 Med b'+1:lemma:0.4'
210 -3.480912 Supp b'+1:lemma:1'
211 -3.460781 Anti b'lemma:seqa'
212 -3.449791 Supp b'lemma:arginine'
213 -3.441583 Supp b'+1:lemma:hour'
214 -3.432425 O b'lemma:-'
215 -3.371367 O b'+1:lemma:od600'
216 -3.362556 O b'-1:lemma:type'
217 -3.291275 O b'lemma:or'
218 -3.273720 O b'postag:VBN'
219 -3.265269 Temp b'-1:lemma:\xcf\x8332'
220 -3.250448 Supp b'lemma:fructose'
221 -3.225849 Gtype b'+1:lemma:ph5'
222 -3.222217 Temp b'-1:lemma:sample'
223 -3.219063 Med b'lemma:m63'
224 -3.216977 O b'lemma:CEL'
225 -3.176530 Anti b'lemma:anti-myc'
226 -3.146575 O b'+1:postag:RB'
227 -3.134788 O b'-1:lemma:glucose'
228 -3.125043 Gtype b'lemma:\xce\xb4ompr'
229 -3.100972 Strain b'+1:lemma:substr'
230 -3.072971 pH b'lemma:ph5'
231 -3.072971 pH b'+1:lemma:.5'
232 -3.067075 O b'-1:lemma:0.3'
233 -3.036857 O b'lemma:chip'
234 -3.030617 Supp b'-1:lemma:Cra'
235 -3.025659 Gtype b'+1:lemma:with'
236 -3.008031 Gversion b'lemma:chip-seq'
237 -2.994019 Gversion b'lemma:u00096'
238 -2.994019 Gversion b'+1:lemma:.2'
239 -2.993336 Supp b'+1:lemma:2'
240 -2.990986 Gtype b'lemma:wild-type'
241 -2.989694 O b'-1:lemma:anaerobic'
242 -2.983685 Anti b'+1:lemma:antibody'
243 -2.981744 Technique b'+1:lemma:chip-exo'
244 -2.956476 Gtype b'+1:lemma:pq'
245 -2.936131 Technique b'-1:lemma:IP'
246 -2.919804 Gtype b'-1:lemma:ptac'
247 -2.910451 Med b'+1:lemma:minimal'
248 -2.869576 Gversion b'lemma:000913'
249 -2.862556 O b'lemma:s'
250 -2.839985 O b'lemma:with'
251 -2.828830 Gtype b'-1:lemma:rpob'
252 -2.818885 Anti b'lemma:anti-rpos'
253 -2.813806 Gtype b'+1:lemma:flagtag'
254 -2.813297 O b'-1:lemma:lb'
255 -2.741808 Temp b'-1:lemma:43'
256 -2.719888 Supp b'-1:lemma:+'
257 -2.682019 Technique b'-1:lemma:chip-exo'
258 -2.665763 O b'+1:postag:NNP'
259 -2.664036 O b'postag:CC'
260 -2.648305 Supp b'lemma:nacl'
261 -2.635798 Gversion b'lemma:.2'
262 -2.635798 Gversion b'-1:lemma:u00096'
263 -2.631519 OD b'-1:lemma:~'
264 -2.630404 pH b'lemma:.5'
265 -2.630404 pH b'-1:lemma:ph5'
266 -2.610537 Temp b'-1:lemma:37'
267 -2.585402 O b'postag:VBG'
268 -2.582024 O b'lemma:oxyr'
269 -2.534944 Gtype b'lemma:\xce\xb4soxs'
270 -2.529286 Med b'lemma:media'
271 -2.526833 O b'lemma:for'
272 -2.522683 Temp b'lemma:\xc2\xb0c'
273 -2.517678 O b'+1:lemma:pq'
274 -2.481621 O b'postag:DT'
275 -2.467547 Air b'postag:RB'
276 -2.465592 Supp b'+1:lemma:_'
277 -2.465328 Supp b'-1:lemma:\xc2\xb5m'
278 -2.462075 Supp b'lemma:Leu'
279 -2.457045 Air b'-1:lemma:-'
280 -2.398092 Supp b'lemma:20'
281 -2.393465 O b'-1:lemma:l1'
282 -2.392516 OD b'lemma:0.3'
283 -2.388541 O b'+1:lemma:chip-seq'
284 -2.372930 O b'lemma:culture'
285 -2.354906 Med b'+1:lemma:2.0'
286 -2.354774 O b'lemma:2-3'
287 -2.346860 O b'lemma:affyexp'
288 -2.323757 Technique b'-1:lemma:input'
289 -2.321220 Gtype b'lemma:pk4854'
290 -2.318926 O b'+1:lemma:o.d.'
291 -2.307787 Temp b'lemma:43'
292 -2.301344 Med b'+1:lemma:g/l'
293 -2.300110 Med b'-1:lemma:ml'
294 -2.281743 Air b'lemma:anaerobically'
295 -2.255382 Gtype b'lemma:deltaseqa'
296 -2.255382 Gtype b'-1:lemma:old'
297 -2.248647 Temp b'lemma:37'
298 -2.228191 O b'lemma:ompr'
299 -2.227705 O b'-1:lemma:\xc2\xb0c'
300 -2.223375 Supp b'lemma:Adenine'
301 -2.216690 Supp b'lemma:iptg'
302 -2.192106 Gtype b'lemma:ptac'
303 -2.185607 Phase b'-1:lemma:until'
304 -2.150538 O b'-1:lemma:stpa'
305 -2.139915 Gtype b'-1:lemma:nsrr'
306 -2.138681 O b'+1:lemma:sparging'
307 -2.124332 Med b'lemma:L'
308 -2.124332 Med b'+1:lemma:broth'
309 -2.090590 Air b'lemma:Anaerobic'
310 -2.084963 O b'lemma:condition'
311 -2.083373 Supp b'lemma:0.2'
312 -2.071469 O b'lemma:at'
313 -2.070008 O b'+1:lemma:anti-fur'
314 -2.046312 O b'lemma:Lrp'
315 -2.038220 Phase b'-1:lemma:mid-log'
316 -2.029113 O b'lemma:chip-arca'
317 -2.027744 Supp b'lemma:methanol'
318 -2.017925 Technique b'+1:lemma:rna-seq'
319 -2.017005 Substrain b'+1:lemma:phtpg'
320 -2.011726 Med b'lemma:broth'
321 -2.011726 Med b'-1:lemma:L'
322 -1.998337 pH b'+1:postag:CD'
323 -1.982325 O b'lemma:Fur'
324 -1.968163 Med b'lemma:glucose'
325 -1.939193 Gversion b'postag:CD'
326 -1.930022 Phase b'+1:postag:NNS'
327 -1.926820 O b'lemma:soxs'
328 -1.926820 O b'lemma:soxr'
329 -1.910127 Supp b'-1:lemma:with'
330 -1.904564 Air b'lemma:anerobically'
331 -1.901117 O b'lemma:genotype/variation'
332 -1.899206 Gtype b'+1:lemma:_'
333 -1.889629 Gtype b'lemma:WT'
334 -1.854673 Phase b'+1:lemma:for'
335 -1.839203 Temp b'-1:lemma:30'
336 -1.838657 Temp b'+1:lemma:\xc2\xb0c'
337 -
338 -
339 -Top negative:
340 -0.009154 Gtype b'-1:lemma:small'
341 -0.008958 O b'-1:lemma:concentration'
342 -0.008958 O b'+1:lemma:150'
343 -0.008749 Supp b'+1:lemma:%'
344 -0.008295 Gtype b'-1:postag:IN'
345 -0.007225 Temp b'-1:postag:NN'
346 -0.007001 O b'+1:lemma:dpd'
347 -0.006253 O b'-1:lemma:to'
348 -0.006253 O b'-1:postag:TO'
349 -0.005971 O b'lemma:25'
350 -0.005588 Supp b'-1:postag:VBN'
351 -0.005564 Supp b'postag:NNP'
352 -0.005481 Vess b'+1:postag:IN'
353 -0.005374 Med b'-1:lemma:w2'
354 -0.005034 Med b'-1:lemma:2'
355 -0.004923 Phase b'+1:lemma:aerobically'
356 -0.004818 Air b'-1:lemma:-lrb-'
357 -0.004778 Phase b'+1:postag:RB'
358 -0.002918 Supp b'+1:lemma:dpd'
359 -0.001853 Supp b'-1:postag:NN'
360 -0.001254 O b'-1:lemma:25'
361 -0.001130 O b'+1:lemma:minute'
362 -0.000839 Supp b'lemma:2'
363 -0.000645 O b'lemma:250'
364 -0.000633 O b'+1:lemma:use'
365 -0.000599 OD b'+1:lemma:-rrb-'
366 -0.000522 Gtype b'postag::'
367 -0.000521 O b'lemma:contain'
368 -0.000301 Air b'postag:CC'
369 -0.000277 O b'-1:postag:DT'
370 -0.000223 Air b'-1:lemma:and'
371 -0.000188 O b'-1:lemma:Iron'
372 -0.000172 Technique b'+1:lemma:-rrb-'
373 -0.000156 O b'+1:lemma:um'
374 -0.000120 Technique b'+1:postag:-RRB-'
375 -0.000082 O b'lemma:fresh'
376 -0.000007 O b'-1:lemma:chip'
377 -0.000004 Technique b'-1:postag:NN'
378 -0.000004 Gtype b'lemma:input'
379 -0.000002 Supp b'+1:lemma:feso4'
380 --0.000001 Supp b'+1:lemma:-rrb-'
381 --0.000002 Supp b'+1:postag:-RRB-'
382 --0.000013 O b'+1:lemma:95'
383 --0.000014 Gtype b'+1:postag:NNS'
384 --0.000015 OD b'+1:postag:-LRB-'
385 --0.000019 Gtype b'postag:CD'
386 --0.000030 O b'lemma:purify'
387 --0.000053 O b'lemma:10'
388 --0.000099 O b'lemma:\xe2\x88\x86'
389 --0.000279 Temp b'postag:JJ'
390 --0.000305 O b'+1:lemma:0.4'
391 --0.000901 O b'-1:lemma:iptg'
392 --0.002039 OD b'+1:postag:NNS'
393 --0.002046 O b'+1:lemma:mm'
394 --0.002243 O b'-1:lemma:the'
395 --0.003015 O b'-1:lemma:with'
396 --0.004660 Technique b'-1:lemma::'
397 --0.005024 OD b'+1:lemma:of'
398 --0.006171 O b'+1:postag:CD'
399 --0.006255 Air b'+1:postag:-LRB-'
400 --0.006748 O b'+1:lemma:rep1'
401 --0.009757 O b'-1:lemma:g/l'
402 --0.010305 OD b'lemma:~'
403 --0.012303 Air b'+1:lemma:-lrb-'
404 --0.014317 O b'+1:lemma:25'
405 --0.017635 O b'lemma:lb'
406 --0.020425 O b'-1:postag:VBN'
407 --0.020857 Air b'-1:lemma:70'
408 --0.021641 OD b'+1:postag:CD'
409 --0.026926 Anti b'+1:postag:JJ'
410 --0.030050 O b'-1:lemma:rifampicin'
411 --0.030184 O b'+1:lemma:o2'
412 --0.033398 O b'+1:lemma:grow'
413 --0.034272 O b'lemma:o2'
414 --0.038973 O b'lemma:medium'
415 --0.041512 O b'+1:lemma:phase'
416 --0.047966 O b'+1:lemma:300'
417 --0.051332 O b'-1:lemma:mm'
418 --0.052636 O b'lemma:e.'
419 --0.055634 Med b'postag:CD'
420 --0.055801 Phase b'+1:postag:NN'
421 --0.062955 Air b'-1:postag:CC'
422 --0.065091 O b'-1:lemma:o2'
423 --0.065456 OD b'+1:lemma:and'
424 --0.079195 OD b'+1:lemma:0.4'
425 --0.085840 Med b'+1:postag:NN'
426 --0.089782 Gversion b'+1:postag:NN'
427 --0.090118 O b'-1:lemma:e.'
428 --0.091747 O b'+1:lemma:shake'
429 --0.096366 O b'+1:lemma:5'
430 --0.104686 OD b'postag:JJ'
431 --0.110082 O b'+1:lemma:-rrb-'
432 --0.117489 Phase b'-1:postag:NN'
433 --0.118330 Gtype b'-1:postag:CD'
434 --0.123321 Air b'-1:lemma:or'
435 --0.125308 O b'lemma:co2'
436 --0.126112 Air b'postag:CD'
437 --0.127371 O b'-1:lemma:from'
438 --0.128004 Supp b'lemma:and'
439 --0.138630 Med b'+1:postag:IN'
440 --0.140700 OD b'+1:postag:CC'
441 --0.141775 Med b'-1:postag:NN'
442 --0.143861 O b'lemma:grow'
443 --0.147202 O b'-1:lemma:um'
444 --0.147202 O b'+1:lemma:paraquat'
445 --0.151027 O b'-1:postag:IN'
446 --0.151499 Gtype b'-1:postag:NN'
447 --0.158428 Supp b'+1:lemma:rifampicin'
448 --0.162488 O b'-1:lemma:30'
449 --0.173747 O b'-1:lemma:1'
450 --0.185340 O b'-1:lemma:0.1'
451 --0.197510 O b'lemma:anaerobic'
452 --0.202853 Supp b'postag:CC'
453 --0.212861 O b'-1:lemma:-lrb-'
454 --0.215175 O b'-1:lemma:cra'
455 --0.224143 Supp b'+1:postag:VBN'
456 --0.230836 O b'-1:lemma:of'
457 --0.240457 O b'lemma:aerobically'
458 --0.244805 O b'+1:postag:IN'
459 --0.254690 Phase b'-1:lemma:at'
460 --0.255175 Temp b'postag:NN'
461 --0.261806 O b'+1:postag:NNS'
462 --0.267878 pH b'postag:NN'
463 --0.269047 O b'postag:VBP'
464 --0.270124 O b'lemma:150'
465 --0.270124 O b'+1:lemma:mg/ml'
466 --0.276353 O b'+1:lemma:until'
467 --0.286173 O b'+1:lemma:.'
468 --0.286173 O b'+1:postag:.'
469 --0.305770 O b'+1:lemma:%'
470 --0.305965 O b'-1:lemma:ml'
471 --0.324166 O b'lemma:media'
472 --0.339524 O b'lemma:phase'
473 --0.352773 O b'+1:lemma:arginine'
474 --0.363361 O b'lemma:\xce\xb4fur'
475 --0.388894 O b'lemma:dissolve'
476 --0.389770 O b'-1:postag:-LRB-'
477 --0.397946 O b'-1:lemma:mid-log'
478 --0.420065 O b'-1:lemma:~'
479 --0.440463 O b'+1:lemma:0.3'
480 --0.449972 O b'-1:lemma:od600'
481 --0.451810 O b'+1:postag:-RRB-'
482 --0.452722 Temp b'+1:lemma:to'
483 --0.452722 Temp b'+1:postag:TO'
484 --0.483420 OD b'+1:postag:NN'
485 --0.485997 Phase b'-1:postag:JJ'
486 --0.497094 O b'-1:lemma:0.2'
487 --0.501676 O b'lemma:od600'
488 --0.531049 O b'lemma:20'
489 --0.559644 O b'-1:lemma:grow'
490 --0.580617 O b'+1:lemma:\xc2\xb0c'
491 --0.620523 Technique b'-1:postag::'
492 --0.630289 O b'lemma:0.3'
493 --0.679102 Supp b'-1:lemma:%'
494 --0.685275 O b'lemma:anaerobically'
495 --0.715057 OD b'lemma:-lrb-'
496 --0.717401 O b'+1:lemma:fecl2'
497 --0.759134 O b'-1:lemma:37'
498 --0.770187 Air b'-1:postag:JJ'
499 --0.786415 O b'lemma:0.2'
500 --0.821217 O b'+1:postag:VBG'
501 --0.822213 O b'lemma:37'
502 --0.824982 O b'+1:lemma:supplement'
503 --0.842762 O b'-1:lemma:sample'
504 --0.857711 Supp b'+1:lemma:acetate'
505 --0.859301 O b'+1:lemma:cell'
506 --0.865248 O b'lemma:fecl2'
507 --0.895821 OD b'postag:-LRB-'
508 --0.909763 O b'-1:postag:VBG'
509 --0.924925 O b'lemma:of'
510 --0.938966 O b'+1:lemma:hour'
511 --0.948215 O b'lemma:2h'
512 --0.948215 O b'-1:lemma:additional'
513 --1.035032 O b'-1:lemma:co2'
514 --1.038239 O b'-1:lemma:rpob'
515 --1.049551 O b'-1:lemma:dissolve'
516 --1.049551 O b'+1:lemma:methanol'
517 --1.057377 O b'-1:postag::'
518 --1.072361 O b'lemma:mid-log'
519 --1.076264 O b'lemma:0.1'
520 --1.182064 O b'+1:lemma:+'
521 --1.269769 O b'+1:lemma:g/l'
522 --1.341512 O b'+1:lemma:at'
523 --1.349849 O b'-1:lemma:IP'
524 --1.412012 Air b'+1:postag:JJ'
525 --1.427656 O b'-1:lemma:ompr'
526 --1.459404 O b'lemma:wt'
527 --1.465487 Anti b'postag:NNP'
528 --1.539253 O b'lemma:rifampicin'
529 --1.604435 O b'lemma:methanol'
530 --1.624731 Supp b'postag:JJ'
531 --1.646056 O b'-1:lemma:nsrr'
532 --1.650493 Air b'postag:NN'
533 --1.947720 O b'+1:lemma:in'
534 --1.988778 O b'+1:lemma:2'
535 --2.105490 O b'+1:lemma:1'
536 --2.188210 O b'-1:lemma:2'
537 --2.454354 Phase b'postag:JJ'
538 --4.082146 O b'-1:lemma::'
539 --4.315245 O b'-1:lemma:_'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.004866974423027767, 'c2': 0.056472219713063834}
5 -best CV score:0.7979749356861161
6 -model size: 0.13M
7 -
8 -Flat F1: 0.788756583016598
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 0.891 0.860 0.875 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.754 0.742 0.748 62
20 - Anti 1.000 0.444 0.615 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.862 0.764 0.810 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.865 0.662 0.750 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.876 0.735 0.789 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 5.351049
32 -Med -> Med 4.871670
33 -Temp -> Temp 4.705964
34 -Air -> Air 4.663634
35 -Anti -> Anti 4.552648
36 -Agit -> Agit 4.406608
37 -O -> O 4.159955
38 -Gversion -> Gversion 4.029197
39 -Phase -> Phase 3.961410
40 -Gtype -> Gtype 3.736759
41 -Supp -> Supp 3.715319
42 -Technique -> Technique 2.638663
43 -pH -> pH 2.247503
44 -O -> Supp 1.602461
45 -Substrain -> Gtype 1.572374
46 -Gtype -> Supp 1.509554
47 -Air -> O 1.254615
48 -Technique -> Air 1.032953
49 -O -> Gtype 1.031819
50 -O -> Technique 0.950111
51 -Gtype -> pH 0.787931
52 -O -> Temp 0.697463
53 -O -> Anti 0.689482
54 -Gtype -> Air 0.553152
55 -Med -> O 0.452122
56 -O -> Strain 0.249152
57 -O -> pH 0.230580
58 -OD -> Phase 0.217826
59 -Phase -> O 0.176822
60 -O -> Vess 0.163152
61 -O -> Gversion 0.124767
62 -Supp -> O 0.087651
63 -Temp -> O 0.034867
64 -Strain -> Substrain -0.000001
65 -Substrain -> Phase -0.000221
66 -Strain -> Gversion -0.003698
67 -Vess -> Technique -0.004821
68 -Temp -> Substrain -0.012876
69 -Agit -> Gversion -0.014323
70 -Temp -> Strain -0.014360
71 -Temp -> Vess -0.017410
72 -Substrain -> Med -0.018817
73 -pH -> Agit -0.019211
74 -Med -> Agit -0.020010
75 -Gversion -> Agit -0.021113
76 -Phase -> Vess -0.022758
77 -O -> Phase -0.024164
78 -Med -> Strain -0.025997
79 -pH -> Phase -0.028833
80 -pH -> Anti -0.029581
81 -
82 -
83 -Top unlikely transitions:
84 -Technique -> Med -0.461151
85 -O -> Agit -0.476494
86 -Gtype -> Temp -0.480794
87 -Technique -> O -0.518387
88 -Gtype -> Phase -0.520282
89 -Air -> Temp -0.525360
90 -Gversion -> Technique -0.535188
91 -Air -> Gtype -0.543291
92 -Anti -> Gtype -0.553848
93 -Technique -> Gversion -0.562140
94 -OD -> Anti -0.571138
95 -Gversion -> Air -0.589331
96 -OD -> Temp -0.589841
97 -Anti -> OD -0.591125
98 -Supp -> pH -0.600581
99 -Supp -> Phase -0.607554
100 -Med -> Air -0.627218
101 -OD -> Supp -0.663510
102 -Air -> Supp -0.665817
103 -OD -> Technique -0.667134
104 -Air -> Med -0.686105
105 -Gtype -> Technique -0.710838
106 -Air -> OD -0.743300
107 -Technique -> Supp -0.744356
108 -Phase -> Technique -0.789682
109 -Temp -> Med -0.799451
110 -Supp -> Anti -0.809910
111 -Supp -> Temp -0.821276
112 -OD -> Med -0.825536
113 -Gtype -> Gversion -0.857454
114 -Supp -> OD -0.882092
115 -Supp -> Technique -0.895485
116 -Supp -> Air -0.917425
117 -O -> Air -0.919505
118 -Supp -> Gversion -0.925617
119 -Gtype -> Med -0.929322
120 -Supp -> Gtype -0.987028
121 -OD -> Gtype -0.992669
122 -Gtype -> Anti -1.017609
123 -Agit -> O -1.031217
124 -Gtype -> OD -1.100242
125 -OD -> O -1.178810
126 -Substrain -> O -1.224261
127 -OD -> Air -1.229479
128 -Supp -> Med -1.270572
129 -Technique -> OD -1.299192
130 -Technique -> Gtype -1.368938
131 -Technique -> pH -1.381051
132 -Med -> Supp -1.415487
133 -Phase -> OD -1.647415
134 -
135 -
136 -Top positive:
137 -6.440045 O b'lemma:_'
138 -5.284742 O b'lemma:1'
139 -4.692157 Air b'lemma:anaerobic'
140 -4.658957 O b'lemma:2'
141 -4.619385 Technique b'lemma:ChIP-exo'
142 -4.561015 Strain b'lemma:k-12'
143 -4.494705 Supp b'lemma:Iron'
144 -4.430737 Technique b'lemma:chipseq'
145 -4.213284 O b'lemma:rpob'
146 -4.193080 Air b'lemma:aerobic'
147 -4.127725 Phase b'lemma:stationary'
148 -4.112519 Supp b'lemma:pq'
149 -4.107025 Supp b'lemma:nh4cl'
150 -4.068762 O b'postag:IN'
151 -3.990976 Supp b'lemma:glucose'
152 -3.981614 O b'lemma:3'
153 -3.895423 O b'lemma:rep1'
154 -3.893328 Gtype b'lemma:arca8myc'
155 -3.831178 Gtype b'lemma:wt'
156 -3.766316 Gtype b'lemma:flag-tag'
157 -3.766316 Gtype b'-1:lemma:c-terminal'
158 -3.741501 Gtype b'lemma:\xce\xb4cra'
159 -3.650417 Phase b'lemma:mid-log'
160 -3.632631 O b'lemma:rep2'
161 -3.630470 Substrain b'lemma:mg1655'
162 -3.547965 Gversion b'lemma:asm584v2'
163 -3.532543 Supp b'lemma:acetate'
164 -3.517907 O b'lemma:Cra'
165 -3.498084 Air b'-1:lemma:ChIP-Seq'
166 -3.480891 Gtype b'-1:lemma:\xe2\x88\x86'
167 -3.424575 Supp b'lemma:no3'
168 -3.422537 Supp b'+1:lemma:\xc2\xb5m'
169 -3.363386 Supp b'lemma:nitrate'
170 -3.346533 O b'lemma:b'
171 -3.329553 O b'-1:lemma:tag'
172 -3.312533 O b'lemma:rep3'
173 -3.288138 O b'postag::'
174 -3.274111 O b'lemma:a'
175 -3.231297 Technique b'lemma:rna-seq'
176 -3.218715 O b'lemma:.'
177 -3.218715 O b'postag:.'
178 -3.215008 Gtype b'lemma:delta-arca'
179 -3.202775 Supp b'lemma:Fe'
180 -3.165237 Gtype b'lemma:fnr8myc'
181 -3.155991 Air b'lemma:Aerobic'
182 -3.133804 Supp b'lemma:dpd'
183 -3.090343 Med b'lemma:LB'
184 -3.073422 Technique b'lemma:chip-seq'
185 -3.060962 Med b'lemma:lb'
186 -3.050123 O b'postag:VBN'
187 -3.028391 Med b'lemma:MOPS'
188 -3.017487 O b'+1:postag:RB'
189 -2.979906 Anti b'lemma:none'
190 -2.978981 O b'-1:lemma:Aerobic'
191 -2.962117 Supp b'lemma:fructose'
192 -2.953345 O b'lemma:\xcf\x8332'
193 -2.890455 Anti b'lemma:seqa'
194 -2.860514 O b'-1:lemma:ChIP-exo'
195 -2.856286 Gtype b'lemma:\xe2\x88\x86'
196 -2.827313 O b'lemma:CEL'
197 -2.783360 Technique b'lemma:rnaseq'
198 -2.775420 Med b'+1:lemma:0.4'
199 -2.774305 OD b'lemma:od600'
200 -2.753373 O b'lemma:-'
201 -2.742915 Supp b'lemma:rifampicin'
202 -2.675772 Gtype b'lemma:delta-fnr'
203 -2.630113 Supp b'+1:lemma:1'
204 -2.629618 Supp b'+1:lemma:Deficient'
205 -2.620392 Vess b'lemma:flask'
206 -2.620392 Vess b'-1:lemma:warm'
207 -2.618241 O b'lemma:affyexp'
208 -2.609048 pH b'lemma:ph5'
209 -2.609048 pH b'+1:lemma:.5'
210 -2.605367 Temp b'lemma:\xc2\xb0c'
211 -2.605338 Gtype b'+1:lemma:type'
212 -2.604381 Gtype b'lemma:\xce\xb4fur'
213 -2.603271 Air b'postag:RB'
214 -2.594594 Gtype b'+1:lemma:with'
215 -2.582369 O b'lemma:Custom'
216 -2.567820 Gtype b'lemma:type'
217 -2.567689 Gversion b'lemma:nc'
218 -2.557861 Supp b'-1:lemma:Cra'
219 -2.552038 OD b'lemma:od450'
220 -2.550932 Gtype b'lemma:nsrr'
221 -2.550177 Gversion b'lemma:chip-seq'
222 -2.524549 O b'+1:lemma:od600'
223 -2.502467 O b'-1:lemma:glucose'
224 -2.498403 Gtype b'lemma:wild-type'
225 -2.496663 Supp b'lemma:arginine'
226 -2.495738 Supp b'+1:lemma:_'
227 -2.483625 O b'lemma:chip-arca'
228 -2.479625 O b'lemma:with'
229 -2.455411 Supp b'+1:lemma:2'
230 -2.454463 Gtype b'lemma:WT'
231 -2.388316 O b'-1:lemma:stpa'
232 -2.376289 O b'lemma:s'
233 -2.368051 Phase b'-1:lemma:mid-log'
234 -2.360684 Technique b'lemma:ChIP-Seq'
235 -2.349033 O b'lemma:argr'
236 -2.347947 Strain b'+1:lemma:substr'
237 -2.329446 O b'lemma:oxyr'
238 -2.326483 Gversion b'lemma:u00096'
239 -2.326483 Gversion b'+1:lemma:.2'
240 -2.322186 O b'-1:lemma:anaerobic'
241 -2.319676 Anti b'lemma:anti-myc'
242 -2.310676 Gversion b'lemma:.2'
243 -2.310676 Gversion b'-1:lemma:u00096'
244 -2.309895 Gtype b'lemma:\xce\xb4soxs'
245 -2.304666 O b'-1:lemma:lb'
246 -2.286012 Gversion b'-1:lemma:nc'
247 -2.283995 Med b'+1:lemma:2.0'
248 -2.263722 Gtype b'-1:lemma:ptac'
249 -2.251060 Technique b'-1:lemma:IP'
250 -2.241105 O b'postag:CC'
251 -2.233213 O b'postag:SYM'
252 -2.228846 Air b'lemma:Anaerobic'
253 -2.221020 O b'+1:lemma:pq'
254 -2.217171 O b'lemma:purr'
255 -2.215541 Med b'lemma:m63'
256 -2.210660 Gversion b'lemma:000913'
257 -2.208620 Phase b'lemma:phase'
258 -2.200256 Air b'lemma:anaerobically'
259 -2.160285 Supp b'lemma:nacl'
260 -2.159816 O b'lemma:Lrp'
261 -2.146260 O b'+1:lemma:anti-fur'
262 -2.142375 Gtype b'+1:lemma:pq'
263 -2.137685 O b'lemma:ompr'
264 -2.137493 O b'-1:lemma:0.3-0.35'
265 -2.135033 pH b'+1:postag:CD'
266 -2.132965 Gtype b'+1:lemma:flagtag'
267 -2.132516 Air b'-1:lemma:-'
268 -2.129831 O b'lemma:or'
269 -2.127593 Air b'-1:postag::'
270 -2.100892 Technique b'postag:NNP'
271 -2.095024 Air b'-1:lemma:_'
272 -2.079808 Gtype b'lemma:ptac'
273 -2.078817 Med b'postag:NNP'
274 -2.065995 Supp b'lemma:Leu'
275 -2.045237 O b'lemma:chip'
276 -2.027925 Temp b'lemma:43'
277 -2.022011 Gtype b'lemma:\xce\xb4ompr'
278 -2.015716 Supp b'-1:lemma:+'
279 -2.010073 Substrain b'+1:lemma:phtpg'
280 -2.008340 Temp b'-1:lemma:37'
281 -2.004601 Temp b'-1:lemma:43'
282 -1.996465 Gtype b'lemma:deltaseqa'
283 -1.996465 Gtype b'-1:lemma:old'
284 -1.991818 Anti b'+1:lemma:antibody'
285 -1.986009 Gtype b'lemma:pk4854'
286 -1.981713 Technique b'-1:lemma:input'
287 -1.981625 Med b'+1:lemma:+'
288 -1.979648 Gtype b'-1:lemma:rpob'
289 -1.974870 Gtype b'-1:lemma:_'
290 -1.973288 O b'lemma:chip-fnr'
291 -1.969889 Temp b'+1:lemma:\xc2\xb0c'
292 -1.968489 O b'-1:lemma:type'
293 -1.959681 Supp b'lemma:iptg'
294 -1.950150 Gtype b'+1:lemma:_'
295 -1.947863 Supp b'lemma:Adenine'
296 -1.947687 Technique b'-1:lemma:chip-exo'
297 -1.941978 Anti b'lemma:anti-rpos'
298 -1.937288 Med b'-1:lemma:ml'
299 -1.924562 Gtype b'+1:lemma:aerobic'
300 -1.924487 Phase b'+1:lemma:for'
301 -1.922675 O b'postag:DT'
302 -1.914419 Supp b'+1:lemma:hour'
303 -1.913395 O b'+1:lemma:43'
304 -1.912727 O b'lemma:Fur'
305 -1.876476 O b'lemma:genotype/variation'
306 -1.869806 Supp b'-1:lemma:\xc2\xb5m'
307 -1.868961 O b'+1:lemma:mid-log'
308 -1.867289 O b'+1:lemma:chip-seq'
309 -1.863790 Supp b'lemma:methanol'
310 -1.861757 Supp b'lemma:20'
311 -1.857902 Supp b'-1:lemma:with'
312 -1.856991 OD b'+1:lemma:stationary'
313 -1.852369 Temp b'-1:lemma:sample'
314 -1.848158 Gversion b'+1:lemma:000913'
315 -1.846987 Gtype b'-1:lemma:nsrr'
316 -1.845305 O b'lemma:for'
317 -1.843025 Technique b'+1:lemma:chip-exo'
318 -1.842623 O b'postag:VBG'
319 -1.827664 Gversion b'postag:CD'
320 -1.820283 O b'lemma:soxs'
321 -1.820283 O b'lemma:soxr'
322 -1.820233 Gtype b'+1:lemma:ph5'
323 -1.815561 Supp b'+1:lemma:respiratory'
324 -1.810671 O b'lemma:culture'
325 -1.809579 pH b'lemma:.5'
326 -1.809579 pH b'-1:lemma:ph5'
327 -1.802708 Gtype b'lemma:\xce\xb4oxyr'
328 -1.802434 Temp b'lemma:37'
329 -1.802103 Med b'+1:lemma:minimal'
330 -1.788823 Gtype b'lemma:\xce\xb4soxr'
331 -1.787884 Supp b'+1:lemma:deficient'
332 -1.781577 O b'lemma:at'
333 -1.774963 O b'lemma:pt7'
334 -1.766232 Vess b'-1:postag:VBN'
335 -1.758278 Gversion b'lemma:_'
336 -1.754083 Supp b'+1:lemma:and'
337 -
338 -
339 -Top negative:
340 --0.165340 O b'-1:lemma:with'
341 --0.170223 Phase b'+1:postag:NN'
342 --0.171143 Med b'-1:lemma:MOPS'
343 --0.171691 O b'lemma:co2'
344 --0.172496 O b'+1:lemma:antibody'
345 --0.173573 O b'-1:lemma:control'
346 --0.175923 O b'-1:postag:-LRB-'
347 --0.178273 O b'+1:lemma:purify'
348 --0.178964 Gtype b'+1:lemma:1'
349 --0.179388 O b'lemma:medium'
350 --0.190175 Gtype b'+1:lemma:-lrb-'
351 --0.193476 Anti b'+1:postag:JJ'
352 --0.194108 O b'+1:lemma:2.0'
353 --0.195669 O b'lemma:n2'
354 --0.198645 O b'-1:lemma:300'
355 --0.201659 O b'-1:lemma:of'
356 --0.210827 O b'lemma:aerobically'
357 --0.216287 O b'+1:lemma:pahse'
358 --0.216954 Gtype b'+1:lemma:2'
359 --0.222719 Technique b'-1:lemma::'
360 --0.225921 Gtype b'lemma:rna'
361 --0.227807 O b'+1:lemma:sample'
362 --0.229277 Gtype b'+1:postag:NNS'
363 --0.232261 O b'-1:lemma:n2'
364 --0.233570 Gtype b'-1:lemma:-'
365 --0.237526 OD b'+1:lemma:in'
366 --0.240536 Gtype b'lemma:control'
367 --0.242225 Phase b'-1:postag:NN'
368 --0.252367 O b'-1:lemma:delta'
369 --0.255317 O b'-1:postag:VBP'
370 --0.255936 O b'-1:lemma:rna'
371 --0.260735 Gtype b'postag:NNS'
372 --0.263059 O b'-1:lemma:e.'
373 --0.265319 O b'+1:lemma:from'
374 --0.273429 O b'-1:lemma:minimal'
375 --0.276572 O b'lemma:e.'
376 --0.276704 Gtype b'-1:lemma:,'
377 --0.276704 Gtype b'-1:postag:,'
378 --0.279370 O b'postag:RB'
379 --0.280295 O b'-1:lemma:grow'
380 --0.282926 O b'+1:lemma:mg1655'
381 --0.288333 O b'lemma:10'
382 --0.289288 O b'lemma:pahse'
383 --0.291441 Gtype b'+1:lemma:cra'
384 --0.295834 Air b'postag:CD'
385 --0.300317 O b'lemma:nacl'
386 --0.302273 Supp b'+1:postag:IN'
387 --0.304479 O b'lemma:30'
388 --0.305051 O b'-1:lemma:purify'
389 --0.306221 OD b'+1:lemma:0.4'
390 --0.306561 OD b'+1:lemma:and'
391 --0.315073 Supp b'lemma:and'
392 --0.317269 O b'-1:lemma:0.1'
393 --0.320606 O b'+1:lemma:delta'
394 --0.324445 O b'+1:lemma:%'
395 --0.328680 O b'+1:lemma:or'
396 --0.335995 Gtype b'lemma:ompr'
397 --0.337994 Med b'postag:CD'
398 --0.339794 O b'+1:lemma:-lcb-'
399 --0.341876 O b'+1:postag:-RRB-'
400 --0.348075 OD b'+1:postag:CC'
401 --0.350623 O b'+1:lemma:strain'
402 --0.351953 O b'-1:lemma:mm'
403 --0.354366 Med b'+1:postag:NN'
404 --0.359119 Gtype b'+1:lemma:a'
405 --0.368580 Med b'-1:postag:CD'
406 --0.369042 O b'-1:lemma:mid-log'
407 --0.369832 O b'+1:lemma:phase'
408 --0.374612 O b'-1:lemma:um'
409 --0.374612 O b'+1:lemma:paraquat'
410 --0.378047 Gtype b'-1:postag:CD'
411 --0.378990 O b'lemma:\xc2\xb0c'
412 --0.382063 O b'+1:lemma:cell'
413 --0.383941 O b'lemma:minimal'
414 --0.383980 Temp b'postag:JJ'
415 --0.384553 O b'+1:lemma:dissolve'
416 --0.390868 O b'+1:lemma:until'
417 --0.397770 Technique b'-1:postag::'
418 --0.403782 O b'+1:postag:IN'
419 --0.420663 Supp b'+1:lemma:glucose'
420 --0.421882 O b'-1:lemma:fresh'
421 --0.423208 O b'-1:lemma:iptg'
422 --0.425203 O b'lemma:8'
423 --0.425322 O b'lemma:phase'
424 --0.426379 Gtype b'+1:lemma:b'
425 --0.436102 O b'+1:lemma:shake'
426 --0.441221 O b'-1:lemma:rifampicin'
427 --0.444583 Air b'-1:lemma:or'
428 --0.447161 Supp b'-1:postag:VBG'
429 --0.448411 Med b'+1:postag:NNS'
430 --0.460422 O b'-1:lemma:affinity'
431 --0.461216 Supp b'+1:postag:VBN'
432 --0.467958 O b'-1:lemma:cra'
433 --0.469465 O b'+1:lemma:minimal'
434 --0.469624 Supp b'-1:lemma:%'
435 --0.477155 O b'-1:lemma:20'
436 --0.479874 O b'lemma:of'
437 --0.505244 O b'lemma:glucose'
438 --0.508080 O b'-1:lemma:from'
439 --0.508329 Phase b'postag:JJ'
440 --0.519825 O b'lemma:mg1655'
441 --0.520316 O b'+1:lemma:0.4'
442 --0.531961 Gtype b'lemma:_'
443 --0.540846 O b'lemma:dissolve'
444 --0.541927 Temp b'+1:lemma:to'
445 --0.541927 Temp b'+1:postag:TO'
446 --0.543538 OD b'+1:lemma:mid-log'
447 --0.554268 Phase b'-1:lemma:at'
448 --0.567076 O b'lemma:150'
449 --0.567076 O b'+1:lemma:mg/ml'
450 --0.586115 O b'+1:lemma:Aerobic'
451 --0.590065 OD b'+1:postag:NN'
452 --0.591060 O b'+1:lemma:b'
453 --0.601984 OD b'lemma:-lrb-'
454 --0.602651 O b'-1:lemma:30'
455 --0.610779 Gtype b'-1:postag:SYM'
456 --0.611922 O b'-1:lemma:chip-exo'
457 --0.624890 pH b'postag:NN'
458 --0.628877 Supp b'postag:CC'
459 --0.642872 O b'lemma:lb'
460 --0.645246 O b'+1:lemma:rep1'
461 --0.646910 O b'+1:postag:NNS'
462 --0.648451 Gtype b'-1:postag:DT'
463 --0.656497 O b'+1:lemma:c'
464 --0.671297 Temp b'-1:lemma:\xc2\xb0c'
465 --0.672555 Supp b'+1:lemma:rifampicin'
466 --0.675146 Med b'+1:postag:IN'
467 --0.684210 OD b'postag:-LRB-'
468 --0.690268 O b'lemma:m63'
469 --0.692418 O b'lemma:purify'
470 --0.711910 O b'-1:lemma:g/l'
471 --0.714120 O b'+1:lemma:300'
472 --0.719637 O b'+1:lemma:arginine'
473 --0.720246 Temp b'postag:NN'
474 --0.723885 Gtype b'+1:lemma:\xe2\x88\x86'
475 --0.729214 O b'-1:lemma:until'
476 --0.731048 O b'+1:lemma:fecl2'
477 --0.733838 O b'-1:lemma:1'
478 --0.754956 O b'+1:lemma:\xc2\xb0c'
479 --0.760036 O b'-1:lemma:od600'
480 --0.785671 Anti b'+1:lemma:anti-fur'
481 --0.789666 OD b'postag:JJ'
482 --0.822362 O b'lemma:dpd'
483 --0.825176 O b'-1:lemma:o2'
484 --0.856382 O b'-1:lemma:~'
485 --0.858874 O b'lemma:od600'
486 --0.861229 O b'+1:lemma:0.3'
487 --0.867648 O b'lemma:media'
488 --0.877526 O b'+1:lemma:in'
489 --0.899345 O b'+1:lemma:at'
490 --0.903562 Gtype b'lemma:delta'
491 --0.909951 O b'-1:lemma:0.2'
492 --0.924018 O b'-1:lemma:\xe2\x88\x86'
493 --0.936952 Phase b'-1:postag:JJ'
494 --0.937687 O b'lemma:anaerobically'
495 --0.958929 O b'lemma:0.3'
496 --0.977286 Air b'-1:postag:JJ'
497 --0.979403 O b'lemma:20'
498 --0.989887 O b'lemma:0.1'
499 --1.003141 O b'lemma:mid-log'
500 --1.016700 Supp b'+1:lemma:acetate'
501 --1.042214 O b'lemma:2h'
502 --1.042214 O b'-1:lemma:additional'
503 --1.072377 O b'+1:postag:VBG'
504 --1.075398 O b'-1:lemma:dissolve'
505 --1.075398 O b'+1:lemma:methanol'
506 --1.082645 O b'+1:lemma:g/l'
507 --1.096557 O b'lemma:anaerobic'
508 --1.126451 O b'lemma:0.2'
509 --1.166660 O b'lemma:\xe2\x88\x86'
510 --1.172209 O b'lemma:fecl2'
511 --1.173636 O b'+1:lemma:supplement'
512 --1.193870 O b'-1:postag:VBG'
513 --1.194541 O b'-1:lemma:ompr'
514 --1.232022 O b'lemma:k-12'
515 --1.253980 O b'lemma:\xce\xb4fur'
516 --1.288532 O b'-1:lemma:ml'
517 --1.301101 O b'postag:VBP'
518 --1.312157 O b'-1:lemma:co2'
519 --1.347620 O b'-1:lemma:rpob'
520 --1.379029 O b'-1:postag::'
521 --1.416689 Supp b'postag:JJ'
522 --1.422574 O b'-1:lemma:37'
523 --1.454115 O b'-1:lemma:sample'
524 --1.461328 O b'lemma:37'
525 --1.464702 Anti b'postag:NNP'
526 --1.488429 Air b'+1:postag:JJ'
527 --1.542774 O b'lemma:rifampicin'
528 --1.620387 O b'-1:lemma:2'
529 --1.621084 O b'lemma:wt'
530 --1.634867 Air b'postag:NN'
531 --1.635440 O b'-1:lemma:IP'
532 --1.705295 O b'lemma:methanol'
533 --1.742392 O b'+1:lemma:+'
534 --1.747036 O b'-1:lemma:nsrr'
535 --1.856713 O b'+1:lemma:hour'
536 --1.966783 O b'+1:lemma:2'
537 --2.387888 O b'+1:lemma:1'
538 --2.893303 O b'-1:lemma::'
539 --2.945684 O b'-1:lemma:_'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.29457600411613616, 'c2': 0.0017589762043383245}
5 -best CV score:0.8078796055237475
6 -model size: 0.05M
7 -
8 -Flat F1: 0.7794612343667667
9 - precision recall f1-score support
10 -
11 - OD 1.000 0.405 0.577 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 0.952 0.909 0.930 22
14 - Med 1.000 0.737 0.848 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.780 0.742 0.760 62
20 - Anti 0.571 0.444 0.500 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.848 0.792 0.820 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.796 0.662 0.723 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.861 0.727 0.779 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 6.390430
32 -Agit -> Agit 6.117830
33 -Temp -> Temp 5.690422
34 -Anti -> Anti 5.526528
35 -Med -> Med 5.389776
36 -Gtype -> Gtype 5.136395
37 -Air -> Air 4.861639
38 -Gversion -> Gversion 4.681583
39 -Technique -> Technique 4.547400
40 -O -> O 4.328164
41 -Supp -> Supp 4.275170
42 -Phase -> Phase 3.947478
43 -O -> Supp 2.168179
44 -Gtype -> Supp 2.126815
45 -pH -> pH 1.951624
46 -O -> Technique 1.752428
47 -O -> Gtype 1.686100
48 -Air -> O 1.391236
49 -Substrain -> Gtype 0.941140
50 -O -> Anti 0.799854
51 -Med -> O 0.671251
52 -O -> Temp 0.557904
53 -O -> Gversion 0.509095
54 -Technique -> Air 0.285589
55 -Gtype -> pH 0.187722
56 -Temp -> O 0.127072
57 -Supp -> O 0.081093
58 -O -> OD 0.056972
59 -Gtype -> Air 0.021236
60 -O -> Med 0.002225
61 -OD -> Phase 0.001636
62 -OD -> Med -0.056726
63 -Technique -> O -0.084720
64 -Gtype -> Anti -0.290184
65 -Gtype -> O -0.349078
66 -Gtype -> OD -0.351477
67 -OD -> O -0.547705
68 -O -> Air -0.672320
69 -Supp -> Med -0.757781
70 -Substrain -> O -0.945716
71 -Phase -> OD -0.974380
72 -Agit -> O -1.057441
73 -Med -> Supp -1.117202
74 -
75 -
76 -Top unlikely transitions:
77 -OD -> OD 6.390430
78 -Agit -> Agit 6.117830
79 -Temp -> Temp 5.690422
80 -Anti -> Anti 5.526528
81 -Med -> Med 5.389776
82 -Gtype -> Gtype 5.136395
83 -Air -> Air 4.861639
84 -Gversion -> Gversion 4.681583
85 -Technique -> Technique 4.547400
86 -O -> O 4.328164
87 -Supp -> Supp 4.275170
88 -Phase -> Phase 3.947478
89 -O -> Supp 2.168179
90 -Gtype -> Supp 2.126815
91 -pH -> pH 1.951624
92 -O -> Technique 1.752428
93 -O -> Gtype 1.686100
94 -Air -> O 1.391236
95 -Substrain -> Gtype 0.941140
96 -O -> Anti 0.799854
97 -Med -> O 0.671251
98 -O -> Temp 0.557904
99 -O -> Gversion 0.509095
100 -Technique -> Air 0.285589
101 -Gtype -> pH 0.187722
102 -Temp -> O 0.127072
103 -Supp -> O 0.081093
104 -O -> OD 0.056972
105 -Gtype -> Air 0.021236
106 -O -> Med 0.002225
107 -OD -> Phase 0.001636
108 -OD -> Med -0.056726
109 -Technique -> O -0.084720
110 -Gtype -> Anti -0.290184
111 -Gtype -> O -0.349078
112 -Gtype -> OD -0.351477
113 -OD -> O -0.547705
114 -O -> Air -0.672320
115 -Supp -> Med -0.757781
116 -Substrain -> O -0.945716
117 -Phase -> OD -0.974380
118 -Agit -> O -1.057441
119 -Med -> Supp -1.117202
120 -
121 -
122 -Top positive:
123 -9.784769 O b'lemma:_'
124 -8.777655 Air b'lemma:anaerobic'
125 -7.930641 Air b'lemma:aerobic'
126 -7.220796 Technique b'lemma:ChIP-exo'
127 -7.196554 O b'lemma:1'
128 -7.103993 Phase b'lemma:stationary'
129 -6.998968 O b'lemma:rpob'
130 -6.988146 Supp b'lemma:Iron'
131 -6.971195 Supp b'lemma:nitrate'
132 -6.730326 Med b'lemma:MOPS'
133 -6.729792 Air b'-1:lemma:ChIP-Seq'
134 -6.615444 Gtype b'lemma:type'
135 -6.497802 O b'-1:lemma:ChIP-exo'
136 -6.115603 Strain b'lemma:k-12'
137 -6.006143 Phase b'lemma:mid-log'
138 -5.813042 Substrain b'lemma:mg1655'
139 -5.750692 Supp b'lemma:pq'
140 -5.692854 O b'postag::'
141 -5.640080 Gversion b'lemma:asm584v2'
142 -5.442313 Gtype b'-1:lemma:\xe2\x88\x86'
143 -5.421944 Gversion b'lemma:nc'
144 -5.369011 O b'lemma:2'
145 -5.323172 O b'lemma:3'
146 -5.227211 O b'lemma:Custom'
147 -5.221194 Supp b'lemma:nh4cl'
148 -5.036519 Technique b'lemma:chipseq'
149 -5.002570 O b'lemma:b'
150 -4.911066 Temp b'-1:lemma:sample'
151 -4.803502 Gversion b'-1:lemma:nc'
152 -4.759594 Gtype b'lemma:wt'
153 -4.756971 Air b'lemma:Aerobic'
154 -4.733958 Supp b'+1:lemma:\xc2\xb5m'
155 -4.696241 OD b'lemma:od600'
156 -4.618934 O b'lemma:\xcf\x8332'
157 -4.610324 Gtype b'+1:lemma:type'
158 -4.544628 Gtype b'lemma:\xce\xb4cra'
159 -4.517060 O b'lemma:a'
160 -4.407754 OD b'lemma:od450'
161 -4.400043 O b'postag:IN'
162 -4.361805 Supp b'lemma:no3'
163 -4.357088 O b'-1:lemma:tag'
164 -4.352412 Gtype b'lemma:delta-fnr'
165 -4.311823 O b'lemma:Cra'
166 -4.167960 Gtype b'lemma:flag-tag'
167 -4.167960 Gtype b'-1:lemma:c-terminal'
168 -4.162564 Med b'lemma:LB'
169 -4.113496 Strain b'+1:lemma:substr'
170 -4.107297 Anti b'+1:lemma:antibody'
171 -4.060899 Technique b'lemma:ChIP-Seq'
172 -4.009046 O b'lemma:rep1'
173 -3.995454 Supp b'lemma:rifampicin'
174 -3.963685 Technique b'lemma:rna-seq'
175 -3.933835 Supp b'lemma:glucose'
176 -3.917748 O b'lemma:.'
177 -3.917748 O b'postag:.'
178 -3.845505 Supp b'lemma:dpd'
179 -3.808636 O b'lemma:rep2'
180 -3.774698 Gtype b'lemma:wild-type'
181 -3.760833 Med b'lemma:lb'
182 -3.747355 Technique b'-1:lemma:IP'
183 -3.703487 Air b'postag:RB'
184 -3.662819 O b'lemma:rep3'
185 -3.662186 Supp b'lemma:Fe'
186 -3.579211 Temp b'-1:lemma:\xcf\x8332'
187 -3.504088 Technique b'lemma:chip-seq'
188 -3.459881 Vess b'lemma:flask'
189 -3.459881 Vess b'-1:lemma:warm'
190 -3.395894 Supp b'lemma:acetate'
191 -3.371382 O b'+1:lemma:od600'
192 -3.355281 Supp b'lemma:arginine'
193 -3.288615 Anti b'lemma:seqa'
194 -3.267673 Gtype b'lemma:arca8myc'
195 -3.257108 Gtype b'-1:lemma:rpob'
196 -3.214124 Med b'+1:lemma:0.4'
197 -3.198215 O b'lemma:chip'
198 -3.191605 OD b'+1:lemma:stationary'
199 -3.129303 pH b'lemma:ph5'
200 -3.129303 pH b'+1:lemma:.5'
201 -3.116874 Supp b'-1:lemma:Cra'
202 -3.111015 O b'+1:lemma:chip-seq'
203 -3.100779 Gtype b'+1:lemma:with'
204 -3.096274 Technique b'+1:lemma:chip-exo'
205 -3.080007 O b'-1:lemma:0.3-0.35'
206 -3.076638 Technique b'lemma:rnaseq'
207 -2.996028 Gtype b'+1:lemma:ph5'
208 -2.989922 Anti b'lemma:none'
209 -2.975187 O b'-1:lemma:Aerobic'
210 -2.962110 Anti b'lemma:anti-rpos'
211 -2.927775 Supp b'+1:lemma:1'
212 -2.897627 Gtype b'lemma:delta-arca'
213 -2.894293 Supp b'+1:lemma:2'
214 -2.870010 Gtype b'lemma:nsrr'
215 -2.836891 O b'lemma:escherichia'
216 -2.823759 O b'+1:lemma:pq'
217 -2.729622 Gtype b'+1:lemma:pq'
218 -2.721450 Supp b'lemma:fructose'
219 -2.715488 Supp b'lemma:iptg'
220 -2.707351 Gtype b'lemma:\xce\xb4ompr'
221 -2.706414 Gtype b'lemma:fnr8myc'
222 -2.705613 O b'-1:lemma:0.3'
223 -2.696678 O b'-1:lemma:type'
224 -2.677637 O b'-1:lemma:anaerobic'
225 -2.617637 Technique b'-1:lemma:chip-exo'
226 -2.601501 O b'lemma:with'
227 -2.598938 O b'postag:CC'
228 -2.589617 Gversion b'lemma:chip-seq'
229 -2.564844 Gtype b'lemma:\xce\xb4fur'
230 -2.529911 Temp b'-1:lemma:37'
231 -2.512630 Temp b'-1:lemma:43'
232 -2.501323 O b'-1:lemma:glucose'
233 -2.465702 Supp b'-1:lemma:+'
234 -2.437465 Gversion b'lemma:u00096'
235 -2.437465 Gversion b'+1:lemma:.2'
236 -2.390733 O b'lemma:-'
237 -2.390656 O b'lemma:oxyr'
238 -2.389452 Gtype b'lemma:WT'
239 -2.388101 O b'+1:postag:RB'
240 -2.371844 Gtype b'lemma:\xe2\x88\x86'
241 -2.368954 Gversion b'lemma:000913'
242 -2.357589 pH b'lemma:.5'
243 -2.357589 pH b'-1:lemma:ph5'
244 -2.347080 Med b'lemma:m63'
245 -2.341653 Med b'+1:lemma:minimal'
246 -2.312104 Temp b'lemma:43'
247 -2.303920 Supp b'lemma:Leu'
248 -2.303021 Anti b'lemma:anti-myc'
249 -2.298956 Gtype b'lemma:pk4854'
250 -2.289285 Med b'lemma:glucose'
251 -2.270819 O b'+1:postag:NNP'
252 -2.250795 Air b'lemma:anaerobically'
253 -2.249574 Gtype b'postag:-RRB-'
254 -2.245776 Gversion b'lemma:.2'
255 -2.245776 Gversion b'-1:lemma:u00096'
256 -2.239995 Air b'-1:lemma:co2'
257 -2.227457 Supp b'lemma:20'
258 -2.212330 Supp b'+1:lemma:hour'
259 -2.212247 Temp b'-1:lemma:30'
260 -2.173944 Supp b'lemma:nacl'
261 -2.172282 O b'+1:lemma:sparging'
262 -2.129033 O b'lemma:s'
263 -2.126416 Phase b'-1:lemma:mid-log'
264 -2.125863 Supp b'+1:lemma:_'
265 -2.114093 Med b'+1:lemma:2.0'
266 -2.111768 Med b'-1:lemma:glucose'
267 -2.073983 Gtype b'+1:lemma:flagtag'
268 -2.071701 O b'-1:lemma:lb'
269 -2.052281 Med b'-1:lemma:ml'
270 -2.050869 Gtype b'-1:lemma:nsrr'
271 -1.973985 O b'postag:VBN'
272 -1.966483 Med b'lemma:L'
273 -1.966483 Med b'+1:lemma:broth'
274 -1.943849 Med b'lemma:broth'
275 -1.943849 Med b'-1:lemma:L'
276 -1.943198 Supp b'-1:lemma:with'
277 -1.933549 Supp b'lemma:Adenine'
278 -1.928306 O b'lemma:CEL'
279 -1.904039 Supp b'-1:lemma:\xc2\xb5m'
280 -1.854835 Med b'lemma:media'
281 -1.849121 O b'lemma:at'
282 -1.846853 Phase b'-1:lemma:until'
283 -1.845040 OD b'lemma:phase'
284 -1.843752 Supp b'+1:lemma:Deficient'
285 -1.834795 Gtype b'+1:lemma:_'
286 -1.832489 O b'-1:lemma:\xc2\xb0c'
287 -1.818739 O b'lemma:chip-arca'
288 -1.813945 OD b'lemma:0.3'
289 -1.805051 O b'+1:lemma:o.d.'
290 -1.797440 Temp b'lemma:37'
291 -1.792631 Vess b'-1:postag:VBN'
292 -1.776920 Technique b'-1:lemma:_'
293 -1.773247 OD b'+1:lemma:phase'
294 -1.762789 Temp b'lemma:\xc2\xb0c'
295 -1.761249 Technique b'+1:lemma:rna-seq'
296 -1.758774 Gtype b'-1:postag::'
297 -1.752571 O b'lemma:or'
298 -1.747526 O b'-1:lemma:l1'
299 -1.747292 Supp b'lemma:of'
300 -1.740326 Temp b'+1:lemma:\xc2\xb0c'
301 -1.701975 O b'lemma:ompr'
302 -1.696253 O b'lemma:c-terminal'
303 -1.696253 O b'+1:lemma:flag-tag'
304 -1.690400 Med b'+1:lemma:supplement'
305 -1.689524 pH b'+1:postag:CD'
306 -1.687584 O b'+1:lemma:nacl'
307 -1.685346 O b'+1:lemma:acetate'
308 -1.674079 O b'-1:lemma:dpd'
309 -1.668207 Gtype b'-1:lemma:_'
310 -1.667206 Temp b'+1:lemma:in'
311 -1.666468 Supp b'lemma:methanol'
312 -1.660722 Air b'-1:lemma:-'
313 -1.655979 Gtype b'-1:lemma:vector'
314 -1.642097 O b'lemma:culture'
315 -1.641394 Med b'-1:lemma:LB'
316 -1.639030 Phase b'+1:lemma:for'
317 -1.635194 OD b'-1:lemma:about'
318 -1.632144 Gtype b'lemma:\xce\xb4soxs'
319 -1.622571 O b'-1:lemma:media'
320 -1.574984 Gversion b'postag:CD'
321 -1.574818 O b'lemma:soxs'
322 -1.574818 O b'lemma:soxr'
323 -
324 -
325 -Top negative:
326 -0.012428 O b'lemma:build'
327 -0.011706 OD b'-1:postag:JJ'
328 -0.010758 O b'-1:lemma:m63'
329 -0.010555 Temp b'+1:lemma:rep1'
330 -0.009338 O b'-1:lemma:\xce\xbcm'
331 -0.009111 OD b'lemma:of'
332 -0.008729 O b'lemma:~'
333 -0.008132 Gtype b'lemma:cra-8myc-tagged'
334 -0.008132 Gtype b'lemma:fur-8myc'
335 -0.007873 Air b'-1:lemma:95'
336 -0.005830 OD b'+1:postag:-RRB-'
337 -0.005750 Air b'lemma:-lrb-'
338 -0.005529 Phase b'-1:postag::'
339 -0.005242 Gtype b'+1:postag:CD'
340 -0.004042 Substrain b'isUpper'
341 -0.003852 O b'-1:lemma:5'
342 -0.003021 O b'+1:lemma:use'
343 -0.003019 Air b'postag:CC'
344 -0.002663 Air b'postag:-LRB-'
345 -0.002334 O b'+1:lemma:ml'
346 -0.001862 O b'-1:lemma:pq'
347 -0.000956 O b'lemma:short'
348 -0.000945 O b'+1:postag:SYM'
349 -0.000941 Med b'-1:postag::'
350 -0.000813 O b'+1:lemma:mm'
351 -0.000791 Supp b'lemma:\xc2\xb5l'
352 -0.000791 Supp b'+1:lemma:cm20'
353 -0.000762 O b'-1:lemma:k-12'
354 -0.000330 Supp b'+1:postag:RB'
355 -0.000321 O b'+1:lemma:rnase'
356 -0.000279 OD b'postag:CC'
357 -0.000211 Gtype b'+1:lemma:-lcb-'
358 -0.000154 Med b'postag:NN'
359 -0.000123 Supp b'-1:lemma:1mm'
360 -0.000066 O b'-1:lemma:respiratory'
361 -0.000047 O b'postag:VB'
362 -0.000031 O b'+1:postag:JJ'
363 -0.000022 O b'+1:postag:FW'
364 -0.000021 Phase b'postag:VBG'
365 -0.000014 Temp b'-1:postag:NNS'
366 -0.000012 O b'-1:lemma:genotype/variation'
367 -0.000011 Phase b'lemma:grow'
368 -0.000009 O b'+1:lemma:genbank'
369 -0.000009 O b'postag:FW'
370 -0.000006 Gtype b'lemma:knock-out'
371 -0.000005 O b'lemma:ip'
372 -0.000005 Gtype b'+1:lemma:strain'
373 -0.000001 O b'+1:lemma:ph5'
374 -0.000000 Phase b'-1:lemma::'
375 --0.000002 O b'-1:lemma:from'
376 --0.000009 O b'-1:lemma:rifampicin'
377 --0.000018 O b'+1:lemma:95'
378 --0.000109 O b'-1:lemma:um'
379 --0.000109 O b'+1:lemma:paraquat'
380 --0.000363 Agit b'-1:postag:NN'
381 --0.000429 O b'+1:lemma:+'
382 --0.000494 O b'-1:lemma:iptg'
383 --0.000617 Supp b'postag:CD'
384 --0.000722 O b'lemma:150'
385 --0.000722 O b'+1:lemma:mg/ml'
386 --0.000846 O b'lemma:grow'
387 --0.001402 Air b'-1:lemma:or'
388 --0.001659 O b'-1:lemma:to'
389 --0.001659 O b'-1:postag:TO'
390 --0.001932 Gtype b'+1:lemma:-lrb-'
391 --0.002534 O b'+1:lemma:until'
392 --0.004418 Phase b'-1:postag:NN'
393 --0.004820 O b'+1:lemma:rep1'
394 --0.005823 Gtype b'-1:postag:NNP'
395 --0.006241 O b'+1:lemma:300'
396 --0.006734 Air b'lemma:,'
397 --0.006734 Air b'postag:,'
398 --0.008040 Air b'-1:lemma:25'
399 --0.010122 O b'+1:lemma:-rrb-'
400 --0.010159 O b'-1:lemma:-lrb-'
401 --0.012456 Supp b'-1:postag:NN'
402 --0.013973 OD b'postag:JJ'
403 --0.014420 OD b'isUpper'
404 --0.015511 OD b'+1:postag:CD'
405 --0.022697 Air b'+1:postag:-RRB-'
406 --0.022913 O b'-1:lemma:30'
407 --0.023313 OD b'+1:postag:-LRB-'
408 --0.023317 Air b'-1:postag:RB'
409 --0.024110 O b'-1:lemma:,'
410 --0.024110 O b'-1:postag:,'
411 --0.024675 O b'+1:lemma:hour'
412 --0.025573 O b'-1:lemma:of'
413 --0.028769 Air b'-1:postag:-LRB-'
414 --0.030732 Anti b'+1:postag:JJ'
415 --0.030900 Air b'-1:lemma:and'
416 --0.032775 Med b'postag:CD'
417 --0.033408 O b'-1:postag:JJ'
418 --0.041591 Air b'lemma:95'
419 --0.044656 Air b'-1:lemma:-lrb-'
420 --0.060308 O b'-1:lemma:o2'
421 --0.063061 O b'-1:lemma:rpob'
422 --0.066181 O b'-1:postag:VBN'
423 --0.069187 Med b'-1:postag:CD'
424 --0.069620 O b'lemma:and'
425 --0.080450 Gtype b'-1:postag:CD'
426 --0.085466 O b'+1:lemma:c'
427 --0.087314 O b'+1:lemma:5'
428 --0.091477 O b'+1:lemma:shake'
429 --0.095092 Med b'+1:postag:IN'
430 --0.102952 Air b'+1:lemma:-lrb-'
431 --0.103900 Supp b'-1:postag:NNP'
432 --0.104806 Air b'-1:postag:CC'
433 --0.130716 Phase b'-1:postag:JJ'
434 --0.144760 O b'lemma:20'
435 --0.147668 O b'+1:lemma:phase'
436 --0.151840 Supp b'+1:lemma:rifampicin'
437 --0.155431 O b'lemma:medium'
438 --0.157846 Agit b'isUpper'
439 --0.162132 O b'-1:lemma:ml'
440 --0.163703 Air b'+1:postag:-LRB-'
441 --0.168213 Agit b'postag:NN'
442 --0.197124 Temp b'postag:JJ'
443 --0.199293 Med b'-1:postag:IN'
444 --0.201861 O b'lemma:fecl2'
445 --0.233445 Air b'isLower'
446 --0.243970 O b'-1:lemma:the'
447 --0.256444 Air b'-1:postag:JJ'
448 --0.259109 O b'-1:lemma:~'
449 --0.278225 O b'+1:lemma:%'
450 --0.280267 Temp b'+1:lemma:to'
451 --0.280267 Temp b'+1:postag:TO'
452 --0.288621 Supp b'+1:postag:VBN'
453 --0.292707 O b'+1:lemma:cell'
454 --0.315187 O b'lemma:od600'
455 --0.355514 Phase b'-1:lemma:at'
456 --0.357298 O b'lemma:0.1'
457 --0.357570 O b'lemma:glucose'
458 --0.360899 Temp b'isLower'
459 --0.411019 O b'lemma:anaerobically'
460 --0.420592 O b'lemma:dissolve'
461 --0.443294 O b'lemma:0.2'
462 --0.451505 Technique b'isNumber'
463 --0.453164 pH b'postag:NN'
464 --0.453934 O b'-1:lemma:37'
465 --0.477659 Med b'+1:postag:NN'
466 --0.482028 Supp b'isUpper'
467 --0.486122 Supp b'+1:lemma:acetate'
468 --0.490659 O b'+1:postag:IN'
469 --0.492086 O b'-1:lemma:cra'
470 --0.499001 O b'+1:lemma:fecl2'
471 --0.542612 O b'-1:lemma:od600'
472 --0.556265 Supp b'-1:lemma:%'
473 --0.559133 O b'-1:postag:IN'
474 --0.563772 O b'-1:postag:-LRB-'
475 --0.590111 Technique b'-1:postag::'
476 --0.595480 O b'+1:postag:NNS'
477 --0.600550 O b'postag:RB'
478 --0.603193 O b'+1:postag:-RRB-'
479 --0.608705 OD b'+1:postag:NN'
480 --0.619170 O b'+1:lemma:.'
481 --0.619170 O b'+1:postag:.'
482 --0.631410 Temp b'postag:NN'
483 --0.680972 OD b'lemma:-lrb-'
484 --0.692074 O b'lemma:phase'
485 --0.696523 O b'+1:lemma:g/l'
486 --0.703554 Med b'-1:postag:NN'
487 --0.722638 O b'-1:lemma:co2'
488 --0.737448 O b'lemma:37'
489 --0.793378 O b'-1:lemma:IP'
490 --0.881901 O b'-1:lemma:grow'
491 --0.936753 O b'lemma:2h'
492 --0.936753 O b'-1:lemma:additional'
493 --0.951203 O b'-1:lemma:ompr'
494 --0.961075 OD b'isNumber'
495 --0.975747 O b'lemma:media'
496 --0.999574 O b'lemma:mid-log'
497 --1.013924 O b'-1:lemma:dissolve'
498 --1.013924 O b'+1:lemma:methanol'
499 --1.038456 O b'+1:postag:VBG'
500 --1.044424 Gtype b'isLower'
501 --1.054187 Anti b'postag:NNP'
502 --1.055980 Air b'+1:postag:JJ'
503 --1.097851 O b'-1:postag::'
504 --1.150472 Gtype b'isUpper'
505 --1.157093 O b'-1:postag:VBG'
506 --1.186007 O b'lemma:wt'
507 --1.252971 O b'+1:lemma:supplement'
508 --1.282305 Gversion b'isLower'
509 --1.308302 Technique b'isLower'
510 --1.325280 O b'+1:lemma:in'
511 --1.418383 O b'-1:lemma:nsrr'
512 --1.424917 O b'+1:lemma:at'
513 --1.469077 O b'lemma:methanol'
514 --1.485871 OD b'postag:-LRB-'
515 --1.502986 Air b'postag:NN'
516 --1.512421 O b'lemma:of'
517 --1.560223 Phase b'postag:JJ'
518 --1.560628 O b'lemma:rifampicin'
519 --1.895357 Supp b'postag:JJ'
520 --1.938119 O b'+1:lemma:2'
521 --2.020790 O b'-1:lemma:2'
522 --2.056482 Gtype b'isNumber'
523 --2.518371 O b'+1:lemma:1'
524 --3.915561 O b'-1:lemma::'
525 --4.466114 O b'-1:lemma:_'
526 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.3717925853055416, 'c2': 0.017924580629424793}
5 -best CV score:0.8125475599052483
6 -model size: 0.07M
7 -
8 -Flat F1: 0.8015576085711513
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 1.000 0.909 0.952 22
14 - Med 0.891 0.860 0.875 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.783 0.758 0.770 62
20 - Anti 0.857 0.667 0.750 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.897 0.821 0.857 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.857 0.662 0.747 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.868 0.754 0.802 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 6.913143
32 -OD -> OD 6.546357
33 -Temp -> Temp 5.712726
34 -Med -> Med 5.305596
35 -Anti -> Anti 5.023718
36 -Supp -> Supp 4.631165
37 -Phase -> Phase 4.500208
38 -Gtype -> Gtype 4.293158
39 -Air -> Air 4.246276
40 -Gversion -> Gversion 4.168987
41 -O -> O 3.925497
42 -Technique -> Technique 3.566379
43 -pH -> pH 2.052884
44 -O -> Supp 1.936178
45 -Gtype -> Supp 1.326152
46 -Air -> O 1.051292
47 -O -> Technique 0.918460
48 -O -> Gtype 0.855955
49 -O -> Anti 0.549728
50 -Med -> O 0.455808
51 -Phase -> O 0.391302
52 -O -> Temp 0.389367
53 -OD -> Phase 0.349412
54 -Supp -> O 0.327410
55 -Substrain -> Gtype 0.326440
56 -Temp -> O 0.267368
57 -O -> Med 0.077179
58 -O -> Phase 0.028994
59 -O -> Gversion 0.026775
60 -Technique -> pH -0.006596
61 -Air -> Temp -0.006647
62 -Phase -> OD -0.020087
63 -Gtype -> Anti -0.153729
64 -Supp -> Gtype -0.163416
65 -Gtype -> OD -0.192090
66 -Supp -> Med -0.235685
67 -OD -> O -0.243341
68 -Med -> Supp -0.274565
69 -Agit -> O -0.322550
70 -Gtype -> O -0.369110
71 -OD -> Air -0.568717
72 -O -> Air -0.731642
73 -Technique -> O -0.757868
74 -Substrain -> O -0.822866
75 -
76 -
77 -Top unlikely transitions:
78 -Agit -> Agit 6.913143
79 -OD -> OD 6.546357
80 -Temp -> Temp 5.712726
81 -Med -> Med 5.305596
82 -Anti -> Anti 5.023718
83 -Supp -> Supp 4.631165
84 -Phase -> Phase 4.500208
85 -Gtype -> Gtype 4.293158
86 -Air -> Air 4.246276
87 -Gversion -> Gversion 4.168987
88 -O -> O 3.925497
89 -Technique -> Technique 3.566379
90 -pH -> pH 2.052884
91 -O -> Supp 1.936178
92 -Gtype -> Supp 1.326152
93 -Air -> O 1.051292
94 -O -> Technique 0.918460
95 -O -> Gtype 0.855955
96 -O -> Anti 0.549728
97 -Med -> O 0.455808
98 -Phase -> O 0.391302
99 -O -> Temp 0.389367
100 -OD -> Phase 0.349412
101 -Supp -> O 0.327410
102 -Substrain -> Gtype 0.326440
103 -Temp -> O 0.267368
104 -O -> Med 0.077179
105 -O -> Phase 0.028994
106 -O -> Gversion 0.026775
107 -Technique -> pH -0.006596
108 -Air -> Temp -0.006647
109 -Phase -> OD -0.020087
110 -Gtype -> Anti -0.153729
111 -Supp -> Gtype -0.163416
112 -Gtype -> OD -0.192090
113 -Supp -> Med -0.235685
114 -OD -> O -0.243341
115 -Med -> Supp -0.274565
116 -Agit -> O -0.322550
117 -Gtype -> O -0.369110
118 -OD -> Air -0.568717
119 -O -> Air -0.731642
120 -Technique -> O -0.757868
121 -Substrain -> O -0.822866
122 -
123 -
124 -Top positive:
125 -7.111444 Technique b'lemma[:2]:Ch'
126 -4.825937 O b'lemma[:2]:re'
127 -4.279457 Air b'lemma:anaerobic'
128 -3.725935 O b'lemma[:2]:ge'
129 -3.543228 O b'lemma:1'
130 -3.543228 O b'lemma[:2]:1'
131 -3.524472 OD b'lemma[:2]:od'
132 -3.478950 Phase b'lemma:stationary'
133 -3.469718 Gtype b'-1:lemma:\xe2\x88\x86'
134 -3.448630 Gtype b'lemma:arca8myc'
135 -3.428352 Air b'-1:lemma:ChIP-Seq'
136 -3.363763 Air b'lemma:aerobic'
137 -3.207046 O b'lemma:rpob'
138 -3.019693 Supp b'lemma:Iron'
139 -3.019693 Supp b'lemma[:2]:Ir'
140 -3.010875 O b'-1:lemma:ChIP-exo'
141 -2.921711 Supp b'+1:lemma:\xc2\xb5m'
142 -2.911305 Gtype b'lemma[:1]:\xce\xb4'
143 -2.889155 O b'-1:lemma:tag'
144 -2.855933 O b'lemma:with'
145 -2.855646 Med b'lemma[:1]:L'
146 -2.846749 Technique b'lemma:chipseq'
147 -2.827870 O b'lemma:2'
148 -2.827870 O b'lemma[:2]:2'
149 -2.817912 Air b'lemma[:2]:ae'
150 -2.797895 Substrain b'lemma:mg1655'
151 -2.792078 Phase b'lemma:mid-log'
152 -2.745493 Supp b'+1:lemma:1'
153 -2.729132 Technique b'lemma[:2]:rn'
154 -2.682269 O b'lemma:3'
155 -2.682269 O b'lemma[:2]:3'
156 -2.657675 Gtype b'lemma:type'
157 -2.657675 Gtype b'lemma[:2]:ty'
158 -2.623761 Med b'+1:lemma:0.4'
159 -2.580684 Gtype b'lemma[:2]:cr'
160 -2.579976 O b'lemma:_'
161 -2.579976 O b'lemma[:1]:_'
162 -2.579976 O b'lemma[:2]:_'
163 -2.569904 O b'+1:lemma:od600'
164 -2.544048 Gtype b'lemma[:2]:de'
165 -2.507607 Temp b'-1:lemma:sample'
166 -2.491621 Supp b'lemma:nitrate'
167 -2.491621 Supp b'lemma[:2]:ni'
168 -2.487340 Gtype b'lemma:flag-tag'
169 -2.487340 Gtype b'-1:lemma:c-terminal'
170 -2.476917 Supp b'lemma:arginine'
171 -2.470339 Anti b'+1:lemma:antibody'
172 -2.468809 Gtype b'lemma[:2]:fl'
173 -2.457061 Air b'lemma[:2]:an'
174 -2.401035 Gversion b'lemma:nc'
175 -2.401035 Gversion b'lemma[:2]:nc'
176 -2.380072 O b'-1:lemma:0.3-0.35'
177 -2.346761 O b'+1:lemma:pq'
178 -2.337210 Supp b'+1:lemma:2'
179 -2.311094 Gversion b'-1:lemma:nc'
180 -2.292513 Gtype b'+1:lemma::'
181 -2.281017 Med b'lemma:MOPS'
182 -2.281017 Med b'lemma[:1]:M'
183 -2.281017 Med b'lemma[:2]:MO'
184 -2.204715 Substrain b'lemma[:2]:mg'
185 -2.199859 O b'lemma:0.4'
186 -2.194544 Gversion b'lemma[:2]:00'
187 -2.169851 Temp b'-1:lemma:\xcf\x8332'
188 -2.168672 Gtype b'lemma:fnr8myc'
189 -2.159299 Air b'-1:lemma:co2'
190 -2.156668 Strain b'lemma:k-12'
191 -2.156668 Strain b'lemma[:2]:k-'
192 -2.155314 O b'-1:lemma:Aerobic'
193 -2.138255 Supp b'-1:lemma:Cra'
194 -2.135365 Anti b'lemma[:2]:an'
195 -2.117472 pH b'lemma:ph5'
196 -2.117472 pH b'+1:lemma:.5'
197 -2.108610 Temp b'lemma[:1]:3'
198 -2.107391 Air b'lemma[:1]:A'
199 -2.102650 Supp b'lemma:pq'
200 -2.102650 Supp b'lemma[:2]:pq'
201 -2.096866 Air b'-1:lemma:-'
202 -2.086323 Supp b'lemma[:2]:gl'
203 -2.074272 O b'-1:lemma:anaerobic'
204 -2.064241 Gtype b'lemma:nsrr'
205 -2.064241 Gtype b'lemma[:2]:ns'
206 -2.029654 O b'lemma:b'
207 -2.029654 O b'lemma[:2]:b'
208 -2.016572 Gtype b'lemma[:1]:W'
209 -1.998951 Technique b'lemma[:2]:ch'
210 -1.998131 O b'lemma:a'
211 -1.998131 O b'lemma[:2]:a'
212 -1.968766 Gtype b'-1:lemma:rpob'
213 -1.962195 Gtype b'hGreek'
214 -1.961034 Med b'lemma:lb'
215 -1.961034 Med b'lemma[:2]:lb'
216 -1.938806 Gtype b'lemma[:2]:ar'
217 -1.930507 OD b'+1:lemma:stationary'
218 -1.923810 Gversion b'lemma:chip-seq'
219 -1.891990 O b'-1:lemma:0.3'
220 -1.889150 Strain b'+1:lemma:substr'
221 -1.888844 Technique b'lemma[:1]:C'
222 -1.884878 Gtype b'+1:lemma:flagtag'
223 -1.882512 O b'postag::'
224 -1.882512 O b'postag[:1]::'
225 -1.882512 O b'postag[:2]::'
226 -1.856991 O b'+1:postag:RB'
227 -1.851608 O b'postag:IN'
228 -1.851608 O b'postag[:1]:I'
229 -1.851608 O b'postag[:2]:IN'
230 -1.840138 Supp b'-1:lemma:with'
231 -1.839774 Supp b'lemma[:1]:\xc2\xb5'
232 -1.822500 Gtype b'+1:lemma:type'
233 -1.816568 O b'lemma[:1]:C'
234 -1.815184 Gversion b'lemma:asm584v2'
235 -1.805652 Gversion b'lemma[:2]:as'
236 -1.792629 O b'+1:postag:NNP'
237 -1.791305 Supp b'lemma:fructose'
238 -1.786544 O b'-1:lemma:type'
239 -1.762437 Supp b'+1:lemma:_'
240 -1.759820 O b'-1:lemma:lb'
241 -1.756744 O b'-1:lemma:glucose'
242 -1.754105 Vess b'lemma:flask'
243 -1.754105 Vess b'-1:lemma:warm'
244 -1.750186 O b'lemma:Custom'
245 -1.750186 O b'lemma[:2]:Cu'
246 -1.745341 Strain b'lemma[:1]:k'
247 -1.739577 Vess b'lemma[:2]:fl'
248 -1.726669 Supp b'lemma:rifampicin'
249 -1.707436 Supp b'lemma[:2]:ri'
250 -1.707207 Gtype b'+1:lemma:with'
251 -1.696113 O b'lemma[:1]:-'
252 -1.692259 Air b'lemma[:1]:a'
253 -1.639949 Air b'lemma:Aerobic'
254 -1.639949 Air b'lemma[:2]:Ae'
255 -1.635409 O b'postag:CC'
256 -1.635409 O b'postag[:2]:CC'
257 -1.628056 Med b'+1:lemma:g/l'
258 -1.615358 Technique b'symb'
259 -1.610565 Supp b'lemma[:1]:1'
260 -1.597091 pH b'+1:postag:CD'
261 -1.589795 O b'lemma:\xcf\x8332'
262 -1.589795 O b'lemma[:1]:\xcf\x83'
263 -1.589795 O b'lemma[:2]:\xcf\x833'
264 -1.563036 O b'-1:lemma:l1'
265 -1.532125 Supp b'lemma:acetate'
266 -1.523450 Supp b'lemma[:1]:I'
267 -1.498488 O b'+1:lemma:nacl'
268 -1.484546 Supp b'lemma:no3'
269 -1.474134 Gtype b'-1:lemma:_'
270 -1.462775 Technique b'-1:lemma:input'
271 -1.457922 O b'+1:lemma:ph5'
272 -1.445969 Gtype b'-1:postag:VBG'
273 -1.435822 Gtype b'+1:lemma:_'
274 -1.434655 Supp b'lemma:Fe'
275 -1.434655 Supp b'lemma[:2]:Fe'
276 -1.433511 Gtype b'-1:lemma:vector'
277 -1.429069 Supp b'-1:postag:CD'
278 -1.428528 Gtype b'lemma[:1]:w'
279 -1.424222 pH b'lemma:.5'
280 -1.424222 pH b'-1:lemma:ph5'
281 -1.424222 pH b'lemma[:2]:.5'
282 -1.422747 Med b'+1:lemma:2.0'
283 -1.408132 Supp b'+1:lemma:hour'
284 -1.397778 O b'lemma:.'
285 -1.397778 O b'postag:.'
286 -1.397778 O b'postag[:1]:.'
287 -1.397778 O b'postag[:2]:.'
288 -1.397778 O b'lemma[:2]:.'
289 -1.381316 Gtype b'lemma:wt'
290 -1.381316 Gtype b'lemma[:2]:wt'
291 -1.377815 Temp b'lemma:43'
292 -1.377815 Temp b'lemma[:2]:43'
293 -1.377716 Air b'+1:postag:IN'
294 -1.372036 Med b'+1:postag:-LRB-'
295 -1.371743 Med b'+1:lemma:-lrb-'
296 -1.357313 Anti b'lemma:none'
297 -1.356053 Temp b'-1:lemma:43'
298 -1.355054 Supp b'lemma[:2]:fr'
299 -1.352442 Gversion b'+1:lemma:000913'
300 -1.348258 O b'-1:lemma:\xc2\xb0c'
301 -1.339531 Supp b'-1:postag:SYM'
302 -1.337456 O b'lemma:delta'
303 -1.335121 Supp b'lemma[:2]:ac'
304 -1.330202 O b'+1:lemma:mid-log'
305 -1.317551 Supp b'-1:postag:CC'
306 -1.312876 OD b'lemma:od600'
307 -1.304321 O b'lemma[:1]:s'
308 -1.301244 Technique b'+1:lemma:chip-exo'
309 -1.288165 Supp b'lemma[:1]:2'
310 -1.287921 Phase b'+1:lemma:-lrb-'
311 -1.287384 Temp b'-1:lemma:37'
312 -1.287206 Supp b'lemma:nh4cl'
313 -1.287206 Supp b'lemma[:2]:nh'
314 -1.285698 Supp b'lemma[:2]:0.'
315 -1.283844 Supp b'lemma[:2]:fe'
316 -1.280443 Med b'+1:lemma:supplement'
317 -1.280143 Gtype b'lemma[:1]:t'
318 -1.278668 Phase b'+1:postag:-LRB-'
319 -1.258754 Technique b'-1:lemma:1'
320 -1.258397 Med b'+1:lemma:minimal'
321 -1.256238 Med b'lemma[:1]:m'
322 -1.247668 OD b'lemma[:1]:o'
323 -1.247204 Gversion b'lemma:u00096'
324 -1.247204 Gversion b'+1:lemma:.2'
325 -
326 -
327 -Top negative:
328 --0.000006 O b'lemma[:1]:f'
329 --0.000014 Temp b'postag:NN'
330 --0.000014 O b'lemma[:1]:4'
331 --0.000077 O b'-1:postag:JJ'
332 --0.000104 O b'lemma:\xe2\x88\x86'
333 --0.000104 O b'lemma[:1]:\xe2\x88\x86'
334 --0.000104 O b'lemma[:2]:\xe2\x88\x86'
335 --0.000117 O b'-1:lemma:to'
336 --0.000117 O b'-1:postag:TO'
337 --0.000139 Gtype b'lemma[:1]:-'
338 --0.000165 O b'-1:lemma:rifampicin'
339 --0.000244 Air b'postag:-RRB-'
340 --0.000244 Air b'postag[:2]:-R'
341 --0.000244 Air b'lemma[:2]:-r'
342 --0.000251 O b'+1:lemma:n2'
343 --0.000490 O b'-1:lemma:\xe2\x88\x86'
344 --0.000570 OD b'+1:postag:NNS'
345 --0.001255 Supp b'postag[:1]:N'
346 --0.001255 Supp b'postag[:2]:NN'
347 --0.001277 O b'lemma[:2]:an'
348 --0.001620 Supp b'+1:postag:IN'
349 --0.001834 O b'-1:lemma:mid-log'
350 --0.004139 Air b'lemma[:2]:25'
351 --0.004380 O b'postag:VBP'
352 --0.004418 O b'+1:lemma:phase'
353 --0.004475 Gtype b'+1:lemma:-rrb-'
354 --0.004892 O b'lemma:phase'
355 --0.005013 Anti b'postag[:1]:N'
356 --0.005013 Anti b'postag[:2]:NN'
357 --0.005037 O b'lemma[:2]:ph'
358 --0.005405 Air b'lemma:-lrb-'
359 --0.005662 O b'-1:lemma:of'
360 --0.006882 O b'lemma:media'
361 --0.007168 Gtype b'lemma[:1]:g'
362 --0.007303 Air b'postag:-LRB-'
363 --0.007303 Air b'postag[:2]:-L'
364 --0.007303 Air b'lemma[:2]:-l'
365 --0.007834 Air b'+1:lemma:and'
366 --0.008160 Air b'lemma:25'
367 --0.008761 OD b'postag[:1]:C'
368 --0.010588 OD b'postag:CD'
369 --0.010588 OD b'postag[:2]:CD'
370 --0.012329 Phase b'-1:lemma:at'
371 --0.013171 Med b'postag[:1]:C'
372 --0.013817 Air b'+1:lemma:until'
373 --0.016734 OD b'postag[:1]:N'
374 --0.016734 OD b'postag[:2]:NN'
375 --0.018208 Air b'lemma[:1]:n'
376 --0.022588 Supp b'hUpper'
377 --0.022588 Supp b'hLower'
378 --0.023822 Air b'postag[:1]:C'
379 --0.024287 O b'symb'
380 --0.025967 Med b'lemma[:1]:c'
381 --0.026538 Air b'-1:postag:-LRB-'
382 --0.031765 Technique b'postag[:1]:N'
383 --0.031765 Technique b'postag[:2]:NN'
384 --0.032068 Supp b'lemma[:2]:mi'
385 --0.037401 Air b'lemma[:1]:o'
386 --0.040028 Med b'postag:NN'
387 --0.043803 Air b'+1:lemma:-lrb-'
388 --0.044062 OD b'+1:postag:CD'
389 --0.044602 Supp b'-1:lemma:%'
390 --0.044731 Air b'+1:postag:-LRB-'
391 --0.046035 OD b'postag:JJ'
392 --0.046795 Air b'-1:lemma:-lrb-'
393 --0.048808 OD b'postag[:1]:J'
394 --0.048808 OD b'postag[:2]:JJ'
395 --0.049349 O b'+1:lemma:rep1'
396 --0.050801 Supp b'postag:CD'
397 --0.050801 Supp b'postag[:2]:CD'
398 --0.056455 O b'+1:lemma:0.3'
399 --0.057472 O b'-1:lemma:from'
400 --0.066677 O b'lemma:dissolve'
401 --0.071601 Supp b'lemma[:1]:o'
402 --0.072755 O b'lemma[:1]:k'
403 --0.073873 O b'lemma:150'
404 --0.073873 O b'+1:lemma:mg/ml'
405 --0.073873 O b'lemma[:2]:15'
406 --0.076685 O b'-1:lemma:ml'
407 --0.076846 O b'lemma[:2]:gl'
408 --0.077209 O b'-1:lemma:od600'
409 --0.083778 O b'+1:lemma:300'
410 --0.087471 Air b'symb'
411 --0.091928 Supp b'+1:postag:VBN'
412 --0.092333 Air b'postag:CC'
413 --0.092333 Air b'postag[:2]:CC'
414 --0.092993 O b'+1:lemma:%'
415 --0.100219 Supp b'+1:lemma:rifampicin'
416 --0.100582 O b'lemma:0.1'
417 --0.102695 O b'-1:lemma:-lrb-'
418 --0.109000 Air b'-1:lemma:or'
419 --0.111199 Supp b'lemma[:2]:an'
420 --0.112020 Air b'-1:postag:CC'
421 --0.113367 O b'+1:lemma:shake'
422 --0.119111 Anti b'+1:lemma:anti-fur'
423 --0.124927 O b'+1:lemma:+'
424 --0.125975 O b'-1:postag:VBN'
425 --0.128619 O b'-1:lemma:ompr'
426 --0.137106 Gtype b'-1:lemma:,'
427 --0.137106 Gtype b'-1:postag:,'
428 --0.145475 Gtype b'lemma[:1]:n'
429 --0.150071 O b'lemma[:1]:d'
430 --0.151088 Anti b'symb'
431 --0.158504 Air b'+1:postag:JJ'
432 --0.162749 O b'-1:lemma:37'
433 --0.168152 O b'-1:lemma:grow'
434 --0.177645 Technique b'-1:lemma::'
435 --0.186245 O b'-1:lemma:IP'
436 --0.188141 Temp b'+1:lemma:to'
437 --0.188141 Temp b'+1:postag:TO'
438 --0.189069 O b'-1:lemma:rna'
439 --0.190006 O b'+1:lemma:-rrb-'
440 --0.192143 O b'lemma[:2]:30'
441 --0.219680 O b'lemma:co2'
442 --0.231361 Agit b'symb'
443 --0.256617 O b'lemma:of'
444 --0.256617 O b'lemma[:2]:of'
445 --0.259140 O b'lemma:37'
446 --0.259140 O b'lemma[:2]:37'
447 --0.267489 O b'lemma[:2]:od'
448 --0.270561 Med b'+1:postag:NN'
449 --0.273391 O b'+1:lemma:fecl2'
450 --0.274839 O b'+1:postag:IN'
451 --0.277041 Technique b'postag:NN'
452 --0.281854 O b'+1:lemma:\xc2\xb0c'
453 --0.292441 O b'lemma:20'
454 --0.295792 Med b'-1:postag:CD'
455 --0.308709 Supp b'postag[:1]:C'
456 --0.308783 O b'lemma[:1]:p'
457 --0.311181 O b'lemma:wt'
458 --0.311181 O b'lemma[:2]:wt'
459 --0.318567 Med b'+1:postag:IN'
460 --0.318793 O b'lemma:2h'
461 --0.318793 O b'-1:lemma:additional'
462 --0.318793 O b'lemma[:2]:2h'
463 --0.330370 O b'+1:postag:-RRB-'
464 --0.332499 Air b'postag[:1]:N'
465 --0.332499 Air b'postag[:2]:NN'
466 --0.334391 Med b'-1:postag:NN'
467 --0.338586 Temp b'hGreek'
468 --0.351814 O b'lemma[:2]:me'
469 --0.363828 O b'lemma[:1]:L'
470 --0.365790 Gtype b'lemma:delta'
471 --0.396021 O b'+1:lemma:.'
472 --0.396021 O b'+1:postag:.'
473 --0.405253 OD b'+1:postag:NN'
474 --0.409588 O b'lemma[:2]:ri'
475 --0.436123 O b'lemma[:2]:0.'
476 --0.437523 O b'-1:postag:IN'
477 --0.461538 O b'-1:postag:-LRB-'
478 --0.480537 O b'-1:lemma:cra'
479 --0.524678 Technique b'-1:postag::'
480 --0.534816 Supp b'postag:JJ'
481 --0.541445 O b'-1:lemma:sample'
482 --0.544159 Med b'symb'
483 --0.553976 Anti b'postag:NNP'
484 --0.557482 O b'+1:lemma:hour'
485 --0.572719 Gtype b'lemma[:2]:rp'
486 --0.577168 Air b'postag:NN'
487 --0.603309 Supp b'postag[:1]:J'
488 --0.603309 Supp b'postag[:2]:JJ'
489 --0.608253 Air b'-1:postag:JJ'
490 --0.609440 O b'lemma[:1]:A'
491 --0.611762 Agit b'hUpper'
492 --0.611762 Agit b'hLower'
493 --0.616867 Supp b'lemma[:1]:c'
494 --0.662379 O b'-1:lemma:the'
495 --0.665646 O b'+1:postag:VBG'
496 --0.667220 O b'+1:postag:NNS'
497 --0.672166 O b'lemma:methanol'
498 --0.688760 O b'+1:lemma:cell'
499 --0.696400 Gtype b'lemma[:1]:m'
500 --0.709438 O b'-1:lemma:rpob'
501 --0.746988 O b'+1:lemma:supplement'
502 --0.748227 O b'-1:lemma:nsrr'
503 --0.750862 Gtype b'lemma[:1]:c'
504 --0.762647 O b'lemma:mid-log'
505 --0.764019 O b'+1:lemma:g/l'
506 --0.820923 O b'-1:lemma:dissolve'
507 --0.820923 O b'+1:lemma:methanol'
508 --0.849761 Phase b'hUpper'
509 --0.849761 Phase b'hLower'
510 --0.878961 O b'lemma:rifampicin'
511 --0.991808 O b'-1:lemma:co2'
512 --1.038541 O b'lemma[:1]:0'
513 --1.156169 O b'+1:lemma:at'
514 --1.157980 Gtype b'lemma[:1]:a'
515 --1.204180 Supp b'symb'
516 --1.233540 O b'lemma[:1]:\xce\xb4'
517 --1.266754 Supp b'hGreek'
518 --1.301358 O b'-1:postag:VBG'
519 --1.514277 O b'-1:postag::'
520 --1.655597 OD b'postag[:1]:-'
521 --1.753063 O b'+1:lemma:in'
522 --1.852806 OD b'lemma[:1]:-'
523 --1.885226 O b'-1:lemma:2'
524 --1.959854 O b'+1:lemma:2'
525 --2.144976 O b'+1:lemma:1'
526 --3.787456 O b'-1:lemma::'
527 --4.714231 O b'-1:lemma:_'
528 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.279361962019874, 'c2': 0.0038200106679588276}
5 -best CV score:0.8186573824050531
6 -model size: 0.07M
7 -
8 -Flat F1: 0.8128691445699846
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 1.000 0.909 0.952 22
14 - Med 0.897 0.912 0.904 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.947 0.973 19
19 - Air 0.780 0.742 0.760 62
20 - Anti 1.000 0.889 0.941 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.918 0.849 0.882 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.835 0.669 0.743 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.869 0.773 0.813 480
28 -
29 -
30 -Top likely transitions:
31 -Agit -> Agit 7.239488
32 -OD -> OD 6.986110
33 -Temp -> Temp 6.018161
34 -Anti -> Anti 5.460406
35 -Med -> Med 5.405632
36 -Supp -> Supp 4.891085
37 -Air -> Air 4.827197
38 -Phase -> Phase 4.808148
39 -Gversion -> Gversion 4.563407
40 -Gtype -> Gtype 4.416717
41 -O -> O 3.914205
42 -Technique -> Technique 3.585291
43 -pH -> pH 2.066900
44 -O -> Supp 2.030835
45 -Gtype -> Supp 1.504335
46 -Air -> O 1.080882
47 -O -> Technique 0.833471
48 -O -> Gtype 0.713793
49 -O -> Anti 0.531693
50 -OD -> Phase 0.408195
51 -Substrain -> Gtype 0.381038
52 -O -> Gversion 0.245512
53 -O -> Temp 0.216347
54 -Med -> O 0.140439
55 -Supp -> O 0.136031
56 -Phase -> O 0.111016
57 -O -> Phase 0.102578
58 -O -> Med 0.027873
59 -Technique -> Air 0.004864
60 -Temp -> O 0.002877
61 -Phase -> Air 0.002070
62 -O -> OD -0.000053
63 -Air -> Temp -0.001109
64 -Technique -> pH -0.003137
65 -Anti -> O -0.004004
66 -OD -> Air -0.082107
67 -Supp -> Med -0.222493
68 -Gtype -> Anti -0.266509
69 -Phase -> OD -0.268963
70 -OD -> O -0.365524
71 -Gtype -> O -0.470283
72 -Supp -> Gtype -0.575625
73 -Agit -> O -0.740344
74 -O -> Air -0.754198
75 -Med -> Supp -0.916394
76 -Technique -> O -0.944892
77 -Substrain -> O -1.056452
78 -
79 -
80 -Top unlikely transitions:
81 -Agit -> Agit 7.239488
82 -OD -> OD 6.986110
83 -Temp -> Temp 6.018161
84 -Anti -> Anti 5.460406
85 -Med -> Med 5.405632
86 -Supp -> Supp 4.891085
87 -Air -> Air 4.827197
88 -Phase -> Phase 4.808148
89 -Gversion -> Gversion 4.563407
90 -Gtype -> Gtype 4.416717
91 -O -> O 3.914205
92 -Technique -> Technique 3.585291
93 -pH -> pH 2.066900
94 -O -> Supp 2.030835
95 -Gtype -> Supp 1.504335
96 -Air -> O 1.080882
97 -O -> Technique 0.833471
98 -O -> Gtype 0.713793
99 -O -> Anti 0.531693
100 -OD -> Phase 0.408195
101 -Substrain -> Gtype 0.381038
102 -O -> Gversion 0.245512
103 -O -> Temp 0.216347
104 -Med -> O 0.140439
105 -Supp -> O 0.136031
106 -Phase -> O 0.111016
107 -O -> Phase 0.102578
108 -O -> Med 0.027873
109 -Technique -> Air 0.004864
110 -Temp -> O 0.002877
111 -Phase -> Air 0.002070
112 -O -> OD -0.000053
113 -Air -> Temp -0.001109
114 -Technique -> pH -0.003137
115 -Anti -> O -0.004004
116 -OD -> Air -0.082107
117 -Supp -> Med -0.222493
118 -Gtype -> Anti -0.266509
119 -Phase -> OD -0.268963
120 -OD -> O -0.365524
121 -Gtype -> O -0.470283
122 -Supp -> Gtype -0.575625
123 -Agit -> O -0.740344
124 -O -> Air -0.754198
125 -Med -> Supp -0.916394
126 -Technique -> O -0.944892
127 -Substrain -> O -1.056452
128 -
129 -
130 -Top positive:
131 -8.966672 Technique b'lemma[:2]:Ch'
132 -6.588612 Phase b'lemma:stationary'
133 -5.718268 Air b'lemma:anaerobic'
134 -5.159572 O b'lemma[:2]:re'
135 -4.823035 O b'-1:lemma:tag'
136 -4.717845 Air b'lemma:aerobic'
137 -4.658070 Phase b'lemma:mid-log'
138 -4.421877 OD b'lemma[:2]:od'
139 -4.420602 Gtype b'lemma:arca8myc'
140 -4.062533 O b'lemma:1'
141 -4.062533 O b'lemma[:2]:1'
142 -3.912148 Gtype b'-1:lemma:\xe2\x88\x86'
143 -3.888418 Air b'-1:lemma:ChIP-Seq'
144 -3.848911 O b'lemma:rpob'
145 -3.769611 O b'lemma[:2]:ge'
146 -3.714984 Strain b'+1:lemma:substr'
147 -3.670004 Gtype b'lemma[:2]:fl'
148 -3.560689 O b'lemma:with'
149 -3.436525 O b'-1:lemma:ChIP-exo'
150 -3.429177 Supp b'lemma:arginine'
151 -3.425608 Technique b'lemma[:2]:rn'
152 -3.371645 Med b'+1:lemma:0.4'
153 -3.328846 Supp b'lemma:Iron'
154 -3.328846 Supp b'lemma[:2]:Ir'
155 -3.321795 Supp b'+1:lemma:1'
156 -3.310404 Supp b'+1:lemma:\xc2\xb5m'
157 -3.308999 Temp b'-1:lemma:sample'
158 -3.277763 Technique b'lemma:chipseq'
159 -3.240649 Gversion b'-1:lemma:nc'
160 -3.124383 Gtype b'lemma[:1]:\xce\xb4'
161 -3.090861 O b'-1:lemma:Aerobic'
162 -3.008868 O b'lemma:3'
163 -3.008868 O b'lemma[:2]:3'
164 -3.007173 O b'+1:lemma:pq'
165 -3.000180 O b'+1:lemma:od600'
166 -3.000100 Gtype b'lemma[:2]:cr'
167 -2.948508 OD b'+1:lemma:stationary'
168 -2.947897 O b'-1:lemma:0.3-0.35'
169 -2.947877 O b'lemma:2'
170 -2.947877 O b'lemma[:2]:2'
171 -2.932527 Gtype b'lemma:fnr8myc'
172 -2.885967 Supp b'lemma:fructose'
173 -2.838346 Temp b'lemma[:1]:3'
174 -2.804560 Supp b'+1:lemma:2'
175 -2.762138 Med b'lemma:MOPS'
176 -2.762138 Med b'lemma[:1]:M'
177 -2.762138 Med b'lemma[:2]:MO'
178 -2.737960 O b'-1:lemma:anaerobic'
179 -2.712644 Gtype b'lemma[:2]:de'
180 -2.710120 Anti b'+1:lemma:antibody'
181 -2.704453 Supp b'lemma[:2]:0.'
182 -2.695502 O b'-1:lemma:0.3'
183 -2.674794 O b'lemma:_'
184 -2.674794 O b'lemma[:1]:_'
185 -2.674794 O b'lemma[:2]:_'
186 -2.661858 Supp b'-1:lemma:Cra'
187 -2.648028 Anti b'lemma[:2]:an'
188 -2.616030 Supp b'lemma:nitrate'
189 -2.616030 Supp b'lemma[:2]:ni'
190 -2.599686 Technique b'-1:lemma:input'
191 -2.597924 Med b'lemma[:1]:L'
192 -2.576426 Gtype b'-1:lemma:rpob'
193 -2.565057 Gtype b'lemma:type'
194 -2.565057 Gtype b'lemma[:2]:ty'
195 -2.560359 pH b'lemma:ph5'
196 -2.560359 pH b'+1:lemma:.5'
197 -2.509084 O b'lemma:delta'
198 -2.478623 Gtype b'lemma[:1]:W'
199 -2.469353 O b'+1:postag:RB'
200 -2.432106 Gtype b'lemma:nsrr'
201 -2.432106 Gtype b'lemma[:2]:ns'
202 -2.399084 Temp b'-1:lemma:\xcf\x8332'
203 -2.385698 Gversion b'lemma:nc'
204 -2.385698 Gversion b'lemma[:2]:nc'
205 -2.368284 Supp b'lemma:rifampicin'
206 -2.366613 Gtype b'lemma:flag-tag'
207 -2.366613 Gtype b'-1:lemma:c-terminal'
208 -2.365159 O b'+1:lemma:sparging'
209 -2.361737 Gversion b'lemma[:2]:00'
210 -2.353117 Substrain b'lemma:mg1655'
211 -2.347459 O b'-1:lemma:lb'
212 -2.343081 Supp b'lemma[:2]:ri'
213 -2.304781 O b'lemma:b'
214 -2.304781 O b'lemma[:2]:b'
215 -2.284446 Gversion b'lemma:chip-seq'
216 -2.229948 Supp b'lemma:pq'
217 -2.229948 Supp b'lemma[:2]:pq'
218 -2.222205 Strain b'lemma:k-12'
219 -2.222205 Strain b'lemma[:2]:k-'
220 -2.167335 Supp b'lemma[:1]:I'
221 -2.161918 Gtype b'+1:lemma:flagtag'
222 -2.159386 Gversion b'lemma:asm584v2'
223 -2.144731 Gversion b'lemma[:2]:as'
224 -2.113656 Supp b'+1:lemma:_'
225 -2.112060 Supp b'lemma:acetate'
226 -2.090761 O b'lemma[:2]:fo'
227 -2.078514 O b'-1:lemma:glucose'
228 -2.068162 Air b'lemma[:2]:an'
229 -2.062479 Air b'lemma[:2]:ae'
230 -2.059001 Strain b'lemma[:1]:k'
231 -2.056638 Technique b'+1:lemma:chip-exo'
232 -2.052703 O b'-1:lemma:type'
233 -2.051285 O b'lemma:\xcf\x8332'
234 -2.051285 O b'lemma[:1]:\xcf\x83'
235 -2.051285 O b'lemma[:2]:\xcf\x833'
236 -2.050334 Vess b'lemma:flask'
237 -2.050334 Vess b'-1:lemma:warm'
238 -2.032344 Substrain b'lemma[:2]:mg'
239 -2.030892 Vess b'lemma[:2]:fl'
240 -2.027838 Air b'-1:lemma:-'
241 -2.024791 Air b'lemma[:1]:A'
242 -2.015955 Technique b'lemma[:2]:ch'
243 -2.002652 O b'lemma:a'
244 -2.002652 O b'lemma[:2]:a'
245 -1.996430 Substrain b'+1:lemma:phtpg'
246 -1.981067 Supp b'lemma[:1]:1'
247 -1.954710 pH b'+1:postag:CD'
248 -1.953189 Gtype b'lemma[:2]:ar'
249 -1.939301 Gtype b'hGreek'
250 -1.934603 Gtype b'-1:lemma:_'
251 -1.932040 Med b'+1:lemma:2.0'
252 -1.930878 O b'lemma:0.4'
253 -1.909748 Supp b'-1:lemma:+'
254 -1.867334 O b'+1:postag:NNP'
255 -1.854658 Supp b'+1:lemma:hour'
256 -1.852643 Supp b'lemma[:2]:gl'
257 -1.850156 Supp b'-1:lemma:with'
258 -1.841046 O b'postag:IN'
259 -1.841046 O b'postag[:1]:I'
260 -1.841046 O b'postag[:2]:IN'
261 -1.840736 Air b'lemma:Aerobic'
262 -1.840736 Air b'lemma[:2]:Ae'
263 -1.839093 O b'lemma[:1]:C'
264 -1.831912 Gtype b'+1:lemma::'
265 -1.810536 Med b'lemma:lb'
266 -1.810536 Med b'lemma[:2]:lb'
267 -1.802382 Gtype b'-1:lemma:vector'
268 -1.794761 Supp b'lemma[:1]:\xc2\xb5'
269 -1.793907 O b'lemma:Custom'
270 -1.793907 O b'lemma[:2]:Cu'
271 -1.710377 Anti b'lemma:none'
272 -1.695245 Air b'lemma[:1]:a'
273 -1.679966 Gtype b'+1:lemma:with'
274 -1.678353 O b'postag::'
275 -1.678353 O b'postag[:1]::'
276 -1.678353 O b'postag[:2]::'
277 -1.672503 O b'-1:lemma:l1'
278 -1.660511 O b'+1:lemma:nacl'
279 -1.634575 Gtype b'+1:lemma:type'
280 -1.633916 Air b'-1:lemma:co2'
281 -1.633212 Temp b'lemma:43'
282 -1.633212 Temp b'lemma[:2]:43'
283 -1.630422 Technique b'+1:lemma:rna-seq'
284 -1.627467 Supp b'lemma[:1]:2'
285 -1.617176 Med b'+1:lemma:g/l'
286 -1.591078 Temp b'-1:lemma:43'
287 -1.584703 Phase b'lemma:exponentially'
288 -1.580088 Gtype b'lemma[:1]:w'
289 -1.569142 Technique b'symb'
290 -1.544136 Med b'+1:lemma:minimal'
291 -1.543828 Gversion b'lemma:.2'
292 -1.543828 Gversion b'-1:lemma:u00096'
293 -1.543828 Gversion b'lemma[:2]:.2'
294 -1.539233 Technique b'-1:lemma:1'
295 -1.535225 Gtype b'-1:lemma:Combined'
296 -1.530825 O b'lemma[:1]:-'
297 -1.529855 Gtype b'lemma:wt'
298 -1.529855 Gtype b'lemma[:2]:wt'
299 -1.526054 Med b'lemma:broth'
300 -1.526054 Med b'-1:lemma:L'
301 -1.526054 Med b'lemma[:2]:br'
302 -1.523299 O b'lemma:chip'
303 -1.508452 Supp b'lemma:Fe'
304 -1.508452 Supp b'lemma[:2]:Fe'
305 -1.503882 O b'+1:lemma:mid-log'
306 -1.496251 Anti b'-1:lemma::'
307 -1.486906 Supp b'lemma[:2]:fe'
308 -1.470644 Anti b'lemma:anti-rpos'
309 -1.462451 Supp b'lemma:dpd'
310 -1.462451 Supp b'lemma[:2]:dp'
311 -1.460661 Med b'+1:lemma:-lrb-'
312 -1.458027 O b'lemma[:2]:in'
313 -1.451098 pH b'lemma:.5'
314 -1.451098 pH b'-1:lemma:ph5'
315 -1.451098 pH b'lemma[:2]:.5'
316 -1.446735 Med b'+1:postag:-LRB-'
317 -1.442566 O b'+1:lemma:ph5'
318 -1.438411 Supp b'lemma:no3'
319 -1.436805 Supp b'lemma:iptg'
320 -1.433263 O b'lemma:.'
321 -1.433263 O b'postag:.'
322 -1.433263 O b'postag[:1]:.'
323 -1.433263 O b'postag[:2]:.'
324 -1.433263 O b'lemma[:2]:.'
325 -1.423900 O b'-1:lemma:\xc2\xb0c'
326 -1.418739 Supp b'lemma:0.1'
327 -1.401196 O b'lemma:purr'
328 -1.384007 Med b'+1:lemma:contain'
329 -1.375436 Supp b'lemma:nh4cl'
330 -1.375436 Supp b'lemma[:2]:nh'
331 -
332 -
333 -Top negative:
334 --0.001541 O b'+1:lemma:mm'
335 --0.001854 Gtype b'postag[:1]:V'
336 --0.001854 Gtype b'postag[:2]:VB'
337 --0.001951 Med b'-1:postag:IN'
338 --0.002248 Air b'lemma:-rrb-'
339 --0.002552 O b'+1:lemma:phase'
340 --0.002974 O b'lemma[:2]:an'
341 --0.003066 OD b'postag[:1]:N'
342 --0.003066 OD b'postag[:2]:NN'
343 --0.003120 O b'lemma[:2]:de'
344 --0.004645 Supp b'lemma:2'
345 --0.004645 Supp b'lemma[:2]:2'
346 --0.004667 Med b'+1:postag:NNS'
347 --0.005354 O b'-1:lemma:from'
348 --0.006386 Temp b'postag:NN'
349 --0.006593 Air b'-1:postag:-LRB-'
350 --0.007131 Supp b'postag:NNS'
351 --0.007895 O b'-1:lemma:mid-log'
352 --0.011115 O b'+1:lemma:delta'
353 --0.011562 Agit b'-1:postag:NN'
354 --0.011701 Air b'-1:lemma:-lrb-'
355 --0.012537 Technique b'postag[:1]:N'
356 --0.012537 Technique b'postag[:2]:NN'
357 --0.013175 OD b'+1:postag:CC'
358 --0.013422 O b'-1:lemma:o2'
359 --0.014314 Air b'-1:lemma:aerobically'
360 --0.014690 OD b'+1:lemma:of'
361 --0.019165 Air b'lemma:and'
362 --0.019727 Air b'-1:lemma:and'
363 --0.020299 Gtype b'lemma[:1]:g'
364 --0.020563 O b'-1:lemma:mm'
365 --0.020740 O b'+1:lemma:shake'
366 --0.024009 Supp b'-1:lemma:for'
367 --0.028824 Phase b'-1:postag:NN'
368 --0.029809 Supp b'lemma[:1]:t'
369 --0.031578 Gtype b'lemma[:1]:,'
370 --0.032015 Gtype b'lemma:,'
371 --0.032015 Gtype b'postag:,'
372 --0.032015 Gtype b'postag[:1]:,'
373 --0.032015 Gtype b'postag[:2]:,'
374 --0.032015 Gtype b'lemma[:2]:,'
375 --0.032915 Gversion b'+1:postag:NN'
376 --0.035323 Air b'lemma[:1]:o'
377 --0.039237 O b'-1:postag:JJ'
378 --0.040153 Supp b'+1:postag:IN'
379 --0.043438 Supp b'hUpper'
380 --0.043438 Supp b'hLower'
381 --0.046431 O b'lemma[:1]:d'
382 --0.048385 O b'+1:lemma:co2'
383 --0.051633 Supp b'+1:lemma:rifampicin'
384 --0.053267 O b'+1:lemma:c'
385 --0.060706 O b'+1:lemma:until'
386 --0.062235 pH b'postag[:1]:N'
387 --0.062235 pH b'postag[:2]:NN'
388 --0.063097 O b'lemma[:2]:30'
389 --0.065359 Air b'-1:postag:RB'
390 --0.065508 O b'lemma:phase'
391 --0.071547 Agit b'postag[:1]:N'
392 --0.071547 Agit b'postag[:2]:NN'
393 --0.071659 O b'+1:lemma:or'
394 --0.072012 O b'+1:lemma:%'
395 --0.072345 Gtype b'-1:postag:NN'
396 --0.075128 Gtype b'-1:lemma:,'
397 --0.075128 Gtype b'-1:postag:,'
398 --0.076044 Supp b'-1:postag:NNP'
399 --0.076147 O b'-1:lemma:of'
400 --0.082454 O b'-1:lemma:IP'
401 --0.085284 Supp b'lemma[:1]:o'
402 --0.086193 O b'lemma[:2]:ce'
403 --0.091551 O b'lemma[:2]:fe'
404 --0.091759 O b'+1:lemma:+'
405 --0.095917 O b'lemma:co2'
406 --0.101416 O b'lemma:anaerobically'
407 --0.101520 Temp b'hGreek'
408 --0.111323 O b'lemma:37'
409 --0.111323 O b'lemma[:2]:37'
410 --0.114466 O b'-1:lemma:od600'
411 --0.114596 OD b'postag:CD'
412 --0.114596 OD b'postag[:2]:CD'
413 --0.117991 Air b'+1:postag:-LRB-'
414 --0.119139 O b'lemma[:2]:mg'
415 --0.122079 Air b'+1:lemma:-lrb-'
416 --0.123263 O b'-1:lemma:rna'
417 --0.128253 O b'-1:postag:VBN'
418 --0.135604 O b'+1:lemma:\xc2\xb0c'
419 --0.137855 Air b'symb'
420 --0.144842 Supp b'postag:CD'
421 --0.144842 Supp b'postag[:2]:CD'
422 --0.147096 Gtype b'+1:lemma:-rrb-'
423 --0.154114 Med b'postag:NN'
424 --0.155465 Phase b'postag:JJ'
425 --0.156939 Med b'+1:postag:IN'
426 --0.159442 O b'-1:lemma:rpob'
427 --0.159504 Air b'postag:CC'
428 --0.159504 Air b'postag[:2]:CC'
429 --0.165569 O b'lemma:anaerobic'
430 --0.169530 Air b'+1:postag:JJ'
431 --0.175033 Anti b'symb'
432 --0.207569 Technique b'-1:lemma::'
433 --0.211170 O b'-1:lemma:the'
434 --0.212648 Med b'postag[:1]:C'
435 --0.215967 O b'-1:lemma:grow'
436 --0.217662 Med b'+1:postag:NN'
437 --0.222008 Technique b'postag:NN'
438 --0.224207 O b'+1:lemma:-rrb-'
439 --0.227966 O b'lemma[:2]:od'
440 --0.234046 O b'-1:lemma:-lrb-'
441 --0.242892 Anti b'+1:lemma:anti-fur'
442 --0.243109 O b'lemma[:2]:me'
443 --0.257081 O b'lemma:of'
444 --0.257081 O b'lemma[:2]:of'
445 --0.276390 Phase b'-1:postag:JJ'
446 --0.293682 O b'lemma:wt'
447 --0.293682 O b'lemma[:2]:wt'
448 --0.295413 O b'+1:postag:IN'
449 --0.297541 OD b'+1:postag:CD'
450 --0.307394 O b'lemma[:2]:ae'
451 --0.307787 O b'-1:lemma:ml'
452 --0.308022 O b'lemma[:1]:p'
453 --0.312845 O b'-1:lemma:37'
454 --0.316240 Temp b'+1:lemma:to'
455 --0.316240 Temp b'+1:postag:TO'
456 --0.318530 Phase b'-1:lemma:at'
457 --0.325023 Agit b'symb'
458 --0.330260 O b'lemma:2h'
459 --0.330260 O b'-1:lemma:additional'
460 --0.330260 O b'lemma[:2]:2h'
461 --0.331312 Air b'postag[:1]:N'
462 --0.331312 Air b'postag[:2]:NN'
463 --0.335232 O b'postag:VBP'
464 --0.345145 Phase b'postag[:1]:J'
465 --0.345145 Phase b'postag[:2]:JJ'
466 --0.346773 O b'lemma[:2]:0.'
467 --0.347618 Air b'-1:postag:CC'
468 --0.356296 O b'-1:postag:-LRB-'
469 --0.358625 O b'+1:lemma:fecl2'
470 --0.364284 O b'+1:postag:-RRB-'
471 --0.380241 Med b'-1:postag:CD'
472 --0.399176 O b'+1:postag:VBG'
473 --0.399486 O b'lemma[:2]:gl'
474 --0.403156 O b'lemma:20'
475 --0.442379 O b'+1:lemma:cell'
476 --0.447923 Technique b'-1:postag::'
477 --0.457780 Med b'-1:postag:NN'
478 --0.460270 Supp b'+1:postag:VBN'
479 --0.472546 O b'lemma[:1]:L'
480 --0.491295 O b'-1:postag:IN'
481 --0.492050 O b'lemma[:2]:ri'
482 --0.496617 Supp b'postag[:1]:C'
483 --0.506785 O b'-1:lemma:ompr'
484 --0.527743 Supp b'postag:JJ'
485 --0.527772 Agit b'hUpper'
486 --0.527772 Agit b'hLower'
487 --0.536034 Air b'postag:NN'
488 --0.546321 Supp b'postag[:1]:J'
489 --0.546321 Supp b'postag[:2]:JJ'
490 --0.559301 Air b'-1:lemma:or'
491 --0.562023 Gtype b'lemma:delta'
492 --0.583547 O b'+1:lemma:.'
493 --0.583547 O b'+1:postag:.'
494 --0.587969 O b'lemma:mid-log'
495 --0.616736 O b'-1:lemma:cra'
496 --0.626025 Supp b'lemma[:1]:c'
497 --0.634232 Med b'symb'
498 --0.636392 Supp b'lemma[:2]:an'
499 --0.643020 O b'-1:lemma:nsrr'
500 --0.651532 O b'+1:postag:NNS'
501 --0.679804 Gtype b'lemma[:1]:m'
502 --0.686303 O b'lemma[:1]:0'
503 --0.688904 O b'+1:lemma:supplement'
504 --0.736464 Supp b'-1:lemma:%'
505 --0.766132 O b'+1:lemma:hour'
506 --0.767111 O b'lemma:rifampicin'
507 --0.796135 O b'+1:lemma:g/l'
508 --0.812830 O b'-1:lemma:co2'
509 --0.838937 Gtype b'lemma[:1]:c'
510 --0.841550 O b'-1:lemma:dissolve'
511 --0.841550 O b'+1:lemma:methanol'
512 --0.856382 O b'lemma:methanol'
513 --0.892060 Phase b'hUpper'
514 --0.892060 Phase b'hLower'
515 --0.975475 O b'+1:lemma:at'
516 --0.989308 O b'lemma[:1]:A'
517 --1.004723 Anti b'postag:NNP'
518 --1.018629 OD b'+1:postag:NN'
519 --1.026001 Air b'-1:postag:JJ'
520 --1.155732 O b'-1:postag:VBG'
521 --1.224739 Gtype b'lemma[:1]:a'
522 --1.278104 O b'-1:postag::'
523 --1.599751 Supp b'hGreek'
524 --1.606260 Supp b'symb'
525 --1.617602 O b'lemma[:1]:\xce\xb4'
526 --1.739815 OD b'postag[:1]:-'
527 --1.843942 O b'+1:lemma:in'
528 --1.945645 O b'+1:lemma:2'
529 --1.964299 OD b'lemma[:1]:-'
530 --2.043167 O b'-1:lemma:2'
531 --2.316510 O b'+1:lemma:1'
532 --4.221572 O b'-1:lemma::'
533 --4.721306 O b'-1:lemma:_'
534 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.2964346107181682, 'c2': 0.033092970074011845}
5 -best CV score:0.7978231610325259
6 -model size: 0.07M
7 -
8 -Flat F1: 0.8182231777447608
9 - precision recall f1-score support
10 -
11 - OD 0.769 0.400 0.526 25
12 - pH 1.000 1.000 1.000 12
13 - Technique 1.000 0.909 0.952 22
14 - Med 0.897 0.912 0.904 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.789 0.882 19
19 - Air 0.763 0.763 0.763 59
20 - Anti 0.875 0.778 0.824 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.810 0.833 0.821 102
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.879 0.740 0.803 127
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.854 0.794 0.818 452
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 6.341340
32 -Agit -> Agit 5.796664
33 -Med -> Med 5.137165
34 -Temp -> Temp 4.995762
35 -Anti -> Anti 4.990782
36 -Gtype -> Gtype 4.240477
37 -Gversion -> Gversion 4.225898
38 -Supp -> Supp 4.204534
39 -Air -> Air 3.999870
40 -Phase -> Phase 3.766897
41 -Technique -> Technique 3.408533
42 -O -> O 3.070414
43 -pH -> pH 2.382635
44 -O -> Supp 1.706269
45 -Gtype -> Supp 1.701317
46 -Phase -> Supp 1.187792
47 -Air -> Temp 1.062230
48 -O -> Gtype 1.028035
49 -O -> Technique 0.914562
50 -Vess -> Temp 0.909296
51 -Substrain -> Gtype 0.750526
52 -Air -> Phase 0.620936
53 -Med -> O 0.613845
54 -Temp -> Agit 0.571012
55 -Air -> Med 0.331698
56 -O -> Anti 0.318145
57 -O -> Gversion 0.070972
58 -Med -> Supp 0.067887
59 -Technique -> Air 0.035349
60 -Air -> O 0.020752
61 -Supp -> O 0.013814
62 -Supp -> Technique -0.037404
63 -Vess -> O -0.060438
64 -Gtype -> Phase -0.068194
65 -O -> Phase -0.091450
66 -OD -> O -0.114114
67 -Supp -> Gtype -0.122317
68 -Gtype -> OD -0.173122
69 -Anti -> O -0.230490
70 -Gtype -> Med -0.240559
71 -O -> Air -0.241130
72 -O -> Temp -0.243070
73 -Technique -> pH -0.267697
74 -Phase -> OD -0.299766
75 -Supp -> Med -0.355333
76 -Gversion -> O -0.394835
77 -OD -> Med -0.450024
78 -Gtype -> Anti -0.546414
79 -O -> Agit -0.704801
80 -Agit -> O -0.801535
81 -
82 -
83 -Top unlikely transitions:
84 -Temp -> Temp 4.995762
85 -Anti -> Anti 4.990782
86 -Gtype -> Gtype 4.240477
87 -Gversion -> Gversion 4.225898
88 -Supp -> Supp 4.204534
89 -Air -> Air 3.999870
90 -Phase -> Phase 3.766897
91 -Technique -> Technique 3.408533
92 -O -> O 3.070414
93 -pH -> pH 2.382635
94 -O -> Supp 1.706269
95 -Gtype -> Supp 1.701317
96 -Phase -> Supp 1.187792
97 -Air -> Temp 1.062230
98 -O -> Gtype 1.028035
99 -O -> Technique 0.914562
100 -Vess -> Temp 0.909296
101 -Substrain -> Gtype 0.750526
102 -Air -> Phase 0.620936
103 -Med -> O 0.613845
104 -Temp -> Agit 0.571012
105 -Air -> Med 0.331698
106 -O -> Anti 0.318145
107 -O -> Gversion 0.070972
108 -Med -> Supp 0.067887
109 -Technique -> Air 0.035349
110 -Air -> O 0.020752
111 -Supp -> O 0.013814
112 -Supp -> Technique -0.037404
113 -Vess -> O -0.060438
114 -Gtype -> Phase -0.068194
115 -O -> Phase -0.091450
116 -OD -> O -0.114114
117 -Supp -> Gtype -0.122317
118 -Gtype -> OD -0.173122
119 -Anti -> O -0.230490
120 -Gtype -> Med -0.240559
121 -O -> Air -0.241130
122 -O -> Temp -0.243070
123 -Technique -> pH -0.267697
124 -Phase -> OD -0.299766
125 -Supp -> Med -0.355333
126 -Gversion -> O -0.394835
127 -OD -> Med -0.450024
128 -Gtype -> Anti -0.546414
129 -O -> Agit -0.704801
130 -Agit -> O -0.801535
131 -Gtype -> O -0.877514
132 -Substrain -> O -0.942951
133 -Technique -> O -1.070076
134 -
135 -
136 -Top positive:
137 -5.560165 Technique b'lemma[:2]:Ch'
138 -3.867275 O b'lemma[:2]:re'
139 -3.624712 Air b'lemma:anaerobic'
140 -3.330563 Phase b'lemma:mid-log'
141 -3.251308 O b'-1:lemma:tag'
142 -3.248997 O b'+1:lemma:m63'
143 -3.228929 Gtype b'-1:lemma:\xe2\x88\x86'
144 -3.210040 O b'lemma:1'
145 -3.210040 O b'lemma[:2]:1'
146 -3.159131 OD b'lemma[:2]:od'
147 -3.135910 Gtype b'+1:lemma:flagtag'
148 -3.047581 Supp b'+1:lemma:\xc2\xb5m'
149 -2.949460 Med b'+1:lemma:0.4'
150 -2.916942 Air b'lemma:aerobic'
151 -2.901664 Gtype b'lemma[:1]:\xce\xb4'
152 -2.895390 Gtype b'lemma:arca8myc'
153 -2.891054 O b'+1:lemma:od600'
154 -2.884994 Gtype b'lemma[:2]:cr'
155 -2.868477 Phase b'lemma:stationary'
156 -2.758780 Supp b'lemma:Iron'
157 -2.758780 Supp b'lemma[:2]:Ir'
158 -2.751464 Supp b'+1:lemma:1'
159 -2.749032 Air b'lemma[:1]:a'
160 -2.739001 Air b'-1:lemma:ChIP-Seq'
161 -2.637207 Supp b'+1:lemma:2'
162 -2.611400 Anti b'+1:lemma:antibody'
163 -2.538029 Substrain b'lemma:mg1655'
164 -2.532452 O b'-1:lemma:ChIP-exo'
165 -2.530749 Gversion b'-1:lemma:nc'
166 -2.522114 O b'lemma:rpob'
167 -2.497323 O b'lemma:_'
168 -2.497323 O b'lemma[:1]:_'
169 -2.497323 O b'lemma[:2]:_'
170 -2.467576 O b'lemma:2'
171 -2.467576 O b'lemma[:2]:2'
172 -2.451387 Technique b'lemma[:2]:rn'
173 -2.450652 O b'lemma:c-terminal'
174 -2.450652 O b'+1:lemma:flag-tag'
175 -2.450652 O b'lemma[:2]:c-'
176 -2.442475 Gtype b'lemma[:2]:de'
177 -2.418091 O b'lemma:3'
178 -2.418091 O b'lemma[:2]:3'
179 -2.408360 OD b'+1:lemma:stationary'
180 -2.385694 Temp b'-1:lemma:sample'
181 -2.372903 Gtype b'-1:lemma:rpob'
182 -2.354163 Gtype b'lemma:type'
183 -2.354163 Gtype b'lemma[:2]:ty'
184 -2.346327 O b'lemma[:2]:ge'
185 -2.344928 Technique b'lemma:chipseq'
186 -2.307523 Gtype b'lemma[:1]:w'
187 -2.303430 Med b'lemma[:1]:L'
188 -2.301957 Technique b'lemma[:1]:C'
189 -2.289093 Supp b'lemma:arginine'
190 -2.273052 O b'-1:lemma:Aerobic'
191 -2.264869 Med b'+1:lemma:2.0'
192 -2.254065 O b'-1:lemma:anaerobic'
193 -2.249649 Gtype b'lemma[:1]:W'
194 -2.162423 Anti b'lemma[:2]:an'
195 -2.160242 Strain b'lemma:k-12'
196 -2.160242 Strain b'lemma[:2]:k-'
197 -2.144723 Supp b'lemma:acetate'
198 -2.129184 Gtype b'lemma:flag-tag'
199 -2.129184 Gtype b'-1:lemma:c-terminal'
200 -2.111214 Air b'lemma[:1]:A'
201 -2.098945 Gtype b'lemma:nsrr'
202 -2.098945 Gtype b'lemma[:2]:ns'
203 -2.095022 Supp b'-1:lemma:supplement'
204 -2.082819 O b'-1:lemma:fructose'
205 -2.076750 pH b'lemma:ph5'
206 -2.076750 pH b'+1:lemma:.5'
207 -2.072261 Temp b'-1:lemma:\xcf\x8332'
208 -2.065755 O b'lemma:b'
209 -2.065755 O b'lemma[:2]:b'
210 -2.065419 Gtype b'+1:lemma:type'
211 -2.051267 Air b'lemma[:2]:an'
212 -2.036209 Technique b'lemma[:2]:ch'
213 -2.031416 O b'+1:lemma:pq'
214 -2.016412 Temp b'lemma[:1]:3'
215 -2.004704 Supp b'+1:lemma:mid-log'
216 -1.984448 O b'-1:lemma:0.3-0.35'
217 -1.967808 Supp b'lemma[:2]:0.'
218 -1.947363 Supp b'lemma:nitrate'
219 -1.947363 Supp b'lemma[:2]:ni'
220 -1.937420 Gversion b'lemma:chip-seq'
221 -1.913900 Gversion b'lemma:nc'
222 -1.913900 Gversion b'lemma[:2]:nc'
223 -1.912878 O b'lemma:0.4'
224 -1.907802 Strain b'+1:lemma:substr'
225 -1.897924 Air b'lemma[:2]:ae'
226 -1.871109 Phase b'-1:lemma:mid-log'
227 -1.845125 Air b'lemma:Aerobic'
228 -1.845125 Air b'lemma[:2]:Ae'
229 -1.827855 Supp b'-1:lemma:Cra'
230 -1.824332 Supp b'lemma:Fe'
231 -1.824332 Supp b'lemma[:2]:Fe'
232 -1.824175 Supp b'lemma:pq'
233 -1.824175 Supp b'lemma[:2]:pq'
234 -1.809404 Supp b'+1:lemma:_'
235 -1.808766 OD b'lemma[:1]:o'
236 -1.806302 Med b'isUpper'
237 -1.798647 Gtype b'lemma[:2]:fl'
238 -1.798534 Supp b'lemma[:2]:gl'
239 -1.795820 O b'lemma:Custom'
240 -1.795820 O b'lemma[:2]:Cu'
241 -1.790374 Air b'+1:lemma:37'
242 -1.790074 Gversion b'lemma[:2]:00'
243 -1.785485 Supp b'lemma[:2]:fe'
244 -1.780403 O b'+1:postag:RB'
245 -1.756454 Supp b'lemma:iptg'
246 -1.735997 Supp b'lemma[:1]:I'
247 -1.733781 Gtype b'lemma:fnr8myc'
248 -1.728269 Gversion b'lemma:asm584v2'
249 -1.728269 Gversion b'lemma[:2]:as'
250 -1.720876 Supp b'+1:lemma:hour'
251 -1.715461 Temp b'-1:lemma:37'
252 -1.694020 Substrain b'lemma[:2]:mg'
253 -1.689985 Strain b'lemma[:1]:k'
254 -1.673566 O b'postag::'
255 -1.673566 O b'postag[:1]::'
256 -1.673566 O b'postag[:2]::'
257 -1.669711 Supp b'lemma[:1]:2'
258 -1.661627 O b'+1:postag:VBD'
259 -1.659863 Vess b'lemma:flask'
260 -1.659863 Vess b'-1:lemma:warm'
261 -1.656423 Gtype b'lemma[:2]:ar'
262 -1.655250 Supp b'lemma[:1]:1'
263 -1.654055 Med b'lemma[:1]:m'
264 -1.646225 Med b'lemma:MOPS'
265 -1.646225 Med b'lemma[:1]:M'
266 -1.646225 Med b'lemma[:2]:MO'
267 -1.643933 Vess b'lemma[:2]:fl'
268 -1.636408 O b'-1:lemma:medium'
269 -1.620415 O b'postag[:1]:V'
270 -1.620415 O b'postag[:2]:VB'
271 -1.611470 Supp b'lemma:fructose'
272 -1.588047 Temp b'+1:lemma:\xc2\xb0c'
273 -1.571785 Technique b'symb'
274 -1.567665 Supp b'lemma:dpd'
275 -1.567665 Supp b'lemma[:2]:dp'
276 -1.561904 Gtype b'+1:lemma:_'
277 -1.558404 O b'+1:lemma:grow'
278 -1.556080 Technique b'-1:lemma:input'
279 -1.531102 Gtype b'+1:lemma::'
280 -1.516656 O b'isNumber'
281 -1.513499 Technique b'+1:lemma:chip-exo'
282 -1.484457 pH b'+1:postag:CD'
283 -1.479000 Gtype b'lemma[:2]:wi'
284 -1.463363 O b'+1:lemma:sparging'
285 -1.455056 Med b'+1:lemma:supplement'
286 -1.451942 Anti b'-1:lemma::'
287 -1.445199 Gtype b'+1:postag::'
288 -1.418029 Gtype b'-1:lemma:_'
289 -1.414884 Gtype b'hGreek'
290 -1.409332 Supp b'lemma[:2]:ac'
291 -1.384832 Med b'lemma:lb'
292 -1.384832 Med b'lemma[:2]:lb'
293 -1.381767 Gtype b'lemma:wt'
294 -1.381767 Gtype b'lemma[:2]:wt'
295 -1.376804 O b'isLower'
296 -1.370539 O b'-1:lemma:wt'
297 -1.369037 Supp b'-1:lemma:media'
298 -1.368164 O b'lemma:chip'
299 -1.362593 Temp b'-1:lemma:43'
300 -1.357457 O b'lemma:.'
301 -1.357457 O b'postag:.'
302 -1.357457 O b'postag[:1]:.'
303 -1.357457 O b'postag[:2]:.'
304 -1.357457 O b'lemma[:2]:.'
305 -1.343506 Gtype b'-1:lemma:vector'
306 -1.332982 Gtype b'lemma:pk4854'
307 -1.332982 Gtype b'lemma[:2]:pk'
308 -1.331836 O b'-1:lemma:antibody'
309 -1.322840 Gtype b'lemma[:1]:f'
310 -1.319451 Gtype b'-1:lemma:dna'
311 -1.319338 Med b'+1:lemma:g/l'
312 -1.314272 O b'lemma:\xcf\x8332'
313 -1.314272 O b'lemma[:1]:\xcf\x83'
314 -1.314272 O b'lemma[:2]:\xcf\x833'
315 -1.313977 Technique b'-1:lemma:chip-exo'
316 -1.307181 O b'-1:lemma:mg/ml'
317 -1.305428 Supp b'-1:lemma:+'
318 -1.296639 O b'lemma:purr'
319 -1.293394 Supp b'-1:lemma:0.2'
320 -1.292494 O b'-1:lemma:l1'
321 -1.282743 Supp b'lemma[:2]:fr'
322 -1.274232 Supp b'lemma:rifampicin'
323 -1.268226 Air b'+1:lemma:L'
324 -1.266974 Supp b'lemma:nh4cl'
325 -1.266974 Supp b'lemma[:2]:nh'
326 -1.264907 Supp b'lemma[:2]:ri'
327 -1.262307 Supp b'-1:postag:CD'
328 -1.260796 O b'+1:lemma:acetate'
329 -1.259575 OD b'lemma[:2]:0.'
330 -1.259142 Technique b'-1:lemma:_'
331 -1.246498 Gversion b'postag:NN'
332 -1.244033 Gtype b'symb'
333 -1.240305 Supp b'lemma[:2]:ip'
334 -1.236703 Temp b'lemma:43'
335 -1.236703 Temp b'lemma[:2]:43'
336 -1.228007 Gtype b'+1:lemma:control'
337 -
338 -
339 -Top negative:
340 --0.001047 O b'+1:lemma:0.4'
341 --0.001061 Supp b'postag[:1]:C'
342 --0.001343 O b'lemma[:2]:co'
343 --0.001801 Phase b'+1:postag:NN'
344 --0.001816 Supp b'lemma[:1]:r'
345 --0.003273 Supp b'+1:lemma:-rrb-'
346 --0.004514 Agit b'isUpper'
347 --0.005651 Supp b'+1:postag:-RRB-'
348 --0.007968 O b'lemma[:2]:0.'
349 --0.008508 Air b'isUpper'
350 --0.008563 Supp b'-1:postag::'
351 --0.008695 Air b'postag:-RRB-'
352 --0.008695 Air b'postag[:2]:-R'
353 --0.008695 Air b'lemma[:2]:-r'
354 --0.009571 OD b'hUpper'
355 --0.009571 OD b'hLower'
356 --0.011349 Supp b'hUpper'
357 --0.011349 Supp b'hLower'
358 --0.011606 O b'-1:postag:JJ'
359 --0.011683 pH b'postag[:1]:N'
360 --0.011683 pH b'postag[:2]:NN'
361 --0.012286 Supp b'isNumber'
362 --0.014704 Air b'lemma:-rrb-'
363 --0.017854 O b'-1:lemma:control'
364 --0.021700 Med b'postag:NN'
365 --0.024044 O b'lemma:sample'
366 --0.026147 Supp b'postag:CD'
367 --0.026147 Supp b'postag[:2]:CD'
368 --0.028829 Air b'-1:postag:RB'
369 --0.029219 Gtype b'lemma[:1]:n'
370 --0.031150 Agit b'symb'
371 --0.031420 O b'-1:postag:VBN'
372 --0.031634 Air b'lemma[:1]:n'
373 --0.032172 O b'+1:lemma:rep1'
374 --0.032713 O b'+1:postag:JJ'
375 --0.033674 OD b'postag:CD'
376 --0.033674 OD b'postag[:2]:CD'
377 --0.033755 OD b'postag[:1]:N'
378 --0.033755 OD b'postag[:2]:NN'
379 --0.035292 Air b'+1:lemma:anaerobically'
380 --0.038458 Temp b'postag:NN'
381 --0.040319 Supp b'-1:lemma:%'
382 --0.041803 Temp b'hGreek'
383 --0.050279 Med b'-1:lemma:lb'
384 --0.052295 O b'-1:lemma:ml'
385 --0.053032 O b'+1:lemma:sample'
386 --0.061146 Gtype b'lemma[:1]:m'
387 --0.063531 Vess b'hUpper'
388 --0.063531 Vess b'hLower'
389 --0.067513 Supp b'isLower'
390 --0.080308 Temp b'postag[:1]:N'
391 --0.080308 Temp b'postag[:2]:NN'
392 --0.082384 Supp b'isUpper'
393 --0.086496 Supp b'+1:lemma:acetate'
394 --0.089008 O b'lemma[:2]:30'
395 --0.093208 O b'lemma[:2]:fe'
396 --0.093816 O b'lemma[:1]:m'
397 --0.096992 O b'lemma[:1]:d'
398 --0.099835 Gtype b'+1:lemma:-rrb-'
399 --0.103697 O b'lemma[:2]:od'
400 --0.106617 Anti b'symb'
401 --0.111217 Phase b'postag:JJ'
402 --0.111217 Phase b'postag[:1]:J'
403 --0.111217 Phase b'postag[:2]:JJ'
404 --0.115123 Gversion b'+1:postag:NN'
405 --0.120980 Air b'-1:postag:-RRB-'
406 --0.124184 Gtype b'lemma[:2]:rp'
407 --0.124385 Air b'-1:lemma:-rrb-'
408 --0.134523 O b'lemma:phase'
409 --0.137832 Air b'isLower'
410 --0.138018 O b'-1:postag:RB'
411 --0.142066 Anti b'+1:lemma:anti-fur'
412 --0.154765 O b'+1:lemma:hour'
413 --0.162942 O b'lemma[:1]:n'
414 --0.164561 O b'lemma:20'
415 --0.167133 OD b'postag[:1]:C'
416 --0.167374 O b'lemma:2h'
417 --0.167374 O b'-1:lemma:additional'
418 --0.167374 O b'lemma[:2]:2h'
419 --0.168348 OD b'isLower'
420 --0.175723 O b'-1:lemma:stir'
421 --0.176493 O b'+1:lemma:0.3'
422 --0.176731 O b'+1:lemma:culture'
423 --0.176925 O b'-1:lemma:dna'
424 --0.178939 O b'+1:lemma:delta'
425 --0.190332 Air b'symb'
426 --0.197832 Anti b'+1:postag:JJ'
427 --0.203484 Supp b'lemma[:2]:mi'
428 --0.206368 Air b'postag[:1]:N'
429 --0.206368 Air b'postag[:2]:NN'
430 --0.207030 Gtype b'-1:lemma:,'
431 --0.207030 Gtype b'-1:postag:,'
432 --0.209582 O b'-1:lemma:IP'
433 --0.213265 Gtype b'+1:lemma:\xe2\x88\x86'
434 --0.215249 Gtype b'-1:lemma:mg1655'
435 --0.217685 O b'lemma:fecl2'
436 --0.220159 O b'+1:lemma:-rrb-'
437 --0.220935 Gtype b'-1:postag:NN'
438 --0.227404 Technique b'postag:NN'
439 --0.230401 Technique b'-1:lemma::'
440 --0.232009 Air b'lemma:aerobically'
441 --0.236029 O b'+1:lemma:phase'
442 --0.238310 O b'lemma:wt'
443 --0.238310 O b'lemma[:2]:wt'
444 --0.243118 Temp b'-1:postag:NN'
445 --0.244383 O b'lemma[:2]:ph'
446 --0.246532 O b'-1:lemma:-lrb-'
447 --0.249897 O b'-1:lemma:37'
448 --0.254341 O b'lemma[:1]:L'
449 --0.257191 Gtype b'-1:postag:SYM'
450 --0.263503 O b'lemma[:2]:di'
451 --0.264603 O b'lemma[:1]:w'
452 --0.264928 O b'-1:lemma:grow'
453 --0.265388 O b'+1:lemma:antibody'
454 --0.273738 O b'lemma[:2]:ce'
455 --0.277706 O b'lemma[:1]:k'
456 --0.279240 O b'lemma[:1]:4'
457 --0.290259 Supp b'postag:JJ'
458 --0.290259 Supp b'postag[:1]:J'
459 --0.290259 Supp b'postag[:2]:JJ'
460 --0.292361 O b'-1:lemma:rna'
461 --0.304576 Technique b'isUpper'
462 --0.307541 Technique b'isLower'
463 --0.310027 O b'lemma[:2]:me'
464 --0.339328 O b'-1:lemma:ompr'
465 --0.339987 O b'-1:postag:-LRB-'
466 --0.345773 O b'lemma:150'
467 --0.345773 O b'-1:lemma:concentration'
468 --0.345773 O b'+1:lemma:mg/ml'
469 --0.345773 O b'lemma[:2]:15'
470 --0.347446 Med b'-1:postag:NN'
471 --0.348906 Supp b'lemma:2'
472 --0.348906 Supp b'lemma[:2]:2'
473 --0.351429 Air b'+1:lemma:-lrb-'
474 --0.352484 Air b'+1:postag:-LRB-'
475 --0.353556 O b'-1:lemma:cra'
476 --0.356329 Supp b'+1:lemma:dpd'
477 --0.369302 Agit b'hUpper'
478 --0.369302 Agit b'hLower'
479 --0.381952 Technique b'-1:postag::'
480 --0.384746 O b'-1:lemma:rifampicin'
481 --0.399014 O b'lemma:cell'
482 --0.402687 O b'+1:lemma:dissolve'
483 --0.409688 Gtype b'isNumber'
484 --0.436191 O b'lemma[:2]:gl'
485 --0.440734 O b'+1:lemma:cell'
486 --0.442622 O b'+1:postag:NNS'
487 --0.452887 O b'lemma[:1]:p'
488 --0.455834 O b'+1:lemma:.'
489 --0.455834 O b'+1:postag:.'
490 --0.459545 O b'lemma[:2]:mg'
491 --0.481182 Air b'-1:postag:JJ'
492 --0.482835 OD b'+1:postag:NN'
493 --0.494269 Air b'postag:NN'
494 --0.509176 O b'+1:postag:-RRB-'
495 --0.510299 Anti b'postag:NNP'
496 --0.510777 Air b'+1:postag:RB'
497 --0.521353 Gtype b'lemma[:1]:g'
498 --0.528030 O b'lemma:dissolve'
499 --0.528030 O b'+1:lemma:methanol'
500 --0.544300 Med b'-1:postag:VBN'
501 --0.544878 O b'lemma:mid-log'
502 --0.558725 Med b'+1:postag:NN'
503 --0.565193 O b'lemma[:1]:0'
504 --0.574181 OD b'+1:postag:CD'
505 --0.594752 Supp b'-1:lemma:glucose'
506 --0.616524 O b'-1:lemma:sample'
507 --0.632529 Phase b'hUpper'
508 --0.632529 Phase b'hLower'
509 --0.635261 Gtype b'lemma:delta'
510 --0.674300 O b'lemma:methanol'
511 --0.674300 O b'-1:lemma:dissolve'
512 --0.705737 Med b'-1:postag:CD'
513 --0.728901 O b'+1:lemma:supplement'
514 --0.740907 O b'lemma[:2]:ri'
515 --0.792014 Phase b'-1:postag:NN'
516 --0.804108 O b'lemma[:1]:A'
517 --0.910559 OD b'isNumber'
518 --0.914108 O b'+1:lemma:g/l'
519 --0.932717 O b'lemma:rifampicin'
520 --0.954851 O b'-1:lemma:supplement'
521 --0.966998 Gtype b'lemma[:1]:a'
522 --0.969405 Supp b'lemma[:1]:c'
523 --1.019136 O b'lemma[:1]:\xce\xb4'
524 --1.110821 Med b'symb'
525 --1.170611 Gversion b'isLower'
526 --1.220694 Gtype b'lemma[:1]:c'
527 --1.221441 Gtype b'isUpper'
528 --1.282188 O b'+1:postag:VBG'
529 --1.331537 OD b'postag[:1]:-'
530 --1.377314 Supp b'symb'
531 --1.414732 Supp b'hGreek'
532 --1.450462 OD b'lemma[:1]:-'
533 --1.661998 O b'-1:lemma:2'
534 --1.785964 O b'+1:lemma:2'
535 --1.952351 O b'-1:postag::'
536 --1.971208 O b'+1:lemma:1'
537 --2.697878 O b'-1:lemma::'
538 --2.771750 O b'-1:postag:VBG'
539 --4.091719 O b'-1:lemma:_'
540 -
1 -********** TRAINING AND TESTING REPORT **********
2 -Training file: training-data-set-70_v4.txt
3 -
4 -best params:{'c1': 0.27193776724339846, 'c2': 0.057295268767110843}
5 -best CV score:0.8163630580002407
6 -model size: 0.08M
7 -
8 -Flat F1: 0.8109731224696033
9 - precision recall f1-score support
10 -
11 - OD 0.789 0.405 0.536 37
12 - pH 1.000 1.000 1.000 12
13 - Technique 1.000 0.909 0.952 22
14 - Med 0.897 0.912 0.904 57
15 - Temp 0.818 1.000 0.900 18
16 - Vess 0.000 0.000 0.000 0
17 - Agit 0.000 0.000 0.000 0
18 - Phase 1.000 0.895 0.944 19
19 - Air 0.807 0.742 0.773 62
20 - Anti 0.800 0.889 0.842 9
21 - Strain 1.000 1.000 1.000 1
22 - Gtype 0.896 0.811 0.851 106
23 - Substrain 0.000 0.000 0.000 1
24 - Supp 0.835 0.706 0.765 136
25 - Gversion 0.000 0.000 0.000 0
26 -
27 -avg / total 0.864 0.773 0.811 480
28 -
29 -
30 -Top likely transitions:
31 -OD -> OD 6.289427
32 -Agit -> Agit 6.267353
33 -Temp -> Temp 5.783774
34 -Air -> Air 5.351944
35 -Med -> Med 5.160137
36 -Anti -> Anti 4.729843
37 -Gversion -> Gversion 4.256435
38 -Gtype -> Gtype 4.229740
39 -Supp -> Supp 4.114596
40 -Phase -> Phase 4.079539
41 -Technique -> Technique 3.363448
42 -O -> O 3.125273
43 -pH -> pH 2.487113
44 -O -> Supp 1.331978
45 -Air -> O 1.197935
46 -Substrain -> Gtype 0.867656
47 -O -> Technique 0.848943
48 -Gtype -> Supp 0.842999
49 -O -> Gtype 0.806504
50 -Med -> O 0.277505
51 -OD -> Phase 0.274387
52 -Technique -> Air 0.254899
53 -Gtype -> Air 0.194030
54 -O -> Anti 0.155845
55 -Temp -> O 0.076714
56 -O -> Temp 0.055684
57 -O -> Gversion 0.011422
58 -Phase -> Technique -0.000422
59 -O -> Med -0.114582
60 -Supp -> Technique -0.122463
61 -Phase -> OD -0.142889
62 -Supp -> O -0.146822
63 -O -> Phase -0.168062
64 -O -> OD -0.179767
65 -OD -> Gtype -0.206495
66 -Supp -> Gtype -0.284656
67 -Gtype -> Med -0.297248
68 -Gtype -> OD -0.310283
69 -Technique -> OD -0.344965
70 -OD -> Air -0.364197
71 -Anti -> O -0.368065
72 -Technique -> pH -0.470302
73 -Gversion -> O -0.499305
74 -Supp -> Med -0.541780
75 -Gtype -> Anti -0.621750
76 -OD -> O -0.828115
77 -O -> Air -0.867377
78 -Med -> Supp -0.872960
79 -Gtype -> O -0.956730
80 -Substrain -> O -1.072085
81 -
82 -
83 -Top unlikely transitions:
84 -Temp -> Temp 5.783774
85 -Air -> Air 5.351944
86 -Med -> Med 5.160137
87 -Anti -> Anti 4.729843
88 -Gversion -> Gversion 4.256435
89 -Gtype -> Gtype 4.229740
90 -Supp -> Supp 4.114596
91 -Phase -> Phase 4.079539
92 -Technique -> Technique 3.363448
93 -O -> O 3.125273
94 -pH -> pH 2.487113
95 -O -> Supp 1.331978
96 -Air -> O 1.197935
97 -Substrain -> Gtype 0.867656
98 -O -> Technique 0.848943
99 -Gtype -> Supp 0.842999
100 -O -> Gtype 0.806504
101 -Med -> O 0.277505
102 -OD -> Phase 0.274387
103 -Technique -> Air 0.254899
104 -Gtype -> Air 0.194030
105 -O -> Anti 0.155845
106 -Temp -> O 0.076714
107 -O -> Temp 0.055684
108 -O -> Gversion 0.011422
109 -Phase -> Technique -0.000422
110 -O -> Med -0.114582
111 -Supp -> Technique -0.122463
112 -Phase -> OD -0.142889
113 -Supp -> O -0.146822
114 -O -> Phase -0.168062
115 -O -> OD -0.179767
116 -OD -> Gtype -0.206495
117 -Supp -> Gtype -0.284656
118 -Gtype -> Med -0.297248
119 -Gtype -> OD -0.310283
120 -Technique -> OD -0.344965
121 -OD -> Air -0.364197
122 -Anti -> O -0.368065
123 -Technique -> pH -0.470302
124 -Gversion -> O -0.499305
125 -Supp -> Med -0.541780
126 -Gtype -> Anti -0.621750
127 -OD -> O -0.828115
128 -O -> Air -0.867377
129 -Med -> Supp -0.872960
130 -Gtype -> O -0.956730
131 -Substrain -> O -1.072085
132 -Agit -> O -1.092872
133 -Technique -> O -1.136884
134 -
135 -
136 -Top positive:
137 -4.371447 Technique b'lemma[:2]:Ch'
138 -3.412737 O b'lemma[:2]:re'
139 -3.346233 Air b'lemma:anaerobic'
140 -3.006455 O b'lemma:1'
141 -3.006455 O b'lemma[:2]:1'
142 -2.974851 Gtype b'lemma[:1]:\xce\xb4'
143 -2.912775 Gtype b'lemma:arca8myc'
144 -2.849140 Supp b'+1:lemma:\xc2\xb5m'
145 -2.828513 Phase b'lemma:mid-log'
146 -2.792393 O b'lemma:_'
147 -2.792393 O b'lemma[:1]:_'
148 -2.792393 O b'lemma[:2]:_'
149 -2.775899 Gtype b'-1:lemma:\xe2\x88\x86'
150 -2.625937 Air b'-1:lemma:ChIP-Seq'
151 -2.548311 Phase b'lemma:stationary'
152 -2.540916 Supp b'+1:lemma:1'
153 -2.487761 Supp b'+1:lemma:2'
154 -2.442931 Air b'lemma:aerobic'
155 -2.440190 O b'lemma[:2]:ge'
156 -2.435018 Gtype b'lemma[:2]:fl'
157 -2.424212 O b'-1:lemma:tag'
158 -2.408234 Supp b'lemma:Iron'
159 -2.408234 Supp b'lemma[:2]:Ir'
160 -2.348537 Technique b'lemma[:1]:C'
161 -2.317292 O b'lemma:2'
162 -2.317292 O b'lemma[:2]:2'
163 -2.308110 OD b'lemma[:2]:od'
164 -2.302326 Gtype b'lemma:type'
165 -2.302326 Gtype b'lemma[:2]:ty'
166 -2.269875 Supp b'lemma:nitrate'
167 -2.269875 Supp b'lemma[:2]:ni'
168 -2.232923 O b'-1:lemma:ChIP-exo'
169 -2.212341 Air b'lemma[:2]:an'
170 -2.211030 Air b'lemma[:2]:ae'
171 -2.210563 Med b'+1:lemma:0.4'
172 -2.190483 O b'lemma:3'
173 -2.190483 O b'lemma[:2]:3'
174 -2.182751 O b'+1:lemma:pq'
175 -2.164071 Anti b'lemma[:2]:an'
176 -2.150488 O b'lemma:rpob'
177 -2.116867 Gtype b'lemma:flag-tag'
178 -2.116867 Gtype b'-1:lemma:c-terminal'
179 -2.113845 Technique b'lemma:chipseq'
180 -2.106619 O b'+1:lemma:od600'
181 -2.103057 Anti b'+1:lemma:antibody'
182 -2.102593 O b'lemma:with'
183 -2.082800 O b'+1:postag:RB'
184 -2.080780 Supp b'lemma:pq'
185 -2.080780 Supp b'lemma[:2]:pq'
186 -2.074963 Technique b'lemma[:2]:rn'
187 -2.067178 Gtype b'lemma[:2]:cr'
188 -2.064575 Med b'lemma[:1]:L'
189 -2.061976 Supp b'lemma:arginine'
190 -2.026279 Supp b'-1:lemma:Cra'
191 -2.019223 Supp b'lemma:fructose'
192 -1.992770 Gversion b'lemma:nc'
193 -1.992770 Gversion b'lemma[:2]:nc'
194 -1.980198 O b'lemma:0.4'
195 -1.979285 Gtype b'lemma[:2]:de'
196 -1.970609 O b'isLower'
197 -1.937619 Strain b'lemma:k-12'
198 -1.937619 Strain b'lemma[:2]:k-'
199 -1.931122 O b'-1:lemma:0.3-0.35'
200 -1.881593 Supp b'-1:lemma:with'
201 -1.875598 Gtype b'lemma:nsrr'
202 -1.875598 Gtype b'lemma[:2]:ns'
203 -1.852069 Technique b'lemma[:2]:ch'
204 -1.836687 pH b'lemma:ph5'
205 -1.836687 pH b'+1:lemma:.5'
206 -1.832664 Gtype b'lemma[:2]:ar'
207 -1.831556 Air b'lemma[:1]:A'
208 -1.826833 Temp b'lemma[:1]:3'
209 -1.823899 Substrain b'lemma:mg1655'
210 -1.820738 Gversion b'-1:lemma:nc'
211 -1.820497 O b'postag::'
212 -1.820497 O b'postag[:1]::'
213 -1.820497 O b'postag[:2]::'
214 -1.813703 O b'-1:lemma:Aerobic'
215 -1.796031 Gtype b'lemma[:1]:w'
216 -1.792963 O b'postag:IN'
217 -1.792963 O b'postag[:1]:I'
218 -1.792963 O b'postag[:2]:IN'
219 -1.783756 Gtype b'lemma:wt'
220 -1.783756 Gtype b'lemma[:2]:wt'
221 -1.779970 Gtype b'lemma[:1]:W'
222 -1.766922 Air b'lemma:Aerobic'
223 -1.766922 Air b'lemma[:2]:Ae'
224 -1.762347 Strain b'lemma[:1]:k'
225 -1.759570 Technique b'symb'
226 -1.750706 Gversion b'lemma[:2]:00'
227 -1.749953 Gtype b'-1:lemma:_'
228 -1.737043 Substrain b'lemma[:2]:mg'
229 -1.733603 O b'-1:lemma:anaerobic'
230 -1.709162 Gversion b'lemma:chip-seq'
231 -1.701695 Temp b'-1:lemma:sample'
232 -1.688968 Gtype b'+1:lemma:with'
233 -1.684459 O b'-1:lemma:lb'
234 -1.661522 Supp b'-1:postag:CC'
235 -1.650389 O b'lemma:b'
236 -1.650389 O b'lemma[:2]:b'
237 -1.646363 O b'-1:lemma:0.3'
238 -1.639941 Gtype b'+1:lemma:type'
239 -1.637375 Air b'-1:lemma:co2'
240 -1.636378 Med b'lemma:lb'
241 -1.636378 Med b'lemma[:2]:lb'
242 -1.622025 Vess b'lemma[:2]:fl'
243 -1.617013 O b'-1:lemma:glucose'
244 -1.592815 Med b'isUpper'
245 -1.589934 Supp b'lemma:rifampicin'
246 -1.589786 O b'lemma:a'
247 -1.589786 O b'lemma[:2]:a'
248 -1.586603 O b'+1:lemma:nacl'
249 -1.583003 Supp b'lemma[:1]:I'
250 -1.580604 Supp b'lemma[:2]:gl'
251 -1.576478 Supp b'lemma[:2]:ri'
252 -1.566704 Vess b'lemma:flask'
253 -1.566704 Vess b'-1:lemma:warm'
254 -1.563672 O b'-1:lemma:l1'
255 -1.557695 Med b'lemma:MOPS'
256 -1.557695 Med b'lemma[:1]:M'
257 -1.557695 Med b'lemma[:2]:MO'
258 -1.555428 O b'+1:postag:NNP'
259 -1.545733 Gtype b'hGreek'
260 -1.540517 Supp b'+1:lemma:_'
261 -1.532630 Strain b'+1:lemma:substr'
262 -1.524978 Phase b'-1:lemma:mid-log'
263 -1.523410 O b'lemma:Custom'
264 -1.523410 O b'lemma[:2]:Cu'
265 -1.506527 Supp b'lemma[:2]:0.'
266 -1.493748 Med b'+1:lemma:2.0'
267 -1.489084 Gtype b'-1:lemma:rpob'
268 -1.468114 Technique b'lemma:ChIP-exo'
269 -1.462941 Vess b'-1:postag:VBN'
270 -1.460306 Supp b'-1:postag:CD'
271 -1.447232 Gversion b'lemma:asm584v2'
272 -1.442845 Gversion b'lemma[:2]:as'
273 -1.436821 Supp b'lemma[:1]:n'
274 -1.435640 Temp b'lemma:43'
275 -1.435640 Temp b'lemma[:2]:43'
276 -1.430453 Gtype b'lemma:fnr8myc'
277 -1.423051 Temp b'-1:lemma:43'
278 -1.422224 O b'+1:lemma:ph5'
279 -1.419624 Supp b'lemma:acetate'
280 -1.403936 Med b'lemma[:1]:m'
281 -1.397641 O b'lemma:Cra'
282 -1.397641 O b'lemma[:2]:Cr'
283 -1.395977 Temp b'-1:lemma:\xcf\x8332'
284 -1.392367 O b'lemma:.'
285 -1.392367 O b'postag:.'
286 -1.392367 O b'postag[:1]:.'
287 -1.392367 O b'postag[:2]:.'
288 -1.392367 O b'lemma[:2]:.'
289 -1.391334 Gtype b'+1:lemma:flagtag'
290 -1.377069 OD b'+1:lemma:stationary'
291 -1.376467 Supp b'lemma[:1]:1'
292 -1.373778 Gtype b'-1:postag:VBG'
293 -1.369190 pH b'+1:postag:CD'
294 -1.364150 Phase b'-1:lemma:until'
295 -1.356359 Air b'+1:postag:IN'
296 -1.353508 Air b'lemma[:1]:a'
297 -1.350471 Supp b'lemma:no3'
298 -1.347435 Med b'lemma:broth'
299 -1.347435 Med b'-1:lemma:L'
300 -1.347435 Med b'lemma[:2]:br'
301 -1.340636 Gtype b'symb'
302 -1.337653 Supp b'lemma[:1]:2'
303 -1.337468 OD b'lemma[:1]:o'
304 -1.332813 O b'+1:lemma:anti-fur'
305 -1.329231 Gtype b'+1:lemma::'
306 -1.323371 Temp b'+1:lemma:\xc2\xb0c'
307 -1.316239 O b'-1:lemma:media'
308 -1.308580 Anti b'-1:lemma::'
309 -1.308448 Technique b'-1:lemma:input'
310 -1.305697 Gtype b'lemma[:1]:f'
311 -1.304733 O b'lemma[:1]:r'
312 -1.298211 Gversion b'+1:lemma:000913'
313 -1.282839 Supp b'lemma:methanol'
314 -1.281363 Air b'-1:postag:CD'
315 -1.280599 Supp b'lemma:Fe'
316 -1.280599 Supp b'lemma[:2]:Fe'
317 -1.280195 O b'lemma[:1]:C'
318 -1.274450 O b'-1:lemma:type'
319 -1.274241 Supp b'lemma:dpd'
320 -1.274241 Supp b'lemma[:2]:dp'
321 -1.264726 Phase b'lemma[:2]:st'
322 -1.261615 Med b'+1:lemma:-lrb-'
323 -1.258563 Phase b'lemma[:2]:mi'
324 -1.256496 Supp b'lemma:of'
325 -1.256496 Supp b'lemma[:2]:of'
326 -1.254569 Substrain b'+1:lemma:phtpg'
327 -1.254075 Technique b'-1:lemma:_'
328 -1.245791 Med b'+1:postag:-LRB-'
329 -1.240716 Technique b'lemma[:1]:c'
330 -1.237704 Anti b'lemma:none'
331 -1.235216 Supp b'lemma[:2]:ac'
332 -1.234140 Gtype b'-1:lemma:nsrr'
333 -1.233335 O b'lemma:\xcf\x8332'
334 -1.233335 O b'lemma[:1]:\xcf\x83'
335 -1.233335 O b'lemma[:2]:\xcf\x833'
336 -1.229676 Air b'-1:lemma:-'
337 -
338 -
339 -Top negative:
340 --0.051463 Temp b'postag:JJ'
341 --0.054116 Air b'postag[:1]:C'
342 --0.059372 Phase b'postag[:1]:J'
343 --0.059372 Phase b'postag[:2]:JJ'
344 --0.059941 Temp b'postag:NN'
345 --0.060299 Air b'lemma[:1]:n'
346 --0.060598 Temp b'isLower'
347 --0.062297 O b'+1:lemma:or'
348 --0.065185 Supp b'+1:postag:VBN'
349 --0.065466 Air b'lemma:and'
350 --0.066813 Gtype b'-1:postag:NN'
351 --0.068526 O b'lemma[:2]:ce'
352 --0.071041 O b'-1:postag:JJ'
353 --0.071759 OD b'lemma:-lrb-'
354 --0.074300 OD b'lemma[:1]:t'
355 --0.074669 Supp b'postag:CD'
356 --0.074669 Supp b'postag[:2]:CD'
357 --0.078783 O b'lemma[:2]:30'
358 --0.079591 OD b'postag:-LRB-'
359 --0.079591 OD b'postag[:2]:-L'
360 --0.079591 OD b'lemma[:2]:-l'
361 --0.080662 O b'lemma[:2]:an'
362 --0.083375 O b'-1:postag:-RRB-'
363 --0.083466 O b'lemma:150'
364 --0.083466 O b'+1:lemma:mg/ml'
365 --0.083466 O b'lemma[:2]:15'
366 --0.084358 O b'lemma:glucose'
367 --0.089803 Supp b'lemma[:1]:o'
368 --0.090889 Gtype b'lemma[:1]:r'
369 --0.094789 OD b'+1:postag:CD'
370 --0.096046 O b'lemma:co2'
371 --0.096854 Supp b'lemma:2'
372 --0.096854 Supp b'lemma[:2]:2'
373 --0.107550 OD b'+1:lemma:of'
374 --0.110054 OD b'postag:JJ'
375 --0.111139 O b'-1:lemma:rna'
376 --0.113070 Air b'postag:CC'
377 --0.113070 Air b'postag[:2]:CC'
378 --0.116092 OD b'postag[:1]:J'
379 --0.116092 OD b'postag[:2]:JJ'
380 --0.116551 O b'-1:lemma:\xe2\x88\x86'
381 --0.119208 O b'-1:lemma:of'
382 --0.120060 O b'+1:lemma:arginine'
383 --0.120674 pH b'isLower'
384 --0.122477 O b'+1:lemma:300'
385 --0.123572 Phase b'postag:JJ'
386 --0.126294 O b'-1:lemma:iptg'
387 --0.129027 Gtype b'-1:lemma:,'
388 --0.129027 Gtype b'-1:postag:,'
389 --0.130686 Med b'postag[:1]:C'
390 --0.131309 Supp b'+1:lemma:rifampicin'
391 --0.137449 O b'-1:lemma:o2'
392 --0.138824 O b'-1:lemma:ml'
393 --0.142350 O b'lemma[:2]:20'
394 --0.147695 Air b'-1:lemma:anaerobically'
395 --0.147731 pH b'postag[:1]:N'
396 --0.147731 pH b'postag[:2]:NN'
397 --0.150331 Supp b'hUpper'
398 --0.150331 Supp b'hLower'
399 --0.151031 Gtype b'-1:postag:SYM'
400 --0.152040 O b'+1:lemma:rep1'
401 --0.154569 O b'+1:lemma:-rrb-'
402 --0.155464 O b'lemma:dissolve'
403 --0.163005 O b'lemma[:1]:k'
404 --0.166515 Anti b'+1:lemma:anti-fur'
405 --0.166530 O b'-1:postag:VBN'
406 --0.168761 Vess b'hUpper'
407 --0.168761 Vess b'hLower'
408 --0.172221 O b'lemma:od600'
409 --0.173580 O b'+1:lemma:0.3'
410 --0.174879 O b'+1:lemma:c'
411 --0.176207 O b'-1:lemma:grow'
412 --0.180767 Supp b'isUpper'
413 --0.182914 O b'lemma:phase'
414 --0.183166 Air b'isUpper'
415 --0.186591 O b'-1:lemma:-lrb-'
416 --0.187451 O b'-1:lemma:od600'
417 --0.193271 O b'+1:lemma:phase'
418 --0.200473 Air b'+1:postag:-LRB-'
419 --0.200591 Gtype b'postag[:1]:V'
420 --0.200591 Gtype b'postag[:2]:VB'
421 --0.202895 O b'lemma[:2]:ae'
422 --0.203770 O b'lemma[:1]:d'
423 --0.213212 Air b'-1:postag:CC'
424 --0.216984 Technique b'isUpper'
425 --0.218975 O b'+1:lemma:antibody'
426 --0.219469 OD b'postag:CD'
427 --0.219469 OD b'postag[:2]:CD'
428 --0.220367 Air b'+1:lemma:-lrb-'
429 --0.229132 O b'lemma[:1]:I'
430 --0.237062 Med b'+1:postag:NN'
431 --0.244233 O b'+1:lemma:.'
432 --0.244233 O b'+1:postag:.'
433 --0.253501 O b'lemma[:1]:p'
434 --0.255478 O b'+1:postag:IN'
435 --0.268269 Air b'+1:postag:JJ'
436 --0.270663 Supp b'lemma[:2]:an'
437 --0.277051 O b'+1:lemma:\xc2\xb0c'
438 --0.289474 Phase b'-1:postag:JJ'
439 --0.290989 O b'-1:lemma:ompr'
440 --0.299880 OD b'isNumber'
441 --0.300487 O b'lemma:of'
442 --0.300487 O b'lemma[:2]:of'
443 --0.301898 O b'lemma:wt'
444 --0.301898 O b'lemma[:2]:wt'
445 --0.302943 O b'lemma[:2]:0.'
446 --0.307135 O b'-1:postag:IN'
447 --0.308105 O b'+1:lemma:fecl2'
448 --0.311660 Technique b'-1:lemma::'
449 --0.327682 O b'lemma:37'
450 --0.327682 O b'lemma[:2]:37'
451 --0.327793 Supp b'postag[:1]:C'
452 --0.335851 Phase b'-1:lemma:at'
453 --0.337349 Supp b'-1:lemma:%'
454 --0.337470 Med b'-1:postag:CD'
455 --0.339976 Air b'-1:lemma:or'
456 --0.355481 O b'-1:postag:-LRB-'
457 --0.358486 O b'lemma:anaerobically'
458 --0.362559 Technique b'postag:NN'
459 --0.363246 Air b'symb'
460 --0.369284 Temp b'+1:lemma:to'
461 --0.369284 Temp b'+1:postag:TO'
462 --0.371266 O b'+1:postag:-RRB-'
463 --0.373089 O b'lemma[:2]:od'
464 --0.392668 Gtype b'lemma[:1]:g'
465 --0.401430 O b'lemma[:1]:L'
466 --0.407738 OD b'+1:postag:NN'
467 --0.416254 Agit b'symb'
468 --0.418662 O b'-1:lemma:co2'
469 --0.425645 Med b'+1:postag:IN'
470 --0.435796 Agit b'hUpper'
471 --0.435796 Agit b'hLower'
472 --0.441773 O b'lemma:2h'
473 --0.441773 O b'-1:lemma:additional'
474 --0.441773 O b'lemma[:2]:2h'
475 --0.446576 Air b'postag[:1]:N'
476 --0.446576 Air b'postag[:2]:NN'
477 --0.451999 O b'lemma:20'
478 --0.454739 Technique b'isLower'
479 --0.455345 Air b'isLower'
480 --0.459952 Med b'-1:postag:NN'
481 --0.491723 O b'lemma[:2]:me'
482 --0.493797 Supp b'postag:JJ'
483 --0.504237 O b'-1:lemma:37'
484 --0.511772 Supp b'postag[:1]:J'
485 --0.511772 Supp b'postag[:2]:JJ'
486 --0.518180 Temp b'hGreek'
487 --0.530228 O b'-1:lemma:from'
488 --0.537664 Technique b'-1:postag::'
489 --0.540107 O b'+1:lemma:cell'
490 --0.544422 Gtype b'lemma[:1]:m'
491 --0.545010 O b'-1:lemma:cra'
492 --0.547384 O b'lemma[:1]:0'
493 --0.555352 O b'lemma[:1]:A'
494 --0.579802 Gtype b'lemma[:1]:c'
495 --0.584906 Air b'postag:NN'
496 --0.624005 O b'-1:lemma:IP'
497 --0.630245 O b'-1:lemma:the'
498 --0.631759 O b'+1:lemma:supplement'
499 --0.642073 Med b'symb'
500 --0.648245 O b'lemma[:2]:gl'
501 --0.651355 O b'-1:lemma:sample'
502 --0.664904 Gtype b'lemma:delta'
503 --0.696355 O b'+1:postag:NNS'
504 --0.717210 Anti b'postag:NNP'
505 --0.724215 Supp b'lemma[:1]:c'
506 --0.728404 Air b'-1:postag:JJ'
507 --0.738219 O b'+1:lemma:+'
508 --0.750040 Gversion b'isLower'
509 --0.776375 O b'+1:lemma:g/l'
510 --0.778177 O b'-1:lemma:dissolve'
511 --0.778177 O b'+1:lemma:methanol'
512 --0.796433 O b'+1:lemma:hour'
513 --0.798962 Gtype b'isNumber'
514 --0.864076 O b'lemma[:2]:ri'
515 --0.864983 O b'-1:lemma:nsrr'
516 --0.897796 Gtype b'isUpper'
517 --0.915145 Phase b'hUpper'
518 --0.915145 Phase b'hLower'
519 --0.971040 O b'lemma:mid-log'
520 --0.973820 O b'lemma:rifampicin'
521 --0.985135 O b'lemma[:1]:\xce\xb4'
522 --0.989912 Supp b'symb'
523 --1.024646 O b'-1:lemma:rpob'
524 --1.027096 O b'lemma:methanol'
525 --1.040232 O b'+1:postag:VBG'
526 --1.074775 Gtype b'lemma[:2]:rp'
527 --1.135014 O b'+1:lemma:at'
528 --1.242720 O b'-1:postag:VBG'
529 --1.254198 O b'+1:lemma:in'
530 --1.381811 Gtype b'lemma[:1]:a'
531 --1.431865 Supp b'hGreek'
532 --1.551257 O b'-1:postag::'
533 --1.707232 O b'-1:lemma:2'
534 --1.771113 OD b'postag[:1]:-'
535 --1.831476 O b'+1:lemma:2'
536 --1.836996 OD b'lemma[:1]:-'
537 --2.234728 O b'+1:lemma:1'
538 --3.071950 O b'-1:lemma::'
539 --3.880058 O b'-1:lemma:_'
540 -
...@@ -24,9 +24,9 @@ echo ...@@ -24,9 +24,9 @@ echo
24 echo 24 echo
25 echo "Filter all paragraphs with tags..." 25 echo "Filter all paragraphs with tags..."
26 echo "Add sentence-end-tag PGCGROWTHCONDITIONS..." 26 echo "Add sentence-end-tag PGCGROWTHCONDITIONS..."
27 -grep -E "<[^<]*>" * | grep -E '!'| cut -f2 -d'='|sort|uniq|awk '{ print $_" PGCGROWTHCONDITIONS"; }' > /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt 27 +grep -E "<[^<]*>" * | grep -E '!'| cut -f2-5 -d'='|sort|uniq|awk '{ print $_" PGCGROWTHCONDITIONS"; }' > /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt
28 echo 28 echo
29 -echo "Number of total tag sentences: "$(wc /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt -l); 29 +echo "Number of total tag sentences: "$(wc /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt -l);
30 echo 30 echo
31 echo 31 echo
32 -echo "Saving file: /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt"; 32 +echo "Saving file: /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt";
......
...@@ -4,7 +4,7 @@ echo "==============================Run CoreNLP================================= ...@@ -4,7 +4,7 @@ echo "==============================Run CoreNLP=================================
4 echo 4 echo
5 echo 5 echo
6 6
7 -input="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt"; 7 +input="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt";
8 output="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/output/"; 8 output="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/output/";
9 echo "input file: "$input; 9 echo "input file: "$input;
10 echo 10 echo
......
...@@ -35,7 +35,11 @@ ...@@ -35,7 +35,11 @@
35 ArgR_<Supp>Arginine</Supp>_2 PGCGROWTHCONDITIONS 35 ArgR_<Supp>Arginine</Supp>_2 PGCGROWTHCONDITIONS
36 ArgR_<Supp>NH4Cl</Supp>_1 PGCGROWTHCONDITIONS 36 ArgR_<Supp>NH4Cl</Supp>_1 PGCGROWTHCONDITIONS
37 ArgR_<Supp>NH4Cl</Supp>_2 PGCGROWTHCONDITIONS 37 ArgR_<Supp>NH4Cl</Supp>_2 PGCGROWTHCONDITIONS
38 - At <OD>OD450 PGCGROWTHCONDITIONS 38 + At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 0 min after induction PGCGROWTHCONDITIONS
39 + At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 10 min after induction PGCGROWTHCONDITIONS
40 + At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 20 min after induction PGCGROWTHCONDITIONS
41 + At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 2.5 min after induction PGCGROWTHCONDITIONS
42 + At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 5 min after induction PGCGROWTHCONDITIONS
39 A total of six samples were analyzed. oxyR-8myc, soxR-8myc, and soxS-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS 43 A total of six samples were analyzed. oxyR-8myc, soxR-8myc, and soxS-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS
40 A total of two samples were analyzed. ompR-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at <Phase>mid-log pahse</Phase> for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS 44 A total of two samples were analyzed. ompR-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at <Phase>mid-log pahse</Phase> for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS
41 carbon source: <Supp>acetate</Supp> PGCGROWTHCONDITIONS 45 carbon source: <Supp>acetate</Supp> PGCGROWTHCONDITIONS
...@@ -112,8 +116,8 @@ ...@@ -112,8 +116,8 @@
112 E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS 116 E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS
113 E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS 117 E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS
114 E. coli K-12 MG1655 WT and ΔompR were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at mid-log pahse for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS 118 E. coli K-12 MG1655 WT and ΔompR were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at mid-log pahse for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS
115 - E. coli K-12 MG1655 WT, GadE-8-myc, GadW-8-myc, and GadX-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> (<OD>OD600 PGCGROWTHCONDITIONS 119 + E. coli K-12 MG1655 WT, GadE-8-myc, GadW-8-myc, and GadX-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> (<OD>OD600 = 0.3</OD>) <Air>aerobically</Air> (<Agit>250 rpm</Agit>) at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp> at <pH>pH 5.5</pH>. PGCGROWTHCONDITIONS
116 - E. coli K-12 MG1655 WT, gadE, gadW and gadX mutant cells were grown to mid-log phase (OD600 PGCGROWTHCONDITIONS 120 + E. coli K-12 MG1655 WT, gadE, gadW and gadX mutant cells were grown to mid-log phase (OD600 = 0.3) <Air>aerobically</Air> (<Agit>250 rpm</Agit>) at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp> at <pH>pH 5.5</pH>. PGCGROWTHCONDITIONS
117 E. coli K-12 MG1655 WT, ΔoxyR, ΔsoxR, and ΔsoxS were grown to mid-log phase <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS 121 E. coli K-12 MG1655 WT, ΔoxyR, ΔsoxR, and ΔsoxS were grown to mid-log phase <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS
118 E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med>. PGCGROWTHCONDITIONS 122 E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med>. PGCGROWTHCONDITIONS
119 E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med> supplemented with <Supp>100ug/L adenine</Supp>. PGCGROWTHCONDITIONS 123 E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med> supplemented with <Supp>100ug/L adenine</Supp>. PGCGROWTHCONDITIONS
...@@ -203,7 +207,7 @@ ...@@ -203,7 +207,7 @@
203 growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>1 µM FeSO4</Supp> PGCGROWTHCONDITIONS 207 growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>1 µM FeSO4</Supp> PGCGROWTHCONDITIONS
204 growth phase: <Phase>exponential</Phase> PGCGROWTHCONDITIONS 208 growth phase: <Phase>exponential</Phase> PGCGROWTHCONDITIONS
205 growth phase: <Phase>mid-log</Phase> PGCGROWTHCONDITIONS 209 growth phase: <Phase>mid-log</Phase> PGCGROWTHCONDITIONS
206 - growth phase: <Phase>mid-log phase</Phase> (<OD>OD600 PGCGROWTHCONDITIONS 210 + growth phase: <Phase>mid-log phase</Phase> (<OD>OD600 = 0.3</OD>) PGCGROWTHCONDITIONS
207 growth phase: <Phase>stationary</Phase> PGCGROWTHCONDITIONS 211 growth phase: <Phase>stationary</Phase> PGCGROWTHCONDITIONS
208 <Gtype>∆fnr</Gtype> - <Air>Anaeroibc</Air> PGCGROWTHCONDITIONS 212 <Gtype>∆fnr</Gtype> - <Air>Anaeroibc</Air> PGCGROWTHCONDITIONS
209 <Gtype>∆fnr</Gtype> ChIP DNA from <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS 213 <Gtype>∆fnr</Gtype> ChIP DNA from <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS
......
1 - agent: <Supp>DPD and rifampicin</Supp> PGCGROWTHCONDITIONS
2 - agent: <Supp>DPD</Supp> PGCGROWTHCONDITIONS
3 - agent: <Supp>Fe and rifampicin</Supp> PGCGROWTHCONDITIONS
4 - agent: <Supp>Fe</Supp> PGCGROWTHCONDITIONS
5 - <Air>Aerobic</Air> cultures PGCGROWTHCONDITIONS
6 - <Air>Anaerobic</Air> cultures PGCGROWTHCONDITIONS
7 - All sequencing reads were mapped to E. coli MG1655 reference genome (<Gversion>NC_000913</Gversion>) using CLC Genomics Workbench5 with the length fraction of 0.9 and the similarity of 0.99. PGCGROWTHCONDITIONS
8 - antibody: <Anti>9E10 Myc tag</Anti> antibody PGCGROWTHCONDITIONS
9 - antibody: <Anti>Affinity Purified FNR antibody</Anti> PGCGROWTHCONDITIONS
10 - antibody: <Anti>anti-FLAG mAb</Anti> PGCGROWTHCONDITIONS
11 - antibody: <Anti>Pre-cleared FNR antibody</Anti> PGCGROWTHCONDITIONS
12 - antibody: <Anti>Pre-cleared H-NS polyclonal antibody</Anti> PGCGROWTHCONDITIONS
13 - antibody: <Anti>Pre-cleared IHF polyclonal antibody</Anti> PGCGROWTHCONDITIONS
14 - antibody: <Anti>RNA Polymerase ß monoclonal antibody</Anti> from NeoClone (W0002) PGCGROWTHCONDITIONS
15 - At <OD>OD450 PGCGROWTHCONDITIONS
16 - A total of six samples were analyzed. oxyR-8myc, soxR-8myc, and soxS-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS
17 - A total of two samples were analyzed. ompR-8myc tagged cells were cultured in <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at <Phase>mid-log pahse</Phase> for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS
18 - carbon source: <Supp>acetate</Supp> PGCGROWTHCONDITIONS
19 - carbon source: <Supp>fructose</Supp> PGCGROWTHCONDITIONS
20 - carbon source: <Supp>glucose</Supp> PGCGROWTHCONDITIONS
21 - Cells were grown aerobically (70% N2, 25% O2, and 5% CO2) or <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>). PGCGROWTHCONDITIONS
22 - Cells were grown aerobically (70% N2, 25% O2, and 5% CO2) or <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>) in <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp>. PGCGROWTHCONDITIONS
23 - Cells were grown aerobically (70% N2, 25% O2, and 5% CO2) or anaerobically (95% N2 and 5% CO2) until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>). PGCGROWTHCONDITIONS
24 - Cells were grown <Air>aerobically (25% O2, 70% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.35</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
25 - Cells were grown <Air>aerobically (70% N2, 25% O2, and 5% CO2)</Air> or anaerobically (95% N2 and 5% CO2) until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>). PGCGROWTHCONDITIONS
26 - Cells were grown <Air>aerobically (70% N2, 25% O2, and 5% CO2)</Air> or anaerobically (95% N2 and 5% CO2) until <Phase>mid-log phase</Phase> (<OD>OD600 of ~0.3-0.35</OD>) in <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp>. PGCGROWTHCONDITIONS
27 - Cells were grown <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.3</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
28 - Cells were grown at <Temp>37 °C</Temp> to an <OD>OD600 of about 0.15</OD> in 100 ml <Med>LB</Med> (+ <Supp>0.2% glucose</Supp>). PGCGROWTHCONDITIONS
29 - Cells were grown at <Temp>37 °C</Temp> to an <OD>OD600 of about 0.15</OD> in 50 ml <Med>LB</Med> (+ <Supp>0.2% glucose</Supp>) before crosslinking. PGCGROWTHCONDITIONS
30 - Cells were grown in 65 ml LB medium at 30 °C to an <OD>OD600 of about 0.3</OD>. Subsequently 30 ml of culture were transformed to a pre warmed <Vess>flask</Vess> at <Temp>43 °C (see heat sample)</Temp> and the remainder kept at <Temp>30 °C</Temp>. PGCGROWTHCONDITIONS
31 - Cells were grown in 65 ml LB medium at 30 °C to an <OD>OD600 of about 0.3</OD>. Subsequently 30 ml of culture were transformed to a pre warmed <Vess>flask</Vess> at <Temp>43 °C</Temp> and the remainder kept at <Temp>30 °C (see control sample)</Temp>. PGCGROWTHCONDITIONS
32 - Cells were grown in <Med>LB media</Med> with <Supp>1mM IPTG</Supp> at <Temp>37 °C</Temp> with shaking for <Supp>2 hours</Supp> PGCGROWTHCONDITIONS
33 - Cells were grown with <Supp>16 µM IPTG and 300 µL Cm20</Supp> <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.3</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
34 - Cells were grown with <Supp>4 µM IPTG and 300 µL Cm20</Supp> <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.3</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
35 - Cells were grown with <Supp>8 µM IPTG and 300 µL Cm20</Supp> <Air>anaerobically (95% N2 and 5% CO2)</Air> until <Phase>mid-log phase</Phase> (<OD>OD600 of 0.3</OD>) and treated with 1% final volumen formaldehyde for ten minutes. Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the mid-log cultures followed by formaldehyde to 1% final, and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 5000 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
36 - chip antibody: <Anti>9E10 Myc tag</Anti> antibody PGCGROWTHCONDITIONS
37 - chip antibody: <Anti>anti-myc</Anti> PGCGROWTHCONDITIONS
38 - chip antibody: <Anti>anti-myc</Anti> (Santa Cruz Biotech, sc-28207) PGCGROWTHCONDITIONS
39 - chip antibody: <Anti>anti-RpoB</Anti> (Neoclone, WP002) PGCGROWTHCONDITIONS
40 - chip antibody: <Anti>anti-rpoB</Anti> (Santa Cruz Biotech, sc-56766) PGCGROWTHCONDITIONS
41 - chip antibody: <Anti>anti-RpoS</Anti> (neoclone, WP009) PGCGROWTHCONDITIONS
42 - chip antibody: <Anti>none</Anti> PGCGROWTHCONDITIONS
43 - chip antibody: <Anti>RNA polymerase subunit β</Anti> PGCGROWTHCONDITIONS
44 - chip antibody: <Anti>SeqA</Anti> PGCGROWTHCONDITIONS
45 - chip antibody: <Anti>σ32</Anti> PGCGROWTHCONDITIONS
46 - chip antibody: Custom <Anti>anti-Fur polyclonal antibody</Anti> PGCGROWTHCONDITIONS
47 - ChIP-exo reads were aligned to the <Gversion>NC_000913</Gversion> genome reference sequence using using bowtie v1.0.0 with parameters -S PGCGROWTHCONDITIONS
48 - ChIP-exo reads were aligned to the <Gversion>NC_000913 </Gversion>genome reference sequence using using bowtie v1.0.0 with parameters -S PGCGROWTHCONDITIONS
49 - culture condition: <Air>Aerobic</Air> cultures PGCGROWTHCONDITIONS
50 - culture condition: <Air>Anaerobic</Air> cultures PGCGROWTHCONDITIONS
51 - cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% acetate</Supp> PGCGROWTHCONDITIONS
52 - cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% fructose</Supp> PGCGROWTHCONDITIONS
53 - cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp> PGCGROWTHCONDITIONS
54 - Cultures grown in <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp> PGCGROWTHCONDITIONS
55 - E. coli K-12 MG1655 cra-8myc tagged strains was grown to mid-log phase <Air>aerobically</Air> at <Temp>37°C</Temp> in M9 minimal media supplemented with 0.2% glucose, fructose and acetate. PGCGROWTHCONDITIONS
56 - E. coli K-12 MG1655 WT and Fur-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional <Supp>2h</Supp>. For the rifampicin-treated cultures, the rifampicin dissolved in methanol was added to a final concentration of 150 mg/mL at mid-log phase and stirred for 20 min. PGCGROWTHCONDITIONS
57 - E. coli K-12 MG1655 WT and Fur-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional <Supp>2h</Supp>. For the rifampicin-treated cultures, the <Supp>rifampicin dissolved in methanol</Supp> was added to a final concentration of <Supp>150 mg/mL</Supp> at mid-log phase and stirred for <Supp>20 min</Supp>. PGCGROWTHCONDITIONS
58 - E. coli K-12 MG1655 WT and Fur-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional <Supp>2h</Supp>. For the rifampicin-treated cultures, the rifampicin dissolved in methanol was added to a final concentration of 150 mg/mL at mid-log phase and stirred for 20 min. PGCGROWTHCONDITIONS
59 - E. coli K-12 MG1655 WT and Fur-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional <Supp>2h</Supp>. For the rifampicin-treated cultures, the <Supp>rifampicin dissolved in methanol</Supp> was added to a final concentration of <Supp>150 mg/mL</Supp> at mid-log phase and stirred for <Supp>20 min</Supp>. PGCGROWTHCONDITIONS
60 - E. coli K-12 MG1655 WT, and Δcra were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>, fructose and acetate. PGCGROWTHCONDITIONS
61 - E. coli K-12 MG1655 WT, and Δcra were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2%</Supp> glucose, fructose and acetate. PGCGROWTHCONDITIONS
62 - E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, 0.1mM of FeCl2 were treated from the beginning of culture, and for DPD treated cells, <Supp>0.2mM of DPD</Supp> were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS
63 - E. coli K-12 MG1655 WT and Δfur were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. For iron treated cells, <Supp>0.1mM of FeCl2</Supp> were treated from the beginning of culture, and for DPD treated cells, 0.2mM of DPD were added at early-log phase and continued to culture for additional 2h. PGCGROWTHCONDITIONS
64 - E. coli K-12 MG1655 WT and ΔompR were grown to <Phase>mid-log phase</Phase> <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with <Supp>0.3 M of NaCl</Supp> at mid-log pahse for <Supp>30 min</Supp> with agitation. PGCGROWTHCONDITIONS
65 - E. coli K-12 MG1655 WT, GadE-8-myc, GadW-8-myc, and GadX-8-myc tagged strains were grown to <Phase>mid-log phase</Phase> (<OD>OD600 PGCGROWTHCONDITIONS
66 - E. coli K-12 MG1655 WT, gadE, gadW and gadX mutant cells were grown to mid-log phase (OD600 PGCGROWTHCONDITIONS
67 - E. coli K-12 MG1655 WT, ΔoxyR, ΔsoxR, and ΔsoxS were grown to mid-log phase <Air>aerobically</Air> at <Temp>37°C</Temp> in <Med>M9 minimal media</Med> supplemented with <Supp>0.2% glucose</Supp>. Then cells were treated with 250 uM of paraquat at mid-log pahse for 20 min with agitation. PGCGROWTHCONDITIONS
68 - E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med>. PGCGROWTHCONDITIONS
69 - E. coli strains harboring PurR-8myc were grown in minimal M9 medium supplemented with glucose (2 g/L) then inoculated into 100mL of fresh <Med>M9 minimal medium</Med> supplemented with <Supp>100ug/L adenine</Supp>. PGCGROWTHCONDITIONS
70 - Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp>. PGCGROWTHCONDITIONS
71 - Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp>. PGCGROWTHCONDITIONS
72 - Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp>. PGCGROWTHCONDITIONS
73 - Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp> and <Supp>nitrate</Supp>. PGCGROWTHCONDITIONS
74 - Escherichia coli, expressing <Gtype>NsrR</Gtype> with a C-terminal <Gtype>Flag-tag</Gtype>, was grown <Air>anaerobically</Air> in <Med>L broth</Med> supplemented with <Supp>glucose</Supp> and <Supp>nitrate</Supp>. PGCGROWTHCONDITIONS
75 - Escherichia coli MG1655 K-12 <Gtype>dFNR (PK4854)</Gtype> PGCGROWTHCONDITIONS
76 - Escherichia coli MG1655 K-12 WT and ∆fnr were grown to <Phase>mid-log phase </Phase>(<OD>O.D.600nm 0.3</OD>) <Air>anerobically (95% N2, 5% CO2)</Air> at <Temp>37°C </Temp>in <Med>MOPS</Med> +<Supp>0.2% glucose</Supp> media (Ref). PGCGROWTHCONDITIONS
77 - Genome_build: Escherichia coli MG1655 K-12 genome version <Gversion>U00096.2</Gversion> PGCGROWTHCONDITIONS
78 - Genome_build: <Gversion>ASM584v2</Gversion> PGCGROWTHCONDITIONS
79 - Genome_build: <Gversion>NC_000913.2</Gversion> PGCGROWTHCONDITIONS
80 - Genome_build: <Gversion>NC_000913</Gversion> PGCGROWTHCONDITIONS
81 - Genome_build: <Gversion>U00096.2</Gversion> (GenBank) PGCGROWTHCONDITIONS
82 - genotype: delta-<Gtype>cra Knock-out strain</Gtype> PGCGROWTHCONDITIONS
83 - genotype: delta-<Gtype>crp Knock-out strain</Gtype> PGCGROWTHCONDITIONS
84 - genotype: <Gtype>ArgR-8myc</Gtype> PGCGROWTHCONDITIONS
85 - genotype: <Gtype>gadE-8myc</Gtype> PGCGROWTHCONDITIONS
86 - genotype: <Gtype>gadW-8myc</Gtype> PGCGROWTHCONDITIONS
87 - genotype: <Gtype>gadX-8myc</Gtype> PGCGROWTHCONDITIONS
88 - genotype: <Gtype>Lrp-8myc</Gtype> PGCGROWTHCONDITIONS
89 - genotype: <Gtype>ompR-8myc</Gtype> PGCGROWTHCONDITIONS
90 - genotype: <Gtype>ompR deletion mutant</Gtype> PGCGROWTHCONDITIONS
91 - genotype: <Gtype>PurR-8myc</Gtype> PGCGROWTHCONDITIONS
92 - genotype: <Gtype>TrpR-8myc</Gtype> PGCGROWTHCONDITIONS
93 - genotype: <Gtype>wildtype</Gtype> PGCGROWTHCONDITIONS
94 - genotype: <Gtype>Wildtype</Gtype> PGCGROWTHCONDITIONS
95 - genotype: <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
96 - genotype: <Gtype>ΔseqA</Gtype> PGCGROWTHCONDITIONS
97 - genotype/variation: <Gtype>Combined input</Gtype> PGCGROWTHCONDITIONS
98 - genotype/variation: <Gtype>cra-8myc-tagged</Gtype> PGCGROWTHCONDITIONS
99 - genotype/variation: <Gtype>delta_cra</Gtype> PGCGROWTHCONDITIONS
100 - genotype/variation: <Gtype>delta-gadE</Gtype> PGCGROWTHCONDITIONS
101 - genotype/variation: <Gtype>delta-gadW</Gtype> PGCGROWTHCONDITIONS
102 - genotype/variation: <Gtype>delta-gadX</Gtype> PGCGROWTHCONDITIONS
103 - genotype/variation: <Gtype>{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12</Gtype> PGCGROWTHCONDITIONS
104 - genotype/variation: <Gtype>delta-oxyR</Gtype> PGCGROWTHCONDITIONS
105 - genotype/variation: <Gtype>delta-soxR</Gtype> PGCGROWTHCONDITIONS
106 - genotype/variation: <Gtype>delta-soxS</Gtype> PGCGROWTHCONDITIONS
107 - genotype/variation: <Gtype>{delta}tonB, {delta}feoA, {delta}zupT K12</Gtype> PGCGROWTHCONDITIONS
108 - genotype/variation: <Gtype>fur-8myc</Gtype> PGCGROWTHCONDITIONS
109 - genotype/variation: <Gtype>lacking the small RNA RyhB</Gtype> PGCGROWTHCONDITIONS
110 - genotype/variation: <Gtype>lacking the transcription factor Fur and the small RNA RyhB</Gtype> PGCGROWTHCONDITIONS
111 - genotype/variation: <Gtype>lacking the transcription factor Fur</Gtype> PGCGROWTHCONDITIONS
112 - genotype/variation: <Gtype>oxyR-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
113 - genotype/variation: <Gtype>soxR-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
114 - genotype/variation: <Gtype>soxS-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
115 - genotype/variation: <Gtype>wild type</Gtype> PGCGROWTHCONDITIONS
116 - genotype/variation: <Gtype>Wild-type</Gtype> PGCGROWTHCONDITIONS
117 - genotype/variation: <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
118 - genotype/variation: <Gtype>Δfur</Gtype> PGCGROWTHCONDITIONS
119 - genoype: <Gtype>dFNR</Gtype> PGCGROWTHCONDITIONS
120 - genoype: <Gtype>Wild-Type</Gtype> PGCGROWTHCONDITIONS
121 - growth condition: <Air>Aerobic</Air> PGCGROWTHCONDITIONS
122 - growth condition: <Air>anaerobic</Air> PGCGROWTHCONDITIONS
123 - growth condition: <Air>Anaerobic</Air> PGCGROWTHCONDITIONS
124 - growth condition: <Supp>16 µM IPTG</Supp> PGCGROWTHCONDITIONS
125 - growth condition: <Supp>4 µM IPTG</Supp> PGCGROWTHCONDITIONS
126 - growth condition: <Supp>8 µM IPTG</Supp> PGCGROWTHCONDITIONS
127 - growth condition: <Supp>Adenine</Supp> PGCGROWTHCONDITIONS
128 - growth condition: <Supp>glucose</Supp> PGCGROWTHCONDITIONS
129 - growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp> PGCGROWTHCONDITIONS
130 - growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>1 µM FeSO4</Supp> PGCGROWTHCONDITIONS
131 - growth phase: <Phase>exponential</Phase> PGCGROWTHCONDITIONS
132 - growth phase: <Phase>mid-log</Phase> PGCGROWTHCONDITIONS
133 - growth phase: <Phase>mid-log phase</Phase> (<OD>OD600 PGCGROWTHCONDITIONS
134 - growth phase: <Phase>stationary</Phase> PGCGROWTHCONDITIONS
135 - <Gtype>∆fnr</Gtype> ChIP DNA from <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS
136 - <Gversion>ChIP-Seq</Gversion> PGCGROWTHCONDITIONS
137 - ip antibody: <Anti>affinity purified anti-Fur antibody</Anti> PGCGROWTHCONDITIONS
138 - library strategy: <Technique>ChIP-exo</Technique> PGCGROWTHCONDITIONS
139 - medium: <Med>LB</Med> PGCGROWTHCONDITIONS
140 - medium: <Med>M63</Med> PGCGROWTHCONDITIONS
141 - <Med>M9 minimal complete media</Med>, cultures grown <Air>aerobically</Air> at <Temp>30 degrees C</Temp> in a <Agit>gyratory water bath shaking at 240 rpm</Agit> PGCGROWTHCONDITIONS
142 - <Name>ArgR_Arginine_1</Name> PGCGROWTHCONDITIONS
143 - <Name>ArgR_Arginine_2</Name> PGCGROWTHCONDITIONS
144 - <Name>ArgR_NH4Cl_1</Name> PGCGROWTHCONDITIONS
145 - <Name>ArgR_NH4Cl_2</Name> PGCGROWTHCONDITIONS
146 - <Name>ChIP-exo GadE pH5.5 1</Name> PGCGROWTHCONDITIONS
147 - <Name>ChIP-exo GadE pH5.5 2</Name> PGCGROWTHCONDITIONS
148 - <Name>ChIP-exo GadW pH5.5 1</Name> PGCGROWTHCONDITIONS
149 - <Name>ChIP-exo GadW pH5.5 2</Name> PGCGROWTHCONDITIONS
150 - <Name>ChIP-exo GadX pH5.5 1</Name> PGCGROWTHCONDITIONS
151 - <Name>ChIP-exo GadX pH5.5 2</Name> PGCGROWTHCONDITIONS
152 - <Name>ChIP-exo RpoS pH5.5 1</Name> PGCGROWTHCONDITIONS
153 - <Name>ChIP-exo RpoS pH5.5 2</Name> PGCGROWTHCONDITIONS
154 - <Name>Cra acetate 1</Name> PGCGROWTHCONDITIONS
155 - <Name>Cra acetate 2</Name> PGCGROWTHCONDITIONS
156 - <Name>Cra fructose 1</Name> PGCGROWTHCONDITIONS
157 - <Name>Cra fructose 2</Name> PGCGROWTHCONDITIONS
158 - <Name>Cra glucose 1</Name> PGCGROWTHCONDITIONS
159 - <Name>Cra glucose 2</Name> PGCGROWTHCONDITIONS
160 - <Name>Crosslink</Name> PGCGROWTHCONDITIONS
161 - <Name>CsiR_ChIPSeq</Name> PGCGROWTHCONDITIONS
162 - <Name>CsiR_RNASeq</Name> PGCGROWTHCONDITIONS
163 - <Name>EC18n122 RpoH 10 min Time course 4</Name> PGCGROWTHCONDITIONS
164 - <Name>EC18n167 RpoH 0 min Time course 2</Name> PGCGROWTHCONDITIONS
165 - <Name>EC18n168 RpoH 2.5 min Time course 2</Name> PGCGROWTHCONDITIONS
166 - <Name>EC18n169 RpoH 5 min Time course 2</Name> PGCGROWTHCONDITIONS
167 - <Name>EC18n170 RpoH 10 min Time course 2</Name> PGCGROWTHCONDITIONS
168 - <Name>EC18n171 RpoH 20 min Time course 2</Name> PGCGROWTHCONDITIONS
169 - <Name>EC18n177 RpoH 0 min Time course 1</Name> PGCGROWTHCONDITIONS
170 - <Name>EC18n178 RpoH 2.5 min Time course 1</Name> PGCGROWTHCONDITIONS
171 - <Name>EC18n179 RpoH 5 min Time course 1</Name> PGCGROWTHCONDITIONS
172 - <Name>EC18n180 RpoH 10 min Time course 1</Name> PGCGROWTHCONDITIONS
173 - <Name>EC18n181 RpoH 20 min Time course 1</Name> PGCGROWTHCONDITIONS
174 - <Name>EC18n182 RpoH 0 min Time course 3</Name> PGCGROWTHCONDITIONS
175 - <Name>EC18n183 RpoH 2.5 min Time course 3</Name> PGCGROWTHCONDITIONS
176 - <Name>EC18n184 RpoH 5 min Time course 3</Name> PGCGROWTHCONDITIONS
177 - <Name>EC18n185 RpoH 10 min Time course 3</Name> PGCGROWTHCONDITIONS
178 - <Name>EC18n186 RpoH 20 min Time course 3</Name> PGCGROWTHCONDITIONS
179 - <Name>Ecoli_dFNR_rep1_anaerobic</Name> PGCGROWTHCONDITIONS
180 - <Name>Ecoli_dFNR_rep2_anaerobic</Name> PGCGROWTHCONDITIONS
181 - <Name>Ecoli_wild-type_rep1_anaerobic</Name> PGCGROWTHCONDITIONS
182 - <Name>Ecoli_wild-type_rep2_anaerobic</Name> PGCGROWTHCONDITIONS
183 - <Name>Escherichia coli str. K-12 substr. MG1655</Name> PGCGROWTHCONDITIONS
184 - <Name>FNR - Anaerobic - Affinity Purified - A</Name> PGCGROWTHCONDITIONS
185 - <Name>FNR - Anaerobic - Affinity Purified - B</Name> PGCGROWTHCONDITIONS
186 - <Name>FNR - Anaerobic - A</Name> PGCGROWTHCONDITIONS
187 - <Name>FNR - Anaerobic - B</Name> PGCGROWTHCONDITIONS
188 - <Name>FNR - Anaerobic - C</Name> PGCGROWTHCONDITIONS
189 - <Name>∆fnr - Anaeroibc</Name> PGCGROWTHCONDITIONS
190 - <Name>FNR - ∆hns∆stpA A</Name> PGCGROWTHCONDITIONS
191 - <Name>FNR - ∆hns∆stpA B</Name> PGCGROWTHCONDITIONS
192 - <Name>∆fur Aerobic A</Name> PGCGROWTHCONDITIONS
193 - <Name>∆fur Aerobic B</Name> PGCGROWTHCONDITIONS
194 - <Name>∆fur Anaerobic A</Name> PGCGROWTHCONDITIONS
195 - <Name>∆fur Anaerobic B</Name> PGCGROWTHCONDITIONS
196 - <Name>∆fur Anaerobic [IP vs nput]</Name> PGCGROWTHCONDITIONS
197 - <Name>Fur IP ChIP-Seq Aerobic A</Name> PGCGROWTHCONDITIONS
198 - <Name>Fur IP ChIP-Seq Aerobic B</Name> PGCGROWTHCONDITIONS
199 - <Name>Fur IP ChIP-Seq Aerobic C</Name> PGCGROWTHCONDITIONS
200 - <Name>Fur IP ChIP-Seq Anaerobic A</Name> PGCGROWTHCONDITIONS
201 - <Name>Fur IP ChIP-Seq Anaerobic B</Name> PGCGROWTHCONDITIONS
202 - <Name>Fur IP ChIP-Seq Anaerobic C</Name> PGCGROWTHCONDITIONS
203 - <Name>Fur IP ChIP-Seq Anaerobic, Iron Deficient A</Name> PGCGROWTHCONDITIONS
204 - <Name>Fur IP ChIP-Seq Anaerobic, Iron Deficient B</Name> PGCGROWTHCONDITIONS
205 - <Name>∆fur ∆ryhB Aerobic A</Name> PGCGROWTHCONDITIONS
206 - <Name>∆fur ∆ryhB Aerobic B</Name> PGCGROWTHCONDITIONS
207 - <Name>∆fur ∆ryhB Anaerobic A</Name> PGCGROWTHCONDITIONS
208 - <Name>∆fur ∆ryhB Anaerobic B</Name> PGCGROWTHCONDITIONS
209 - <Name>Fur with DPD 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
210 - <Name>Fur with DPD 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
211 - <Name>Fur with Fe 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
212 - <Name>Fur with Fe 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
213 - <Name>HNS - Aerobic A</Name> PGCGROWTHCONDITIONS
214 - <Name>HNS - Aerobic B</Name> PGCGROWTHCONDITIONS
215 - <Name>HNS - Anaerobic A</Name> PGCGROWTHCONDITIONS
216 - <Name>HNS - Anaerobic B</Name> PGCGROWTHCONDITIONS
217 - <Name>IHF - Anaerobic A</Name> PGCGROWTHCONDITIONS
218 - <Name>IHF - Anaerobic B</Name> PGCGROWTHCONDITIONS
219 - <Name>Input ChIP-Seq</Name> PGCGROWTHCONDITIONS
220 - <Name>LB 0.4 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
221 - <Name>LB 0.4 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
222 - <Name>LB 0.4 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
223 - <Name>LB 0.4 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
224 - <Name>LB 0.4 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
225 - <Name>LB 0.4 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
226 - <Name>LB 2.0 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
227 - <Name>LB 2.0 B1 TEX neg L2 HS2</Name> PGCGROWTHCONDITIONS
228 - <Name>LB 2.0 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
229 - <Name>LB 2.0 B1 TEX pos L2 HS2</Name> PGCGROWTHCONDITIONS
230 - <Name>LB 2.0 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
231 - <Name>LB 2.0 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
232 - <Name>LB 2.0 B2 TEX neg L2 HS2</Name> PGCGROWTHCONDITIONS
233 - <Name>LB 2.0 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
234 - <Name>LB 2.0 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
235 - <Name>LB 2.0 B2 TEX pos L2 HS2</Name> PGCGROWTHCONDITIONS
236 - <Name>Lrp_Leu_1</Name> PGCGROWTHCONDITIONS
237 - <Name>Lrp_Leu_2</Name> PGCGROWTHCONDITIONS
238 - <Name>Lrp_Leu_3</Name> PGCGROWTHCONDITIONS
239 - <Name>Lrp_NH4Cl_1</Name> PGCGROWTHCONDITIONS
240 - <Name>Lrp_NH4Cl_2</Name> PGCGROWTHCONDITIONS
241 - <Name>Lrp_NH4Cl_3</Name> PGCGROWTHCONDITIONS
242 - <Name>M63 0.4 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
243 - <Name>M63 0.4 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
244 - <Name>M63 0.4 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
245 - <Name>M63 0.4 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
246 - <Name>M63 0.4 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
247 - <Name>M63 0.4 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
248 - <Name>Nac_ChIPSeq</Name> PGCGROWTHCONDITIONS
249 - <Name>Nac_RNASeq</Name> PGCGROWTHCONDITIONS
250 - <Name>NsrR_Flagtag_rep1</Name> PGCGROWTHCONDITIONS
251 - <Name>NsrR_Flagtag_rep2</Name> PGCGROWTHCONDITIONS
252 - <Name>NsrR_Flagtag_rep3</Name> PGCGROWTHCONDITIONS
253 - <Name>NtrC_ChIPSeq</Name> PGCGROWTHCONDITIONS
254 - <Name>OmpR_ChIPSeq</Name> PGCGROWTHCONDITIONS
255 - <Name>OmpR NaCl 1</Name> PGCGROWTHCONDITIONS
256 - <Name>OmpR NaCl 2</Name> PGCGROWTHCONDITIONS
257 - <Name>OxyR PQ 1</Name> PGCGROWTHCONDITIONS
258 - <Name>OxyR PQ 2</Name> PGCGROWTHCONDITIONS
259 - <Name>pT7_ChIPSeq_1</Name> PGCGROWTHCONDITIONS
260 - <Name>pT7_ChIPSeq_2</Name> PGCGROWTHCONDITIONS
261 - <Name>Ptac::fnr - A - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
262 - <Name>Ptac::fnr - A - 4 µM IPTG</Name> PGCGROWTHCONDITIONS
263 - <Name>Ptac::fnr - A - 8 µM IPTG</Name> PGCGROWTHCONDITIONS
264 - <Name>Ptac::fnr - B - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
265 - <Name>Ptac::fnr - B - 4 µM IPTG</Name> PGCGROWTHCONDITIONS
266 - <Name>Ptac::fnr - B - 8 µM IPTG</Name> PGCGROWTHCONDITIONS
267 - <Name>Ptac::fnr - C - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
268 - <Name>PurR_Adenine_1</Name> PGCGROWTHCONDITIONS
269 - <Name>PurR_Adenine_2</Name> PGCGROWTHCONDITIONS
270 - <Name>PurR_glucose_1</Name> PGCGROWTHCONDITIONS
271 - <Name>PurR_glucose_2</Name> PGCGROWTHCONDITIONS
272 - <Name>RNAP old rep1</Name> PGCGROWTHCONDITIONS
273 - <Name>RNAP old rep2</Name> PGCGROWTHCONDITIONS
274 - <Name>RpoB ∆cra 1</Name> PGCGROWTHCONDITIONS
275 - <Name>RpoB ∆cra 2</Name> PGCGROWTHCONDITIONS
276 - <Name>RpoB ∆crp 1</Name> PGCGROWTHCONDITIONS
277 - <Name>RpoB ∆crp 2</Name> PGCGROWTHCONDITIONS
278 - <Name>RpoB with DPD 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
279 - <Name>RpoB with DPD 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
280 - <Name>RpoB with DPD and rifampicin 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
281 - <Name>RpoB with DPD and rifampicin 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
282 - <Name>RpoB with Fe 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
283 - <Name>RpoB with Fe 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
284 - <Name>RpoB with Fe and rifampicin 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
285 - <Name>RpoB with Fe and rifampicin 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
286 - <Name>RpoB WT 1</Name> PGCGROWTHCONDITIONS
287 - <Name>RpoB WT 2</Name> PGCGROWTHCONDITIONS
288 - <Name>RpoH induced (0 min)</Name> PGCGROWTHCONDITIONS
289 - <Name>RpoH induced (10 min)</Name> PGCGROWTHCONDITIONS
290 - <Name>RpoH induced (20 min)</Name> PGCGROWTHCONDITIONS
291 - <Name>RpoH induced (2.5 min)</Name> PGCGROWTHCONDITIONS
292 - <Name>RpoH induced (5 min)</Name> PGCGROWTHCONDITIONS
293 - <Name>∆ryhB Aerobic</Name> PGCGROWTHCONDITIONS
294 - <Name>∆ryhB Anaerobic</Name> PGCGROWTHCONDITIONS
295 - <Name>SeqA new deltaSeqA</Name> PGCGROWTHCONDITIONS
296 - <Name>SeqA new rep1</Name> PGCGROWTHCONDITIONS
297 - <Name>SeqA new rep2</Name> PGCGROWTHCONDITIONS
298 - <Name>SeqA old deltaSeqA</Name> PGCGROWTHCONDITIONS
299 - <Name>SeqA old rep1</Name> PGCGROWTHCONDITIONS
300 - <Name>SeqA old rep2</Name> PGCGROWTHCONDITIONS
301 - <Name>SoxR PQ 1</Name> PGCGROWTHCONDITIONS
302 - <Name>SoxR PQ 2</Name> PGCGROWTHCONDITIONS
303 - <Name>SoxS PQ 1</Name> PGCGROWTHCONDITIONS
304 - <Name>SoxS PQ 2</Name> PGCGROWTHCONDITIONS
305 - <Name>ß - Aerobic - A</Name> PGCGROWTHCONDITIONS
306 - <Name>ß - Aerobic - B</Name> PGCGROWTHCONDITIONS
307 - <Name>ß - Anaerobic - A</Name> PGCGROWTHCONDITIONS
308 - <Name>ß - Anaerobic - B</Name> PGCGROWTHCONDITIONS
309 - <Name>TrpR_glucose</Name> PGCGROWTHCONDITIONS
310 - <Name>TrpR_Trp</Name> PGCGROWTHCONDITIONS
311 - <Name>Wild-type Aerobic A</Name> PGCGROWTHCONDITIONS
312 - <Name>Wild-type Aerobic B</Name> PGCGROWTHCONDITIONS
313 - <Name>Wild-type Anaerobic A</Name> PGCGROWTHCONDITIONS
314 - <Name>Wild-type Anaerobic B</Name> PGCGROWTHCONDITIONS
315 - <Name>Wild type control (0 min)</Name> PGCGROWTHCONDITIONS
316 - <Name>Wild type control (10 min)</Name> PGCGROWTHCONDITIONS
317 - <Name>Wild type control (20 min)</Name> PGCGROWTHCONDITIONS
318 - <Name>Wild type control (2.5 min)</Name> PGCGROWTHCONDITIONS
319 - <Name>Wild type control (5 min)</Name> PGCGROWTHCONDITIONS
320 - <Name>WT acetate 1</Name> PGCGROWTHCONDITIONS
321 - <Name>WT acetate 2</Name> PGCGROWTHCONDITIONS
322 - <Name>WT_ChIPSeq_1</Name> PGCGROWTHCONDITIONS
323 - <Name>WT_ChIPSeq_2</Name> PGCGROWTHCONDITIONS
324 - <Name>WT fructose 1</Name> PGCGROWTHCONDITIONS
325 - <Name>WT fructose 2</Name> PGCGROWTHCONDITIONS
326 - <Name>WT glucose 1</Name> PGCGROWTHCONDITIONS
327 - <Name>WT glucose 2</Name> PGCGROWTHCONDITIONS
328 - <Name>WT NaCl 1</Name> PGCGROWTHCONDITIONS
329 - <Name>WT NaCl 2</Name> PGCGROWTHCONDITIONS
330 - <Name>WT pH5.5 1</Name> PGCGROWTHCONDITIONS
331 - <Name>WT pH5.5 2</Name> PGCGROWTHCONDITIONS
332 - <Name>WT PQ 1</Name> PGCGROWTHCONDITIONS
333 - <Name>WT PQ 2</Name> PGCGROWTHCONDITIONS
334 - <Name>WT_RNASeq</Name> PGCGROWTHCONDITIONS
335 - <Name>WT with DPD 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
336 - <Name>WT with DPD 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
337 - <Name>WT with Fe 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
338 - <Name>WT with Fe 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
339 - <Name>Δcra acetate 1</Name> PGCGROWTHCONDITIONS
340 - <Name>Δcra acetate 2</Name> PGCGROWTHCONDITIONS
341 - <Name>Δcra fructose 1</Name> PGCGROWTHCONDITIONS
342 - <Name>Δcra fructose 2</Name> PGCGROWTHCONDITIONS
343 - <Name>Δcra glucose 1</Name> PGCGROWTHCONDITIONS
344 - <Name>Δcra glucose 2</Name> PGCGROWTHCONDITIONS
345 - <Name>Δfur with DPD 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
346 - <Name>Δfur with DPD 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
347 - <Name>Δfur with Fe 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
348 - <Name>Δfur with Fe 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
349 - <Name>ΔgadE pH5.5 1</Name> PGCGROWTHCONDITIONS
350 - <Name>ΔgadE pH5.5 2</Name> PGCGROWTHCONDITIONS
351 - <Name>ΔgadW pH5.5 1</Name> PGCGROWTHCONDITIONS
352 - <Name>ΔgadW pH5.5 2</Name> PGCGROWTHCONDITIONS
353 - <Name>ΔgadX pH5.5 1</Name> PGCGROWTHCONDITIONS
354 - <Name>ΔgadX pH5.5 2</Name> PGCGROWTHCONDITIONS
355 - <Name>ΔompR NaCl 1</Name> PGCGROWTHCONDITIONS
356 - <Name>ΔompR NaCl 2</Name> PGCGROWTHCONDITIONS
357 - <Name>ΔoxyR PQ 1</Name> PGCGROWTHCONDITIONS
358 - <Name>ΔoxyR PQ 2</Name> PGCGROWTHCONDITIONS
359 - <Name>ΔsoxR PQ 1</Name> PGCGROWTHCONDITIONS
360 - <Name>ΔsoxR PQ 2</Name> PGCGROWTHCONDITIONS
361 - <Name>ΔsoxS PQ 1</Name> PGCGROWTHCONDITIONS
362 - <Name>ΔsoxS PQ 2</Name> PGCGROWTHCONDITIONS
363 - <Name>σ32 30°C rep1</Name> PGCGROWTHCONDITIONS
364 - <Name>σ32 30°C rep2</Name> PGCGROWTHCONDITIONS
365 - <Name>σ32 30°C short RNase</Name> PGCGROWTHCONDITIONS
366 - <Name>σ32 43°C rep1</Name> PGCGROWTHCONDITIONS
367 - <Name>σ32 43°C rep2</Name> PGCGROWTHCONDITIONS
368 - <Name>σ32 43°C short RNase</Name> PGCGROWTHCONDITIONS
369 - <Name>σ32 ChIP DNA, control</Name> PGCGROWTHCONDITIONS
370 - <Name>σ32 ChIP DNA, heat</Name> PGCGROWTHCONDITIONS
371 - <Orgn>Escherichia coli K-12</Orgn> PGCGROWTHCONDITIONS
372 - <Orgn>Escherichia coli</Orgn> PGCGROWTHCONDITIONS
373 - <Orgn>Escherichia coli</Orgn> str. <Strain>K-12</Strain> substr. <Substrain>MG1655star</Substrain> PGCGROWTHCONDITIONS
374 - <Orgn>Escherichia coli</Orgn> str. <Strain>K-12</Strain> substr. <Substrain>MG1655</Substrain> PGCGROWTHCONDITIONS
375 - <Orgn>Escherichia coli str. K-12 substr. MG1655</Orgn> PGCGROWTHCONDITIONS
376 - <Orgn>Escherichia coli str. K-12 substr. MG1655star</Orgn> PGCGROWTHCONDITIONS
377 - Resulting reads were aligned to the published E. coli K-12 MG1655 genome (<Gversion>U00096.2</Gversion>) using the software package SOAP (Li et al, 2009), allowing no more than two mismatches (Supplemental File). Reads aligning to repeated elements in the genome (e.g. rRNA) were removed from analysis. For reads that had no mapping locations for the first 36 bp, the 3-30 bp subsequences were used in the subsequent mapping to the reference genome. Reads that had unique mapping locations and did not match annotated rRNA genes were used for further analysis. For each gene, the tag density was estimated as the number of aligned sequencing tags divided by gene size in kb. Per-gene tag density was normalized using quantile normalization (Supplemental Files). The tag density data were analyzed for statistically significant differential expression using BaySeq (Hardcastle &amp; Kelly, 2010) with a FDR of 0.01, and genes were organized into operons using data from EcoCyc (Keseler et al, 2011). PGCGROWTHCONDITIONS
378 - Sequenced reads were mapped onto <Gversion>NC_000913</Gversion> reference genome sequence using bowtie v1.0.0 with parameters -X 1000 -n 2 -3 3 -S PGCGROWTHCONDITIONS
379 - Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final) was added to the <Phase>mid-log</Phase> cultures followed by formaldehyde to 1% final and anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 3500 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. Cell pellets (from initial 250 mL of culture) were thawed and resuspended in 250 μL of IP buffer (100 mM Tris pH 8, 300 mM NaCl, 1% TritonX-100) and sonicated using a microtip sonicator set at 10% output for 20 second intervals with periods of cooling in between. Cells were then treated for one hour at 4 °C with RNase A (2 ng/ml), micrococcal nuclease (50 units), 20 μM CaCl2,1.2 mM KCl, 0.3 mM NaCl, 6 mM sucrose, and 10 μM DTT. EDTA was added to 10 mM to stop the micrococcal nuclease and the samples were spun down to remove cell debris. The lysate was then precleared through incubation with a 50/50 slurry of sepharose protein A beads in IP buffer for 2-3 hours at 4 °C. The beads were removed by centrifugation and antibody was added to the pre-cleared lysate for an overnight incubation. The next day, 30 μl of a 50/50 slurry of sepharose protein A beads in IP buffer was added to the lysate to capture antibody-protein-DNA complex for one hour at 4 °C. Beads were then washed once with 1 ml of LiCl wash buffer (100 mM Tris pH 8, 250 mM LiCl, 2% TritonX-100), twice with 600 mM NaCl wash buffer (100 mM Tris pH 8, 600 mM NaCl, 2% TritonX-100), twice with 300 mM NaCl wash buffer (100 mM Tris pH 8, 300 mM NaCl, 2% TritonX-100), and twice with TE. Elution buffer (50 mM Tris pH 8, 10 mM EDTA, 1% SDS) was added after the final wash step, and beads were incubated at 65 °C for 30 minutes to remove the crosslinked protein-DNA complexes from the beads. After centrifugation to remove the beads, the samples were incubated overnight at 65 °C to reverse the protein-DNA formaldehyde crosslinks. DNA was purified using Qiagen’s PCR Purification kit and eluted to a final volume of 50 μl with EB. PGCGROWTHCONDITIONS
380 - strain: <Gtype>∆hns/∆stpA</Gtype> PGCGROWTHCONDITIONS
381 - strain: <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS
382 - strain: <Gtype>PK8263</Gtype> PGCGROWTHCONDITIONS
383 - strain: MG1655 K-12 <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
384 - strain: <Orgn>K-12 MG1655</Orgn> PGCGROWTHCONDITIONS
385 - strain: <Orgn>MG1655</Orgn> PGCGROWTHCONDITIONS
386 - strain: <Strain>K-12</Strain> PGCGROWTHCONDITIONS
387 - <Substrain>MG1655</Substrain> <Gtype>PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)</Gtype> PGCGROWTHCONDITIONS
388 - <Substrain>MG1655</Substrain> <Gtype>PhtpG::lacZ delta lacX74/ptrc99A (control vector)</Gtype> PGCGROWTHCONDITIONS
389 - <Supp>acetate</Supp> PGCGROWTHCONDITIONS
390 - <Supp>Sodium phosphate (1/100 vol. of 1M, pH 7.6; 10 mM final)</Supp> was added to the <Phase>mid-log</Phase> cultures followed by formaldehyde to 1% final, and aerobic or anaerobic sparging was continued for 10 min. Cold 2.5 M glycine was added to 100mM and the mixture was incubated at 4 °C with aerobic or anaerobic sparging for 30 minutes to stop the crosslinking. Cells were spun at 3500 x g, and washed repeatedly with phosphate buffered saline before being frozen at -80 °C. PGCGROWTHCONDITIONS
391 - <Technique>ChIP-Seq</Technique> PGCGROWTHCONDITIONS
392 - <Technique>RNA-Seq</Technique> PGCGROWTHCONDITIONS
393 - The cultured cells were inoculated with 1:100 dilution into 50 mL of the fresh M9 medium containing 2 g/L glucose in either the presence or <Supp>absence of 1 g/L arginine</Supp> and continued to culture at 37°C until reaching an appropriate cell density (OD600 ≈ 0.5). PGCGROWTHCONDITIONS
394 - The cultured cells were inoculated with 1:100 dilution into 50 mL of the fresh <Med>M9 medium</Med> containing <Supp>2 g/L glucose</Supp> in either the <Supp>presence or absence of 1 g/L arginine</Supp> and continued to culture at <Temp>37°C</Temp> until reaching an appropriate cell density (<OD>OD600 ≈ 0.5</OD>). PGCGROWTHCONDITIONS
395 - To harvest total RNA samples, overnight cultures of <Gtype>wild type</Gtype> MG1655 grown in LB at 37˚C were diluted back 1:500 in either fresh LB or M63 minimal glucose medium and allowed to grow until the cultures reached an OD600 of ~ 0.4 and 2.0 for cultures grown in LB and an OD600 of ~0.4 for cultures grown in M63. For samples grown to OD600 of ~0.4 a total volume of 25 ml of cells were harvested and combined with 5 ml of stop solution (95% Ethanol, 5% acid phenol). For samples grown to <OD>OD600 of 2.0</OD> a total volume of 5 ml of cells were harvested and combined with 1 ml of stop solution. PGCGROWTHCONDITIONS
396 - To harvest total RNA samples, overnight cultures of <Gtype>wild type</Gtype> MG1655 grown in LB at 37˚C were diluted back 1:500 in either fresh LB or M63 minimal glucose medium and allowed to grow until the cultures reached an OD600 of ~ 0.4 and 2.0 for cultures grown in LB and an OD600 of ~0.4 for cultures grown in M63. For samples grown to <OD>OD600 of ~0.4</OD> a total volume of 25 ml of cells were harvested and combined with 5 ml of stop solution (95% Ethanol, 5% acid phenol). For samples grown to OD600 of 2.0 a total volume of 5 ml of cells were harvested and combined with 1 ml of stop solution. PGCGROWTHCONDITIONS
397 - To harvest total RNA samples, overnight cultures of <Gtype>wild type</Gtype> MG1655 grown in LB at 37˚C were diluted back 1:500 in either fresh LB or <Med>M63 minimal glucose</Med> medium and allowed to grow until the cultures reached an OD600 of ~ 0.4 and 2.0 for cultures grown in LB and an <OD>OD600 of ~0.4</OD> for cultures grown in M63. For samples grown to OD600 of ~0.4 a total volume of 25 ml of cells were harvested and combined with 5 ml of stop solution (95% Ethanol, 5% acid phenol). For samples grown to OD600 of 2.0 a total volume of 5 ml of cells were harvested and combined with 1 ml of stop solution. PGCGROWTHCONDITIONS
398 - treated with: <Supp>250 uM of paraquat</Supp> at <Phase>mid-log pahse</Phase> for <Supp>20 min</Supp> PGCGROWTHCONDITIONS
399 - treated with: <Supp>250 uM of paraquat</Supp> at <Phase>mid-log phase</Phase> for <Supp>20 min</Supp> PGCGROWTHCONDITIONS
400 - treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented without <Supp>10 mM leucine</Supp>. PGCGROWTHCONDITIONS
401 - treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented without <Supp>20 mg/L tryptophan</Supp>. PGCGROWTHCONDITIONS
402 - treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented with <Supp>10 mM leucine</Supp>. PGCGROWTHCONDITIONS
403 - treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented with <Supp>20 mg/L tryptophan</Supp>. PGCGROWTHCONDITIONS
404 - treatment: <Med>glucose (2 g/L) minimal W2 medium</Med> supplemented with <Supp>1g/L arginine</Supp>. PGCGROWTHCONDITIONS
405 - treatment: <Med>glucose (2 g/L) minimal W2 medium</Med> supplemented with <Supp>2g/L glutamine</Supp>. PGCGROWTHCONDITIONS
...@@ -863,15 +863,131 @@ ...@@ -863,15 +863,131 @@
863 100 At at IN _ _ _ 863 100 At at IN _ _ _
864 101 <OD> <od> NN _ _ _ 864 101 <OD> <od> NN _ _ _
865 102 OD450 od450 NN _ _ _ 865 102 OD450 od450 NN _ _ _
866 -103 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 866 +103 = = JJ _ _ _
867 -104 A a NN _ _ _ 867 +104 0.3 0.3 CD _ _ _
868 -105 total total NN _ _ _ 868 +105 </OD> </od> NN _ _ _
869 -106 of of IN _ _ _ 869 +106 , , , _ _ _
870 -107 six six CD _ _ _ 870 +107 cultures culture NNS _ _ _
871 -108 samples sample NNS _ _ _ 871 +108 induced induce VBN _ _ _
872 -109 were be VBD _ _ _ 872 +109 with with IN _ _ _
873 -110 analyzed analyze VBN _ _ _ 873 +110 <Supp> <supp> NN _ _ _
874 -111 . . . _ _ _ 874 +111 1 1 CD _ _ _
875 +112 mM mm NN _ _ _
876 +113 IPTG iptg NN _ _ _
877 +114 </Supp> </supp> NN _ _ _
878 +115 . . . _ _ _
879 +
880 +1 Cells cell NNS _ _ _
881 +2 harvested harvest VBD _ _ _
882 +3 0 0 CD _ _ _
883 +4 min min NN _ _ _
884 +5 after after IN _ _ _
885 +6 induction induction NN _ _ _
886 +7 PGCGROWTHCONDITIONS pgcgrowthcondition NNS _ _ _
887 +8 At at IN _ _ _
888 +9 <OD> <od> NN _ _ _
889 +10 OD450 od450 NN _ _ _
890 +11 = = JJ _ _ _
891 +12 0.3 0.3 CD _ _ _
892 +13 </OD> </od> NN _ _ _
893 +14 , , , _ _ _
894 +15 cultures culture NNS _ _ _
895 +16 induced induce VBN _ _ _
896 +17 with with IN _ _ _
897 +18 <Supp> <supp> NN _ _ _
898 +19 1 1 CD _ _ _
899 +20 mM mm NN _ _ _
900 +21 IPTG iptg NN _ _ _
901 +22 </Supp> </supp> NN _ _ _
902 +23 . . . _ _ _
903 +
904 +1 Cells cell NNS _ _ _
905 +2 harvested harvest VBD _ _ _
906 +3 10 10 CD _ _ _
907 +4 min min NN _ _ _
908 +5 after after IN _ _ _
909 +6 induction induction NN _ _ _
910 +7 PGCGROWTHCONDITIONS pgcgrowthcondition NNS _ _ _
911 +8 At at IN _ _ _
912 +9 <OD> <od> NN _ _ _
913 +10 OD450 od450 NN _ _ _
914 +11 = = JJ _ _ _
915 +12 0.3 0.3 CD _ _ _
916 +13 </OD> </od> NN _ _ _
917 +14 , , , _ _ _
918 +15 cultures culture NNS _ _ _
919 +16 induced induce VBN _ _ _
920 +17 with with IN _ _ _
921 +18 <Supp> <supp> NN _ _ _
922 +19 1 1 CD _ _ _
923 +20 mM mm NN _ _ _
924 +21 IPTG iptg NN _ _ _
925 +22 </Supp> </supp> NN _ _ _
926 +23 . . . _ _ _
927 +
928 +1 Cells cell NNS _ _ _
929 +2 harvested harvest VBN _ _ _
930 +3 20 20 CD _ _ _
931 +4 min min NN _ _ _
932 +5 after after IN _ _ _
933 +6 induction induction NN _ _ _
934 +7 PGCGROWTHCONDITIONS pgcgrowthcondition NNS _ _ _
935 +8 At at IN _ _ _
936 +9 <OD> <od> NN _ _ _
937 +10 OD450 od450 NN _ _ _
938 +11 = = JJ _ _ _
939 +12 0.3 0.3 CD _ _ _
940 +13 </OD> </od> NN _ _ _
941 +14 , , , _ _ _
942 +15 cultures culture NNS _ _ _
943 +16 induced induce VBN _ _ _
944 +17 with with IN _ _ _
945 +18 <Supp> <supp> NN _ _ _
946 +19 1 1 CD _ _ _
947 +20 mM mm NN _ _ _
948 +21 IPTG iptg NN _ _ _
949 +22 </Supp> </supp> NN _ _ _
950 +23 . . . _ _ _
951 +
952 +1 Cells cell NNS _ _ _
953 +2 harvested harvest VBN _ _ _
954 +3 2.5 2.5 CD _ _ _
955 +4 min min NN _ _ _
956 +5 after after IN _ _ _
957 +6 induction induction NN _ _ _
958 +7 PGCGROWTHCONDITIONS pgcgrowthcondition NNS _ _ _
959 +8 At at IN _ _ _
960 +9 <OD> <od> NN _ _ _
961 +10 OD450 od450 NN _ _ _
962 +11 = = JJ _ _ _
963 +12 0.3 0.3 CD _ _ _
964 +13 </OD> </od> NN _ _ _
965 +14 , , , _ _ _
966 +15 cultures culture NNS _ _ _
967 +16 induced induce VBN _ _ _
968 +17 with with IN _ _ _
969 +18 <Supp> <supp> NN _ _ _
970 +19 1 1 CD _ _ _
971 +20 mM mm NN _ _ _
972 +21 IPTG iptg NN _ _ _
973 +22 </Supp> </supp> NN _ _ _
974 +23 . . . _ _ _
975 +
976 +1 Cells cell NNS _ _ _
977 +2 harvested harvest VBN _ _ _
978 +3 5 5 CD _ _ _
979 +4 min min NN _ _ _
980 +5 after after IN _ _ _
981 +6 induction induction NN _ _ _
982 +7 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
983 +8 A a NN _ _ _
984 +9 total total NN _ _ _
985 +10 of of IN _ _ _
986 +11 six six CD _ _ _
987 +12 samples sample NNS _ _ _
988 +13 were be VBD _ _ _
989 +14 analyzed analyze VBN _ _ _
990 +15 . . . _ _ _
875 991
876 1 oxyR-8myc oxyr-8myc NN _ _ _ 992 1 oxyR-8myc oxyr-8myc NN _ _ _
877 2 , , , _ _ _ 993 2 , , , _ _ _
...@@ -3594,67 +3710,142 @@ ...@@ -3594,67 +3710,142 @@
3594 23 -LRB- -lrb- -LRB- _ _ _ 3710 23 -LRB- -lrb- -LRB- _ _ _
3595 24 <OD> <od> NN _ _ _ 3711 24 <OD> <od> NN _ _ _
3596 25 OD600 od600 NN _ _ _ 3712 25 OD600 od600 NN _ _ _
3597 -26 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 3713 +26 = = JJ _ _ _
3598 -27 E. e. FW _ _ _ 3714 +27 0.3 0.3 CD _ _ _
3599 -28 coli coli FW _ _ _ 3715 +28 </OD> </od> NN _ _ _
3600 -29 K-12 k-12 NN _ _ _ 3716 +29 -RRB- -rrb- -RRB- _ _ _
3601 -30 MG1655 mg1655 NN _ _ _ 3717 +30 <Air> <air> NN _ _ _
3602 -31 WT wt NN _ _ _ 3718 +31 aerobically aerobically RB _ _ _
3603 -32 , , , _ _ _ 3719 +32 </Air> </air> NN _ _ _
3604 -33 gadE gade NN _ _ _ 3720 +33 -LRB- -lrb- -LRB- _ _ _
3605 -34 , , , _ _ _ 3721 +34 <Agit> <agit> NN _ _ _
3606 -35 gadW gadw NN _ _ _ 3722 +35 250 250 CD _ _ _
3607 -36 and and CC _ _ _ 3723 +36 rpm rpm NN _ _ _
3608 -37 gadX gadx NN _ _ _ 3724 +37 </Agit> </agit> NN _ _ _
3609 -38 mutant mutant JJ _ _ _ 3725 +38 -RRB- -rrb- -RRB- _ _ _
3610 -39 cells cell NNS _ _ _ 3726 +39 at at IN _ _ _
3611 -40 were be VBD _ _ _ 3727 +40 <Temp> <temp> NN _ _ _
3612 -41 grown grow VBN _ _ _ 3728 +41 37 37 CD _ _ _
3613 -42 to to TO _ _ _ 3729 +42 °C °c NN _ _ _
3614 -43 mid-log mid-log JJ _ _ _ 3730 +43 </Temp> </temp> NN _ _ _
3615 -44 phase phase NN _ _ _ 3731 +44 in in IN _ _ _
3616 -45 -LRB- -lrb- -LRB- _ _ _ 3732 +45 <Med> <med> NN _ _ _
3617 -46 OD600 od600 NN _ _ _ 3733 +46 M9 m9 NN _ _ _
3618 -47 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 3734 +47 minimal minimal JJ _ _ _
3619 -48 E. e. FW _ _ _ 3735 +48 media media NNS _ _ _
3620 -49 coli coli FW _ _ _ 3736 +49 </Med> </med> NN _ _ _
3621 -50 K-12 k-12 NN _ _ _ 3737 +50 supplemented supplement VBN _ _ _
3622 -51 MG1655 mg1655 NN _ _ _ 3738 +51 with with IN _ _ _
3623 -52 WT wt NN _ _ _ 3739 +52 <Supp> <supp> NN _ _ _
3624 -53 , , , _ _ _ 3740 +53 0.2 0.2 CD _ _ _
3625 -54 ΔoxyR δoxyr NN _ _ _ 3741 +54 % % NN _ _ _
3626 -55 , , , _ _ _ 3742 +55 glucose glucose NN _ _ _
3627 -56 ΔsoxR δsoxr NN _ _ _ 3743 +56 </Supp> </supp> NN _ _ _
3628 -57 , , , _ _ _ 3744 +57 at at IN _ _ _
3629 -58 and and CC _ _ _ 3745 +58 <pH> <pH> NNP _ _ _
3630 -59 ΔsoxS δsoxs NN _ _ _ 3746 +59 pH ph NN _ _ _
3631 -60 were be VBD _ _ _ 3747 +60 5.5 5.5 CD _ _ _
3632 -61 grown grow VBN _ _ _ 3748 +61 </pH> </ph> NN _ _ _
3633 -62 to to TO _ _ _ 3749 +62 . . . _ _ _
3634 -63 mid-log mid-log JJ _ _ _ 3750 +
3635 -64 phase phase NN _ _ _ 3751 +1 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
3636 -65 <Air> <air> NN _ _ _ 3752 +2 E. E. NNP _ _ _
3637 -66 aerobically aerobically RB _ _ _ 3753 +3 coli coli NN _ _ _
3638 -67 </Air> </air> NN _ _ _ 3754 +4 K-12 k-12 NN _ _ _
3639 -68 at at IN _ _ _ 3755 +5 MG1655 mg1655 NN _ _ _
3640 -69 <Temp> <temp> NN _ _ _ 3756 +6 WT wt NN _ _ _
3641 -70 37 37 CD _ _ _ 3757 +7 , , , _ _ _
3642 -71 °C °c NN _ _ _ 3758 +8 gadE gade NN _ _ _
3643 -72 </Temp> </temp> NN _ _ _ 3759 +9 , , , _ _ _
3644 -73 in in IN _ _ _ 3760 +10 gadW gadw NN _ _ _
3645 -74 <Med> <med> NN _ _ _ 3761 +11 and and CC _ _ _
3646 -75 M9 m9 NN _ _ _ 3762 +12 gadX gadx NN _ _ _
3647 -76 minimal minimal JJ _ _ _ 3763 +13 mutant mutant JJ _ _ _
3648 -77 media media NNS _ _ _ 3764 +14 cells cell NNS _ _ _
3649 -78 </Med> </med> NN _ _ _ 3765 +15 were be VBD _ _ _
3650 -79 supplemented supplement VBN _ _ _ 3766 +16 grown grow VBN _ _ _
3651 -80 with with IN _ _ _ 3767 +17 to to TO _ _ _
3652 -81 <Supp> <supp> NN _ _ _ 3768 +18 mid-log mid-log JJ _ _ _
3653 -82 0.2 0.2 CD _ _ _ 3769 +19 phase phase NN _ _ _
3654 -83 % % NN _ _ _ 3770 +20 -LRB- -lrb- -LRB- _ _ _
3655 -84 glucose glucose NN _ _ _ 3771 +21 OD600 od600 NN _ _ _
3656 -85 </Supp> </supp> NN _ _ _ 3772 +22 = = JJ _ _ _
3657 -86 . . . _ _ _ 3773 +23 0.3 0.3 CD _ _ _
3774 +24 -RRB- -rrb- -RRB- _ _ _
3775 +25 <Air> <air> NN _ _ _
3776 +26 aerobically aerobically RB _ _ _
3777 +27 </Air> </air> NN _ _ _
3778 +28 -LRB- -lrb- -LRB- _ _ _
3779 +29 <Agit> <agit> NN _ _ _
3780 +30 250 250 CD _ _ _
3781 +31 rpm rpm NN _ _ _
3782 +32 </Agit> </agit> NN _ _ _
3783 +33 -RRB- -rrb- -RRB- _ _ _
3784 +34 at at IN _ _ _
3785 +35 <Temp> <temp> NN _ _ _
3786 +36 37 37 CD _ _ _
3787 +37 °C °c NN _ _ _
3788 +38 </Temp> </temp> NN _ _ _
3789 +39 in in IN _ _ _
3790 +40 <Med> <med> NN _ _ _
3791 +41 M9 m9 NN _ _ _
3792 +42 minimal minimal JJ _ _ _
3793 +43 media media NNS _ _ _
3794 +44 </Med> </med> NN _ _ _
3795 +45 supplemented supplement VBN _ _ _
3796 +46 with with IN _ _ _
3797 +47 <Supp> <supp> NN _ _ _
3798 +48 0.2 0.2 CD _ _ _
3799 +49 % % NN _ _ _
3800 +50 glucose glucose NN _ _ _
3801 +51 </Supp> </supp> NN _ _ _
3802 +52 at at IN _ _ _
3803 +53 <pH> <pH> NNP _ _ _
3804 +54 pH ph NN _ _ _
3805 +55 5.5 5.5 CD _ _ _
3806 +56 </pH> </ph> NN _ _ _
3807 +57 . . . _ _ _
3808 +
3809 +1 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
3810 +2 E. E. NNP _ _ _
3811 +3 coli coli NN _ _ _
3812 +4 K-12 k-12 NN _ _ _
3813 +5 MG1655 mg1655 NN _ _ _
3814 +6 WT wt NN _ _ _
3815 +7 , , , _ _ _
3816 +8 ΔoxyR δoxyr NN _ _ _
3817 +9 , , , _ _ _
3818 +10 ΔsoxR δsoxr NN _ _ _
3819 +11 , , , _ _ _
3820 +12 and and CC _ _ _
3821 +13 ΔsoxS δsoxs NN _ _ _
3822 +14 were be VBD _ _ _
3823 +15 grown grow VBN _ _ _
3824 +16 to to TO _ _ _
3825 +17 mid-log mid-log JJ _ _ _
3826 +18 phase phase NN _ _ _
3827 +19 <Air> <air> NN _ _ _
3828 +20 aerobically aerobically RB _ _ _
3829 +21 </Air> </air> NN _ _ _
3830 +22 at at IN _ _ _
3831 +23 <Temp> <temp> NN _ _ _
3832 +24 37 37 CD _ _ _
3833 +25 °C °c NN _ _ _
3834 +26 </Temp> </temp> NN _ _ _
3835 +27 in in IN _ _ _
3836 +28 <Med> <med> NN _ _ _
3837 +29 M9 m9 NN _ _ _
3838 +30 minimal minimal JJ _ _ _
3839 +31 media media NNS _ _ _
3840 +32 </Med> </med> NN _ _ _
3841 +33 supplemented supplement VBN _ _ _
3842 +34 with with IN _ _ _
3843 +35 <Supp> <supp> NN _ _ _
3844 +36 0.2 0.2 CD _ _ _
3845 +37 % % NN _ _ _
3846 +38 glucose glucose NN _ _ _
3847 +39 </Supp> </supp> NN _ _ _
3848 +40 . . . _ _ _
3658 3849
3659 1 Then then RB _ _ _ 3850 1 Then then RB _ _ _
3660 2 cells cell NNS _ _ _ 3851 2 cells cell NNS _ _ _
...@@ -4688,1189 +4879,1193 @@ ...@@ -4688,1189 +4879,1193 @@
4688 706 -LRB- -lrb- -LRB- _ _ _ 4879 706 -LRB- -lrb- -LRB- _ _ _
4689 707 <OD> <od> NN _ _ _ 4880 707 <OD> <od> NN _ _ _
4690 708 OD600 od600 NN _ _ _ 4881 708 OD600 od600 NN _ _ _
4691 -709 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4882 +709 = = JJ _ _ _
4692 -710 growth growth NN _ _ _ 4883 +710 0.3 0.3 CD _ _ _
4693 -711 phase phase NN _ _ _ 4884 +711 </OD> </od> NN _ _ _
4694 -712 : : : _ _ _ 4885 +712 -RRB- -rrb- -RRB- _ _ _
4695 -713 <Phase> <phase> NN _ _ _ 4886 +713 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4696 -714 stationary stationary JJ _ _ _ 4887 +714 growth growth NN _ _ _
4697 -715 </Phase> </phase> NN _ _ _ 4888 +715 phase phase NN _ _ _
4698 -716 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4889 +716 : : : _ _ _
4699 -717 <Gtype> <gtype> NN _ _ _ 4890 +717 <Phase> <phase> NN _ _ _
4700 -718 ∆ ∆ CD _ _ _ 4891 +718 stationary stationary JJ _ _ _
4701 -719 fnr fnr NN _ _ _ 4892 +719 </Phase> </phase> NN _ _ _
4702 -720 </Gtype> </gtype> NN _ _ _ 4893 +720 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4703 -721 - - : _ _ _ 4894 +721 <Gtype> <gtype> NN _ _ _
4704 -722 <Air> <air> NN _ _ _ 4895 +722 ∆ ∆ CD _ _ _
4705 -723 Anaeroibc anaeroibc NN _ _ _ 4896 +723 fnr fnr NN _ _ _
4706 -724 </Air> </air> NN _ _ _ 4897 +724 </Gtype> </gtype> NN _ _ _
4707 -725 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4898 +725 - - : _ _ _
4708 -726 <Gtype> <gtype> NN _ _ _ 4899 +726 <Air> <air> NN _ _ _
4709 -727 ∆ ∆ CD _ _ _ 4900 +727 Anaeroibc anaeroibc NN _ _ _
4710 -728 fnr fnr NN _ _ _ 4901 +728 </Air> </air> NN _ _ _
4711 -729 </Gtype> </gtype> NN _ _ _ 4902 +729 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4712 -730 ChIP chip NN _ _ _ 4903 +730 <Gtype> <gtype> NN _ _ _
4713 -731 DNA dna NN _ _ _ 4904 +731 ∆ ∆ CD _ _ _
4714 -732 from from IN _ _ _ 4905 +732 fnr fnr NN _ _ _
4715 -733 <Gtype> <gtype> NN _ _ _ 4906 +733 </Gtype> </gtype> NN _ _ _
4716 -734 PK4854 pk4854 NN _ _ _ 4907 +734 ChIP chip NN _ _ _
4717 -735 </Gtype> </gtype> NN _ _ _ 4908 +735 DNA dna NN _ _ _
4718 -736 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4909 +736 from from IN _ _ _
4719 737 <Gtype> <gtype> NN _ _ _ 4910 737 <Gtype> <gtype> NN _ _ _
4720 -738 ∆ ∆ CD _ _ _ 4911 +738 PK4854 pk4854 NN _ _ _
4721 -739 fur fur NN _ _ _ 4912 +739 </Gtype> </gtype> NN _ _ _
4722 -740 </Gtype> </gtype> NN _ _ _ 4913 +740 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4723 -741 <Air> <air> NN _ _ _ 4914 +741 <Gtype> <gtype> NN _ _ _
4724 -742 Aerobic aerobic JJ _ _ _ 4915 +742 ∆ ∆ CD _ _ _
4725 -743 </Air> </air> NN _ _ _ 4916 +743 fur fur NN _ _ _
4726 -744 A a DT _ _ _ 4917 +744 </Gtype> </gtype> NN _ _ _
4727 -745 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4918 +745 <Air> <air> NN _ _ _
4728 -746 <Gtype> <gtype> NN _ _ _ 4919 +746 Aerobic aerobic JJ _ _ _
4729 -747 ∆ ∆ CD _ _ _ 4920 +747 </Air> </air> NN _ _ _
4730 -748 fur fur NN _ _ _ 4921 +748 A a DT _ _ _
4731 -749 </Gtype> </gtype> NN _ _ _ 4922 +749 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4732 -750 <Air> <air> NN _ _ _ 4923 +750 <Gtype> <gtype> NN _ _ _
4733 -751 Aerobic aerobic JJ _ _ _ 4924 +751 ∆ ∆ CD _ _ _
4734 -752 </Air> </air> NN _ _ _ 4925 +752 fur fur NN _ _ _
4735 -753 B b NN _ _ _ 4926 +753 </Gtype> </gtype> NN _ _ _
4736 -754 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4927 +754 <Air> <air> NN _ _ _
4737 -755 <Gtype> <gtype> NN _ _ _ 4928 +755 Aerobic aerobic JJ _ _ _
4738 -756 ∆ ∆ CD _ _ _ 4929 +756 </Air> </air> NN _ _ _
4739 -757 fur fur NN _ _ _ 4930 +757 B b NN _ _ _
4740 -758 </Gtype> </gtype> NN _ _ _ 4931 +758 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4741 -759 <Air> <air> NN _ _ _ 4932 +759 <Gtype> <gtype> NN _ _ _
4742 -760 Anaerobic anaerobic JJ _ _ _ 4933 +760 ∆ ∆ CD _ _ _
4743 -761 </Air> </air> NN _ _ _ 4934 +761 fur fur NN _ _ _
4744 -762 A a DT _ _ _ 4935 +762 </Gtype> </gtype> NN _ _ _
4745 -763 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4936 +763 <Air> <air> NN _ _ _
4746 -764 <Gtype> <gtype> NN _ _ _ 4937 +764 Anaerobic anaerobic JJ _ _ _
4747 -765 ∆ ∆ CD _ _ _ 4938 +765 </Air> </air> NN _ _ _
4748 -766 fur fur NN _ _ _ 4939 +766 A a DT _ _ _
4749 -767 </Gtype> </gtype> NN _ _ _ 4940 +767 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4750 -768 <Air> <air> NN _ _ _ 4941 +768 <Gtype> <gtype> NN _ _ _
4751 -769 Anaerobic anaerobic JJ _ _ _ 4942 +769 ∆ ∆ CD _ _ _
4752 -770 </Air> </air> NN _ _ _ 4943 +770 fur fur NN _ _ _
4753 -771 B b NN _ _ _ 4944 +771 </Gtype> </gtype> NN _ _ _
4754 -772 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4945 +772 <Air> <air> NN _ _ _
4755 -773 <Gtype> <gtype> NN _ _ _ 4946 +773 Anaerobic anaerobic JJ _ _ _
4756 -774 ∆ ∆ CD _ _ _ 4947 +774 </Air> </air> NN _ _ _
4757 -775 fur fur NN _ _ _ 4948 +775 B b NN _ _ _
4758 -776 </Gtype> </gtype> NN _ _ _ 4949 +776 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4759 -777 <Air> <air> NN _ _ _ 4950 +777 <Gtype> <gtype> NN _ _ _
4760 -778 Anaerobic anaerobic JJ _ _ _ 4951 +778 ∆ ∆ CD _ _ _
4761 -779 </Air> </air> NN _ _ _ 4952 +779 fur fur NN _ _ _
4762 -780 -LSB- -lsb- -LRB- _ _ _ 4953 +780 </Gtype> </gtype> NN _ _ _
4763 -781 IP IP NNP _ _ _ 4954 +781 <Air> <air> NN _ _ _
4764 -782 vs vs CC _ _ _ 4955 +782 Anaerobic anaerobic JJ _ _ _
4765 -783 nput nput NN _ _ _ 4956 +783 </Air> </air> NN _ _ _
4766 -784 -RSB- -rsb- -RRB- _ _ _ 4957 +784 -LSB- -lsb- -LRB- _ _ _
4767 -785 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4958 +785 IP IP NNP _ _ _
4768 -786 <Gtype> <gtype> NN _ _ _ 4959 +786 vs vs CC _ _ _
4769 -787 ∆ ∆ CD _ _ _ 4960 +787 nput nput NN _ _ _
4770 -788 fur fur NN _ _ _ 4961 +788 -RSB- -rsb- -RRB- _ _ _
4771 -789 ∆ ∆ CD _ _ _ 4962 +789 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4772 -790 ryhB ryhb NN _ _ _ 4963 +790 <Gtype> <gtype> NN _ _ _
4773 -791 </Gtype> </gtype> NN _ _ _ 4964 +791 ∆ ∆ CD _ _ _
4774 -792 <Air> <air> NN _ _ _ 4965 +792 fur fur NN _ _ _
4775 -793 Aerobic aerobic JJ _ _ _ 4966 +793 ∆ ∆ CD _ _ _
4776 -794 </Air> </air> NN _ _ _ 4967 +794 ryhB ryhb NN _ _ _
4777 -795 A a DT _ _ _ 4968 +795 </Gtype> </gtype> NN _ _ _
4778 -796 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4969 +796 <Air> <air> NN _ _ _
4779 -797 <Gtype> <gtype> NN _ _ _ 4970 +797 Aerobic aerobic JJ _ _ _
4780 -798 ∆ ∆ CD _ _ _ 4971 +798 </Air> </air> NN _ _ _
4781 -799 fur fur NN _ _ _ 4972 +799 A a DT _ _ _
4782 -800 ∆ ∆ CD _ _ _ 4973 +800 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4783 -801 ryhB ryhb NN _ _ _ 4974 +801 <Gtype> <gtype> NN _ _ _
4784 -802 </Gtype> </gtype> NN _ _ _ 4975 +802 ∆ ∆ CD _ _ _
4785 -803 <Air> <air> NN _ _ _ 4976 +803 fur fur NN _ _ _
4786 -804 Aerobic aerobic JJ _ _ _ 4977 +804 ∆ ∆ CD _ _ _
4787 -805 </Air> </air> NN _ _ _ 4978 +805 ryhB ryhb NN _ _ _
4788 -806 B b NN _ _ _ 4979 +806 </Gtype> </gtype> NN _ _ _
4789 -807 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4980 +807 <Air> <air> NN _ _ _
4790 -808 <Gtype> <gtype> NN _ _ _ 4981 +808 Aerobic aerobic JJ _ _ _
4791 -809 ∆ ∆ CD _ _ _ 4982 +809 </Air> </air> NN _ _ _
4792 -810 fur fur NN _ _ _ 4983 +810 B b NN _ _ _
4793 -811 ∆ ∆ CD _ _ _ 4984 +811 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4794 -812 ryhB ryhb NN _ _ _ 4985 +812 <Gtype> <gtype> NN _ _ _
4795 -813 </Gtype> </gtype> NN _ _ _ 4986 +813 ∆ ∆ CD _ _ _
4796 -814 <Air> <air> NN _ _ _ 4987 +814 fur fur NN _ _ _
4797 -815 Anaerobic anaerobic JJ _ _ _ 4988 +815 ∆ ∆ CD _ _ _
4798 -816 </Air> </air> NN _ _ _ 4989 +816 ryhB ryhb NN _ _ _
4799 -817 A a DT _ _ _ 4990 +817 </Gtype> </gtype> NN _ _ _
4800 -818 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 4991 +818 <Air> <air> NN _ _ _
4801 -819 <Gtype> <gtype> NN _ _ _ 4992 +819 Anaerobic anaerobic JJ _ _ _
4802 -820 ∆ ∆ CD _ _ _ 4993 +820 </Air> </air> NN _ _ _
4803 -821 fur fur NN _ _ _ 4994 +821 A a DT _ _ _
4804 -822 ∆ ∆ CD _ _ _ 4995 +822 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4805 -823 ryhB ryhb NN _ _ _ 4996 +823 <Gtype> <gtype> NN _ _ _
4806 -824 </Gtype> </gtype> NN _ _ _ 4997 +824 ∆ ∆ CD _ _ _
4807 -825 <Air> <air> NN _ _ _ 4998 +825 fur fur NN _ _ _
4808 -826 Anaerobic anaerobic JJ _ _ _ 4999 +826 ∆ ∆ CD _ _ _
4809 -827 </Air> </air> NN _ _ _ 5000 +827 ryhB ryhb NN _ _ _
4810 -828 B b NN _ _ _ 5001 +828 </Gtype> </gtype> NN _ _ _
4811 -829 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5002 +829 <Air> <air> NN _ _ _
4812 -830 <Gtype> <gtype> NN _ _ _ 5003 +830 Anaerobic anaerobic JJ _ _ _
4813 -831 NsrR nsrr NN _ _ _ 5004 +831 </Air> </air> NN _ _ _
4814 -832 _ _ CD _ _ _ 5005 +832 B b NN _ _ _
4815 -833 Flagtag flagtag NN _ _ _ 5006 +833 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4816 -834 </Gtype> </gtype> NN _ _ _ 5007 +834 <Gtype> <gtype> NN _ _ _
4817 -835 _ _ CD _ _ _ 5008 +835 NsrR nsrr NN _ _ _
4818 -836 rep1 rep1 NN _ _ _ 5009 +836 _ _ CD _ _ _
4819 -837 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5010 +837 Flagtag flagtag NN _ _ _
4820 -838 <Gtype> <gtype> NN _ _ _ 5011 +838 </Gtype> </gtype> NN _ _ _
4821 -839 NsrR nsrr NN _ _ _ 5012 +839 _ _ CD _ _ _
4822 -840 _ _ CD _ _ _ 5013 +840 rep1 rep1 NN _ _ _
4823 -841 Flagtag flagtag NN _ _ _ 5014 +841 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4824 -842 </Gtype> </gtype> NN _ _ _ 5015 +842 <Gtype> <gtype> NN _ _ _
4825 -843 _ _ CD _ _ _ 5016 +843 NsrR nsrr NN _ _ _
4826 -844 rep2 rep2 NN _ _ _ 5017 +844 _ _ CD _ _ _
4827 -845 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5018 +845 Flagtag flagtag NN _ _ _
4828 -846 <Gtype> <gtype> NN _ _ _ 5019 +846 </Gtype> </gtype> NN _ _ _
4829 -847 NsrR nsrr NN _ _ _ 5020 +847 _ _ CD _ _ _
4830 -848 _ _ CD _ _ _ 5021 +848 rep2 rep2 NN _ _ _
4831 -849 Flagtag flagtag NN _ _ _ 5022 +849 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4832 -850 </Gtype> </gtype> NN _ _ _ 5023 +850 <Gtype> <gtype> NN _ _ _
4833 -851 _ _ CD _ _ _ 5024 +851 NsrR nsrr NN _ _ _
4834 -852 rep3 rep3 NN _ _ _ 5025 +852 _ _ CD _ _ _
4835 -853 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5026 +853 Flagtag flagtag NN _ _ _
4836 -854 <Gtype> <gtype> NN _ _ _ 5027 +854 </Gtype> </gtype> NN _ _ _
4837 -855 Ptac ptac NN _ _ _ 5028 +855 _ _ CD _ _ _
4838 -856 : : : _ _ _ 5029 +856 rep3 rep3 NN _ _ _
4839 -857 : : : _ _ _ 5030 +857 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4840 -858 fnr fnr NN _ _ _ 5031 +858 <Gtype> <gtype> NN _ _ _
4841 -859 </Gtype> </gtype> NN _ _ _ 5032 +859 Ptac ptac NN _ _ _
4842 -860 - - : _ _ _ 5033 +860 : : : _ _ _
4843 -861 A a NN _ _ _ 5034 +861 : : : _ _ _
4844 -862 - - : _ _ _ 5035 +862 fnr fnr NN _ _ _
4845 -863 <Supp> <supp> NN _ _ _ 5036 +863 </Gtype> </gtype> NN _ _ _
4846 -864 16 16 CD _ _ _ 5037 +864 - - : _ _ _
4847 -865 µM µm NN _ _ _ 5038 +865 A a NN _ _ _
4848 -866 IPTG iptg NN _ _ _ 5039 +866 - - : _ _ _
4849 -867 </Supp> </supp> NN _ _ _ 5040 +867 <Supp> <supp> NN _ _ _
4850 -868 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5041 +868 16 16 CD _ _ _
4851 -869 <Gtype> <gtype> NN _ _ _ 5042 +869 µM µm NN _ _ _
4852 -870 Ptac ptac NN _ _ _ 5043 +870 IPTG iptg NN _ _ _
4853 -871 : : : _ _ _ 5044 +871 </Supp> </supp> NN _ _ _
4854 -872 : : : _ _ _ 5045 +872 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4855 -873 fnr fnr NN _ _ _ 5046 +873 <Gtype> <gtype> NN _ _ _
4856 -874 </Gtype> </gtype> NN _ _ _ 5047 +874 Ptac ptac NN _ _ _
4857 -875 - - : _ _ _ 5048 +875 : : : _ _ _
4858 -876 A a NN _ _ _ 5049 +876 : : : _ _ _
4859 -877 - - : _ _ _ 5050 +877 fnr fnr NN _ _ _
4860 -878 <Supp> <supp> NN _ _ _ 5051 +878 </Gtype> </gtype> NN _ _ _
4861 -879 4 4 CD _ _ _ 5052 +879 - - : _ _ _
4862 -880 µM µm NN _ _ _ 5053 +880 A a NN _ _ _
4863 -881 IPTG iptg NN _ _ _ 5054 +881 - - : _ _ _
4864 -882 </Supp> </supp> NN _ _ _ 5055 +882 <Supp> <supp> NN _ _ _
4865 -883 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5056 +883 4 4 CD _ _ _
4866 -884 <Gtype> <gtype> NN _ _ _ 5057 +884 µM µm NN _ _ _
4867 -885 Ptac ptac NN _ _ _ 5058 +885 IPTG iptg NN _ _ _
4868 -886 : : : _ _ _ 5059 +886 </Supp> </supp> NN _ _ _
4869 -887 : : : _ _ _ 5060 +887 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4870 -888 fnr fnr NN _ _ _ 5061 +888 <Gtype> <gtype> NN _ _ _
4871 -889 </Gtype> </gtype> NN _ _ _ 5062 +889 Ptac ptac NN _ _ _
4872 -890 - - : _ _ _ 5063 +890 : : : _ _ _
4873 -891 A a NN _ _ _ 5064 +891 : : : _ _ _
4874 -892 - - : _ _ _ 5065 +892 fnr fnr NN _ _ _
4875 -893 <Supp> <supp> NN _ _ _ 5066 +893 </Gtype> </gtype> NN _ _ _
4876 -894 8 8 CD _ _ _ 5067 +894 - - : _ _ _
4877 -895 µM µm NN _ _ _ 5068 +895 A a NN _ _ _
4878 -896 IPTG iptg NN _ _ _ 5069 +896 - - : _ _ _
4879 -897 </Supp> </supp> NN _ _ _ 5070 +897 <Supp> <supp> NN _ _ _
4880 -898 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5071 +898 8 8 CD _ _ _
4881 -899 <Gtype> <gtype> NN _ _ _ 5072 +899 µM µm NN _ _ _
4882 -900 Ptac ptac NN _ _ _ 5073 +900 IPTG iptg NN _ _ _
4883 -901 : : : _ _ _ 5074 +901 </Supp> </supp> NN _ _ _
4884 -902 : : : _ _ _ 5075 +902 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4885 -903 fnr fnr NN _ _ _ 5076 +903 <Gtype> <gtype> NN _ _ _
4886 -904 </Gtype> </gtype> NN _ _ _ 5077 +904 Ptac ptac NN _ _ _
4887 -905 - - : _ _ _ 5078 +905 : : : _ _ _
4888 -906 B b NN _ _ _ 5079 +906 : : : _ _ _
4889 -907 - - : _ _ _ 5080 +907 fnr fnr NN _ _ _
4890 -908 <Supp> <supp> NN _ _ _ 5081 +908 </Gtype> </gtype> NN _ _ _
4891 -909 16 16 CD _ _ _ 5082 +909 - - : _ _ _
4892 -910 µM µm NN _ _ _ 5083 +910 B b NN _ _ _
4893 -911 IPTG iptg NN _ _ _ 5084 +911 - - : _ _ _
4894 -912 </Supp> </supp> NN _ _ _ 5085 +912 <Supp> <supp> NN _ _ _
4895 -913 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5086 +913 16 16 CD _ _ _
4896 -914 <Gtype> <gtype> NN _ _ _ 5087 +914 µM µm NN _ _ _
4897 -915 Ptac ptac NN _ _ _ 5088 +915 IPTG iptg NN _ _ _
4898 -916 : : : _ _ _ 5089 +916 </Supp> </supp> NN _ _ _
4899 -917 : : : _ _ _ 5090 +917 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4900 -918 fnr fnr NN _ _ _ 5091 +918 <Gtype> <gtype> NN _ _ _
4901 -919 </Gtype> </gtype> NN _ _ _ 5092 +919 Ptac ptac NN _ _ _
4902 -920 - - : _ _ _ 5093 +920 : : : _ _ _
4903 -921 B b NN _ _ _ 5094 +921 : : : _ _ _
4904 -922 - - : _ _ _ 5095 +922 fnr fnr NN _ _ _
4905 -923 <Supp> <supp> NN _ _ _ 5096 +923 </Gtype> </gtype> NN _ _ _
4906 -924 4 4 CD _ _ _ 5097 +924 - - : _ _ _
4907 -925 µM µm NN _ _ _ 5098 +925 B b NN _ _ _
4908 -926 IPTG iptg NN _ _ _ 5099 +926 - - : _ _ _
4909 -927 </Supp> </supp> NN _ _ _ 5100 +927 <Supp> <supp> NN _ _ _
4910 -928 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5101 +928 4 4 CD _ _ _
4911 -929 <Gtype> <gtype> NN _ _ _ 5102 +929 µM µm NN _ _ _
4912 -930 Ptac ptac NN _ _ _ 5103 +930 IPTG iptg NN _ _ _
4913 -931 : : : _ _ _ 5104 +931 </Supp> </supp> NN _ _ _
4914 -932 : : : _ _ _ 5105 +932 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4915 -933 fnr fnr NN _ _ _ 5106 +933 <Gtype> <gtype> NN _ _ _
4916 -934 </Gtype> </gtype> NN _ _ _ 5107 +934 Ptac ptac NN _ _ _
4917 -935 - - : _ _ _ 5108 +935 : : : _ _ _
4918 -936 B b NN _ _ _ 5109 +936 : : : _ _ _
4919 -937 - - : _ _ _ 5110 +937 fnr fnr NN _ _ _
4920 -938 <Supp> <supp> NN _ _ _ 5111 +938 </Gtype> </gtype> NN _ _ _
4921 -939 8 8 CD _ _ _ 5112 +939 - - : _ _ _
4922 -940 µM µm NN _ _ _ 5113 +940 B b NN _ _ _
4923 -941 IPTG iptg NN _ _ _ 5114 +941 - - : _ _ _
4924 -942 </Supp> </supp> NN _ _ _ 5115 +942 <Supp> <supp> NN _ _ _
4925 -943 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5116 +943 8 8 CD _ _ _
4926 -944 <Gtype> <gtype> NN _ _ _ 5117 +944 µM µm NN _ _ _
4927 -945 Ptac ptac NN _ _ _ 5118 +945 IPTG iptg NN _ _ _
4928 -946 : : : _ _ _ 5119 +946 </Supp> </supp> NN _ _ _
4929 -947 : : : _ _ _ 5120 +947 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4930 -948 fnr fnr NN _ _ _ 5121 +948 <Gtype> <gtype> NN _ _ _
4931 -949 </Gtype> </gtype> NN _ _ _ 5122 +949 Ptac ptac NN _ _ _
4932 -950 - - : _ _ _ 5123 +950 : : : _ _ _
4933 -951 C c NN _ _ _ 5124 +951 : : : _ _ _
4934 -952 - - : _ _ _ 5125 +952 fnr fnr NN _ _ _
4935 -953 <Supp> <supp> NN _ _ _ 5126 +953 </Gtype> </gtype> NN _ _ _
4936 -954 16 16 CD _ _ _ 5127 +954 - - : _ _ _
4937 -955 µM µm NN _ _ _ 5128 +955 C c NN _ _ _
4938 -956 IPTG iptg NN _ _ _ 5129 +956 - - : _ _ _
4939 -957 </Supp> </supp> NN _ _ _ 5130 +957 <Supp> <supp> NN _ _ _
4940 -958 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5131 +958 16 16 CD _ _ _
4941 -959 <Gtype> <gtype> NN _ _ _ 5132 +959 µM µm NN _ _ _
4942 -960 ∆ ∆ CD _ _ _ 5133 +960 IPTG iptg NN _ _ _
4943 -961 ryhB ryhb NN _ _ _ 5134 +961 </Supp> </supp> NN _ _ _
4944 -962 </Gtype> </gtype> NN _ _ _ 5135 +962 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4945 -963 <Air> <air> NN _ _ _ 5136 +963 <Gtype> <gtype> NN _ _ _
4946 -964 Aerobic aerobic JJ _ _ _ 5137 +964 ∆ ∆ CD _ _ _
4947 -965 </Air> </air> NN _ _ _ 5138 +965 ryhB ryhb NN _ _ _
4948 -966 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5139 +966 </Gtype> </gtype> NN _ _ _
4949 -967 <Gtype> <gtype> NN _ _ _ 5140 +967 <Air> <air> NN _ _ _
4950 -968 ∆ ∆ CD _ _ _ 5141 +968 Aerobic aerobic JJ _ _ _
4951 -969 ryhB ryhb NN _ _ _ 5142 +969 </Air> </air> NN _ _ _
4952 -970 </Gtype> </gtype> NN _ _ _ 5143 +970 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4953 -971 <Air> <air> NN _ _ _ 5144 +971 <Gtype> <gtype> NN _ _ _
4954 -972 Anaerobic anaerobic JJ _ _ _ 5145 +972 ∆ ∆ CD _ _ _
4955 -973 </Air> </air> NN _ _ _ 5146 +973 ryhB ryhb NN _ _ _
4956 -974 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5147 +974 </Gtype> </gtype> NN _ _ _
4957 -975 <Gtype> <gtype> NN _ _ _ 5148 +975 <Air> <air> NN _ _ _
4958 -976 Wild-type wild-type JJ _ _ _ 5149 +976 Anaerobic anaerobic JJ _ _ _
4959 -977 </Gtype> </gtype> NN _ _ _ 5150 +977 </Air> </air> NN _ _ _
4960 -978 <Air> <air> NN _ _ _ 5151 +978 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4961 -979 Aerobic aerobic JJ _ _ _ 5152 +979 <Gtype> <gtype> NN _ _ _
4962 -980 </Air> </air> NN _ _ _ 5153 +980 Wild-type wild-type JJ _ _ _
4963 -981 A a DT _ _ _ 5154 +981 </Gtype> </gtype> NN _ _ _
4964 -982 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5155 +982 <Air> <air> NN _ _ _
4965 -983 <Gtype> <gtype> NN _ _ _ 5156 +983 Aerobic aerobic JJ _ _ _
4966 -984 Wild-type wild-type JJ _ _ _ 5157 +984 </Air> </air> NN _ _ _
4967 -985 </Gtype> </gtype> NN _ _ _ 5158 +985 A a DT _ _ _
4968 -986 <Air> <air> NN _ _ _ 5159 +986 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4969 -987 Aerobic aerobic JJ _ _ _ 5160 +987 <Gtype> <gtype> NN _ _ _
4970 -988 </Air> </air> NN _ _ _ 5161 +988 Wild-type wild-type JJ _ _ _
4971 -989 B b NN _ _ _ 5162 +989 </Gtype> </gtype> NN _ _ _
4972 -990 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5163 +990 <Air> <air> NN _ _ _
4973 -991 <Gtype> <gtype> NN _ _ _ 5164 +991 Aerobic aerobic JJ _ _ _
4974 -992 Wild-type wild-type JJ _ _ _ 5165 +992 </Air> </air> NN _ _ _
4975 -993 </Gtype> </gtype> NN _ _ _ 5166 +993 B b NN _ _ _
4976 -994 <Air> <air> NN _ _ _ 5167 +994 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4977 -995 Anaerobic anaerobic JJ _ _ _ 5168 +995 <Gtype> <gtype> NN _ _ _
4978 -996 </Air> </air> NN _ _ _ 5169 +996 Wild-type wild-type JJ _ _ _
4979 -997 A a DT _ _ _ 5170 +997 </Gtype> </gtype> NN _ _ _
4980 -998 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5171 +998 <Air> <air> NN _ _ _
4981 -999 <Gtype> <gtype> NN _ _ _ 5172 +999 Anaerobic anaerobic JJ _ _ _
4982 -1000 Wild-type wild-type JJ _ _ _ 5173 +1000 </Air> </air> NN _ _ _
4983 -1001 </Gtype> </gtype> NN _ _ _ 5174 +1001 A a DT _ _ _
4984 -1002 <Air> <air> NN _ _ _ 5175 +1002 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4985 -1003 Anaerobic anaerobic JJ _ _ _ 5176 +1003 <Gtype> <gtype> NN _ _ _
4986 -1004 </Air> </air> NN _ _ _ 5177 +1004 Wild-type wild-type JJ _ _ _
4987 -1005 B b NN _ _ _ 5178 +1005 </Gtype> </gtype> NN _ _ _
4988 -1006 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5179 +1006 <Air> <air> NN _ _ _
4989 -1007 <Gtype> <gtype> NN _ _ _ 5180 +1007 Anaerobic anaerobic JJ _ _ _
4990 -1008 Wild Wild NNP _ _ _ 5181 +1008 </Air> </air> NN _ _ _
4991 -1009 type type NN _ _ _ 5182 +1009 B b NN _ _ _
4992 -1010 </Gtype> </gtype> NN _ _ _ 5183 +1010 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
4993 -1011 control control NN _ _ _ 5184 +1011 <Gtype> <gtype> NN _ _ _
4994 -1012 -LRB- -lrb- -LRB- _ _ _ 5185 +1012 Wild Wild NNP _ _ _
4995 -1013 0 0 CD _ _ _ 5186 +1013 type type NN _ _ _
4996 -1014 min min NN _ _ _ 5187 +1014 </Gtype> </gtype> NN _ _ _
4997 -1015 -RRB- -rrb- -RRB- _ _ _ 5188 +1015 control control NN _ _ _
4998 -1016 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5189 +1016 -LRB- -lrb- -LRB- _ _ _
4999 -1017 <Gtype> <gtype> NN _ _ _ 5190 +1017 0 0 CD _ _ _
5000 -1018 Wild Wild NNP _ _ _ 5191 +1018 min min NN _ _ _
5001 -1019 type type NN _ _ _ 5192 +1019 -RRB- -rrb- -RRB- _ _ _
5002 -1020 </Gtype> </gtype> NN _ _ _ 5193 +1020 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5003 -1021 control control NN _ _ _ 5194 +1021 <Gtype> <gtype> NN _ _ _
5004 -1022 -LRB- -lrb- -LRB- _ _ _ 5195 +1022 Wild Wild NNP _ _ _
5005 -1023 10 10 CD _ _ _ 5196 +1023 type type NN _ _ _
5006 -1024 min min NN _ _ _ 5197 +1024 </Gtype> </gtype> NN _ _ _
5007 -1025 -RRB- -rrb- -RRB- _ _ _ 5198 +1025 control control NN _ _ _
5008 -1026 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5199 +1026 -LRB- -lrb- -LRB- _ _ _
5009 -1027 <Gtype> <gtype> NN _ _ _ 5200 +1027 10 10 CD _ _ _
5010 -1028 Wild Wild NNP _ _ _ 5201 +1028 min min NN _ _ _
5011 -1029 type type NN _ _ _ 5202 +1029 -RRB- -rrb- -RRB- _ _ _
5012 -1030 </Gtype> </gtype> NN _ _ _ 5203 +1030 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5013 -1031 control control NN _ _ _ 5204 +1031 <Gtype> <gtype> NN _ _ _
5014 -1032 -LRB- -lrb- -LRB- _ _ _ 5205 +1032 Wild Wild NNP _ _ _
5015 -1033 20 20 CD _ _ _ 5206 +1033 type type NN _ _ _
5016 -1034 min min NN _ _ _ 5207 +1034 </Gtype> </gtype> NN _ _ _
5017 -1035 -RRB- -rrb- -RRB- _ _ _ 5208 +1035 control control NN _ _ _
5018 -1036 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5209 +1036 -LRB- -lrb- -LRB- _ _ _
5019 -1037 <Gtype> <gtype> NN _ _ _ 5210 +1037 20 20 CD _ _ _
5020 -1038 Wild Wild NNP _ _ _ 5211 +1038 min min NN _ _ _
5021 -1039 type type NN _ _ _ 5212 +1039 -RRB- -rrb- -RRB- _ _ _
5022 -1040 </Gtype> </gtype> NN _ _ _ 5213 +1040 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5023 -1041 control control NN _ _ _ 5214 +1041 <Gtype> <gtype> NN _ _ _
5024 -1042 -LRB- -lrb- -LRB- _ _ _ 5215 +1042 Wild Wild NNP _ _ _
5025 -1043 2.5 2.5 CD _ _ _ 5216 +1043 type type NN _ _ _
5026 -1044 min min NN _ _ _ 5217 +1044 </Gtype> </gtype> NN _ _ _
5027 -1045 -RRB- -rrb- -RRB- _ _ _ 5218 +1045 control control NN _ _ _
5028 -1046 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5219 +1046 -LRB- -lrb- -LRB- _ _ _
5029 -1047 <Gtype> <gtype> NN _ _ _ 5220 +1047 2.5 2.5 CD _ _ _
5030 -1048 Wild Wild NNP _ _ _ 5221 +1048 min min NN _ _ _
5031 -1049 type type NN _ _ _ 5222 +1049 -RRB- -rrb- -RRB- _ _ _
5032 -1050 </Gtype> </gtype> NN _ _ _ 5223 +1050 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5033 -1051 control control NN _ _ _ 5224 +1051 <Gtype> <gtype> NN _ _ _
5034 -1052 -LRB- -lrb- -LRB- _ _ _ 5225 +1052 Wild Wild NNP _ _ _
5035 -1053 5 5 CD _ _ _ 5226 +1053 type type NN _ _ _
5036 -1054 min min NN _ _ _ 5227 +1054 </Gtype> </gtype> NN _ _ _
5037 -1055 -RRB- -rrb- -RRB- _ _ _ 5228 +1055 control control NN _ _ _
5038 -1056 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5229 +1056 -LRB- -lrb- -LRB- _ _ _
5039 -1057 <Gtype> <gtype> NN _ _ _ 5230 +1057 5 5 CD _ _ _
5040 -1058 WT wt JJ _ _ _ 5231 +1058 min min NN _ _ _
5041 -1059 </Gtype> </gtype> NN _ _ _ 5232 +1059 -RRB- -rrb- -RRB- _ _ _
5042 -1060 <pH> <ph> NN _ _ _ 5233 +1060 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5043 -1061 pH5 ph5 NN _ _ _ 5234 +1061 <Gtype> <gtype> NN _ _ _
5044 -1062 .5 .5 CD _ _ _ 5235 +1062 WT wt JJ _ _ _
5045 -1063 </pH> </ph> NN _ _ _ 5236 +1063 </Gtype> </gtype> NN _ _ _
5046 -1064 1 1 CD _ _ _ 5237 +1064 <pH> <ph> NN _ _ _
5047 -1065 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5238 +1065 pH5 ph5 NN _ _ _
5048 -1066 <Gtype> <gtype> NN _ _ _ 5239 +1066 .5 .5 CD _ _ _
5049 -1067 WT wt JJ _ _ _ 5240 +1067 </pH> </ph> NN _ _ _
5050 -1068 </Gtype> </gtype> NN _ _ _ 5241 +1068 1 1 CD _ _ _
5051 -1069 <pH> <ph> NN _ _ _ 5242 +1069 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5052 -1070 pH5 ph5 NN _ _ _ 5243 +1070 <Gtype> <gtype> NN _ _ _
5053 -1071 .5 .5 CD _ _ _ 5244 +1071 WT wt JJ _ _ _
5054 -1072 </pH> </ph> NN _ _ _ 5245 +1072 </Gtype> </gtype> NN _ _ _
5055 -1073 2 2 CD _ _ _ 5246 +1073 <pH> <ph> NN _ _ _
5056 -1074 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5247 +1074 pH5 ph5 NN _ _ _
5057 -1075 <Gtype> <gtype> NN _ _ _ 5248 +1075 .5 .5 CD _ _ _
5058 -1076 WT wt JJ _ _ _ 5249 +1076 </pH> </ph> NN _ _ _
5059 -1077 </Gtype> </gtype> NN _ _ _ 5250 +1077 2 2 CD _ _ _
5060 -1078 <Supp> <supp> NN _ _ _ 5251 +1078 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5061 -1079 acetate acetate NN _ _ _ 5252 +1079 <Gtype> <gtype> NN _ _ _
5062 -1080 </Supp> </supp> NN _ _ _ 5253 +1080 WT wt JJ _ _ _
5063 -1081 1 1 CD _ _ _ 5254 +1081 </Gtype> </gtype> NN _ _ _
5064 -1082 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5255 +1082 <Supp> <supp> NN _ _ _
5065 -1083 <Gtype> <gtype> NN _ _ _ 5256 +1083 acetate acetate NN _ _ _
5066 -1084 WT wt JJ _ _ _ 5257 +1084 </Supp> </supp> NN _ _ _
5067 -1085 </Gtype> </gtype> NN _ _ _ 5258 +1085 1 1 CD _ _ _
5068 -1086 <Supp> <supp> NN _ _ _ 5259 +1086 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5069 -1087 acetate acetate NN _ _ _ 5260 +1087 <Gtype> <gtype> NN _ _ _
5070 -1088 </Supp> </supp> NN _ _ _ 5261 +1088 WT wt JJ _ _ _
5071 -1089 2 2 CD _ _ _ 5262 +1089 </Gtype> </gtype> NN _ _ _
5072 -1090 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5263 +1090 <Supp> <supp> NN _ _ _
5073 -1091 <Gtype> <gtype> NN _ _ _ 5264 +1091 acetate acetate NN _ _ _
5074 -1092 WT wt JJ _ _ _ 5265 +1092 </Supp> </supp> NN _ _ _
5075 -1093 </Gtype> </gtype> NN _ _ _ 5266 +1093 2 2 CD _ _ _
5076 -1094 <Supp> <supp> NN _ _ _ 5267 +1094 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5077 -1095 fructose fructose NN _ _ _ 5268 +1095 <Gtype> <gtype> NN _ _ _
5078 -1096 </Supp> </supp> NN _ _ _ 5269 +1096 WT wt JJ _ _ _
5079 -1097 1 1 CD _ _ _ 5270 +1097 </Gtype> </gtype> NN _ _ _
5080 -1098 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5271 +1098 <Supp> <supp> NN _ _ _
5081 -1099 <Gtype> <gtype> NN _ _ _ 5272 +1099 fructose fructose NN _ _ _
5082 -1100 WT wt JJ _ _ _ 5273 +1100 </Supp> </supp> NN _ _ _
5083 -1101 </Gtype> </gtype> NN _ _ _ 5274 +1101 1 1 CD _ _ _
5084 -1102 <Supp> <supp> NN _ _ _ 5275 +1102 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5085 -1103 fructose fructose NN _ _ _ 5276 +1103 <Gtype> <gtype> NN _ _ _
5086 -1104 </Supp> </supp> NN _ _ _ 5277 +1104 WT wt JJ _ _ _
5087 -1105 2 2 CD _ _ _ 5278 +1105 </Gtype> </gtype> NN _ _ _
5088 -1106 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5279 +1106 <Supp> <supp> NN _ _ _
5089 -1107 <Gtype> <gtype> NN _ _ _ 5280 +1107 fructose fructose NN _ _ _
5090 -1108 WT wt JJ _ _ _ 5281 +1108 </Supp> </supp> NN _ _ _
5091 -1109 </Gtype> </gtype> NN _ _ _ 5282 +1109 2 2 CD _ _ _
5092 -1110 <Supp> <supp> NN _ _ _ 5283 +1110 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5093 -1111 glucose glucose NN _ _ _ 5284 +1111 <Gtype> <gtype> NN _ _ _
5094 -1112 </Supp> </supp> NN _ _ _ 5285 +1112 WT wt JJ _ _ _
5095 -1113 1 1 CD _ _ _ 5286 +1113 </Gtype> </gtype> NN _ _ _
5096 -1114 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5287 +1114 <Supp> <supp> NN _ _ _
5097 -1115 <Gtype> <gtype> NN _ _ _ 5288 +1115 glucose glucose NN _ _ _
5098 -1116 WT wt JJ _ _ _ 5289 +1116 </Supp> </supp> NN _ _ _
5099 -1117 </Gtype> </gtype> NN _ _ _ 5290 +1117 1 1 CD _ _ _
5100 -1118 <Supp> <supp> NN _ _ _ 5291 +1118 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5101 -1119 glucose glucose NN _ _ _ 5292 +1119 <Gtype> <gtype> NN _ _ _
5102 -1120 </Supp> </supp> NN _ _ _ 5293 +1120 WT wt JJ _ _ _
5103 -1121 2 2 CD _ _ _ 5294 +1121 </Gtype> </gtype> NN _ _ _
5104 -1122 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5295 +1122 <Supp> <supp> NN _ _ _
5105 -1123 <Gtype> <gtype> NN _ _ _ 5296 +1123 glucose glucose NN _ _ _
5106 -1124 WT wt JJ _ _ _ 5297 +1124 </Supp> </supp> NN _ _ _
5107 -1125 </Gtype> </gtype> NN _ _ _ 5298 +1125 2 2 CD _ _ _
5108 -1126 <Supp> <supp> NN _ _ _ 5299 +1126 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5109 -1127 NaCl nacl NN _ _ _ 5300 +1127 <Gtype> <gtype> NN _ _ _
5110 -1128 </Supp> </supp> NN _ _ _ 5301 +1128 WT wt JJ _ _ _
5111 -1129 1 1 CD _ _ _ 5302 +1129 </Gtype> </gtype> NN _ _ _
5112 -1130 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5303 +1130 <Supp> <supp> NN _ _ _
5113 -1131 <Gtype> <gtype> NN _ _ _ 5304 +1131 NaCl nacl NN _ _ _
5114 -1132 WT wt JJ _ _ _ 5305 +1132 </Supp> </supp> NN _ _ _
5115 -1133 </Gtype> </gtype> NN _ _ _ 5306 +1133 1 1 CD _ _ _
5116 -1134 <Supp> <supp> NN _ _ _ 5307 +1134 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5117 -1135 NaCl nacl NN _ _ _ 5308 +1135 <Gtype> <gtype> NN _ _ _
5118 -1136 </Supp> </supp> NN _ _ _ 5309 +1136 WT wt JJ _ _ _
5119 -1137 2 2 CD _ _ _ 5310 +1137 </Gtype> </gtype> NN _ _ _
5120 -1138 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5311 +1138 <Supp> <supp> NN _ _ _
5121 -1139 <Gtype> <gtype> NN _ _ _ 5312 +1139 NaCl nacl NN _ _ _
5122 -1140 WT wt JJ _ _ _ 5313 +1140 </Supp> </supp> NN _ _ _
5123 -1141 </Gtype> </gtype> NN _ _ _ 5314 +1141 2 2 CD _ _ _
5124 -1142 <Supp> <supp> NN _ _ _ 5315 +1142 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5125 -1143 PQ pq NN _ _ _ 5316 +1143 <Gtype> <gtype> NN _ _ _
5126 -1144 </Supp> </supp> NN _ _ _ 5317 +1144 WT wt JJ _ _ _
5127 -1145 1 1 CD _ _ _ 5318 +1145 </Gtype> </gtype> NN _ _ _
5128 -1146 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5319 +1146 <Supp> <supp> NN _ _ _
5129 -1147 <Gtype> <gtype> NN _ _ _ 5320 +1147 PQ pq NN _ _ _
5130 -1148 WT wt JJ _ _ _ 5321 +1148 </Supp> </supp> NN _ _ _
5131 -1149 </Gtype> </gtype> NN _ _ _ 5322 +1149 1 1 CD _ _ _
5132 -1150 <Supp> <supp> NN _ _ _ 5323 +1150 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5133 -1151 PQ pq NN _ _ _ 5324 +1151 <Gtype> <gtype> NN _ _ _
5134 -1152 </Supp> </supp> NN _ _ _ 5325 +1152 WT wt JJ _ _ _
5135 -1153 2 2 CD _ _ _ 5326 +1153 </Gtype> </gtype> NN _ _ _
5136 -1154 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5327 +1154 <Supp> <supp> NN _ _ _
5137 -1155 <Gtype> <gtype> NN _ _ _ 5328 +1155 PQ pq NN _ _ _
5138 -1156 WT wt JJ _ _ _ 5329 +1156 </Supp> </supp> NN _ _ _
5139 -1157 </Gtype> </gtype> NN _ _ _ 5330 +1157 2 2 CD _ _ _
5140 -1158 _ _ NN _ _ _ 5331 +1158 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5141 -1159 <Technique> <technique> NN _ _ _ 5332 +1159 <Gtype> <gtype> NN _ _ _
5142 -1160 ChIPSeq chipseq NN _ _ _ 5333 +1160 WT wt JJ _ _ _
5143 -1161 </Technique> </technique> NN _ _ _ 5334 +1161 </Gtype> </gtype> NN _ _ _
5144 1162 _ _ NN _ _ _ 5335 1162 _ _ NN _ _ _
5145 -1163 1 1 CD _ _ _ 5336 +1163 <Technique> <technique> NN _ _ _
5146 -1164 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5337 +1164 ChIPSeq chipseq NN _ _ _
5147 -1165 <Gtype> <gtype> NN _ _ _ 5338 +1165 </Technique> </technique> NN _ _ _
5148 -1166 WT wt JJ _ _ _ 5339 +1166 _ _ NN _ _ _
5149 -1167 </Gtype> </gtype> NN _ _ _ 5340 +1167 1 1 CD _ _ _
5150 -1168 _ _ NN _ _ _ 5341 +1168 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5151 -1169 <Technique> <technique> NN _ _ _ 5342 +1169 <Gtype> <gtype> NN _ _ _
5152 -1170 ChIPSeq chipseq NN _ _ _ 5343 +1170 WT wt JJ _ _ _
5153 -1171 </Technique> </technique> NN _ _ _ 5344 +1171 </Gtype> </gtype> NN _ _ _
5154 1172 _ _ NN _ _ _ 5345 1172 _ _ NN _ _ _
5155 -1173 2 2 CD _ _ _ 5346 +1173 <Technique> <technique> NN _ _ _
5156 -1174 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5347 +1174 ChIPSeq chipseq NN _ _ _
5157 -1175 <Gtype> <gtype> NN _ _ _ 5348 +1175 </Technique> </technique> NN _ _ _
5158 -1176 WT wt JJ _ _ _ 5349 +1176 _ _ NN _ _ _
5159 -1177 </Gtype> </gtype> NN _ _ _ 5350 +1177 2 2 CD _ _ _
5160 -1178 _ _ NN _ _ _ 5351 +1178 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5161 -1179 <Technique> <technique> NN _ _ _ 5352 +1179 <Gtype> <gtype> NN _ _ _
5162 -1180 RNASeq rnaseq NN _ _ _ 5353 +1180 WT wt JJ _ _ _
5163 -1181 </Technique> </technique> NN _ _ _ 5354 +1181 </Gtype> </gtype> NN _ _ _
5164 -1182 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5355 +1182 _ _ NN _ _ _
5165 -1183 <Gtype> <gtype> NN _ _ _ 5356 +1183 <Technique> <technique> NN _ _ _
5166 -1184 WT wt JJ _ _ _ 5357 +1184 RNASeq rnaseq NN _ _ _
5167 -1185 </Gtype> </gtype> NN _ _ _ 5358 +1185 </Technique> </technique> NN _ _ _
5168 -1186 with with IN _ _ _ 5359 +1186 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5169 -1187 <Supp> <supp> NN _ _ _ 5360 +1187 <Gtype> <gtype> NN _ _ _
5170 -1188 DPD dpd NN _ _ _ 5361 +1188 WT wt JJ _ _ _
5171 -1189 </Supp> </supp> NN _ _ _ 5362 +1189 </Gtype> </gtype> NN _ _ _
5172 -1190 1 1 CD _ _ _ 5363 +1190 with with IN _ _ _
5173 -1191 <Technique> <technique> NN _ _ _ 5364 +1191 <Supp> <supp> NN _ _ _
5174 -1192 -LRB- -lrb- -LRB- _ _ _ 5365 +1192 DPD dpd NN _ _ _
5175 -1193 RNA-seq rna-seq NN _ _ _ 5366 +1193 </Supp> </supp> NN _ _ _
5176 -1194 -RRB- -rrb- -RRB- _ _ _ 5367 +1194 1 1 CD _ _ _
5177 -1195 </Technique> </technique> NN _ _ _ 5368 +1195 <Technique> <technique> NN _ _ _
5178 -1196 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5369 +1196 -LRB- -lrb- -LRB- _ _ _
5179 -1197 <Gtype> <gtype> NN _ _ _ 5370 +1197 RNA-seq rna-seq NN _ _ _
5180 -1198 WT wt JJ _ _ _ 5371 +1198 -RRB- -rrb- -RRB- _ _ _
5181 -1199 </Gtype> </gtype> NN _ _ _ 5372 +1199 </Technique> </technique> NN _ _ _
5182 -1200 with with IN _ _ _ 5373 +1200 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5183 -1201 <Supp> <supp> NN _ _ _ 5374 +1201 <Gtype> <gtype> NN _ _ _
5184 -1202 DPD dpd NN _ _ _ 5375 +1202 WT wt JJ _ _ _
5185 -1203 </Supp> </supp> NN _ _ _ 5376 +1203 </Gtype> </gtype> NN _ _ _
5186 -1204 2 2 CD _ _ _ 5377 +1204 with with IN _ _ _
5187 -1205 <Technique> <technique> NN _ _ _ 5378 +1205 <Supp> <supp> NN _ _ _
5188 -1206 -LRB- -lrb- -LRB- _ _ _ 5379 +1206 DPD dpd NN _ _ _
5189 -1207 RNA-seq rna-seq NN _ _ _ 5380 +1207 </Supp> </supp> NN _ _ _
5190 -1208 -RRB- -rrb- -RRB- _ _ _ 5381 +1208 2 2 CD _ _ _
5191 -1209 </Technique> </technique> NN _ _ _ 5382 +1209 <Technique> <technique> NN _ _ _
5192 -1210 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5383 +1210 -LRB- -lrb- -LRB- _ _ _
5193 -1211 <Gtype> <gtype> NN _ _ _ 5384 +1211 RNA-seq rna-seq NN _ _ _
5194 -1212 WT wt JJ _ _ _ 5385 +1212 -RRB- -rrb- -RRB- _ _ _
5195 -1213 </Gtype> </gtype> NN _ _ _ 5386 +1213 </Technique> </technique> NN _ _ _
5196 -1214 with with IN _ _ _ 5387 +1214 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5197 -1215 <Supp> <supp> NN _ _ _ 5388 +1215 <Gtype> <gtype> NN _ _ _
5198 -1216 Fe Fe NNP _ _ _ 5389 +1216 WT wt JJ _ _ _
5199 -1217 </Supp> </Supp> NNP _ _ _ 5390 +1217 </Gtype> </gtype> NN _ _ _
5200 -1218 1 1 CD _ _ _ 5391 +1218 with with IN _ _ _
5201 -1219 <Technique> <technique> NN _ _ _ 5392 +1219 <Supp> <supp> NN _ _ _
5202 -1220 -LRB- -lrb- -LRB- _ _ _ 5393 +1220 Fe Fe NNP _ _ _
5203 -1221 RNA-seq rna-seq NN _ _ _ 5394 +1221 </Supp> </Supp> NNP _ _ _
5204 -1222 -RRB- -rrb- -RRB- _ _ _ 5395 +1222 1 1 CD _ _ _
5205 -1223 </Technique> </technique> NN _ _ _ 5396 +1223 <Technique> <technique> NN _ _ _
5206 -1224 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5397 +1224 -LRB- -lrb- -LRB- _ _ _
5207 -1225 <Gtype> <gtype> NN _ _ _ 5398 +1225 RNA-seq rna-seq NN _ _ _
5208 -1226 WT wt JJ _ _ _ 5399 +1226 -RRB- -rrb- -RRB- _ _ _
5209 -1227 </Gtype> </gtype> NN _ _ _ 5400 +1227 </Technique> </technique> NN _ _ _
5210 -1228 with with IN _ _ _ 5401 +1228 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5211 -1229 <Supp> <supp> NN _ _ _ 5402 +1229 <Gtype> <gtype> NN _ _ _
5212 -1230 Fe Fe NNP _ _ _ 5403 +1230 WT wt JJ _ _ _
5213 -1231 </Supp> </Supp> NNP _ _ _ 5404 +1231 </Gtype> </gtype> NN _ _ _
5214 -1232 2 2 CD _ _ _ 5405 +1232 with with IN _ _ _
5215 -1233 <Technique> <technique> NN _ _ _ 5406 +1233 <Supp> <supp> NN _ _ _
5216 -1234 -LRB- -lrb- -LRB- _ _ _ 5407 +1234 Fe Fe NNP _ _ _
5217 -1235 RNA-seq rna-seq NN _ _ _ 5408 +1235 </Supp> </Supp> NNP _ _ _
5218 -1236 -RRB- -rrb- -RRB- _ _ _ 5409 +1236 2 2 CD _ _ _
5219 -1237 </Technique> </technique> NN _ _ _ 5410 +1237 <Technique> <technique> NN _ _ _
5220 -1238 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5411 +1238 -LRB- -lrb- -LRB- _ _ _
5221 -1239 <Gtype> <gtype> NN _ _ _ 5412 +1239 RNA-seq rna-seq NN _ _ _
5222 -1240 Δcra δcra NN _ _ _ 5413 +1240 -RRB- -rrb- -RRB- _ _ _
5223 -1241 </Gtype> </gtype> NN _ _ _ 5414 +1241 </Technique> </technique> NN _ _ _
5224 -1242 <Supp> <supp> NN _ _ _ 5415 +1242 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5225 -1243 acetate acetate NN _ _ _ 5416 +1243 <Gtype> <gtype> NN _ _ _
5226 -1244 </Supp> </supp> NN _ _ _ 5417 +1244 Δcra δcra NN _ _ _
5227 -1245 1 1 CD _ _ _ 5418 +1245 </Gtype> </gtype> NN _ _ _
5228 -1246 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5419 +1246 <Supp> <supp> NN _ _ _
5229 -1247 <Gtype> <gtype> NN _ _ _ 5420 +1247 acetate acetate NN _ _ _
5230 -1248 Δcra δcra NN _ _ _ 5421 +1248 </Supp> </supp> NN _ _ _
5231 -1249 </Gtype> </gtype> NN _ _ _ 5422 +1249 1 1 CD _ _ _
5232 -1250 <Supp> <supp> NN _ _ _ 5423 +1250 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5233 -1251 acetate acetate NN _ _ _ 5424 +1251 <Gtype> <gtype> NN _ _ _
5234 -1252 </Supp> </supp> NN _ _ _ 5425 +1252 Δcra δcra NN _ _ _
5235 -1253 2 2 CD _ _ _ 5426 +1253 </Gtype> </gtype> NN _ _ _
5236 -1254 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5427 +1254 <Supp> <supp> NN _ _ _
5237 -1255 <Gtype> <gtype> NN _ _ _ 5428 +1255 acetate acetate NN _ _ _
5238 -1256 Δcra δcra NN _ _ _ 5429 +1256 </Supp> </supp> NN _ _ _
5239 -1257 </Gtype> </gtype> NN _ _ _ 5430 +1257 2 2 CD _ _ _
5240 -1258 <Supp> <supp> NN _ _ _ 5431 +1258 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5241 -1259 fructose fructose NN _ _ _ 5432 +1259 <Gtype> <gtype> NN _ _ _
5242 -1260 </Supp> </supp> NN _ _ _ 5433 +1260 Δcra δcra NN _ _ _
5243 -1261 1 1 CD _ _ _ 5434 +1261 </Gtype> </gtype> NN _ _ _
5244 -1262 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5435 +1262 <Supp> <supp> NN _ _ _
5245 -1263 <Gtype> <gtype> NN _ _ _ 5436 +1263 fructose fructose NN _ _ _
5246 -1264 Δcra δcra NN _ _ _ 5437 +1264 </Supp> </supp> NN _ _ _
5247 -1265 </Gtype> </gtype> NN _ _ _ 5438 +1265 1 1 CD _ _ _
5248 -1266 <Supp> <supp> NN _ _ _ 5439 +1266 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5249 -1267 fructose fructose NN _ _ _ 5440 +1267 <Gtype> <gtype> NN _ _ _
5250 -1268 </Supp> </supp> NN _ _ _ 5441 +1268 Δcra δcra NN _ _ _
5251 -1269 2 2 CD _ _ _ 5442 +1269 </Gtype> </gtype> NN _ _ _
5252 -1270 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5443 +1270 <Supp> <supp> NN _ _ _
5253 -1271 <Gtype> <gtype> NN _ _ _ 5444 +1271 fructose fructose NN _ _ _
5254 -1272 Δcra δcra NN _ _ _ 5445 +1272 </Supp> </supp> NN _ _ _
5255 -1273 </Gtype> </gtype> NN _ _ _ 5446 +1273 2 2 CD _ _ _
5256 -1274 <Supp> <supp> NN _ _ _ 5447 +1274 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5257 -1275 glucose glucose NN _ _ _ 5448 +1275 <Gtype> <gtype> NN _ _ _
5258 -1276 </Supp> </supp> NN _ _ _ 5449 +1276 Δcra δcra NN _ _ _
5259 -1277 1 1 CD _ _ _ 5450 +1277 </Gtype> </gtype> NN _ _ _
5260 -1278 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5451 +1278 <Supp> <supp> NN _ _ _
5261 -1279 <Gtype> <gtype> NN _ _ _ 5452 +1279 glucose glucose NN _ _ _
5262 -1280 Δcra δcra NN _ _ _ 5453 +1280 </Supp> </supp> NN _ _ _
5263 -1281 </Gtype> </gtype> NN _ _ _ 5454 +1281 1 1 CD _ _ _
5264 -1282 <Supp> <supp> NN _ _ _ 5455 +1282 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5265 -1283 glucose glucose NN _ _ _ 5456 +1283 <Gtype> <gtype> NN _ _ _
5266 -1284 </Supp> </supp> NN _ _ _ 5457 +1284 Δcra δcra NN _ _ _
5267 -1285 2 2 CD _ _ _ 5458 +1285 </Gtype> </gtype> NN _ _ _
5268 -1286 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5459 +1286 <Supp> <supp> NN _ _ _
5269 -1287 <Gtype> <gtype> NN _ _ _ 5460 +1287 glucose glucose NN _ _ _
5270 -1288 Δfur δfur NN _ _ _ 5461 +1288 </Supp> </supp> NN _ _ _
5271 -1289 </Gtype> </gtype> NN _ _ _ 5462 +1289 2 2 CD _ _ _
5272 -1290 with with IN _ _ _ 5463 +1290 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5273 -1291 <Supp> <supp> NN _ _ _ 5464 +1291 <Gtype> <gtype> NN _ _ _
5274 -1292 DPD dpd NN _ _ _ 5465 +1292 Δfur δfur NN _ _ _
5275 -1293 </Supp> </supp> NN _ _ _ 5466 +1293 </Gtype> </gtype> NN _ _ _
5276 -1294 1 1 CD _ _ _ 5467 +1294 with with IN _ _ _
5277 -1295 <Technique> <technique> NN _ _ _ 5468 +1295 <Supp> <supp> NN _ _ _
5278 -1296 -LRB- -lrb- -LRB- _ _ _ 5469 +1296 DPD dpd NN _ _ _
5279 -1297 RNA-seq rna-seq NN _ _ _ 5470 +1297 </Supp> </supp> NN _ _ _
5280 -1298 -RRB- -rrb- -RRB- _ _ _ 5471 +1298 1 1 CD _ _ _
5281 -1299 </Technique> </technique> NN _ _ _ 5472 +1299 <Technique> <technique> NN _ _ _
5282 -1300 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5473 +1300 -LRB- -lrb- -LRB- _ _ _
5283 -1301 <Gtype> <gtype> NN _ _ _ 5474 +1301 RNA-seq rna-seq NN _ _ _
5284 -1302 Δfur δfur NN _ _ _ 5475 +1302 -RRB- -rrb- -RRB- _ _ _
5285 -1303 </Gtype> </gtype> NN _ _ _ 5476 +1303 </Technique> </technique> NN _ _ _
5286 -1304 with with IN _ _ _ 5477 +1304 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5287 -1305 <Supp> <supp> NN _ _ _ 5478 +1305 <Gtype> <gtype> NN _ _ _
5288 -1306 DPD dpd NN _ _ _ 5479 +1306 Δfur δfur NN _ _ _
5289 -1307 </Supp> </supp> NN _ _ _ 5480 +1307 </Gtype> </gtype> NN _ _ _
5290 -1308 2 2 CD _ _ _ 5481 +1308 with with IN _ _ _
5291 -1309 <Technique> <technique> NN _ _ _ 5482 +1309 <Supp> <supp> NN _ _ _
5292 -1310 -LRB- -lrb- -LRB- _ _ _ 5483 +1310 DPD dpd NN _ _ _
5293 -1311 RNA-seq rna-seq NN _ _ _ 5484 +1311 </Supp> </supp> NN _ _ _
5294 -1312 -RRB- -rrb- -RRB- _ _ _ 5485 +1312 2 2 CD _ _ _
5295 -1313 </Technique> </technique> NN _ _ _ 5486 +1313 <Technique> <technique> NN _ _ _
5296 -1314 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5487 +1314 -LRB- -lrb- -LRB- _ _ _
5297 -1315 <Gtype> <gtype> NN _ _ _ 5488 +1315 RNA-seq rna-seq NN _ _ _
5298 -1316 Δfur δfur NN _ _ _ 5489 +1316 -RRB- -rrb- -RRB- _ _ _
5299 -1317 </Gtype> </gtype> NN _ _ _ 5490 +1317 </Technique> </technique> NN _ _ _
5300 -1318 with with IN _ _ _ 5491 +1318 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5301 -1319 <Supp> <supp> NN _ _ _ 5492 +1319 <Gtype> <gtype> NN _ _ _
5302 -1320 Fe Fe NNP _ _ _ 5493 +1320 Δfur δfur NN _ _ _
5303 -1321 </Supp> </Supp> NNP _ _ _ 5494 +1321 </Gtype> </gtype> NN _ _ _
5304 -1322 1 1 CD _ _ _ 5495 +1322 with with IN _ _ _
5305 -1323 <Technique> <technique> NN _ _ _ 5496 +1323 <Supp> <supp> NN _ _ _
5306 -1324 -LRB- -lrb- -LRB- _ _ _ 5497 +1324 Fe Fe NNP _ _ _
5307 -1325 RNA-seq rna-seq NN _ _ _ 5498 +1325 </Supp> </Supp> NNP _ _ _
5308 -1326 -RRB- -rrb- -RRB- _ _ _ 5499 +1326 1 1 CD _ _ _
5309 -1327 </Technique> </technique> NN _ _ _ 5500 +1327 <Technique> <technique> NN _ _ _
5310 -1328 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5501 +1328 -LRB- -lrb- -LRB- _ _ _
5311 -1329 <Gtype> <gtype> NN _ _ _ 5502 +1329 RNA-seq rna-seq NN _ _ _
5312 -1330 Δfur δfur NN _ _ _ 5503 +1330 -RRB- -rrb- -RRB- _ _ _
5313 -1331 </Gtype> </gtype> NN _ _ _ 5504 +1331 </Technique> </technique> NN _ _ _
5314 -1332 with with IN _ _ _ 5505 +1332 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5315 -1333 <Supp> <supp> NN _ _ _ 5506 +1333 <Gtype> <gtype> NN _ _ _
5316 -1334 Fe Fe NNP _ _ _ 5507 +1334 Δfur δfur NN _ _ _
5317 -1335 </Supp> </Supp> NNP _ _ _ 5508 +1335 </Gtype> </gtype> NN _ _ _
5318 -1336 2 2 CD _ _ _ 5509 +1336 with with IN _ _ _
5319 -1337 <Technique> <technique> NN _ _ _ 5510 +1337 <Supp> <supp> NN _ _ _
5320 -1338 -LRB- -lrb- -LRB- _ _ _ 5511 +1338 Fe Fe NNP _ _ _
5321 -1339 RNA-seq rna-seq NN _ _ _ 5512 +1339 </Supp> </Supp> NNP _ _ _
5322 -1340 -RRB- -rrb- -RRB- _ _ _ 5513 +1340 2 2 CD _ _ _
5323 -1341 </Technique> </technique> NN _ _ _ 5514 +1341 <Technique> <technique> NN _ _ _
5324 -1342 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5515 +1342 -LRB- -lrb- -LRB- _ _ _
5325 -1343 <Gtype> <gtype> NN _ _ _ 5516 +1343 RNA-seq rna-seq NN _ _ _
5326 -1344 ΔgadE δgade NN _ _ _ 5517 +1344 -RRB- -rrb- -RRB- _ _ _
5327 -1345 </Gtype> </gtype> NN _ _ _ 5518 +1345 </Technique> </technique> NN _ _ _
5328 -1346 <pH> <ph> NN _ _ _ 5519 +1346 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5329 -1347 pH5 ph5 NN _ _ _ 5520 +1347 <Gtype> <gtype> NN _ _ _
5330 -1348 .5 .5 CD _ _ _ 5521 +1348 ΔgadE δgade NN _ _ _
5331 -1349 </pH> </ph> NN _ _ _ 5522 +1349 </Gtype> </gtype> NN _ _ _
5332 -1350 1 1 CD _ _ _ 5523 +1350 <pH> <ph> NN _ _ _
5333 -1351 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5524 +1351 pH5 ph5 NN _ _ _
5334 -1352 <Gtype> <gtype> NN _ _ _ 5525 +1352 .5 .5 CD _ _ _
5335 -1353 ΔgadE δgade NN _ _ _ 5526 +1353 </pH> </ph> NN _ _ _
5336 -1354 </Gtype> </gtype> NN _ _ _ 5527 +1354 1 1 CD _ _ _
5337 -1355 <pH> <ph> NN _ _ _ 5528 +1355 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5338 -1356 pH5 ph5 NN _ _ _ 5529 +1356 <Gtype> <gtype> NN _ _ _
5339 -1357 .5 .5 CD _ _ _ 5530 +1357 ΔgadE δgade NN _ _ _
5340 -1358 </pH> </ph> NN _ _ _ 5531 +1358 </Gtype> </gtype> NN _ _ _
5341 -1359 2 2 CD _ _ _ 5532 +1359 <pH> <ph> NN _ _ _
5342 -1360 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5533 +1360 pH5 ph5 NN _ _ _
5343 -1361 <Gtype> <gtype> NN _ _ _ 5534 +1361 .5 .5 CD _ _ _
5344 -1362 ΔgadW δgadw NN _ _ _ 5535 +1362 </pH> </ph> NN _ _ _
5345 -1363 </Gtype> </gtype> NN _ _ _ 5536 +1363 2 2 CD _ _ _
5346 -1364 <pH> <ph> NN _ _ _ 5537 +1364 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5347 -1365 pH5 ph5 NN _ _ _ 5538 +1365 <Gtype> <gtype> NN _ _ _
5348 -1366 .5 .5 CD _ _ _ 5539 +1366 ΔgadW δgadw NN _ _ _
5349 -1367 </pH> </ph> NN _ _ _ 5540 +1367 </Gtype> </gtype> NN _ _ _
5350 -1368 1 1 CD _ _ _ 5541 +1368 <pH> <ph> NN _ _ _
5351 -1369 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5542 +1369 pH5 ph5 NN _ _ _
5352 -1370 <Gtype> <gtype> NN _ _ _ 5543 +1370 .5 .5 CD _ _ _
5353 -1371 ΔgadW δgadw NN _ _ _ 5544 +1371 </pH> </ph> NN _ _ _
5354 -1372 </Gtype> </gtype> NN _ _ _ 5545 +1372 1 1 CD _ _ _
5355 -1373 <pH> <ph> NN _ _ _ 5546 +1373 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5356 -1374 pH5 ph5 NN _ _ _ 5547 +1374 <Gtype> <gtype> NN _ _ _
5357 -1375 .5 .5 CD _ _ _ 5548 +1375 ΔgadW δgadw NN _ _ _
5358 -1376 </pH> </ph> NN _ _ _ 5549 +1376 </Gtype> </gtype> NN _ _ _
5359 -1377 2 2 CD _ _ _ 5550 +1377 <pH> <ph> NN _ _ _
5360 -1378 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5551 +1378 pH5 ph5 NN _ _ _
5361 -1379 <Gtype> <gtype> NN _ _ _ 5552 +1379 .5 .5 CD _ _ _
5362 -1380 ΔgadX δgadx NN _ _ _ 5553 +1380 </pH> </ph> NN _ _ _
5363 -1381 </Gtype> </gtype> NN _ _ _ 5554 +1381 2 2 CD _ _ _
5364 -1382 <pH> <ph> NN _ _ _ 5555 +1382 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5365 -1383 pH5 ph5 NN _ _ _ 5556 +1383 <Gtype> <gtype> NN _ _ _
5366 -1384 .5 .5 CD _ _ _ 5557 +1384 ΔgadX δgadx NN _ _ _
5367 -1385 </pH> </ph> NN _ _ _ 5558 +1385 </Gtype> </gtype> NN _ _ _
5368 -1386 1 1 CD _ _ _ 5559 +1386 <pH> <ph> NN _ _ _
5369 -1387 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5560 +1387 pH5 ph5 NN _ _ _
5370 -1388 <Gtype> <gtype> NN _ _ _ 5561 +1388 .5 .5 CD _ _ _
5371 -1389 ΔgadX δgadx NN _ _ _ 5562 +1389 </pH> </ph> NN _ _ _
5372 -1390 </Gtype> </gtype> NN _ _ _ 5563 +1390 1 1 CD _ _ _
5373 -1391 <pH> <ph> NN _ _ _ 5564 +1391 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5374 -1392 pH5 ph5 NN _ _ _ 5565 +1392 <Gtype> <gtype> NN _ _ _
5375 -1393 .5 .5 CD _ _ _ 5566 +1393 ΔgadX δgadx NN _ _ _
5376 -1394 </pH> </ph> NN _ _ _ 5567 +1394 </Gtype> </gtype> NN _ _ _
5377 -1395 2 2 CD _ _ _ 5568 +1395 <pH> <ph> NN _ _ _
5378 -1396 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5569 +1396 pH5 ph5 NN _ _ _
5379 -1397 <Gtype> <gtype> NN _ _ _ 5570 +1397 .5 .5 CD _ _ _
5380 -1398 ΔompR δompr NN _ _ _ 5571 +1398 </pH> </ph> NN _ _ _
5381 -1399 </Gtype> </gtype> NN _ _ _ 5572 +1399 2 2 CD _ _ _
5382 -1400 <Supp> <supp> NN _ _ _ 5573 +1400 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5383 -1401 NaCl nacl NN _ _ _ 5574 +1401 <Gtype> <gtype> NN _ _ _
5384 -1402 </Supp> </supp> NN _ _ _ 5575 +1402 ΔompR δompr NN _ _ _
5385 -1403 1 1 CD _ _ _ 5576 +1403 </Gtype> </gtype> NN _ _ _
5386 -1404 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5577 +1404 <Supp> <supp> NN _ _ _
5387 -1405 <Gtype> <gtype> NN _ _ _ 5578 +1405 NaCl nacl NN _ _ _
5388 -1406 ΔompR δompr NN _ _ _ 5579 +1406 </Supp> </supp> NN _ _ _
5389 -1407 </Gtype> </gtype> NN _ _ _ 5580 +1407 1 1 CD _ _ _
5390 -1408 <Supp> <supp> NN _ _ _ 5581 +1408 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5391 -1409 NaCl nacl NN _ _ _ 5582 +1409 <Gtype> <gtype> NN _ _ _
5392 -1410 </Supp> </supp> NN _ _ _ 5583 +1410 ΔompR δompr NN _ _ _
5393 -1411 2 2 CD _ _ _ 5584 +1411 </Gtype> </gtype> NN _ _ _
5394 -1412 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5585 +1412 <Supp> <supp> NN _ _ _
5395 -1413 <Gtype> <gtype> NN _ _ _ 5586 +1413 NaCl nacl NN _ _ _
5396 -1414 ΔoxyR δoxyr NN _ _ _ 5587 +1414 </Supp> </supp> NN _ _ _
5397 -1415 </Gtype> </gtype> NN _ _ _ 5588 +1415 2 2 CD _ _ _
5398 -1416 <Supp> <supp> NN _ _ _ 5589 +1416 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5399 -1417 PQ pq NN _ _ _ 5590 +1417 <Gtype> <gtype> NN _ _ _
5400 -1418 </Supp> </supp> NN _ _ _ 5591 +1418 ΔoxyR δoxyr NN _ _ _
5401 -1419 1 1 CD _ _ _ 5592 +1419 </Gtype> </gtype> NN _ _ _
5402 -1420 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5593 +1420 <Supp> <supp> NN _ _ _
5403 -1421 <Gtype> <gtype> NN _ _ _ 5594 +1421 PQ pq NN _ _ _
5404 -1422 ΔoxyR δoxyr NN _ _ _ 5595 +1422 </Supp> </supp> NN _ _ _
5405 -1423 </Gtype> </gtype> NN _ _ _ 5596 +1423 1 1 CD _ _ _
5406 -1424 <Supp> <supp> NN _ _ _ 5597 +1424 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5407 -1425 PQ pq NN _ _ _ 5598 +1425 <Gtype> <gtype> NN _ _ _
5408 -1426 </Supp> </supp> NN _ _ _ 5599 +1426 ΔoxyR δoxyr NN _ _ _
5409 -1427 2 2 CD _ _ _ 5600 +1427 </Gtype> </gtype> NN _ _ _
5410 -1428 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5601 +1428 <Supp> <supp> NN _ _ _
5411 -1429 <Gtype> <gtype> NN _ _ _ 5602 +1429 PQ pq NN _ _ _
5412 -1430 ΔsoxR δsoxr NN _ _ _ 5603 +1430 </Supp> </supp> NN _ _ _
5413 -1431 </Gtype> </gtype> NN _ _ _ 5604 +1431 2 2 CD _ _ _
5414 -1432 <Supp> <supp> NN _ _ _ 5605 +1432 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5415 -1433 PQ pq NN _ _ _ 5606 +1433 <Gtype> <gtype> NN _ _ _
5416 -1434 </Supp> </supp> NN _ _ _ 5607 +1434 ΔsoxR δsoxr NN _ _ _
5417 -1435 1 1 CD _ _ _ 5608 +1435 </Gtype> </gtype> NN _ _ _
5418 -1436 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5609 +1436 <Supp> <supp> NN _ _ _
5419 -1437 <Gtype> <gtype> NN _ _ _ 5610 +1437 PQ pq NN _ _ _
5420 -1438 ΔsoxR δsoxr NN _ _ _ 5611 +1438 </Supp> </supp> NN _ _ _
5421 -1439 </Gtype> </gtype> NN _ _ _ 5612 +1439 1 1 CD _ _ _
5422 -1440 <Supp> <supp> NN _ _ _ 5613 +1440 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5423 -1441 PQ pq NN _ _ _ 5614 +1441 <Gtype> <gtype> NN _ _ _
5424 -1442 </Supp> </supp> NN _ _ _ 5615 +1442 ΔsoxR δsoxr NN _ _ _
5425 -1443 2 2 CD _ _ _ 5616 +1443 </Gtype> </gtype> NN _ _ _
5426 -1444 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5617 +1444 <Supp> <supp> NN _ _ _
5427 -1445 <Gtype> <gtype> NN _ _ _ 5618 +1445 PQ pq NN _ _ _
5428 -1446 ΔsoxS δsoxs NN _ _ _ 5619 +1446 </Supp> </supp> NN _ _ _
5429 -1447 </Gtype> </gtype> NN _ _ _ 5620 +1447 2 2 CD _ _ _
5430 -1448 <Supp> <supp> NN _ _ _ 5621 +1448 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5431 -1449 PQ pq NN _ _ _ 5622 +1449 <Gtype> <gtype> NN _ _ _
5432 -1450 </Supp> </supp> NN _ _ _ 5623 +1450 ΔsoxS δsoxs NN _ _ _
5433 -1451 1 1 CD _ _ _ 5624 +1451 </Gtype> </gtype> NN _ _ _
5434 -1452 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5625 +1452 <Supp> <supp> NN _ _ _
5435 -1453 <Gtype> <gtype> NN _ _ _ 5626 +1453 PQ pq NN _ _ _
5436 -1454 ΔsoxS δsoxs NN _ _ _ 5627 +1454 </Supp> </supp> NN _ _ _
5437 -1455 </Gtype> </gtype> NN _ _ _ 5628 +1455 1 1 CD _ _ _
5438 -1456 <Supp> <supp> NN _ _ _ 5629 +1456 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5439 -1457 PQ pq NN _ _ _ 5630 +1457 <Gtype> <gtype> NN _ _ _
5440 -1458 </Supp> </supp> NN _ _ _ 5631 +1458 ΔsoxS δsoxs NN _ _ _
5441 -1459 2 2 CD _ _ _ 5632 +1459 </Gtype> </gtype> NN _ _ _
5442 -1460 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5633 +1460 <Supp> <supp> NN _ _ _
5443 -1461 <Gversion> <gversion> NN _ _ _ 5634 +1461 PQ pq NN _ _ _
5444 -1462 ChIP-Seq chip-seq NN _ _ _ 5635 +1462 </Supp> </supp> NN _ _ _
5445 -1463 </Gversion> </gversion> NN _ _ _ 5636 +1463 2 2 CD _ _ _
5446 1464 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5637 1464 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5447 -1465 HNS hns SYM _ _ _ 5638 +1465 <Gversion> <gversion> NN _ _ _
5448 -1466 - - : _ _ _ 5639 +1466 ChIP-Seq chip-seq NN _ _ _
5449 -1467 <Air> <air> NN _ _ _ 5640 +1467 </Gversion> </gversion> NN _ _ _
5450 -1468 Aerobic aerobic JJ _ _ _ 5641 +1468 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5451 -1469 </Air> </air> NN _ _ _ 5642 +1469 HNS hns SYM _ _ _
5452 -1470 A a DT _ _ _ 5643 +1470 - - : _ _ _
5453 -1471 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNPS _ _ _ 5644 +1471 <Air> <air> NN _ _ _
5454 -1472 HNS hns SYM _ _ _ 5645 +1472 Aerobic aerobic JJ _ _ _
5455 -1473 - - : _ _ _ 5646 +1473 </Air> </air> NN _ _ _
5456 -1474 <Air> <air> NN _ _ _ 5647 +1474 A a DT _ _ _
5457 -1475 Aerobic aerobic JJ _ _ _ 5648 +1475 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNPS _ _ _
5458 -1476 </Air> </air> NN _ _ _ 5649 +1476 HNS hns SYM _ _ _
5459 -1477 B b NN _ _ _ 5650 +1477 - - : _ _ _
5460 -1478 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5651 +1478 <Air> <air> NN _ _ _
5461 -1479 HNS hns SYM _ _ _ 5652 +1479 Aerobic aerobic JJ _ _ _
5462 -1480 - - : _ _ _ 5653 +1480 </Air> </air> NN _ _ _
5463 -1481 <Air> <air> NN _ _ _ 5654 +1481 B b NN _ _ _
5464 -1482 Anaerobic anaerobic JJ _ _ _ 5655 +1482 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5465 -1483 </Air> </air> NN _ _ _ 5656 +1483 HNS hns SYM _ _ _
5466 -1484 A a DT _ _ _ 5657 +1484 - - : _ _ _
5467 -1485 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNPS _ _ _ 5658 +1485 <Air> <air> NN _ _ _
5468 -1486 HNS hns SYM _ _ _ 5659 +1486 Anaerobic anaerobic JJ _ _ _
5469 -1487 - - : _ _ _ 5660 +1487 </Air> </air> NN _ _ _
5470 -1488 <Air> <air> NN _ _ _ 5661 +1488 A a DT _ _ _
5471 -1489 Anaerobic anaerobic JJ _ _ _ 5662 +1489 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNPS _ _ _
5472 -1490 </Air> </air> NN _ _ _ 5663 +1490 HNS hns SYM _ _ _
5473 -1491 B b NN _ _ _ 5664 +1491 - - : _ _ _
5474 -1492 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5665 +1492 <Air> <air> NN _ _ _
5475 -1493 IHF ihf SYM _ _ _ 5666 +1493 Anaerobic anaerobic JJ _ _ _
5476 -1494 - - : _ _ _ 5667 +1494 </Air> </air> NN _ _ _
5477 -1495 <Air> <air> NN _ _ _ 5668 +1495 B b NN _ _ _
5478 -1496 Anaerobic anaerobic JJ _ _ _ 5669 +1496 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5479 -1497 </Air> </air> NN _ _ _ 5670 +1497 IHF ihf SYM _ _ _
5480 -1498 A a DT _ _ _ 5671 +1498 - - : _ _ _
5481 -1499 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNPS _ _ _ 5672 +1499 <Air> <air> NN _ _ _
5482 -1500 IHF ihf SYM _ _ _ 5673 +1500 Anaerobic anaerobic JJ _ _ _
5483 -1501 - - : _ _ _ 5674 +1501 </Air> </air> NN _ _ _
5484 -1502 <Air> <air> NN _ _ _ 5675 +1502 A a DT _ _ _
5485 -1503 Anaerobic anaerobic JJ _ _ _ 5676 +1503 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNPS _ _ _
5486 -1504 </Air> </air> NN _ _ _ 5677 +1504 IHF ihf SYM _ _ _
5487 -1505 B b NN _ _ _ 5678 +1505 - - : _ _ _
5488 -1506 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5679 +1506 <Air> <air> NN _ _ _
5489 -1507 Input input NN _ _ _ 5680 +1507 Anaerobic anaerobic JJ _ _ _
5490 -1508 <Technique> <technique> NN _ _ _ 5681 +1508 </Air> </air> NN _ _ _
5491 -1509 ChIP-Seq chip-seq NN _ _ _ 5682 +1509 B b NN _ _ _
5492 -1510 </Technique> </technique> NN _ _ _ 5683 +1510 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5493 -1511 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5684 +1511 Input input NN _ _ _
5494 -1512 ip ip NN _ _ _ 5685 +1512 <Technique> <technique> NN _ _ _
5495 -1513 antibody antibody NN _ _ _ 5686 +1513 ChIP-Seq chip-seq NN _ _ _
5496 -1514 : : : _ _ _ 5687 +1514 </Technique> </technique> NN _ _ _
5497 -1515 <Anti> <anti> NN _ _ _ 5688 +1515 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5498 -1516 affinity affinity NN _ _ _ 5689 +1516 ip ip NN _ _ _
5499 -1517 purified purify VBN _ _ _ 5690 +1517 antibody antibody NN _ _ _
5500 -1518 anti-Fur anti-fur JJ _ _ _ 5691 +1518 : : : _ _ _
5501 -1519 antibody antibody NN _ _ _ 5692 +1519 <Anti> <anti> NN _ _ _
5502 -1520 </Anti> </anti> NN _ _ _ 5693 +1520 affinity affinity NN _ _ _
5503 -1521 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5694 +1521 purified purify VBN _ _ _
5504 -1522 library library NN _ _ _ 5695 +1522 anti-Fur anti-fur JJ _ _ _
5505 -1523 strategy strategy NN _ _ _ 5696 +1523 antibody antibody NN _ _ _
5506 -1524 : : : _ _ _ 5697 +1524 </Anti> </anti> NN _ _ _
5507 -1525 <Technique> <technique> NN _ _ _ 5698 +1525 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5508 -1526 ChIP-exo ChIP-exo NNP _ _ _ 5699 +1526 library library NN _ _ _
5509 -1527 </Technique> </Technique> NNP _ _ _ 5700 +1527 strategy strategy NN _ _ _
5510 -1528 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _ 5701 +1528 : : : _ _ _
5511 -1529 Lrp Lrp NNP _ _ _ 5702 +1529 <Technique> <technique> NN _ _ _
5512 -1530 _ _ SYM _ _ _ 5703 +1530 ChIP-exo ChIP-exo NNP _ _ _
5513 -1531 <Supp> <Supp> NNP _ _ _ 5704 +1531 </Technique> </Technique> NNP _ _ _
5514 -1532 Leu Leu NNP _ _ _ 5705 +1532 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
5515 -1533 </Supp> </Supp> NNP _ _ _ 5706 +1533 Lrp Lrp NNP _ _ _
5516 1534 _ _ SYM _ _ _ 5707 1534 _ _ SYM _ _ _
5517 -1535 1 1 CD _ _ _ 5708 +1535 <Supp> <Supp> NNP _ _ _
5518 -1536 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _ 5709 +1536 Leu Leu NNP _ _ _
5519 -1537 Lrp Lrp NNP _ _ _ 5710 +1537 </Supp> </Supp> NNP _ _ _
5520 1538 _ _ SYM _ _ _ 5711 1538 _ _ SYM _ _ _
5521 -1539 <Supp> <Supp> NNP _ _ _ 5712 +1539 1 1 CD _ _ _
5522 -1540 Leu Leu NNP _ _ _ 5713 +1540 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
5523 -1541 </Supp> </Supp> NNP _ _ _ 5714 +1541 Lrp Lrp NNP _ _ _
5524 -1542 _ _ NN _ _ _ 5715 +1542 _ _ SYM _ _ _
5525 -1543 2 2 CD _ _ _ 5716 +1543 <Supp> <Supp> NNP _ _ _
5526 -1544 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _ 5717 +1544 Leu Leu NNP _ _ _
5527 -1545 Lrp Lrp NNP _ _ _ 5718 +1545 </Supp> </Supp> NNP _ _ _
5528 -1546 _ _ SYM _ _ _ 5719 +1546 _ _ NN _ _ _
5529 -1547 <Supp> <Supp> NNP _ _ _ 5720 +1547 2 2 CD _ _ _
5530 -1548 Leu Leu NNP _ _ _ 5721 +1548 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
5531 -1549 </Supp> </Supp> NNP _ _ _ 5722 +1549 Lrp Lrp NNP _ _ _
5532 1550 _ _ SYM _ _ _ 5723 1550 _ _ SYM _ _ _
5533 -1551 3 3 CD _ _ _ 5724 +1551 <Supp> <Supp> NNP _ _ _
5534 -1552 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _ 5725 +1552 Leu Leu NNP _ _ _
5535 -1553 Lrp Lrp NNP _ _ _ 5726 +1553 </Supp> </Supp> NNP _ _ _
5536 1554 _ _ SYM _ _ _ 5727 1554 _ _ SYM _ _ _
5537 -1555 <Supp> <supp> NN _ _ _ 5728 +1555 3 3 CD _ _ _
5538 -1556 NH4Cl nh4cl NN _ _ _ 5729 +1556 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
5539 -1557 </Supp> </supp> NN _ _ _ 5730 +1557 Lrp Lrp NNP _ _ _
5540 -1558 _ _ NN _ _ _ 5731 +1558 _ _ SYM _ _ _
5541 -1559 1 1 CD _ _ _ 5732 +1559 <Supp> <supp> NN _ _ _
5542 -1560 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _ 5733 +1560 NH4Cl nh4cl NN _ _ _
5543 -1561 Lrp Lrp NNP _ _ _ 5734 +1561 </Supp> </supp> NN _ _ _
5544 -1562 _ _ SYM _ _ _ 5735 +1562 _ _ NN _ _ _
5545 -1563 <Supp> <supp> NN _ _ _ 5736 +1563 1 1 CD _ _ _
5546 -1564 NH4Cl nh4cl NN _ _ _ 5737 +1564 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
5547 -1565 </Supp> </supp> NN _ _ _ 5738 +1565 Lrp Lrp NNP _ _ _
5548 -1566 _ _ NN _ _ _ 5739 +1566 _ _ SYM _ _ _
5549 -1567 2 2 CD _ _ _ 5740 +1567 <Supp> <supp> NN _ _ _
5550 -1568 PGCGROWTHCONDITIONS pgcgrowthcondition NNS _ _ _ 5741 +1568 NH4Cl nh4cl NN _ _ _
5551 -1569 Lrp lrp NN _ _ _ 5742 +1569 </Supp> </supp> NN _ _ _
5552 -1570 _ _ CD _ _ _ 5743 +1570 _ _ NN _ _ _
5553 -1571 <Supp> <supp> NN _ _ _ 5744 +1571 2 2 CD _ _ _
5554 -1572 NH4Cl nh4cl NN _ _ _ 5745 +1572 PGCGROWTHCONDITIONS pgcgrowthcondition NNS _ _ _
5555 -1573 </Supp> </supp> NN _ _ _ 5746 +1573 Lrp lrp NN _ _ _
5556 1574 _ _ CD _ _ _ 5747 1574 _ _ CD _ _ _
5557 -1575 3 3 CD _ _ _ 5748 +1575 <Supp> <supp> NN _ _ _
5558 -1576 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5749 +1576 NH4Cl nh4cl NN _ _ _
5559 -1577 medium medium NN _ _ _ 5750 +1577 </Supp> </supp> NN _ _ _
5560 -1578 : : : _ _ _ 5751 +1578 _ _ CD _ _ _
5561 -1579 <Med> <Med> NNP _ _ _ 5752 +1579 3 3 CD _ _ _
5562 -1580 LB LB NNP _ _ _ 5753 +1580 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5563 -1581 </Med> </Med> NNP _ _ _ 5754 +1581 medium medium NN _ _ _
5564 -1582 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _ 5755 +1582 : : : _ _ _
5565 -1583 medium medium NN _ _ _ 5756 +1583 <Med> <Med> NNP _ _ _
5566 -1584 : : : _ _ _ 5757 +1584 LB LB NNP _ _ _
5567 -1585 <Med> <med> NN _ _ _ 5758 +1585 </Med> </Med> NNP _ _ _
5568 -1586 M63 m63 NN _ _ _ 5759 +1586 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
5569 -1587 </Med> </med> NN _ _ _ 5760 +1587 medium medium NN _ _ _
5570 -1588 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5761 +1588 : : : _ _ _
5571 1589 <Med> <med> NN _ _ _ 5762 1589 <Med> <med> NN _ _ _
5572 -1590 LB lb NN _ _ _ 5763 +1590 M63 m63 NN _ _ _
5573 1591 </Med> </med> NN _ _ _ 5764 1591 </Med> </med> NN _ _ _
5574 -1592 0.4 0.4 CD _ _ _ 5765 +1592 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5575 -1593 B1 b1 NN _ _ _ 5766 +1593 <Med> <med> NN _ _ _
5576 -1594 TEX tex NN _ _ _ 5767 +1594 LB lb NN _ _ _
5577 -1595 neg neg NN _ _ _ 5768 +1595 </Med> </med> NN _ _ _
5578 -1596 L1 l1 NN _ _ _ 5769 +1596 0.4 0.4 CD _ _ _
5579 -1597 GA ga NN _ _ _ 5770 +1597 B1 b1 NN _ _ _
5580 -1598 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5771 +1598 TEX tex NN _ _ _
5581 -1599 <Med> <med> NN _ _ _ 5772 +1599 neg neg NN _ _ _
5582 -1600 LB lb NN _ _ _ 5773 +1600 L1 l1 NN _ _ _
5583 -1601 </Med> </med> NN _ _ _ 5774 +1601 GA ga NN _ _ _
5584 -1602 0.4 0.4 CD _ _ _ 5775 +1602 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5585 -1603 B1 b1 NN _ _ _ 5776 +1603 <Med> <med> NN _ _ _
5586 -1604 TEX TEX NNP _ _ _ 5777 +1604 LB lb NN _ _ _
5587 -1605 pos po VBZ _ _ _ 5778 +1605 </Med> </med> NN _ _ _
5588 -1606 L1 l1 NN _ _ _ 5779 +1606 0.4 0.4 CD _ _ _
5589 -1607 GA ga NN _ _ _ 5780 +1607 B1 b1 NN _ _ _
5590 -1608 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5781 +1608 TEX TEX NNP _ _ _
5591 -1609 <Med> <med> NN _ _ _ 5782 +1609 pos po VBZ _ _ _
5592 -1610 LB lb NN _ _ _ 5783 +1610 L1 l1 NN _ _ _
5593 -1611 </Med> </med> NN _ _ _ 5784 +1611 GA ga NN _ _ _
5594 -1612 0.4 0.4 CD _ _ _ 5785 +1612 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5595 -1613 B2 b2 NN _ _ _ 5786 +1613 <Med> <med> NN _ _ _
5596 -1614 TEX TEX NNP _ _ _ 5787 +1614 LB lb NN _ _ _
5597 -1615 neg neg NNP _ _ _ 5788 +1615 </Med> </med> NN _ _ _
5598 -1616 L1 l1 NN _ _ _ 5789 +1616 0.4 0.4 CD _ _ _
5599 -1617 HS1 hs1 NN _ _ _ 5790 +1617 B2 b2 NN _ _ _
5600 -1618 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5791 +1618 TEX TEX NNP _ _ _
5601 -1619 <Med> <med> NN _ _ _ 5792 +1619 neg neg NNP _ _ _
5602 -1620 LB lb NN _ _ _ 5793 +1620 L1 l1 NN _ _ _
5603 -1621 </Med> </med> NN _ _ _ 5794 +1621 HS1 hs1 NN _ _ _
5604 -1622 0.4 0.4 CD _ _ _ 5795 +1622 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5605 -1623 B2 b2 NN _ _ _ 5796 +1623 <Med> <med> NN _ _ _
5606 -1624 TEX TEX NNP _ _ _ 5797 +1624 LB lb NN _ _ _
5607 -1625 neg neg NNP _ _ _ 5798 +1625 </Med> </med> NN _ _ _
5608 -1626 L1 l1 NN _ _ _ 5799 +1626 0.4 0.4 CD _ _ _
5609 -1627 HS2 hs2 NN _ _ _ 5800 +1627 B2 b2 NN _ _ _
5610 -1628 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5801 +1628 TEX TEX NNP _ _ _
5611 -1629 <Med> <med> NN _ _ _ 5802 +1629 neg neg NNP _ _ _
5612 -1630 LB lb NN _ _ _ 5803 +1630 L1 l1 NN _ _ _
5613 -1631 </Med> </med> NN _ _ _ 5804 +1631 HS2 hs2 NN _ _ _
5614 -1632 0.4 0.4 CD _ _ _ 5805 +1632 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5615 -1633 B2 b2 NN _ _ _ 5806 +1633 <Med> <med> NN _ _ _
5616 -1634 TEX TEX NNP _ _ _ 5807 +1634 LB lb NN _ _ _
5617 -1635 pos po VBZ _ _ _ 5808 +1635 </Med> </med> NN _ _ _
5618 -1636 L1 l1 NN _ _ _ 5809 +1636 0.4 0.4 CD _ _ _
5619 -1637 HS1 hs1 NN _ _ _ 5810 +1637 B2 b2 NN _ _ _
5620 -1638 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5811 +1638 TEX TEX NNP _ _ _
5621 -1639 <Med> <med> NN _ _ _ 5812 +1639 pos po VBZ _ _ _
5622 -1640 LB lb NN _ _ _ 5813 +1640 L1 l1 NN _ _ _
5623 -1641 </Med> </med> NN _ _ _ 5814 +1641 HS1 hs1 NN _ _ _
5624 -1642 0.4 0.4 CD _ _ _ 5815 +1642 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5625 -1643 B2 b2 NN _ _ _ 5816 +1643 <Med> <med> NN _ _ _
5626 -1644 TEX TEX NNP _ _ _ 5817 +1644 LB lb NN _ _ _
5627 -1645 pos po VBZ _ _ _ 5818 +1645 </Med> </med> NN _ _ _
5628 -1646 L1 l1 NN _ _ _ 5819 +1646 0.4 0.4 CD _ _ _
5629 -1647 HS2 hs2 NN _ _ _ 5820 +1647 B2 b2 NN _ _ _
5630 -1648 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5821 +1648 TEX TEX NNP _ _ _
5631 -1649 <Med> <med> NN _ _ _ 5822 +1649 pos po VBZ _ _ _
5632 -1650 LB lb NN _ _ _ 5823 +1650 L1 l1 NN _ _ _
5633 -1651 </Med> </med> NN _ _ _ 5824 +1651 HS2 hs2 NN _ _ _
5634 -1652 2.0 2.0 CD _ _ _ 5825 +1652 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5635 -1653 B1 b1 NN _ _ _ 5826 +1653 <Med> <med> NN _ _ _
5636 -1654 TEX tex NN _ _ _ 5827 +1654 LB lb NN _ _ _
5637 -1655 neg neg NN _ _ _ 5828 +1655 </Med> </med> NN _ _ _
5638 -1656 L1 l1 NN _ _ _ 5829 +1656 2.0 2.0 CD _ _ _
5639 -1657 GA ga NN _ _ _ 5830 +1657 B1 b1 NN _ _ _
5640 -1658 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5831 +1658 TEX tex NN _ _ _
5641 -1659 <Med> <med> NN _ _ _ 5832 +1659 neg neg NN _ _ _
5642 -1660 LB lb NN _ _ _ 5833 +1660 L1 l1 NN _ _ _
5643 -1661 </Med> </med> NN _ _ _ 5834 +1661 GA ga NN _ _ _
5644 -1662 2.0 2.0 CD _ _ _ 5835 +1662 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5645 -1663 B1 b1 NN _ _ _ 5836 +1663 <Med> <med> NN _ _ _
5646 -1664 TEX TEX NNP _ _ _ 5837 +1664 LB lb NN _ _ _
5647 -1665 neg neg NNP _ _ _ 5838 +1665 </Med> </med> NN _ _ _
5648 -1666 L2 l2 NN _ _ _ 5839 +1666 2.0 2.0 CD _ _ _
5649 -1667 HS2 hs2 NN _ _ _ 5840 +1667 B1 b1 NN _ _ _
5650 -1668 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5841 +1668 TEX TEX NNP _ _ _
5651 -1669 <Med> <med> NN _ _ _ 5842 +1669 neg neg NNP _ _ _
5652 -1670 LB lb NN _ _ _ 5843 +1670 L2 l2 NN _ _ _
5653 -1671 </Med> </med> NN _ _ _ 5844 +1671 HS2 hs2 NN _ _ _
5654 -1672 2.0 2.0 CD _ _ _ 5845 +1672 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5655 -1673 B1 b1 NN _ _ _ 5846 +1673 <Med> <med> NN _ _ _
5656 -1674 TEX TEX NNP _ _ _ 5847 +1674 LB lb NN _ _ _
5657 -1675 pos po VBZ _ _ _ 5848 +1675 </Med> </med> NN _ _ _
5658 -1676 L1 l1 NN _ _ _ 5849 +1676 2.0 2.0 CD _ _ _
5659 -1677 GA ga NN _ _ _ 5850 +1677 B1 b1 NN _ _ _
5660 -1678 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5851 +1678 TEX TEX NNP _ _ _
5661 -1679 <Med> <med> NN _ _ _ 5852 +1679 pos po VBZ _ _ _
5662 -1680 LB lb NN _ _ _ 5853 +1680 L1 l1 NN _ _ _
5663 -1681 </Med> </med> NN _ _ _ 5854 +1681 GA ga NN _ _ _
5664 -1682 2.0 2.0 CD _ _ _ 5855 +1682 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5665 -1683 B1 b1 NN _ _ _ 5856 +1683 <Med> <med> NN _ _ _
5666 -1684 TEX TEX NNP _ _ _ 5857 +1684 LB lb NN _ _ _
5667 -1685 pos po VBZ _ _ _ 5858 +1685 </Med> </med> NN _ _ _
5668 -1686 L2 l2 NN _ _ _ 5859 +1686 2.0 2.0 CD _ _ _
5669 -1687 HS2 hs2 NN _ _ _ 5860 +1687 B1 b1 NN _ _ _
5670 -1688 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5861 +1688 TEX TEX NNP _ _ _
5671 -1689 <Med> <med> NN _ _ _ 5862 +1689 pos po VBZ _ _ _
5672 -1690 LB lb NN _ _ _ 5863 +1690 L2 l2 NN _ _ _
5673 -1691 </Med> </med> NN _ _ _ 5864 +1691 HS2 hs2 NN _ _ _
5674 -1692 2.0 2.0 CD _ _ _ 5865 +1692 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5675 -1693 B2 b2 NN _ _ _ 5866 +1693 <Med> <med> NN _ _ _
5676 -1694 TEX TEX NNP _ _ _ 5867 +1694 LB lb NN _ _ _
5677 -1695 neg neg NNP _ _ _ 5868 +1695 </Med> </med> NN _ _ _
5678 -1696 L1 l1 NN _ _ _ 5869 +1696 2.0 2.0 CD _ _ _
5679 -1697 HS1 hs1 NN _ _ _ 5870 +1697 B2 b2 NN _ _ _
5680 -1698 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5871 +1698 TEX TEX NNP _ _ _
5681 -1699 <Med> <med> NN _ _ _ 5872 +1699 neg neg NNP _ _ _
5682 -1700 LB lb NN _ _ _ 5873 +1700 L1 l1 NN _ _ _
5683 -1701 </Med> </med> NN _ _ _ 5874 +1701 HS1 hs1 NN _ _ _
5684 -1702 2.0 2.0 CD _ _ _ 5875 +1702 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5685 -1703 B2 b2 NN _ _ _ 5876 +1703 <Med> <med> NN _ _ _
5686 -1704 TEX TEX NNP _ _ _ 5877 +1704 LB lb NN _ _ _
5687 -1705 neg neg NNP _ _ _ 5878 +1705 </Med> </med> NN _ _ _
5688 -1706 L1 l1 NN _ _ _ 5879 +1706 2.0 2.0 CD _ _ _
5689 -1707 HS2 hs2 NN _ _ _ 5880 +1707 B2 b2 NN _ _ _
5690 -1708 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5881 +1708 TEX TEX NNP _ _ _
5691 -1709 <Med> <med> NN _ _ _ 5882 +1709 neg neg NNP _ _ _
5692 -1710 LB lb NN _ _ _ 5883 +1710 L1 l1 NN _ _ _
5693 -1711 </Med> </med> NN _ _ _ 5884 +1711 HS2 hs2 NN _ _ _
5694 -1712 2.0 2.0 CD _ _ _ 5885 +1712 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5695 -1713 B2 b2 NN _ _ _ 5886 +1713 <Med> <med> NN _ _ _
5696 -1714 TEX TEX NNP _ _ _ 5887 +1714 LB lb NN _ _ _
5697 -1715 neg neg NNP _ _ _ 5888 +1715 </Med> </med> NN _ _ _
5698 -1716 L2 l2 NN _ _ _ 5889 +1716 2.0 2.0 CD _ _ _
5699 -1717 HS2 hs2 NN _ _ _ 5890 +1717 B2 b2 NN _ _ _
5700 -1718 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5891 +1718 TEX TEX NNP _ _ _
5701 -1719 <Med> <med> NN _ _ _ 5892 +1719 neg neg NNP _ _ _
5702 -1720 LB lb NN _ _ _ 5893 +1720 L2 l2 NN _ _ _
5703 -1721 </Med> </med> NN _ _ _ 5894 +1721 HS2 hs2 NN _ _ _
5704 -1722 2.0 2.0 CD _ _ _ 5895 +1722 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5705 -1723 B2 b2 NN _ _ _ 5896 +1723 <Med> <med> NN _ _ _
5706 -1724 TEX TEX NNP _ _ _ 5897 +1724 LB lb NN _ _ _
5707 -1725 pos po VBZ _ _ _ 5898 +1725 </Med> </med> NN _ _ _
5708 -1726 L1 l1 NN _ _ _ 5899 +1726 2.0 2.0 CD _ _ _
5709 -1727 HS1 hs1 NN _ _ _ 5900 +1727 B2 b2 NN _ _ _
5710 -1728 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5901 +1728 TEX TEX NNP _ _ _
5711 -1729 <Med> <med> NN _ _ _ 5902 +1729 pos po VBZ _ _ _
5712 -1730 LB lb NN _ _ _ 5903 +1730 L1 l1 NN _ _ _
5713 -1731 </Med> </med> NN _ _ _ 5904 +1731 HS1 hs1 NN _ _ _
5714 -1732 2.0 2.0 CD _ _ _ 5905 +1732 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5715 -1733 B2 b2 NN _ _ _ 5906 +1733 <Med> <med> NN _ _ _
5716 -1734 TEX TEX NNP _ _ _ 5907 +1734 LB lb NN _ _ _
5717 -1735 pos po VBZ _ _ _ 5908 +1735 </Med> </med> NN _ _ _
5718 -1736 L1 l1 NN _ _ _ 5909 +1736 2.0 2.0 CD _ _ _
5719 -1737 HS2 hs2 NN _ _ _ 5910 +1737 B2 b2 NN _ _ _
5720 -1738 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5911 +1738 TEX TEX NNP _ _ _
5721 -1739 <Med> <med> NN _ _ _ 5912 +1739 pos po VBZ _ _ _
5722 -1740 LB lb NN _ _ _ 5913 +1740 L1 l1 NN _ _ _
5723 -1741 </Med> </med> NN _ _ _ 5914 +1741 HS2 hs2 NN _ _ _
5724 -1742 2.0 2.0 CD _ _ _ 5915 +1742 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5725 -1743 B2 b2 NN _ _ _ 5916 +1743 <Med> <med> NN _ _ _
5726 -1744 TEX TEX NNP _ _ _ 5917 +1744 LB lb NN _ _ _
5727 -1745 pos po VBZ _ _ _ 5918 +1745 </Med> </med> NN _ _ _
5728 -1746 L2 l2 NN _ _ _ 5919 +1746 2.0 2.0 CD _ _ _
5729 -1747 HS2 hs2 NN _ _ _ 5920 +1747 B2 b2 NN _ _ _
5730 -1748 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5921 +1748 TEX TEX NNP _ _ _
5731 -1749 <Med> <med> NN _ _ _ 5922 +1749 pos po VBZ _ _ _
5732 -1750 M63 m63 NN _ _ _ 5923 +1750 L2 l2 NN _ _ _
5733 -1751 </Med> </med> NN _ _ _ 5924 +1751 HS2 hs2 NN _ _ _
5734 -1752 0.4 0.4 CD _ _ _ 5925 +1752 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5735 -1753 B1 b1 NN _ _ _ 5926 +1753 <Med> <med> NN _ _ _
5736 -1754 TEX tex NN _ _ _ 5927 +1754 M63 m63 NN _ _ _
5737 -1755 neg neg NN _ _ _ 5928 +1755 </Med> </med> NN _ _ _
5738 -1756 L1 l1 NN _ _ _ 5929 +1756 0.4 0.4 CD _ _ _
5739 -1757 GA ga NN _ _ _ 5930 +1757 B1 b1 NN _ _ _
5740 -1758 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5931 +1758 TEX tex NN _ _ _
5741 -1759 <Med> <med> NN _ _ _ 5932 +1759 neg neg NN _ _ _
5742 -1760 M63 m63 NN _ _ _ 5933 +1760 L1 l1 NN _ _ _
5743 -1761 </Med> </med> NN _ _ _ 5934 +1761 GA ga NN _ _ _
5744 -1762 0.4 0.4 CD _ _ _ 5935 +1762 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5745 -1763 B1 b1 NN _ _ _ 5936 +1763 <Med> <med> NN _ _ _
5746 -1764 TEX TEX NNP _ _ _ 5937 +1764 M63 m63 NN _ _ _
5747 -1765 pos po VBZ _ _ _ 5938 +1765 </Med> </med> NN _ _ _
5748 -1766 L1 l1 NN _ _ _ 5939 +1766 0.4 0.4 CD _ _ _
5749 -1767 GA ga NN _ _ _ 5940 +1767 B1 b1 NN _ _ _
5750 -1768 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5941 +1768 TEX TEX NNP _ _ _
5751 -1769 <Med> <med> NN _ _ _ 5942 +1769 pos po VBZ _ _ _
5752 -1770 M63 m63 NN _ _ _ 5943 +1770 L1 l1 NN _ _ _
5753 -1771 </Med> </med> NN _ _ _ 5944 +1771 GA ga NN _ _ _
5754 -1772 0.4 0.4 CD _ _ _ 5945 +1772 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5755 -1773 B2 b2 NN _ _ _ 5946 +1773 <Med> <med> NN _ _ _
5756 -1774 TEX TEX NNP _ _ _ 5947 +1774 M63 m63 NN _ _ _
5757 -1775 neg neg NNP _ _ _ 5948 +1775 </Med> </med> NN _ _ _
5758 -1776 L1 l1 NN _ _ _ 5949 +1776 0.4 0.4 CD _ _ _
5759 -1777 HS1 hs1 NN _ _ _ 5950 +1777 B2 b2 NN _ _ _
5760 -1778 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5951 +1778 TEX TEX NNP _ _ _
5761 -1779 <Med> <med> NN _ _ _ 5952 +1779 neg neg NNP _ _ _
5762 -1780 M63 m63 NN _ _ _ 5953 +1780 L1 l1 NN _ _ _
5763 -1781 </Med> </med> NN _ _ _ 5954 +1781 HS1 hs1 NN _ _ _
5764 -1782 0.4 0.4 CD _ _ _ 5955 +1782 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5765 -1783 B2 b2 NN _ _ _ 5956 +1783 <Med> <med> NN _ _ _
5766 -1784 TEX TEX NNP _ _ _ 5957 +1784 M63 m63 NN _ _ _
5767 -1785 neg neg NNP _ _ _ 5958 +1785 </Med> </med> NN _ _ _
5768 -1786 L1 l1 NN _ _ _ 5959 +1786 0.4 0.4 CD _ _ _
5769 -1787 HS2 hs2 NN _ _ _ 5960 +1787 B2 b2 NN _ _ _
5770 -1788 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5961 +1788 TEX TEX NNP _ _ _
5771 -1789 <Med> <med> NN _ _ _ 5962 +1789 neg neg NNP _ _ _
5772 -1790 M63 m63 NN _ _ _ 5963 +1790 L1 l1 NN _ _ _
5773 -1791 </Med> </med> NN _ _ _ 5964 +1791 HS2 hs2 NN _ _ _
5774 -1792 0.4 0.4 CD _ _ _ 5965 +1792 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5775 -1793 B2 b2 NN _ _ _ 5966 +1793 <Med> <med> NN _ _ _
5776 -1794 TEX TEX NNP _ _ _ 5967 +1794 M63 m63 NN _ _ _
5777 -1795 pos po VBZ _ _ _ 5968 +1795 </Med> </med> NN _ _ _
5778 -1796 L1 l1 NN _ _ _ 5969 +1796 0.4 0.4 CD _ _ _
5779 -1797 HS1 hs1 NN _ _ _ 5970 +1797 B2 b2 NN _ _ _
5780 -1798 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5971 +1798 TEX TEX NNP _ _ _
5781 -1799 <Med> <med> NN _ _ _ 5972 +1799 pos po VBZ _ _ _
5782 -1800 M63 m63 NN _ _ _ 5973 +1800 L1 l1 NN _ _ _
5783 -1801 </Med> </med> NN _ _ _ 5974 +1801 HS1 hs1 NN _ _ _
5784 -1802 0.4 0.4 CD _ _ _ 5975 +1802 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5785 -1803 B2 b2 NN _ _ _ 5976 +1803 <Med> <med> NN _ _ _
5786 -1804 TEX TEX NNP _ _ _ 5977 +1804 M63 m63 NN _ _ _
5787 -1805 pos po VBZ _ _ _ 5978 +1805 </Med> </med> NN _ _ _
5788 -1806 L1 l1 NN _ _ _ 5979 +1806 0.4 0.4 CD _ _ _
5789 -1807 HS2 hs2 NN _ _ _ 5980 +1807 B2 b2 NN _ _ _
5790 -1808 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 5981 +1808 TEX TEX NNP _ _ _
5791 -1809 <Med> <med> NN _ _ _ 5982 +1809 pos po VBZ _ _ _
5792 -1810 M9 m9 NN _ _ _ 5983 +1810 L1 l1 NN _ _ _
5793 -1811 minimal minimal JJ _ _ _ 5984 +1811 HS2 hs2 NN _ _ _
5794 -1812 complete complete JJ _ _ _ 5985 +1812 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5795 -1813 media media NNS _ _ _ 5986 +1813 <Med> <med> NN _ _ _
5796 -1814 </Med> </med> NN _ _ _ 5987 +1814 M9 m9 NN _ _ _
5797 -1815 , , , _ _ _ 5988 +1815 minimal minimal JJ _ _ _
5798 -1816 cultures culture NNS _ _ _ 5989 +1816 complete complete JJ _ _ _
5799 -1817 grown grow VBN _ _ _ 5990 +1817 media media NNS _ _ _
5800 -1818 <Air> <air> NN _ _ _ 5991 +1818 </Med> </med> NN _ _ _
5801 -1819 aerobically aerobically RB _ _ _ 5992 +1819 , , , _ _ _
5802 -1820 </Air> </Air> NNP _ _ _ 5993 +1820 cultures culture NNS _ _ _
5803 -1821 at at IN _ _ _ 5994 +1821 grown grow VBN _ _ _
5804 -1822 <Temp> <Temp> NNP _ _ _ 5995 +1822 <Air> <air> NN _ _ _
5805 -1823 30 30 CD _ _ _ 5996 +1823 aerobically aerobically RB _ _ _
5806 -1824 degrees degree NNS _ _ _ 5997 +1824 </Air> </Air> NNP _ _ _
5807 -1825 C c NN _ _ _ 5998 +1825 at at IN _ _ _
5808 -1826 </Temp> </temp> NN _ _ _ 5999 +1826 <Temp> <Temp> NNP _ _ _
5809 -1827 in in IN _ _ _ 6000 +1827 30 30 CD _ _ _
5810 -1828 a a DT _ _ _ 6001 +1828 degrees degree NNS _ _ _
5811 -1829 <Agit> <agit> NN _ _ _ 6002 +1829 C c NN _ _ _
5812 -1830 gyratory gyratory JJ _ _ _ 6003 +1830 </Temp> </temp> NN _ _ _
5813 -1831 water water NN _ _ _ 6004 +1831 in in IN _ _ _
5814 -1832 bath bath NN _ _ _ 6005 +1832 a a DT _ _ _
5815 -1833 shaking shake VBG _ _ _ 6006 +1833 <Agit> <agit> NN _ _ _
5816 -1834 at at IN _ _ _ 6007 +1834 gyratory gyratory JJ _ _ _
5817 -1835 240 240 CD _ _ _ 6008 +1835 water water NN _ _ _
5818 -1836 rpm rpm NN _ _ _ 6009 +1836 bath bath NN _ _ _
5819 -1837 </Agit> </agit> NN _ _ _ 6010 +1837 shaking shake VBG _ _ _
5820 -1838 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 6011 +1838 at at IN _ _ _
5821 -1839 Nac Nac NNP _ _ _ 6012 +1839 240 240 CD _ _ _
5822 -1840 _ _ NNP _ _ _ 6013 +1840 rpm rpm NN _ _ _
5823 -1841 <Technique> <Technique> NNP _ _ _ 6014 +1841 </Agit> </agit> NN _ _ _
5824 -1842 ChIPSeq ChIPSeq NNP _ _ _ 6015 +1842 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5825 -1843 </Technique> </Technique> NNP _ _ _ 6016 +1843 Nac Nac NNP _ _ _
5826 -1844 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _ 6017 +1844 _ _ NNP _ _ _
5827 -1845 Nac Nac NNP _ _ _ 6018 +1845 <Technique> <Technique> NNP _ _ _
5828 -1846 _ _ SYM _ _ _ 6019 +1846 ChIPSeq ChIPSeq NNP _ _ _
5829 -1847 <Technique> <technique> NN _ _ _ 6020 +1847 </Technique> </Technique> NNP _ _ _
5830 -1848 RNASeq rnaseq NN _ _ _ 6021 +1848 PGCGROWTHCONDITIONS PGCGROWTHCONDITIONS NNP _ _ _
5831 -1849 </Technique> </technique> NN _ _ _ 6022 +1849 Nac Nac NNP _ _ _
5832 -1850 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 6023 +1850 _ _ SYM _ _ _
5833 -1851 NtrC ntrc NN _ _ _ 6024 +1851 <Technique> <technique> NN _ _ _
5834 -1852 _ _ CD _ _ _ 6025 +1852 RNASeq rnaseq NN _ _ _
5835 -1853 <Technique> <technique> NN _ _ _ 6026 +1853 </Technique> </technique> NN _ _ _
5836 -1854 ChIPSeq chipseq NN _ _ _ 6027 +1854 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5837 -1855 </Technique> </technique> NN _ _ _ 6028 +1855 NtrC ntrc NN _ _ _
5838 -1856 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 6029 +1856 _ _ CD _ _ _
5839 -1857 OmpR ompr NN _ _ _ 6030 +1857 <Technique> <technique> NN _ _ _
5840 -1858 <Supp> <supp> NN _ _ _ 6031 +1858 ChIPSeq chipseq NN _ _ _
5841 -1859 NaCl nacl NN _ _ _ 6032 +1859 </Technique> </technique> NN _ _ _
5842 -1860 </Supp> </supp> NN _ _ _ 6033 +1860 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5843 -1861 1 1 CD _ _ _ 6034 +1861 OmpR ompr NN _ _ _
5844 -1862 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 6035 +1862 <Supp> <supp> NN _ _ _
5845 -1863 OmpR ompr NN _ _ _ 6036 +1863 NaCl nacl NN _ _ _
5846 -1864 <Supp> <supp> NN _ _ _ 6037 +1864 </Supp> </supp> NN _ _ _
5847 -1865 NaCl nacl NN _ _ _ 6038 +1865 1 1 CD _ _ _
5848 -1866 </Supp> </supp> NN _ _ _ 6039 +1866 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5849 -1867 2 2 CD _ _ _ 6040 +1867 OmpR ompr NN _ _ _
5850 -1868 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 6041 +1868 <Supp> <supp> NN _ _ _
5851 -1869 OmpR ompr NN _ _ _ 6042 +1869 NaCl nacl NN _ _ _
5852 -1870 _ _ CD _ _ _ 6043 +1870 </Supp> </supp> NN _ _ _
5853 -1871 <Technique> <technique> NN _ _ _ 6044 +1871 2 2 CD _ _ _
5854 -1872 ChIPSeq chipseq NN _ _ _ 6045 +1872 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5855 -1873 </Technique> </technique> NN _ _ _ 6046 +1873 OmpR ompr NN _ _ _
5856 -1874 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 6047 +1874 _ _ CD _ _ _
5857 -1875 <Orgn> <orgn> NN _ _ _ 6048 +1875 <Technique> <technique> NN _ _ _
5858 -1876 Escherichia escherichia FW _ _ _ 6049 +1876 ChIPSeq chipseq NN _ _ _
5859 -1877 coli coli FW _ _ _ 6050 +1877 </Technique> </technique> NN _ _ _
5860 -1878 K-12 k-12 NN _ _ _ 6051 +1878 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5861 -1879 </Orgn> </orgn> NN _ _ _ 6052 +1879 <Orgn> <orgn> NN _ _ _
5862 -1880 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 6053 +1880 Escherichia escherichia FW _ _ _
5863 -1881 <Orgn> <orgn> NN _ _ _ 6054 +1881 coli coli FW _ _ _
5864 -1882 Escherichia escherichia FW _ _ _ 6055 +1882 K-12 k-12 NN _ _ _
5865 -1883 coli coli FW _ _ _ 6056 +1883 </Orgn> </orgn> NN _ _ _
5866 -1884 </Orgn> </orgn> NN _ _ _ 6057 +1884 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5867 -1885 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _ 6058 +1885 <Orgn> <orgn> NN _ _ _
5868 -1886 <Orgn> <orgn> NN _ _ _ 6059 +1886 Escherichia escherichia FW _ _ _
5869 -1887 Escherichia escherichia FW _ _ _ 6060 +1887 coli coli FW _ _ _
5870 -1888 coli coli FW _ _ _ 6061 +1888 </Orgn> </orgn> NN _ _ _
5871 -1889 </Orgn> </orgn> NN _ _ _ 6062 +1889 PGCGROWTHCONDITIONS pgcgrowthconditions NN _ _ _
5872 -1890 str str NN _ _ _ 6063 +1890 <Orgn> <orgn> NN _ _ _
5873 -1891 . . . _ _ _ 6064 +1891 Escherichia escherichia FW _ _ _
6065 +1892 coli coli FW _ _ _
6066 +1893 </Orgn> </orgn> NN _ _ _
6067 +1894 str str NN _ _ _
6068 +1895 . . . _ _ _
5874 6069
5875 1 <Strain> <strain> NN _ _ _ 6070 1 <Strain> <strain> NN _ _ _
5876 2 K-12 k-12 NN _ _ _ 6071 2 K-12 k-12 NN _ _ _
......
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