upload

+
+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
+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
+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
+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
+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
+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
+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
+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
+
+

-
-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
-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
-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
-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
-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
-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
-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
-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
-
-

-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
-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
-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
-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
-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
-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
-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
-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
-
-

+# -*- coding: UTF-8 -*-
+
+import os
+from itertools import chain
+from optparse import OptionParser
+from time import time
+from collections import Counter
+import re
+
+import nltk
+import sklearn
+import scipy.stats
+import sys
+
+from sklearn.externals import joblib
+from sklearn.metrics import make_scorer
+from sklearn.cross_validation import cross_val_score
+from sklearn.grid_search import RandomizedSearchCV
+
+import sklearn_crfsuite
+from sklearn_crfsuite import scorers
+from sklearn_crfsuite import metrics
+
+from pandas import DataFrame as DF
+from nltk.corpus import stopwords
+
+
+# Objective
+# Training and evaluation of CRFs with sklearn-crfsuite.
+#
+# Input parameters
+# --inputPath=PATH    	Path of training and test data set
+# --trainingFile        File with training data set
+# --testFile        	File with test data set
+# --outputPath=PATH    	Output path to place output files
+# --nameGrid            Number of run
+# --version    		    Version Report
+
+# Output
+# 1) Best model
+# 2) Report
+
+# Examples
+# python training_validation_v10.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/
+# --version    		    _v1
+# 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 
+
+##################################################################
+#                             FEATURES                           # 
+##################################################################
+
+#================== COMPLETE WORD FEATURES ======================#
+
+def isGreek(word):
+    ## Complete word are greek letters
+    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',
+    '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']
+    if word in alphabet:
+        return True
+    else:
+        return False 
+
+#================ INNER OF THE WORD FEATURES ====================#
+
+def hNumber(word):
+    ## Al leats has one greek letter
+    for l in word:
+        if l.isdigit():
+            return True
+    return False
+
+def symb(word):
+    n=0
+    ## At least a not alphanumeric character
+    for l in word:
+        if l.isdigit(): n = n+1
+        if l.isalpha(): n = n+1
+        #Exclude Greek letters
+        if isGreek(l): n = n+1
+
+    if n<len(word): return True
+    else: return False
+
+def hUpper(word):
+    ## At least an upper letter
+    for l in word:
+        if l.isupper(): return True
+    return False
+
+def hLower(word):
+    ## At least a lower letter
+    for l in word:
+        if l.islower(): return True
+    return False 
+
+def hGreek(word):
+    ## At least a greek letter
+    for l in word:
+        if isGreek(l): return True
+    return False    
+
+#============================FEATURES===========================#
+
+def word2features(sent, i, S1, S2, S3):
+    ## Getting word features
+
+    ## Saving CoreNLP annotations
+    listElem = sent[i].split('|')
+    word = listElem[0]
+    lemma = listElem[1]
+    postag = listElem[2]
+    #ner = listElem[4]
+
+    #=========================== G =============================#
+    ## NAME LEVEL G
+    ## FUTURE TYPE General features
+
+    features = {
+        ## basal features
+        'lemma': lemma,
+        'postag': postag
+        }
+
+    ## more tha one word in sentence
+    if i > 0:        
+        ## Anterior word
+        listElem = sent[i - 1].split('|')
+
+        ## Saving CoreNLP annotations
+        lemma0 = listElem[1]
+        postag0 = listElem[2]        
+        features.update({            
+            #LemaG anterior      
+            '-1:lemma': lemma0,
+            #Postag anterior 
+            '-1:postag': postag0,
+        })
+
+    ## is not the last word
+    if i < len(sent) - 1:
+        ## Posterior word 
+        listElem = sent[i + 1].split('|')
+        ## Saving CoreNLP annotations       
+        lemma2 = listElem[1]
+        postag2 = listElem[2]
+
+        features.update({           
+            #LemaG  posterior      
+            '+1:lemma': lemma2,
+            #Postag posterior 
+            '+1:postag': postag2,
+        })    
+
+    #=========================== S1 =============================#
+    ## NAME LEVEL S1
+    ## FEATURE TYPE Inner word features
+
+    if S1:
+        #Add features
+        features['hUpper']=  hUpper(word)
+        features['hLower']=  hUpper(word)
+        features['hGreek']=  hGreek(word)        
+        features['symb']= symb(word)
+        '''
+        #word firstChar
+        features['word[:1]']= word[:1]    
+        #word secondChar
+        if len(word)>1:
+            features['word[:2]']= word[:2]        
+        '''
+        #lemma and postag firstChar
+        features['lemma[:1]']= lemma[:1]
+        features['postag[:1]']= postag[:1]
+        #lemma and postag secondChar
+        if len(lemma)>1:
+            features['lemma[:2]']= lemma[:2]
+        if len(postag)>1:
+            features['postag[:2]']= postag[:2]        
+    #=========================== S2 =============================#
+    ## NAME LEVEL S2
+    ## FEATURE TYPE Complete word features
+
+    if S2:
+        #Add features
+        features['word']=  word
+        features['isUpper']=  word.isupper()
+        features['isLower']=  word.islower()
+        features['isGreek']=  isGreek(word)       
+        features['isNumber']= word.isdigit()
+        ## more tha one word in sentence
+        if i > 0:        
+            ## Anterior word
+            listElem = sent[i - 1].split('|')
+            ## Saving CoreNLP annotations
+            word0 = listElem[0]
+            features['-1:word']=  word0
+
+        ## is not the last word
+        if i < len(sent)-1:
+            listElem = sent[i + 1].split('|')
+            ## Saving CoreNLP annotations       
+            word2 = listElem[0]
+            ## Posterior word 
+            features['+1:word']=  word2
+    
+    #=========================== S3 =============================#
+    ## NAME LEVEL S3
+    ## FEATURE TYPE Extended context features
+    if S3:            
+        ## more tha two words in sentence
+        if i > 1:        
+            ## two anterior lemma and postag
+            listElem = sent[i - 2].split('|')
+            ## Saving CoreNLP annotations
+            lemma01 = listElem[1]
+            postag01 = listElem[2]
+            features['-2:lemma']=  lemma01
+            features['-2:postag']=  postag01
+
+        ## is not the penultimate word
+        if i < len(sent) - 2:
+            listElem = sent[i + 2].split('|')
+            ## Saving CoreNLP annotations       
+            lemma02 = listElem[1]
+            postag02 = listElem[2]
+            ## two posterior lemma and postag
+            features['+2:lemma']=  lemma02
+            features['+2:postag']=  postag02
+
+    return features
+
+def sent2features(sent, S1, S2, S3):
+    ## Itering in sentence for each word and saving its features
+    return [word2features(sent, i, S1, S2, S3) for i in range(len(sent))]
+
+def sent2labels(sent):
+    ## 3rd position by word is the label
+    return [elem.split('|')[3] for elem in sent]
+
+def sent2tokens(sent):
+    return [token for token, postag, label in sent]
+
+def print_transitions(trans_features, f):
+    for (label_from, label_to), weight in trans_features:
+        f.write("{:6} -> {:7} {:0.6f}\n".format(label_from, label_to, weight))
+
+def print_state_features(state_features, f):
+    for (attr, label), weight in state_features:
+        f.write("{:0.6f} {:8} {}\n".format(weight, label, attr.encode("utf-8")))
+
+
+__author__ = 'egaytan'
+
+##################################################################
+#                            MAIN PROGRAM                        #
+##################################################################
+
+if __name__ == "__main__":
+    ## Defining parameters
+    parser = OptionParser()
+    parser.add_option("--inputPath",        dest="inputPath",       help="Path of training data set",           metavar="PATH")
+    parser.add_option("--outputPath",       dest="outputPath",      help="Output path to place output files",   metavar="PATH")
+    parser.add_option("--trainingFile",     dest="trainingFile",    help="File with training data set",         metavar="FILE")
+    parser.add_option("--testFile",         dest="testFile",        help="File with test data set",             metavar="FILE")
+    parser.add_option("--Gridname",         dest="Gridname",        help="Report number run",                   metavar="FILE")
+    parser.add_option("--version",          dest="version",         help="Report file",                         metavar="FILE")
+    parser.add_option("--S1",               dest="S1",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--S2",               dest="S2",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--S3",               dest="S3",              help="Future Type",                 action="store_true", default=False)
+    parser.add_option("--excludeStopWords", dest="excludeStopWords",help="Exclude stop words",          action="store_true", default=False)
+    parser.add_option("--excludeSymbols",   dest="excludeSymbols",  help="Exclude punctuation marks",   action="store_true", default=False)
+
+
+    (options, args) = parser.parse_args()
+    if len(args) > 0:
+        parser.error("Any parameter given.")
+        sys.exit(1)
+
+    print('-------------------------------- PARAMETERS --------------------------------')
+    print("Path of training data set: " + options.inputPath)
+    print("File with training data set: " + str(options.trainingFile))
+    print("Path of test data set: " + options.inputPath)
+    print("File with test data set: " + str(options.testFile))
+    print("Exclude stop words: " + str(options.excludeStopWords))
+    print("Levels: " + str(options.S1) + " " + str(options.S2))
+    print("Report file: " + str(options.version))
+
+    
+    symbols = ['.', ',', ':', ';', '?', '!', '\'', '"', '<', '>', '(', ')', '-', '_', '/', '\\', '¿', '¡', '+', '{',
+               '}', '[', ']', '*', '%', '$', '#', '&', '°', '`', '...']   
+    print("Exclude symbols: " + str(options.excludeSymbols))
+
+    print('-------------------------------- PROCESSING --------------------------------')
+    print('Reading corpus...')
+    t0 = time()
+
+    sentencesTrainingData = []
+    sentencesTestData = []
+
+    stopwords = [word for word in stopwords.words('english')]
+
+    with open(os.path.join(options.inputPath, options.trainingFile), "r") as iFile:
+        for line in iFile.readlines():
+            listLine = []
+            line = line.strip('\n')
+            for token in line.split():
+                if options.excludeStopWords:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in stopwords:
+                        continue
+                if options.excludeSymbols:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in symbols:
+                        continue
+                listLine.append(token)
+            sentencesTrainingData.append(listLine)
+        print("   Sentences training data: " + str(len(sentencesTrainingData)))
+
+    with open(os.path.join(options.inputPath, options.testFile), "r") as iFile:
+        for line in iFile.readlines():
+            listLine = []
+            line = line.strip('\n')
+            for token in line.split():
+                if options.excludeStopWords:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in stopwords:
+                        continue
+                if options.excludeSymbols:
+                    listToken = token.split('|')
+                    lemma = listToken[1]
+                    if lemma in symbols:
+                        continue
+                listLine.append(token)
+            sentencesTestData.append(listLine)
+        print("   Sentences test data: " + str(len(sentencesTestData)))
+
+    print("Reading corpus done in: %fs" % (time() - t0))
+
+    print('-------------------------------- FEATURES --------------------------------')
+
+    Dtraning = sent2features(sentencesTrainingData[0], options.S1, options.S2, options.S3)[2]
+    Dtest = sent2features(sentencesTestData[0], options.S1, options.S2, options.S3)[2]
+    print('--------------------------Features Training ---------------------------')
+    print(DF(list(Dtraning.items())))
+    print('--------------------------- FeaturesTest -----------------------------')
+    print(DF(list(Dtest.items())))
+
+    t0 = time()
+
+    X_train = [sent2features(s, options.S1, options.S2, options.S3) for s in sentencesTrainingData]
+    y_train = [sent2labels(s) for s in sentencesTrainingData]
+
+    X_test = [sent2features(s, options.S1, options.S2, options.S3) for s in sentencesTestData]
+    # print X_test
+    y_test = [sent2labels(s) for s in sentencesTestData]
+
+    # Fixed parameters
+    # crf = sklearn_crfsuite.CRF(
+    #     algorithm='lbfgs',
+    #     c1=0.1,
+    #     c2=0.1,
+    #     max_iterations=100,
+    #     all_pgossible_transitions=True
+    # )
+
+    # Hyperparameter Optimization
+    crf = sklearn_crfsuite.CRF(
+        algorithm='lbfgs',
+        max_iterations=100,
+        all_possible_transitions=True
+    )
+    params_space = {
+        'c1': scipy.stats.expon(scale=0.5),
+        'c2': scipy.stats.expon(scale=0.05),
+    }
+
+    # Original: labels = list(crf.classes_)
+    # Original: labels.remove('O')
+    labels = list(['Gtype', 'Gversion', 'Med', 'Phase', 'Strain', 'Substrain', 'Supp', 'Technique', 'Temp', 'OD', 'Anti', 'Agit', 'Air', 'Vess', 'pH'])
+
+    # use the same metric for evaluation
+    f1_scorer = make_scorer(metrics.flat_f1_score,
+                            average='weighted', labels=labels)
+
+    # search
+    rs = RandomizedSearchCV(crf, params_space,
+                            cv=10,
+                            verbose=3,
+                            n_jobs=-1,
+                            n_iter=20,
+                            # n_iter=50,
+                            scoring=f1_scorer)
+    rs.fit(X_train, y_train)
+
+    # Fixed parameters
+    # crf.fit(X_train, y_train)
+
+    # Best hiperparameters
+    # crf = rs.best_estimator_
+  
+    nameReport = str(options.Gridname) + str(options.version) + '.txt'
+    with open(os.path.join(options.outputPath, "reports", "report_" + nameReport), mode="w") as oFile:
+        oFile.write("********** TRAINING AND TESTING REPORT **********\n")
+        oFile.write("Training file: " + options.trainingFile + '\n')
+        oFile.write('\n')
+        oFile.write('best params:' + str(rs.best_params_) + '\n')
+        oFile.write('best CV score:' + str(rs.best_score_) + '\n')
+        oFile.write('model size: {:0.2f}M\n'.format(rs.best_estimator_.size_ / 1000000))
+
+    print("Training done in: %fs" % (time() - t0))
+    t0 = time()
+
+    # Update best crf
+    crf = rs.best_estimator_
+
+    # Saving model
+    print("     Saving training model...")
+    t1 = time()
+    nameModel = 'model_S1_' + str(options.S1) + '_S2_' + str(options.S2) + str(options.version) + '_S3_' + str(options.S3) + '.mod'
+    joblib.dump(crf, os.path.join(options.outputPath, "models", nameModel))
+    print("        Saving training model done in: %fs" % (time() - t1))
+
+    # Evaluation against test data
+    y_pred = crf.predict(X_test)
+    print("*********************************")
+    print("Prediction done in: %fs" % (time() - t0))
+
+    # labels = list(crf.classes_)
+    # labels.remove('O')
+
+    with open(os.path.join(options.outputPath, "reports", "report_" + nameReport), mode="a") as oFile:
+        oFile.write('\n')
+        oFile.write("Flat F1: " + str(metrics.flat_f1_score(y_test, y_pred, average='weighted', labels=labels)))
+        oFile.write('\n')
+        # labels = list(crf.classes_)
+        sorted_labels = sorted(
+            labels,
+            key=lambda name: (name[1:], name[0])
+        )
+        oFile.write(metrics.flat_classification_report(
+            y_test, y_pred, labels=sorted_labels, digits=3
+        ))
+        oFile.write('\n')
+
+        oFile.write("\nTop likely transitions:\n")
+        print_transitions(Counter(crf.transition_features_).most_common(50), oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop unlikely transitions:\n")
+        print_transitions(Counter(crf.transition_features_).most_common()[-50:], oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop positive:\n")
+        print_state_features(Counter(crf.state_features_).most_common(200), oFile)
+        oFile.write('\n')
+
+        oFile.write("\nTop negative:\n")
+        print_state_features(Counter(crf.state_features_).most_common()[-200:], oFile)
+        oFile.write('\n')
+

+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ Anaerobic|anaerobic|JJ|Air  cultures|culture|NNS|O 
+ 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 
+ antibody|antibody|NN|O  :|:|:|O  9E10|9e10|CD|Anti  Myc|myc|NN|Anti  tag|tag|NN|Anti  antibody|antibody|NN|O 
+ antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  FNR|fnr|NN|Anti  antibody|antibody|NN|Anti 
+ 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 
+ ArgR|argr|NN|O  _|_|CD|O  Arginine|arginine|NN|Supp  _|_|NN|O  2|2|CD|O 
+ ArgR|argr|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  2|2|CD|O 
+ 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 
+ carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  fructose|fructose|NN|Supp 
+ carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  glucose|glucose|NN|Supp 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ Cra|Cra|NNP|O  glucose|glucose|NN|Supp  2|2|CD|O 
+ culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  Aerobic|Aerobic|NNP|Air  cultures|culture|NNS|O 
+ Ecoli|ecolus|NNS|O  _|_|VBP|O  dFNR|dfnr|NN|Gtype  _|_|CD|O  rep1|rep1|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  A|a|NN|O 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  Affinity|affinity|NN|O  Purified|purify|VBN|O  -|-|:|O  B|b|NN|O 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  C|c|NN|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|Anaerobic|NNP|Air  A|A|NNP|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|anaerobic|JJ|Air  C|c|NN|O 
+ 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 
+ genotype|genotype|NN|O  :|:|:|O  delta|delta|NN|O  -|-|:|O  crp|crp|NN|Gtype  Knock-out|knock-out|JJ|Gtype  strain|strain|NN|Gtype 
+ genotype|genotype|NN|O  :|:|:|O  Lrp-8myc|lrp-8myc|JJ|Gtype 
+ genotype|genotype|NN|O  :|:|:|O  ompR|ompr|NN|Gtype  deletion|deletion|NN|Gtype  mutant|mutant|JJ|Gtype 
+ genotype|genotype|NN|O  :|:|:|O  PurR-8myc|purr-8myc|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadW|delta-gadw|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-oxyR|delta-oxyr|NN|Gtype 
+ 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 
+ 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 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  soxR-8myc|soxr-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  Wild-type|wild-type|JJ|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  Δfur|δfur|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  harboring|harbor|VBG|O  Fnr-8myc|fnr-8myc|JJ|Gtype 
+ genoype|genoype|NN|O  :|:|:|O  Wild-Type|wild-type|JJ|Gtype 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Anaerobic|anaerobic|JJ|Air 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  glucose|glucose|NN|Supp 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep2|rep2|NN|O 
+ 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 
+ 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 
+ 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 
+ 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 
+ WT|wt|JJ|Gtype  acetate|acetate|NN|Supp  2|2|CD|O 
+ WT|wt|JJ|Gtype  fructose|fructose|NN|Supp  1|1|CD|O 
+ WT|wt|JJ|Gtype  fructose|fructose|NN|Supp  2|2|CD|O 
+ WT|wt|JJ|Gtype  glucose|glucose|NN|Supp  1|1|CD|O 
+ WT|wt|JJ|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
+ 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 
+ Δcra|δcra|NN|Gtype  acetate|acetate|NN|Supp  1|1|CD|O 
+ ΔgadX|δgadx|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ ΔompR|δompr|NN|Gtype  NaCl|nacl|NN|Supp  2|2|CD|O 
+ ΔoxyR|δoxyr|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
+ ΔsoxS|δsoxs|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
+ ΔsoxS|δsoxs|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
+ HNS|hns|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  A|a|DT|O 
+ HNS|hns|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  1|1|CD|O 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  2|2|CD|O 
+ Lrp|lrp|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  3|3|CD|O 
+ medium|medium|NN|O  :|:|:|O  LB|LB|NNP|Med 
+ medium|medium|NN|O  :|:|:|O  M63|m63|NN|Med 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ NtrC|ntrc|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
+ OmpR|ompr|NN|O  NaCl|nacl|NN|Supp  2|2|CD|O 
+ OmpR|ompr|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
+ OxyR|oxyr|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
+ pT7|pt7|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  2|2|CD|O 
+ PurR|purr|NN|O  _|_|SYM|O  Adenine|Adenine|NNP|Supp  _|_|SYM|O  1|1|CD|O 
+ PurR|purr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp  _|_|NN|O  1|1|CD|O 
+ RpoB|rpob|NN|O  ∆|∆|CD|Gtype  cra|cra|NN|Gtype  1|1|CD|O 
+ RpoB|rpob|NN|O  ∆|∆|CD|Gtype  crp|crp|NN|Gtype  1|1|CD|O 
+ RpoB|rpob|NN|O  ∆|∆|CD|Gtype  crp|crp|NN|Gtype  2|2|CD|O 
+ 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 
+ 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 
+ 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 
+ SeqA|seqa|NN|O  new|new|JJ|O  deltaSeqA|deltaseqa|NN|Gtype 
+ 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 
+ ß|ß|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  -|-|:|O  B|b|NN|O 
+ ß|ß|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  A|a|NN|O 
+ strain|strain|NN|O  :|:|:|O  PK4854|pk4854|NN|Gtype 
+ strain|strain|NN|O  :|:|:|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  WT|wt|JJ|Gtype 
+ strain|strain|NN|O  :|:|:|O  K-12|k-12|NN|Strain 
+ ChIP-exo|chip-exo|NN|Technique  GadX|gadx|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ ChIP-exo|chip-exo|NN|Technique  GadX|gadx|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ ChIP-exo|ChIP-exo|NNP|Technique  RpoS|rpos|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ 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 
+ 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 
+ 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 
+ TrpR|trpr|NN|O  _|_|CD|O  Trp|Trp|NNP|Supp 
+ σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  rep1|rep1|NN|O 
+ σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  short|short|JJ|O  RNase|rnase|NN|O 
+ σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  rep1|rep1|NN|O 
\ No newline at end of file

- 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 
- 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 
- 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 
- 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 
- 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 
- agent|agent|NN|O  :|:|:|O  DPD|dpd|NN|Supp  and|and|CC|Supp  rifampicin|rifampicin|NN|Supp 
- Anaerobic|anaerobic|JJ|Air  cultures|culture|NNS|O 
- 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 
- 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 
- antibody|antibody|NN|O  :|:|:|O  9E10|9e10|CD|Anti  Myc|myc|NN|Anti  tag|tag|NN|Anti  antibody|antibody|NN|O 
- antibody|antibody|NN|O  :|:|:|O  anti-FLAG|anti-flag|JJ|Anti  mAb|mab|NN|Anti 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  σ32|σ32|NN|Anti 
- 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 
- 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 
- CsiR|csir|NN|O  _|_|CD|O  RNASeq|rnaseq|NN|Technique 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  A|a|NN|O 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  Affinity|affinity|NN|O  Purified|purify|VBN|O  -|-|:|O  B|b|NN|O 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  C|c|NN|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|Anaerobic|NNP|Air  A|A|NNP|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- 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 
- 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 
- genotype|genotype|NN|O  :|:|:|O  delta|delta|NN|O  -|-|:|O  crp|crp|NN|Gtype  Knock-out|knock-out|JJ|Gtype  strain|strain|NN|Gtype 
- genotype|genotype|NN|O  :|:|:|O  gadX-8myc|gadx-8myc|NN|Gtype 
- genotype|genotype|NN|O  :|:|:|O  ompR-8myc|ompr-8myc|NN|Gtype 
- genotype|genotype|NN|O  :|:|:|O  wildtype|wildtype|JJ|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta|delta|NN|Gtype  _|_|SYM|Gtype  cra|cra|FW|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadE|delta-gade|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-soxS|delta-soxs|NN|Gtype 
- 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 
- 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 
- 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 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  oxyR-8myc|oxyr-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  Wild-type|wild-type|JJ|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  harboring|harbor|VBG|O  ArcA-8myc|arca-8myc|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  harboring|harbor|VBG|O  Fnr-8myc|fnr-8myc|JJ|Gtype 
- genoype|genoype|NN|O  :|:|:|O  Wild-Type|wild-type|JJ|Gtype 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Aerobic|Aerobic|NNP|Air 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  anaerobic|anaerobic|JJ|Air 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Anaerobic|anaerobic|JJ|Air 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Adenine|Adenine|NNP|Supp 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  glucose|glucose|NN|Supp 
- 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 
- growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  exponential|exponential|JJ|Phase 
- growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  mid-log|mid-log|NN|Phase 
- ∆|∆|CD|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  Anaeroibc|anaeroibc|NN|Air 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- ∆|∆|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 
- 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 
- 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 
- ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air 
- Wild-type|wild-type|JJ|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
- Wild-type|wild-type|JJ|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- Wild-type|wild-type|JJ|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- 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 
- 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 
- WT|wt|JJ|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- WT|wt|JJ|Gtype  acetate|acetate|NN|Supp  2|2|CD|O 
- WT|wt|JJ|Gtype  NaCl|nacl|NN|Supp  1|1|CD|O 
- WT|wt|JJ|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
- WT|wt|JJ|Gtype  _|_|NN|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  1|1|CD|O 
- WT|wt|JJ|Gtype  _|_|NN|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  2|2|CD|O 
- Δcra|δcra|NN|Gtype  glucose|glucose|NN|Supp  1|1|CD|O 
- 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 
- ΔgadE|δgade|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- ΔgadE|δgade|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- ΔgadX|δgadx|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- ΔompR|δompr|NN|Gtype  NaCl|nacl|NN|Supp  1|1|CD|O 
- ΔoxyR|δoxyr|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
- ΔsoxR|δsoxr|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
- HNS|hns|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  A|a|DT|O 
- HNS|hns|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- IHF|ihf|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- medium|medium|NN|O  :|:|:|O  M63|m63|NN|Med 
- 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 
- 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 
- 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 
- 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 
- 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 
- 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 
- OmpR|ompr|NN|O  NaCl|nacl|NN|Supp  1|1|CD|O 
- 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 
- RpoB|rpob|NN|O  ∆|∆|CD|Gtype  cra|cra|NN|Gtype  1|1|CD|O 
- 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 
- 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 
- SeqA|seqa|NN|O  new|new|JJ|O  deltaSeqA|deltaseqa|NN|Gtype 
- SoxR|soxr|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
- SoxS|soxs|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
- ß|ß|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  B|b|NN|O 
- strain|strain|NN|O  :|:|:|O  PK4854|pk4854|NN|Gtype 
- strain|strain|NN|O  :|:|:|O  PK8263|pk8263|NN|Gtype 
- strain|strain|NN|O  :|:|:|O  MG1655|mg1655|NN|O  K-12|k-12|NN|O  WT|wt|JJ|Gtype 
- 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 
- ChIP-exo|chip-exo|NN|Technique  GadX|gadx|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- ChIP-exo|chip-exo|NN|Technique  GadX|gadx|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- 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 
- 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 
- 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 
- TrpR|trpr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp 
- TrpR|trpr|NN|O  _|_|CD|O  Trp|Trp|NNP|Supp 
- σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  rep2|rep2|NN|O 
- σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  short|short|JJ|O  RNase|rnase|NN|O 
- σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  rep2|rep2|NN|O 
\ No newline at end of file

+ Cra|Cra|NNP|O  fructose|fructose|NN|Supp  2|2|CD|O 
+ 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 
+ genotype|genotype|NN|O  :|:|:|O  ompR-8myc|ompr-8myc|NN|Gtype 
+ 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 
+ 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 
+ 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 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  fur-8myc|fur-8myc|JJ|Gtype 
+ Cra|Cra|NNP|O  fructose|fructose|NN|Supp  1|1|CD|O 
+ genotype|genotype|NN|O  :|:|:|O  WT|WT|NNP|Gtype 
+ 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 
+ 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 
+ RpoB|rpob|NN|O  ∆|∆|CD|Gtype  cra|cra|NN|Gtype  2|2|CD|O 
+ 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 
+ 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 
+ 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 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  cra-8myc-tagged|cra-8myc-tagged|JJ|Gtype 
+ Δcra|δcra|NN|Gtype  fructose|fructose|NN|Supp  1|1|CD|O 
+ Δcra|δcra|NN|Gtype  fructose|fructose|NN|Supp  2|2|CD|O 
+ 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 
+ 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 
+ 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 
+ 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 
+ agent|agent|NN|O  :|:|:|O  Fe|Fe|NNP|Supp 
+ SoxS|soxs|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-myc|anti-myc|JJ|Anti 
+ 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 
+ 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 
+ σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  short|short|JJ|O  RNase|rnase|NN|O 
+ CsiR|csir|NN|O  _|_|CD|O  RNASeq|rnaseq|NN|Technique 
+ 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 
+ 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 
+ WT|wt|JJ|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ WT|wt|JJ|Gtype  _|_|NN|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  2|2|CD|O 
+ 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 
+ pT7|pt7|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  1|1|CD|O 
+ growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  exponential|exponential|JJ|Phase 
+ 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 
+ 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 
+ 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 
+ WT|wt|JJ|Gtype  acetate|acetate|NN|Supp  1|1|CD|O 
+ SoxR|soxr|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  σ32|σ32|NN|Anti 
+ HNS|hns|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  B|b|NN|O 
+ 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 
+ ∆|∆|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 
+ ΔgadW|δgadw|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ 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 
+ 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 
+ 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 
+ 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 
+ 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 
+ acetate|acetate|NN|Supp 
+ Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion 
+ 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 
+ 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 
+ 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 
+ WT|wt|JJ|Gtype  NaCl|nacl|NN|Supp  2|2|CD|O 
+ Cra|cra|NN|O  acetate|acetate|NN|Supp  1|1|CD|O 
+ ∆|∆|CD|Gtype  fnr|fnr|NN|Gtype  -|-|:|O  Anaeroibc|anaeroibc|NN|Air 
+ 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 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  8|8|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
+ 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 
+ WT|wt|JJ|Gtype  _|_|NN|O  RNASeq|rnaseq|NN|Technique 
+ 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 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  anaerobic|anaerobic|JJ|Air 
+ NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep3|rep3|NN|O 
+ IHF|ihf|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  C|C|NNP|O 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  B|b|NN|O 
+ RpoB|rpob|NN|O  WT|wt|JJ|Gtype  2|2|CD|O 
+ 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 
+ genotype|genotype|NN|O  :|:|:|O  Wildtype|wildtype|NN|Gtype 
+ 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 
+ 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 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  none|none|NN|Anti 
+ genotype|genotype|NN|O  :|:|:|O  TrpR-8myc|trpr-8myc|NN|Gtype 
+ 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 
+ WT|wt|JJ|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ 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 
+ OxyR|oxyr|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
+ 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 
+ 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 
+ 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 
+ ΔsoxR|δsoxr|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
+ NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep1|rep1|NN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  harboring|harbor|VBG|O  ArcA-8myc|arca-8myc|NN|Gtype 
+ genotype|genotype|NN|O  :|:|:|O  delta|delta|NN|O  -|-|:|O  cra|cra|NN|Gtype  Knock-out|knock-out|JJ|Gtype  strain|strain|NN|Gtype 
+ 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 
+ 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 
+ OmpR|ompr|NN|O  NaCl|nacl|NN|Supp  1|1|CD|O 
+ 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 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ 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 
+ 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 
+ 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 
+ 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 
+ culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  anaerobic|anaerobic|JJ|Air  fermentive|fermentive|JJ|O  condition|condition|NN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  oxyR-8myc|oxyr-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
+ 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 
+ Wild-type|wild-type|JJ|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ 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 
+ ß|ß|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  B|b|NN|O 
+ ArgR|argr|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  1|1|CD|O 
+ 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 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
+ 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 
+ 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 
+ genotype|genotype|NN|O  :|:|:|O  gadW-8myc|gadw-8myc|NN|Gtype 
+ SeqA|seqa|NN|O  old|old|JJ|O  deltaSeqA|deltaseqa|NN|Gtype 
+ agent|agent|NN|O  :|:|:|O  DPD|dpd|NN|Supp 
+ 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 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadE|delta-gade|NN|Gtype 
+ agent|agent|NN|O  :|:|:|O  Fe|Fe|NNP|Supp  and|and|CC|Supp  rifampicin|rifampicin|NN|Supp 
+ ChIP-Seq|chip-seq|NN|Technique 
+ CsiR|csir|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
+ genoype|genoype|NN|O  :|:|:|O  dFNR|dfnr|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  wild|wild|JJ|Gtype  type|type|NN|Gtype 
+ 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 
+ 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 
+ genotype|genotype|NN|O  :|:|:|O  wildtype|wildtype|JJ|Gtype 
+ ∆|∆|CD|Gtype  fnr|fnr|NN|Gtype  ChIP|chip|NN|O  DNA|dna|NN|O  from|from|IN|O  PK4854|pk4854|NN|Gtype 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
+ Ecoli|ecolus|NNS|O  _|_|VBP|O  dFNR|dfnr|NN|Gtype  _|_|CD|O  rep2|rep2|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
+ 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 
+ growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  mid-log|mid-log|NN|Phase 
+ 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 
+ Wild-type|wild-type|JJ|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
+ 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 
+ 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 
+ 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 
+ 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 
+ Aerobic|Aerobic|NNP|Air  cultures|culture|NNS|O 
+ antibody|antibody|NN|O  :|:|:|O  anti-FLAG|anti-flag|JJ|Anti  mAb|mab|NN|Anti 
+ 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 
+ 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 
+ 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 
+ 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 
+ Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  ASM584v2|asm584v2|NN|Gversion 
+ Nac|Nac|NNP|O  _|_|NNP|O  ChIPSeq|ChIPSeq|NNP|Technique 
+ 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 
+ Δcra|δcra|NN|Gtype  glucose|glucose|NN|Supp  2|2|CD|O 
+ ChIP-exo|ChIP-exo|NNP|Technique  GadE|gade|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  soxS-8myc|soxs-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
+ 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 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  B|b|NN|O 
+ 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 
+ 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 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-soxS|delta-soxs|NN|Gtype 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  Combined|Combined|NNP|Gtype  input|input|NN|Gtype 
+ 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 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  WT|WT|NNP|Gtype 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
+ strain|strain|NN|O  :|:|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  /|/|:|Gtype  ∆|∆|SYM|Gtype  stpA|stpa|NN|Gtype 
+ 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 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|SYM|O  1|1|CD|O 
+ 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 
+ Δcra|δcra|NN|Gtype  glucose|glucose|NN|Supp  1|1|CD|O 
+ HNS|hns|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  Affinity|affinity|NN|O  Purified|purify|VBN|O  -|-|:|O  A|a|NN|O 
+ SoxR|soxr|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
+ 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 
+ 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 
+ RNA-Seq|rna-seq|NN|Technique 
+ 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 
+ culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  nitrate|nitrate|JJ|Supp  respiratory|respiratory|JJ|O  condition|condition|NN|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  ΔarcA|δarca|NN|Gtype 
+ ΔgadW|δgadw|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ 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 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|SYM|O  3|3|CD|O 
+ RpoB|rpob|NN|O  WT|wt|JJ|Gtype  1|1|CD|O 
+ IHF|ihf|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ genotype|genotype|NN|O  :|:|:|O  gadE-8myc|gade-8myc|NN|Gtype 
+ Δcra|δcra|NN|Gtype  acetate|acetate|NN|Supp  2|2|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadX|delta-gadx|NN|Gtype 
+ ChIP-exo|ChIP-exo|NNP|Technique  GadW|gadw|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ ChIP-Seq|chip-seq|NN|Gversion 
+ 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 
+ 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 
+ 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 
+ 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 
+ strain|strain|NN|O  :|:|:|O  PK8263|pk8263|NN|Gtype 
+ ß|ß|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  -|-|:|O  A|a|NN|O 
+ 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 
+ ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air 
+ σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  rep2|rep2|NN|O 
+ 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 
+ 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 
+ ChIP-exo|ChIP-exo|NNP|Technique  RpoS|rpos|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ TrpR|trpr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp 
+ antibody|antibody|NN|O  :|:|:|O  Affinity|Affinity|NNP|Anti  Purified|purify|VBN|Anti  FNR|fnr|NN|Anti  antibody|antibody|NN|Anti 
+ 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 
+ 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 
+ 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 
+ Nac|Nac|NNP|O  _|_|SYM|O  RNASeq|rnaseq|NN|Technique 
+ 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 
+ 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 
+ Wild-type|wild-type|JJ|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
+ antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  IHF|ihf|NN|Anti  polyclonal|polyclonal|JJ|Anti  antibody|antibody|NN|Anti 
+ 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 
+ 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 
+ 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 
+ genotype|genotype|NN|O  :|:|:|O  ArgR-8myc|argr-8myc|NN|Gtype 
+ 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 
+ Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|NN|O  2|2|CD|O 
+ 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 
+ ΔsoxR|δsoxr|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
+ genotype|genotype|NN|O  :|:|:|O  ΔseqA|δseqa|NN|Gtype 
+ agent|agent|NN|O  :|:|:|O  DPD|dpd|NN|Supp  and|and|CC|Supp  rifampicin|rifampicin|NN|Supp 
+ carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  acetate|acetate|NN|Supp 
+ 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 
+ PurR|purr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp  _|_|NN|O  2|2|CD|O 
+ 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 
+ 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 
+ 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 
+ 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 
+ PurR|purr|NN|O  _|_|CD|O  Adenine|Adenine|NNP|Supp  _|_|NN|O  2|2|CD|O 
+ WT|wt|JJ|Gtype  NaCl|nacl|NN|Supp  1|1|CD|O 
+ genotype|genotype|NN|O  :|:|:|O  gadX-8myc|gadx-8myc|NN|Gtype 
+ 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 
+ library|library|NN|O  strategy|strategy|NN|O  :|:|:|O  ChIP-exo|ChIP-exo|NNP|Technique 
+ 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 
+ 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 
+ 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 
+ ΔoxyR|δoxyr|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
+ SoxS|soxs|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-soxR|delta-soxr|NN|Gtype 
+ 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 
+ chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  SeqA|seqa|NN|Anti 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  Δfnr|δfnr|NN|Gtype 
+ ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
+ 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 
+ 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 
+ 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 
+ WT|wt|JJ|Gtype  _|_|NN|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  1|1|CD|O 
+ 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 
+ 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 
+ 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 
+ Cra|Cra|NNP|O  glucose|glucose|NN|Supp  1|1|CD|O 
+ ΔgadX|δgadx|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ 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 
+ WT|wt|JJ|Gtype  glucose|glucose|NN|Supp  2|2|CD|O 
+ 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 
+ Wild-type|wild-type|JJ|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
+ 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 
+ Ecoli|ecolus|NNS|O  _|_|VBP|O  wild-type|wild-type|JJ|Gtype  _|_|NN|O  rep2|rep2|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
+ ΔgadE|δgade|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ FNR|fnr|SYM|O  -|-|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  ∆|∆|VBP|Gtype  stpA|stpa|NN|Gtype  B|b|NN|O 
+ WT|wt|JJ|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
+ 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 
+ Ecoli|ecolus|NNS|O  _|_|VBP|O  wild-type|wild-type|JJ|Gtype  _|_|NN|O  rep1|rep1|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
+ 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 
+ 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 
+ 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 
+ 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 
+ σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  rep2|rep2|NN|O 
+ 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 
+ 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 
+ ChIP-exo|ChIP-exo|NNP|Technique  GadE|gade|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ genotype/variation|genotype/variation|NN|O  :|:|:|O  delta|delta|NN|Gtype  _|_|SYM|Gtype  cra|cra|FW|Gtype 
+ 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 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Aerobic|Aerobic|NNP|Air 
+ 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 
+ ΔompR|δompr|NN|Gtype  NaCl|nacl|NN|Supp  1|1|CD|O 
+ 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 
+ growth|growth|NN|O  phase|phase|NN|O  :|:|:|O  stationary|stationary|JJ|Phase 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  A|A|NNP|O 
+ ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air 
+ 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 
+ Input|input|NN|O  ChIP-Seq|chip-seq|NN|Technique 
+ FNR|fnr|SYM|O  -|-|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  ∆|∆|VBP|Gtype  stpA|stpa|NN|Gtype  A|a|NN|O 
+ 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 
+ Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
+ Cra|Cra|NNP|O  acetate|acetate|NN|Supp  2|2|CD|O 
+ ArgR|argr|NN|O  _|_|CD|O  Arginine|arginine|NN|Supp  _|_|NN|O  1|1|CD|O 
+ 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 
+ 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 
+ ΔgadE|δgade|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
+ culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  Anaerobic|anaerobic|JJ|Air  cultures|culture|NNS|O 
+ growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  Adenine|Adenine|NNP|Supp 
+ 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 
+ 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 
+ ChIP-exo|ChIP-exo|NNP|Technique  GadW|gadw|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
+ Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913.2|000913.2|CD|Gversion 
+ 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

- ΔsoxS|δsoxs|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  soxS-8myc|soxs-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
- 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 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadW|delta-gadw|NN|Gtype 
- antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  IHF|ihf|NN|Anti  polyclonal|polyclonal|JJ|Anti  antibody|antibody|NN|Anti 
- 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 
- 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 
- 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 
- Cra|Cra|NNP|O  fructose|fructose|NN|Supp  1|1|CD|O 
- WT|wt|JJ|Gtype  glucose|glucose|NN|Supp  2|2|CD|O 
- ΔoxyR|δoxyr|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
- 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 
- σ32|σ32|NN|O  30|30|CD|Temp  °C|°c|NN|Temp  rep1|rep1|NN|O 
- 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 
- Lrp|Lrp|NNP|O  _|_|SYM|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  2|2|CD|O 
- 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 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- 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 
- 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 
- 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 
- ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air 
- IHF|ihf|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  A|a|DT|O 
- PurR|purr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp  _|_|NN|O  1|1|CD|O 
- 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 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
- 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 
- ArgR|argr|NN|O  _|_|CD|O  Arginine|arginine|NN|Supp  _|_|NN|O  1|1|CD|O 
- 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 
- 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 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  16|16|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- 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 
- medium|medium|NN|O  :|:|:|O  LB|LB|NNP|Med 
- 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 
- Ecoli|ecolus|NNS|O  _|_|VBP|O  dFNR|dfnr|NN|Gtype  _|_|CD|O  rep2|rep2|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
- 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 
- 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 
- ChIP-Seq|chip-seq|NN|Gversion 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  WT|WT|NNP|Gtype 
- 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 
- 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 
- 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 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  cra-8myc-tagged|cra-8myc-tagged|JJ|Gtype 
- ΔgadW|δgadw|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- 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 
- 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 
- genotype|genotype|NN|O  :|:|:|O  ompR|ompr|NN|Gtype  deletion|deletion|NN|Gtype  mutant|mutant|JJ|Gtype 
- 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 
- 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 
- ΔsoxS|δsoxs|NN|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
- pT7|pt7|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  1|1|CD|O 
- Ecoli|ecolus|NNS|O  _|_|VBP|O  wild-type|wild-type|JJ|Gtype  _|_|NN|O  rep1|rep1|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
- Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  ASM584v2|asm584v2|NN|Gversion 
- 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 
- 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 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  Δfur|δfur|NN|Gtype 
- 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 
- 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 
- Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|NN|O  2|2|CD|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  B|b|NN|O 
- 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 
- Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|SYM|O  1|1|CD|O 
- 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 
- 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 
- 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 
- Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913.2|000913.2|CD|Gversion 
- 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 
- 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 
- 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 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  B|b|NN|O 
- RNA-Seq|rna-seq|NN|Technique 
- 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 
- 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 
- strain|strain|NN|O  :|:|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  /|/|:|Gtype  ∆|∆|SYM|Gtype  stpA|stpa|NN|Gtype 
- 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 
- σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  rep1|rep1|NN|O 
- 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 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  anti-myc|anti-myc|JJ|Anti 
- 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 
- 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 
- 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 
- 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 
- genotype|genotype|NN|O  :|:|:|O  WT|WT|NNP|Gtype 
- 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 
- culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  Aerobic|Aerobic|NNP|Air  cultures|culture|NNS|O 
- Wild-type|wild-type|JJ|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
- 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 
- 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 
- RpoB|rpob|NN|O  WT|wt|JJ|Gtype  2|2|CD|O 
- 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 
- 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 
- 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 
- 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 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  fur-8myc|fur-8myc|JJ|Gtype 
- Cra|Cra|NNP|O  glucose|glucose|NN|Supp  2|2|CD|O 
- Lrp|lrp|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|CD|O  3|3|CD|O 
- 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 
- 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 
- 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 
- OmpR|ompr|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
- 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 
- 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 
- Genome|Genome|NNP|O  _|_|NNP|O  build|build|VB|O  :|:|:|O  NC|nc|NN|Gversion  _|_|CD|Gversion  000913|000913|CD|Gversion 
- 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 
- growth|growth|NN|O  condition|condition|NN|O  :|:|:|O  4|4|CD|Supp  µM|µm|NN|Supp  IPTG|iptg|NN|Supp 
- ChIP-exo|ChIP-exo|NNP|Technique  GadW|gadw|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- 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 
- PurR|purr|NN|O  _|_|CD|O  Adenine|Adenine|NNP|Supp  _|_|NN|O  2|2|CD|O 
- 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 
- ChIP-exo|ChIP-exo|NNP|Technique  RpoS|rpos|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  anaerobic|anaerobic|JJ|Air  fermentive|fermentive|JJ|O  condition|condition|NN|O 
- OxyR|oxyr|NN|O  PQ|pq|NN|Supp  2|2|CD|O 
- 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 
- ß|ß|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  A|a|NN|O 
- 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 
- 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 
- 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 
- ß|ß|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  -|-|:|O  B|b|NN|O 
- 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 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  Δfnr|δfnr|NN|Gtype 
- PurR|purr|NN|O  _|_|SYM|O  Adenine|Adenine|NNP|Supp  _|_|SYM|O  1|1|CD|O 
- genotype|genotype|NN|O  :|:|:|O  ΔseqA|δseqa|NN|Gtype 
- Lrp|Lrp|NNP|O  _|_|SYM|O  Leu|Leu|NNP|Supp  _|_|SYM|O  3|3|CD|O 
- FNR|fnr|SYM|O  -|-|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  ∆|∆|VBP|Gtype  stpA|stpa|NN|Gtype  A|a|NN|O 
- 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 
- ChIP-exo|ChIP-exo|NNP|Technique  GadE|gade|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- WT|wt|JJ|Gtype  PQ|pq|NN|Supp  2|2|CD|O 
- 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 
- FNR|fnr|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  -|-|:|O  Affinity|affinity|NN|O  Purified|purify|VBN|O  -|-|:|O  A|a|NN|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  C|C|NNP|O 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Aerobic|Aerobic|NNP|Air  A|A|NNP|O 
- antibody|antibody|NN|O  :|:|:|O  Pre-cleared|pre-cleared|JJ|Anti  FNR|fnr|NN|Anti  antibody|antibody|NN|Anti 
- NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep2|rep2|NN|O 
- OmpR|ompr|NN|O  NaCl|nacl|NN|Supp  2|2|CD|O 
- genotype|genotype|NN|O  :|:|:|O  TrpR-8myc|trpr-8myc|NN|Gtype 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air  A|a|DT|O 
- genotype|genotype|NN|O  :|:|:|O  gadE-8myc|gade-8myc|NN|Gtype 
- genotype|genotype|NN|O  :|:|:|O  Lrp-8myc|lrp-8myc|JJ|Gtype 
- ChIP-Seq|chip-seq|NN|Technique 
- 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 
- 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 
- RpoB|rpob|NN|O  ∆|∆|CD|Gtype  crp|crp|NN|Gtype  2|2|CD|O 
- 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 
- 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 
- At|at|IN|O  OD450|od450|NN|OD 
- strain|strain|NN|O  :|:|:|O  K-12|k-12|NN|Strain 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- 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 
- 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 
- 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 
- genotype|genotype|NN|O  :|:|:|O  gadW-8myc|gadw-8myc|NN|Gtype 
- antibody|antibody|NN|O  :|:|:|O  Affinity|Affinity|NNP|Anti  Purified|purify|VBN|Anti  FNR|fnr|NN|Anti  antibody|antibody|NN|Anti 
- ΔgadW|δgadw|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- pT7|pt7|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique  _|_|NN|O  2|2|CD|O 
- 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 
- 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 
- ArgR|argr|NN|O  _|_|CD|O  Arginine|arginine|NN|Supp  _|_|NN|O  2|2|CD|O 
- PurR|purr|NN|O  _|_|CD|O  glucose|glucose|NN|Supp  _|_|NN|O  2|2|CD|O 
- 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 
- HNS|hns|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  B|b|NN|O 
- ArgR|argr|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  2|2|CD|O 
- 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 
- 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 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  acetate|acetate|NN|Supp 
- WT|wt|JJ|Gtype  fructose|fructose|NN|Supp  1|1|CD|O 
- 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 
- 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 
- agent|agent|NN|O  :|:|:|O  Fe|Fe|NNP|Supp 
- RpoB|rpob|NN|O  WT|wt|JJ|Gtype  1|1|CD|O 
- Input|input|NN|O  ChIP-Seq|chip-seq|NN|Technique 
- 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 
- WT|wt|JJ|Gtype  acetate|acetate|NN|Supp  1|1|CD|O 
- library|library|NN|O  strategy|strategy|NN|O  :|:|:|O  ChIP-exo|ChIP-exo|NNP|Technique 
- ArgR|argr|NN|O  _|_|CD|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  1|1|CD|O 
- Lrp|Lrp|NNP|O  _|_|SYM|O  NH4Cl|nh4cl|NN|Supp  _|_|NN|O  1|1|CD|O 
- WT|wt|JJ|Gtype  _|_|NN|O  RNASeq|rnaseq|NN|Technique 
- 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 
- Δcra|δcra|NN|Gtype  acetate|acetate|NN|Supp  1|1|CD|O 
- genotype|genotype|NN|O  :|:|:|O  PurR-8myc|purr-8myc|NN|Gtype 
- 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 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-soxR|delta-soxr|NN|Gtype 
- Cra|Cra|NNP|O  acetate|acetate|NN|Supp  2|2|CD|O 
- 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 
- ΔompR|δompr|NN|Gtype  NaCl|nacl|NN|Supp  2|2|CD|O 
- 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 
- Fur|Fur|NNP|O  IP|IP|NNP|O  ChIP-Seq|ChIP-Seq|NNP|Technique  Anaerobic|anaerobic|JJ|Air  C|c|NN|O 
- 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 
- ΔgadX|δgadx|NN|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- 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 
- 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 
- CsiR|csir|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
- 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 
- WT|wt|JJ|Gtype  NaCl|nacl|NN|Supp  2|2|CD|O 
- 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 
- WT|wt|JJ|Gtype  pH5|ph5|NN|pH  .5|.5|CD|pH  1|1|CD|O 
- ChIP-exo|ChIP-exo|NNP|Technique  RpoS|rpos|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- genotype|genotype|NN|O  :|:|:|O  delta|delta|NN|O  -|-|:|O  cra|cra|NN|Gtype  Knock-out|knock-out|JJ|Gtype  strain|strain|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-gadX|delta-gadx|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  soxR-8myc|soxr-8myc|NN|Gtype  -|-|:|O  tagged|tag|VBN|O 
- NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep3|rep3|NN|O 
- σ32|σ32|NN|O  43|43|CD|Temp  °C|°c|NN|Temp  short|short|JJ|O  RNase|rnase|NN|O 
- 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 
- Cra|Cra|NNP|O  glucose|glucose|NN|Supp  1|1|CD|O 
- HNS|hns|SYM|O  -|-|:|O  Anaerobic|anaerobic|JJ|Air  B|b|NN|O 
- 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 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  SeqA|seqa|NN|Anti 
- SeqA|seqa|NN|O  old|old|JJ|O  deltaSeqA|deltaseqa|NN|Gtype 
- 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 
- genoype|genoype|NN|O  :|:|:|O  dFNR|dfnr|NN|Gtype 
- 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 
- 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 
- 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 
- Nac|Nac|NNP|O  _|_|NNP|O  ChIPSeq|ChIPSeq|NNP|Technique 
- Aerobic|Aerobic|NNP|Air  cultures|culture|NNS|O 
- Δcra|δcra|NN|Gtype  glucose|glucose|NN|Supp  2|2|CD|O 
- 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 
- SoxS|soxs|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
- 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 
- 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 
- acetate|acetate|NN|Supp 
- 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 
- WT|wt|JJ|Gtype  glucose|glucose|NN|Supp  1|1|CD|O 
- SoxR|soxr|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
- 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 
- 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 
- Ecoli|ecolus|NNS|O  _|_|VBP|O  wild-type|wild-type|JJ|Gtype  _|_|NN|O  rep2|rep2|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
- 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 
- 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 
- Δcra|δcra|NN|Gtype  acetate|acetate|NN|Supp  2|2|CD|O 
- ∆|∆|CD|Gtype  fnr|fnr|NN|Gtype  ChIP|chip|NN|O  DNA|dna|NN|O  from|from|IN|O  PK4854|pk4854|NN|Gtype 
- 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 
- chip|chip|NN|O  antibody|antibody|NN|O  :|:|:|O  none|none|NN|Anti 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  wild|wild|JJ|Gtype  type|type|NN|Gtype 
- 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 
- OxyR|oxyr|NN|O  PQ|pq|NN|Supp  1|1|CD|O 
- ΔsoxR|δsoxr|NN|Gtype  PQ|pq|NN|Supp  1|1|CD|O 
- carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  glucose|glucose|NN|Supp 
- FNR|fnr|SYM|O  -|-|:|O  ∆|∆|CD|Gtype  hns|hn|NNS|Gtype  ∆|∆|VBP|Gtype  stpA|stpa|NN|Gtype  B|b|NN|O 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  delta-oxyR|delta-oxyr|NN|Gtype 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  Combined|Combined|NNP|Gtype  input|input|NN|Gtype 
- agent|agent|NN|O  :|:|:|O  Fe|Fe|NNP|Supp  and|and|CC|Supp  rifampicin|rifampicin|NN|Supp 
- Cra|Cra|NNP|O  fructose|fructose|NN|Supp  2|2|CD|O 
- Nac|Nac|NNP|O  _|_|SYM|O  RNASeq|rnaseq|NN|Technique 
- ß|ß|SYM|O  -|-|:|O  Aerobic|aerobic|JJ|Air  -|-|:|O  A|a|NN|O 
- 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 
- 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 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  ∆|∆|CD|Gtype  ryhB|ryhb|NN|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
- 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 
- 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 
- Δcra|δcra|NN|Gtype  fructose|fructose|NN|Supp  2|2|CD|O 
- 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 
- ∆|∆|CD|Gtype  fur|fur|NN|Gtype  Aerobic|aerobic|JJ|Air  B|b|NN|O 
- RpoB|rpob|NN|O  ∆|∆|CD|Gtype  crp|crp|NN|Gtype  1|1|CD|O 
- 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 
- NtrC|ntrc|NN|O  _|_|CD|O  ChIPSeq|chipseq|NN|Technique 
- WT|wt|JJ|Gtype  fructose|fructose|NN|Supp  2|2|CD|O 
- RpoB|rpob|NN|O  ∆|∆|CD|Gtype  cra|cra|NN|Gtype  2|2|CD|O 
- 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 
- 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 
- 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 
- 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 
- Ecoli|ecolus|NNS|O  _|_|VBP|O  dFNR|dfnr|NN|Gtype  _|_|CD|O  rep1|rep1|NN|O  _|_|CD|O  anaerobic|anaerobic|JJ|Air 
- carbon|carbon|NN|O  source|source|NN|O  :|:|:|O  fructose|fructose|NN|Supp 
- Cra|cra|NN|O  acetate|acetate|NN|Supp  1|1|CD|O 
- culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  nitrate|nitrate|JJ|Supp  respiratory|respiratory|JJ|O  condition|condition|NN|O 
- genotype|genotype|NN|O  :|:|:|O  ArgR-8myc|argr-8myc|NN|Gtype 
- 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 
- 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 
- ChIP-exo|ChIP-exo|NNP|Technique  GadE|gade|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|O 
- 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 
- 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 
- ChIP-exo|ChIP-exo|NNP|Technique  GadW|gadw|NN|O  pH5|ph5|NN|pH  .5|.5|CD|pH  2|2|CD|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|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 
- 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 
- culture|culture|NN|O  condition|condition|NN|O  :|:|:|O  Anaerobic|anaerobic|JJ|Air  cultures|culture|NNS|O 
- 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 
- genotype|genotype|NN|O  :|:|:|O  Wildtype|wildtype|NN|Gtype 
- agent|agent|NN|O  :|:|:|O  DPD|dpd|NN|Supp 
- growth|growth|NN|OD  phase|phase|NN|OD  :|:|:|OD  stationary|stationary|JJ|Phase 
- 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 
- genotype/variation|genotype/variation|NN|O  :|:|:|O  ΔarcA|δarca|NN|Gtype 
- NsrR|nsrr|NN|Gtype  _|_|CD|Gtype  Flagtag|flagtag|NN|Gtype  _|_|CD|O  rep1|rep1|NN|O 
- Δcra|δcra|NN|Gtype  fructose|fructose|NN|Supp  1|1|CD|O 
\ No newline at end of file

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: False False
-Report file: _v9
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003760s
-{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
-{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
-[CV]  c1=0.5461072593339137, c2=0.002561125547217938, score=0.905489 -   1.1s
-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
-[CV]  c1=0.22716579831507944, c2=0.007171535474090697, score=0.577889 -   0.9s
-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
-[CV]  c1=0.09651425305864975, c2=0.0039926239609599816, score=0.679766 -   1.1s
-[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
-[CV]  c1=0.5713116669674538, c2=0.01054418037901807, score=0.767569 -   1.1s
-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
-[CV]  c1=0.24819385946875622, c2=0.052655886800089084, score=0.838429 -   1.2s
-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
-[CV]  c1=0.5461072593339137, c2=0.002561125547217938, score=0.857493 -   1.0s
-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
-[CV]  c1=0.22716579831507944, c2=0.007171535474090697, score=0.938387 -   1.1s
-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
-[CV]  c1=0.09651425305864975, c2=0.0039926239609599816, score=0.848001 -   1.0s
-[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
-[CV]  c1=0.5713116669674538, c2=0.01054418037901807, score=0.660012 -   1.0s
-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
-[CV]  c1=0.24819385946875622, c2=0.052655886800089084, score=0.721334 -   1.2s
-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
-[CV]  c1=0.5461072593339137, c2=0.002561125547217938, score=0.669962 -   0.8s
-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
-[CV]  c1=0.22716579831507944, c2=0.007171535474090697, score=0.703150 -   1.2s
-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
-[CV]  c1=0.09651425305864975, c2=0.0039926239609599816, score=0.724515 -   1.2s
-[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
-[CV]  c1=0.5713116669674538, c2=0.01054418037901807, score=0.708877 -   1.2s
-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
-[CV]  c1=0.24819385946875622, c2=0.052655886800089084, score=0.679766 -   1.2s
-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
-[CV]  c1=0.20181412872449603, c2=0.1831099538162916, score=0.597458 -   1.0s
-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
-[CV]  c1=0.12349654401855631, c2=0.02271624803463124, score=0.720311 -   1.2s
-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
-[CV]  c1=0.9058341641460185, c2=0.007378307188927494, score=0.661884 -   1.0s
-[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
-[CV]  c1=0.5713116669674538, c2=0.01054418037901807, score=0.761418 -   1.2s
-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
-[CV]  c1=0.24819385946875622, c2=0.052655886800089084, score=0.586182 -   0.9s
-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
-[CV]  c1=0.20181412872449603, c2=0.1831099538162916, score=0.848001 -   1.2s
-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
-[CV]  c1=0.12349654401855631, c2=0.02271624803463124, score=0.596949 -   1.0s
-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
-[CV]  c1=0.09651425305864975, c2=0.0039926239609599816, score=0.586182 -   1.1s
-[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
-[CV]  c1=0.5713116669674538, c2=0.01054418037901807, score=0.905489 -   1.1s
-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
-[CV]  c1=0.24819385946875622, c2=0.052655886800089084, score=0.920970 -   1.0s
-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
-[CV]  c1=0.5461072593339137, c2=0.002561125547217938, score=0.866790 -   1.1s
-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
-[CV]  c1=0.22716579831507944, c2=0.007171535474090697, score=0.756561 -   1.2s
-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
-[CV]  c1=0.09651425305864975, c2=0.0039926239609599816, score=0.741434 -   1.1s
-[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
-[CV]  c1=0.5713116669674538, c2=0.01054418037901807, score=0.857493 -   1.1s
-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
-[CV]  c1=0.24819385946875622, c2=0.052655886800089084, score=0.687300 -   1.1s
-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
-[CV]  c1=0.20181412872449603, c2=0.1831099538162916, score=0.628354 -   1.1s
-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
-[CV]  c1=0.22716579831507944, c2=0.007171535474090697, score=0.921915 -   1.2s
-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
-[CV]  c1=0.09651425305864975, c2=0.0039926239609599816, score=0.906853 -   1.2s
-[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
-[CV]  c1=0.1550751527481274, c2=0.0018910637535844298, score=0.674776 -   1.1s
-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
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-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
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-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
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-[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
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-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
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-[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
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-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
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-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
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-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
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-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
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-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
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-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
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-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
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-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
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-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
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-[CV] c1=0.24819385946875622, c2=0.052655886800089084 .................
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-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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-[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
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-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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-[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
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-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.5713116669674538, c2=0.01054418037901807 ...................
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-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
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-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.20181412872449603, c2=0.1831099538162916 ...................
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-[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
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-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
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-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
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-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
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-[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
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-[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
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-[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
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-[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
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-[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
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-[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
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-[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
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-[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
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-[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
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-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
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-[CV] c1=0.22716579831507944, c2=0.007171535474090697 .................
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-[CV] c1=0.09651425305864975, c2=0.0039926239609599816 ................
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-[CV] c1=0.1550751527481274, c2=0.0018910637535844298 .................
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-[CV] c1=1.0380596275637475, c2=0.18279171536318017 ...................
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-[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
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-[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
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-[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
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-[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
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-[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
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-[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
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-[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
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-[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
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-[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
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-[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
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-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
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-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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-[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
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-[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
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-[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
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-[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
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-[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
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-[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
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-[CV] c1=1.395645503093999, c2=0.03913303306397459 ....................
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-[CV] c1=0.17443878436909793, c2=0.025545309300829405 .................
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-[CV] c1=0.5461072593339137, c2=0.002561125547217938 ..................
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-[CV] c1=0.12349654401855631, c2=0.02271624803463124 ..................
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-[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
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-[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
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-[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
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-[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
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-[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
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-[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
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-[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
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-[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
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-[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
-[CV]  c1=0.1126557712627844, c2=0.10045738310383956, score=0.608719 -   1.0s
-[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
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-[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.9058341641460185, c2=0.007378307188927494 ..................
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-[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
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-[CV] c1=0.33745249047104287, c2=0.12028799387317968 ..................
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-[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
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-[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
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-[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
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-[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
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-[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
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-[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
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-[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
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-[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
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-[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
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-[CV] c1=0.1126557712627844, c2=0.10045738310383956 ...................
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-[CV] c1=0.5000947711428705, c2=0.016584093219888196 ..................
-[CV]  c1=0.5000947711428705, c2=0.016584093219888196, score=0.768203 -   1.1s
-[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
-[CV]  c1=0.38390254403775603, c2=0.019141773881786436, score=0.866790 -   1.1s
-[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
-[CV]  c1=1.348060881200924, c2=0.05731692872510329, score=0.748264 -   1.1s
-[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
-[CV]  c1=1.24594687727841, c2=0.044969845912413944, score=0.624124 -   1.0s
-[CV] c1=0.27752606848750366, c2=0.036947033112907056 .................
-[CV]  c1=0.27752606848750366, c2=0.036947033112907056, score=0.920970 -   1.2s
-[CV] c1=0.5994878159065081, c2=0.04116230984146705 ...................
-[CV]  c1=0.5994878159065081, c2=0.04116230984146705, score=0.883954 -   1.2s
-[CV] c1=0.38390254403775603, c2=0.019141773881786436 .................
-[CV]  c1=0.38390254403775603, c2=0.019141773881786436, score=0.761418 -   1.1s
-[CV] c1=1.348060881200924, c2=0.05731692872510329 ....................
-[CV]  c1=1.348060881200924, c2=0.05731692872510329, score=0.800487 -   1.1s
-[CV] c1=1.24594687727841, c2=0.044969845912413944 ....................
-[CV]  c1=1.24594687727841, c2=0.044969845912413944, score=0.776399 -   1.0s
-Training done in: 7.289575s
-     Saving training model...
-        Saving training model done in: 0.015155s
-*********************************
-Prediction done in: 0.026515s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: False False
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003661s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+           0         1
+0      lemma         2
+1     postag        CD
+2   -1:lemma  fructose
+3  -1:postag        NN
+--------------------------- FeaturesTest -----------------------------
+           0           1
+0      lemma  delta-arca
+1     postag          NN
+2   -1:lemma           _
+3  -1:postag          NN
+4   +1:lemma           _
+5  +1:postag          CD
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.20934163148847484, c2=5.972574594521125e-05 ................
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+[CV] c1=0.08128668233823869, c2=0.015540324479165422 .................
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+[CV] c1=0.5160556959866659, c2=0.00838831450556026 ...................
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+[CV] c1=1.7122140999971878, c2=0.05658957314559598 ...................
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+[CV] c1=0.4946687667859687, c2=0.0542592515703674 ....................
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+[CV] c1=0.16523896983656627, c2=0.036164164069576 ....................
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+[CV]  c1=0.009613034807642702, c2=0.07925857169298134, score=0.910520 -   0.9s
+Training done in: 7.066632s
+     Saving training model...
+        Saving training model done in: 0.014236s
+*********************************
+Prediction done in: 0.026365s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: False False
-Report file: _v2
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003629s
--------------------------------- FEATURES --------------------------------
---------------------------Features Training ---------------------------
-           0   1
-0      lemma   1
-1     postag  CD
-2   -1:lemma  pq
-3  -1:postag  NN
---------------------------- FeaturesTest -----------------------------
-           0          1
-0      lemma  delta-fnr
-1     postag         NN
-2   -1:lemma          _
-3  -1:postag         NN
-4   +1:lemma          _
-5  +1:postag         CD
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
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-[CV] c1=0.09369139763074265, c2=0.07537173130694604 ..................
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-[CV] c1=1.8472687447020986, c2=0.04257730516940555 ...................
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-[CV] c1=0.7577102413636053, c2=0.053324799785666135 ..................
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-[CV] c1=0.16006119829799537, c2=0.019860752797724687 .................
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-[CV] c1=0.09369139763074265, c2=0.07537173130694604 ..................
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-[CV] c1=0.02968662156028001, c2=0.12184278879734725 ..................
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-[CV] c1=0.02968662156028001, c2=0.12184278879734725 ..................
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-[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
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-[CV] c1=0.09369139763074265, c2=0.07537173130694604 ..................
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-[CV] c1=0.02968662156028001, c2=0.12184278879734725 ..................
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-[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
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-[CV] c1=0.8749871337656958, c2=0.10465716037380113 ...................
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-[CV] c1=0.02968662156028001, c2=0.12184278879734725 ..................
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-[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
-[CV]  c1=0.1483614516251027, c2=0.06633729885192889, score=0.660510 -   1.1s
-[CV] c1=0.014516456694382724, c2=0.020326963729101803 ................
-[CV]  c1=0.014516456694382724, c2=0.020326963729101803, score=0.923613 -   1.1s
-[CV] c1=0.17342748153476484, c2=0.03315662632542101 ..................
-[CV]  c1=0.17342748153476484, c2=0.03315662632542101, score=0.906853 -   1.1s
-[CV] c1=0.026281073826085702, c2=0.11845123072490214 .................
-[CV]  c1=0.026281073826085702, c2=0.11845123072490214, score=0.775757 -   1.2s
-[CV] c1=0.02968662156028001, c2=0.12184278879734725 ..................
-[CV]  c1=0.02968662156028001, c2=0.12184278879734725, score=0.875991 -   1.0s
-[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
-[CV]  c1=0.1483614516251027, c2=0.06633729885192889, score=0.906853 -   1.3s
-[CV] c1=0.8749871337656958, c2=0.10465716037380113 ...................
-[CV]  c1=0.8749871337656958, c2=0.10465716037380113, score=0.852672 -   1.1s
-[CV] c1=0.8748278310570387, c2=0.16014963439323648 ...................
-[CV]  c1=0.8748278310570387, c2=0.16014963439323648, score=0.843581 -   1.0s
-[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
-[CV]  c1=0.23466274005583443, c2=0.14468669456987662, score=0.694090 -   1.1s
-[CV] c1=0.3233518999667819, c2=0.029859516013558064 ..................
-[CV]  c1=0.3233518999667819, c2=0.029859516013558064, score=0.679766 -   1.0s
-[CV] c1=0.1483614516251027, c2=0.06633729885192889 ...................
-[CV]  c1=0.1483614516251027, c2=0.06633729885192889, score=0.603251 -   1.0s
-[CV] c1=0.8749871337656958, c2=0.10465716037380113 ...................
-[CV]  c1=0.8749871337656958, c2=0.10465716037380113, score=0.691890 -   1.2s
-[CV] c1=0.8748278310570387, c2=0.16014963439323648 ...................
-[CV]  c1=0.8748278310570387, c2=0.16014963439323648, score=0.624124 -   1.2s
-[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
-[CV]  c1=0.23466274005583443, c2=0.14468669456987662, score=0.919762 -   1.4s
-[CV] c1=0.3233518999667819, c2=0.029859516013558064 ..................
-[CV]  c1=0.3233518999667819, c2=0.029859516013558064, score=0.580556 -   0.7s
-[CV] c1=0.5898209423957529, c2=0.01037034945739547 ...................
-[CV]  c1=0.5898209423957529, c2=0.01037034945739547, score=0.852821 -   1.2s
-[CV] c1=0.014516456694382724, c2=0.020326963729101803 ................
-[CV]  c1=0.014516456694382724, c2=0.020326963729101803, score=0.760431 -   1.1s
-[CV] c1=0.17342748153476484, c2=0.03315662632542101 ..................
-[CV]  c1=0.17342748153476484, c2=0.03315662632542101, score=0.740663 -   1.1s
-[CV] c1=0.026281073826085702, c2=0.11845123072490214 .................
-[CV]  c1=0.026281073826085702, c2=0.11845123072490214, score=0.887557 -   1.3s
-[CV] c1=0.3233518999667819, c2=0.029859516013558064 ..................
-[CV]  c1=0.3233518999667819, c2=0.029859516013558064, score=0.872249 -   0.9s
-[CV] c1=0.5898209423957529, c2=0.01037034945739547 ...................
-[CV]  c1=0.5898209423957529, c2=0.01037034945739547, score=0.708877 -   1.2s
-[CV] c1=0.014516456694382724, c2=0.020326963729101803 ................
-[CV]  c1=0.014516456694382724, c2=0.020326963729101803, score=0.866790 -   1.1s
-[CV] c1=0.17342748153476484, c2=0.03315662632542101 ..................
-[CV]  c1=0.17342748153476484, c2=0.03315662632542101, score=0.783313 -   1.3s
-[CV] c1=0.23466274005583443, c2=0.14468669456987662 ..................
-[CV]  c1=0.23466274005583443, c2=0.14468669456987662, score=0.848001 -   1.2s
-[CV] c1=0.3233518999667819, c2=0.029859516013558064 ..................
-[CV]  c1=0.3233518999667819, c2=0.029859516013558064, score=0.867217 -   1.0s
-Training done in: 7.447655s
-     Saving training model...
-        Saving training model done in: 0.014152s
-*********************************
-Prediction done in: 0.025248s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: True False
-Report file: _v9
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003666s
-{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
-{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
-[CV]  c1=1.00966870162731, c2=0.025958556376657574, score=0.656999 -   1.0s
-[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
-[CV]  c1=1.168847855695387, c2=0.054074754440257625, score=0.549071 -   0.9s
-[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
-[CV]  c1=0.7463567881969966, c2=0.010504031522292094, score=0.559946 -   0.9s
-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
-[CV]  c1=0.06766924551335582, c2=0.05664528713448661, score=0.840539 -   1.1s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.660012 -   1.2s
-[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
-[CV]  c1=1.00966870162731, c2=0.025958556376657574, score=0.826261 -   0.8s
-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
-[CV]  c1=0.22656149469246054, c2=0.06475330717049832, score=0.919762 -   1.0s
-[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
-[CV]  c1=0.7463567881969966, c2=0.010504031522292094, score=0.761818 -   1.1s
-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
-[CV]  c1=0.06766924551335582, c2=0.05664528713448661, score=0.848001 -   1.2s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.761418 -   1.1s
-[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
-[CV]  c1=1.00966870162731, c2=0.025958556376657574, score=0.716676 -   0.9s
-[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
-[CV]  c1=1.168847855695387, c2=0.054074754440257625, score=0.670684 -   1.1s
-[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
-[CV]  c1=0.7823077481969921, c2=0.03404532137185433, score=0.872399 -   1.1s
-[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
-[CV]  c1=0.6765797517220264, c2=0.007434912899378703, score=0.743125 -   1.1s
-[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
-[CV]  c1=0.20078106949479455, c2=0.023670407350363146, score=0.838429 -   1.0s
-[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
-[CV]  c1=1.00966870162731, c2=0.025958556376657574, score=0.641040 -   0.9s
-[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
-[CV]  c1=1.168847855695387, c2=0.054074754440257625, score=0.704277 -   1.0s
-[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
-[CV]  c1=0.7823077481969921, c2=0.03404532137185433, score=0.694072 -   1.2s
-[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
-[CV]  c1=0.6765797517220264, c2=0.007434912899378703, score=0.694072 -   1.2s
-[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
-[CV]  c1=0.20078106949479455, c2=0.023670407350363146, score=0.679766 -   1.1s
-[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
-[CV]  c1=1.00966870162731, c2=0.025958556376657574, score=0.787287 -   0.8s
-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
-[CV]  c1=0.22656149469246054, c2=0.06475330717049832, score=0.724007 -   1.1s
-[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
-[CV]  c1=0.7463567881969966, c2=0.010504031522292094, score=0.719596 -   1.2s
-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
-[CV]  c1=0.06766924551335582, c2=0.05664528713448661, score=0.919762 -   1.0s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.852821 -   1.2s
-[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
-[CV]  c1=0.37276009448707553, c2=0.08055336693981598, score=0.566523 -   1.1s
-[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
-[CV]  c1=0.6326902790510075, c2=0.060383400796135134, score=0.704866 -   1.2s
-[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
-[CV]  c1=0.7823077481969921, c2=0.03404532137185433, score=0.576589 -   1.0s
-[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
-[CV]  c1=0.6765797517220264, c2=0.007434912899378703, score=0.666440 -   1.0s
-[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
-[CV]  c1=0.20078106949479455, c2=0.023670407350363146, score=0.721334 -   1.3s
-[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
-[CV]  c1=0.6395797105929565, c2=0.0461197515046378, score=0.761818 -   1.0s
-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
-[CV]  c1=0.22656149469246054, c2=0.06475330717049832, score=0.660510 -   1.2s
-[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
-[CV]  c1=0.7463567881969966, c2=0.010504031522292094, score=0.891760 -   1.2s
-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
-[CV]  c1=0.06766924551335582, c2=0.05664528713448661, score=0.607039 -   0.9s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.848001 -   1.3s
-[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
-[CV]  c1=0.6395797105929565, c2=0.0461197515046378, score=0.852821 -   1.1s
-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
-[CV]  c1=0.22656149469246054, c2=0.06475330717049832, score=0.592237 -   1.0s
-[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
-[CV]  c1=0.7463567881969966, c2=0.010504031522292094, score=0.843338 -   1.2s
-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
-[CV]  c1=0.06766924551335582, c2=0.05664528713448661, score=0.718941 -   1.2s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.899703 -   1.3s
-[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
-[CV]  c1=0.37276009448707553, c2=0.08055336693981598, score=0.848001 -   1.0s
-[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
-[CV]  c1=1.168847855695387, c2=0.054074754440257625, score=0.787287 -   1.1s
-[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
-[CV]  c1=0.7823077481969921, c2=0.03404532137185433, score=0.739174 -   1.3s
-[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
-[CV]  c1=0.6765797517220264, c2=0.007434912899378703, score=0.753693 -   1.1s
-[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
-[CV]  c1=0.20078106949479455, c2=0.023670407350363146, score=0.848001 -   1.1s
-[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
-[CV]  c1=0.6395797105929565, c2=0.0461197515046378, score=0.760479 -   1.1s
-[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
-[CV]  c1=1.168847855695387, c2=0.054074754440257625, score=0.606581 -   1.1s
-[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
-[CV]  c1=0.7823077481969921, c2=0.03404532137185433, score=0.661884 -   1.2s
-[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
-[CV]  c1=0.6765797517220264, c2=0.007434912899378703, score=0.855614 -   1.2s
-[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
-[CV]  c1=0.20078106949479455, c2=0.023670407350363146, score=0.876920 -   1.0s
-[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
-[CV]  c1=0.16888346085657382, c2=0.02208269716963201, score=0.740663 -   1.2s
-[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
-[CV]  c1=0.8607518495035315, c2=0.15862627698471804, score=0.797002 -   1.2s
-[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
-[CV]  c1=0.6168211659220036, c2=0.006845272732197598, score=0.883954 -   1.2s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.716266 -   1.3s
-[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
-[CV]  c1=0.37276009448707553, c2=0.08055336693981598, score=0.858883 -   0.7s
-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
-[CV]  c1=0.22656149469246054, c2=0.06475330717049832, score=0.721334 -   1.2s
-[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
-[CV]  c1=0.7463567881969966, c2=0.010504031522292094, score=0.693442 -   1.1s
-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
-[CV]  c1=0.06766924551335582, c2=0.05664528713448661, score=0.720311 -   1.2s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.874700 -   1.2s
-[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
-[CV]  c1=0.37276009448707553, c2=0.08055336693981598, score=0.899703 -   1.5s
-[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
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-[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
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-[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
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-[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
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-[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
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-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
-[CV]  c1=0.22656149469246054, c2=0.06475330717049832, score=0.872249 -   1.2s
-[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
-[CV]  c1=0.7463567881969966, c2=0.010504031522292094, score=0.903565 -   1.2s
-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
-[CV]  c1=0.06766924551335582, c2=0.05664528713448661, score=0.906853 -   1.1s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.561061 -   1.1s
-[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
-[CV]  c1=0.6395797105929565, c2=0.0461197515046378, score=0.794740 -   0.9s
-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
-[CV]  c1=0.22656149469246054, c2=0.06475330717049832, score=0.869740 -   1.3s
-[CV] c1=0.7463567881969966, c2=0.010504031522292094 ..................
-[CV]  c1=0.7463567881969966, c2=0.010504031522292094, score=0.753693 -   1.1s
-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
-[CV]  c1=0.06766924551335582, c2=0.05664528713448661, score=0.766835 -   1.2s
-[CV] c1=0.48395276763378503, c2=0.022365459591399905 .................
-[CV]  c1=0.48395276763378503, c2=0.022365459591399905, score=0.920970 -   1.1s
-[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
-[CV]  c1=0.16888346085657382, c2=0.02208269716963201, score=0.906853 -   1.4s
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-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
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-[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
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-[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
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-[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
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-[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
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-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
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-[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
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-[CV] c1=0.6765797517220264, c2=0.007434912899378703 ..................
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-[CV] c1=0.20078106949479455, c2=0.023670407350363146 .................
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-[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
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-[CV] c1=1.00966870162731, c2=0.025958556376657574 ....................
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-[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
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-[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
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-[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
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-[CV] c1=0.10973444640225576, c2=0.010828669158530741 .................
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-[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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-[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
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-[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
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-[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
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-[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
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-[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
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-[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
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-[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
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-[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
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-[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
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-[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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-[CV] c1=0.22656149469246054, c2=0.06475330717049832 ..................
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-[CV] c1=0.06766924551335582, c2=0.05664528713448661 ..................
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-[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
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-[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
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-[CV] c1=0.37276009448707553, c2=0.08055336693981598 ..................
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-[CV] c1=0.6326902790510075, c2=0.060383400796135134 ..................
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-[CV] c1=0.016463867524667154, c2=0.009787977090088149 ................
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-[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
-[CV]  c1=0.9988969075737604, c2=0.006345198146357405, score=0.687750 -   1.4s
-[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
-[CV]  c1=2.243122699972053, c2=0.02408920842785463, score=0.512837 -   0.7s
-[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
-[CV]  c1=0.16888346085657382, c2=0.02208269716963201, score=0.876920 -   1.4s
-[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
-[CV]  c1=0.8607518495035315, c2=0.15862627698471804, score=0.564654 -   0.9s
-[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
-[CV]  c1=0.6168211659220036, c2=0.006845272732197598, score=0.843338 -   1.1s
-[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
-[CV]  c1=0.9988969075737604, c2=0.006345198146357405, score=0.856715 -   1.2s
-[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
-[CV]  c1=2.243122699972053, c2=0.02408920842785463, score=0.657444 -   0.9s
-[CV] c1=0.6395797105929565, c2=0.0461197515046378 ....................
-[CV]  c1=0.6395797105929565, c2=0.0461197515046378, score=0.883954 -   1.2s
-[CV] c1=1.168847855695387, c2=0.054074754440257625 ...................
-[CV]  c1=1.168847855695387, c2=0.054074754440257625, score=0.686713 -   1.2s
-[CV] c1=0.7823077481969921, c2=0.03404532137185433 ...................
-[CV]  c1=0.7823077481969921, c2=0.03404532137185433, score=0.891760 -   1.3s
-[CV] c1=0.2837138419533594, c2=0.009966189901122134 ..................
-[CV]  c1=0.2837138419533594, c2=0.009966189901122134, score=0.740663 -   1.3s
-[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
-[CV]  c1=2.243122699972053, c2=0.02408920842785463, score=0.580569 -   1.0s
-[CV] c1=0.16888346085657382, c2=0.02208269716963201 ..................
-[CV]  c1=0.16888346085657382, c2=0.02208269716963201, score=0.713945 -   1.3s
-[CV] c1=0.8607518495035315, c2=0.15862627698471804 ...................
-[CV]  c1=0.8607518495035315, c2=0.15862627698471804, score=0.654029 -   1.1s
-[CV] c1=0.6168211659220036, c2=0.006845272732197598 ..................
-[CV]  c1=0.6168211659220036, c2=0.006845272732197598, score=0.761818 -   1.2s
-[CV] c1=0.9988969075737604, c2=0.006345198146357405 ..................
-[CV]  c1=0.9988969075737604, c2=0.006345198146357405, score=0.787287 -   1.3s
-[CV] c1=2.243122699972053, c2=0.02408920842785463 ....................
-[CV]  c1=2.243122699972053, c2=0.02408920842785463, score=0.660504 -   0.9s
-Training done in: 7.331329s
-     Saving training model...
-        Saving training model done in: 0.014029s
-*********************************
-Prediction done in: 0.024944s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: True False
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003565s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+             0         1
+0        lemma         2
+1       postag        CD
+2     -1:lemma  fructose
+3    -1:postag        NN
+4       hUpper     False
+5       hLower     False
+6       hGreek     False
+7         symb     False
+8    lemma[:1]         2
+9   postag[:1]         C
+10  postag[:2]        CD
+--------------------------- FeaturesTest -----------------------------
+             0           1
+0        lemma  delta-arca
+1       postag          NN
+2     -1:lemma           _
+3    -1:postag          NN
+4     +1:lemma           _
+5    +1:postag          CD
+6       hUpper        True
+7       hLower        True
+8       hGreek       False
+9         symb        True
+10   lemma[:1]           d
+11  postag[:1]           N
+12   lemma[:2]          de
+13  postag[:2]          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
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+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
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+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.814051 -   1.4s
+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
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+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
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+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
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+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
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+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
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+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
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+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
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+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
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+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
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+[CV] c1=0.19109403616449935, c2=0.0010764561143359712 ................
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+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
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+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
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+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
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+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
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+[CV] c1=1.5847200457248953, c2=0.006014325493850365 ..................
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+[CV] c1=0.0861167403673638, c2=0.04828247009963213 ...................
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+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
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+[CV] c1=0.020561906935503537, c2=0.058243167770064976 ................
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+[CV] c1=0.1388422147182745, c2=0.019507314290179247 ..................
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+[CV] c1=1.3822985394905212, c2=0.018122887822950486 ..................
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+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.927877 -   1.6s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.939372 -   1.4s
+[CV] c1=1.49287494311989, c2=0.05403116080542014 .....................
+[CV]  c1=1.49287494311989, c2=0.05403116080542014, score=0.836822 -   1.3s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.878690 -   1.6s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.891072 -   1.1s
+[CV] c1=0.11358491196479957, c2=0.07461322610286401 ..................
+[CV]  c1=0.11358491196479957, c2=0.07461322610286401, score=0.914124 -   1.3s
+[CV] c1=0.7033458837225772, c2=0.02974788560801502 ...................
+[CV]  c1=0.7033458837225772, c2=0.02974788560801502, score=0.756130 -   1.4s
+[CV] c1=0.004178967435122849, c2=0.09079861448733734 .................
+[CV]  c1=0.004178967435122849, c2=0.09079861448733734, score=0.920610 -   1.5s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.801168 -   1.6s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.878690 -   1.2s
+[CV] c1=0.7920601040963161, c2=0.07895815842200327 ...................
+[CV]  c1=0.7920601040963161, c2=0.07895815842200327, score=0.900097 -   1.3s
+[CV] c1=0.08407572754540328, c2=0.009478896359475734 .................
+[CV]  c1=0.08407572754540328, c2=0.009478896359475734, score=0.826784 -   1.2s
+[CV] c1=0.6417792255119764, c2=0.055291444870536756 ..................
+[CV]  c1=0.6417792255119764, c2=0.055291444870536756, score=0.735583 -   1.5s
+[CV] c1=1.0804138881567058, c2=0.02459855006208165 ...................
+[CV]  c1=1.0804138881567058, c2=0.02459855006208165, score=0.765646 -   1.3s
+[CV] c1=0.6478044566379584, c2=0.002961554846996858 ..................
+[CV]  c1=0.6478044566379584, c2=0.002961554846996858, score=0.816050 -   1.5s
+[CV] c1=0.6322742654390535, c2=0.009349248677093488 ..................
+[CV]  c1=0.6322742654390535, c2=0.009349248677093488, score=0.869411 -   1.1s
+Training done in: 9.362880s
+     Saving training model...
+        Saving training model done in: 0.013935s
+*********************************
+Prediction done in: 0.035958s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: True False
-Report file: _v2
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003846s
--------------------------------- FEATURES --------------------------------
---------------------------Features Training ---------------------------
-           0      1
-0      lemma      1
-1     postag     CD
-2   -1:lemma     pq
-3  -1:postag     NN
-4     hUpper  False
-5     hLower  False
-6     hGreek  False
-7       symb  False
-8   word[:1]      1
---------------------------- FeaturesTest -----------------------------
-            0          1
-0       lemma  delta-fnr
-1      postag         NN
-2    -1:lemma          _
-3   -1:postag         NN
-4    +1:lemma          _
-5   +1:postag         CD
-6      hUpper      False
-7      hLower      False
-8      hGreek      False
-9        symb       True
-10   word[:1]          d
-11   word[:2]         de
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
-[CV]  c1=0.7552293645263738, c2=0.010542927773867011, score=0.692390 -   1.1s
-[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
-[CV]  c1=1.4589431115727765, c2=0.00462048934522589, score=0.677656 -   1.4s
-[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
-[CV]  c1=0.47432740691636344, c2=0.03758235542198346, score=0.697829 -   1.6s
-[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
-[CV]  c1=0.4819640275387183, c2=0.029691473721229295, score=0.720638 -   1.4s
-[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
-[CV]  c1=0.21506344691612903, c2=0.02416742878069053, score=0.716901 -   1.5s
-[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
-[CV]  c1=0.298080277984045, c2=0.05416968597972857, score=0.866982 -   1.4s
-[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
-[CV]  c1=0.350973260533853, c2=0.010037581949873645, score=0.701470 -   1.2s
-[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
-[CV]  c1=0.47432740691636344, c2=0.03758235542198346, score=0.687400 -   1.3s
-[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
-[CV]  c1=0.4819640275387183, c2=0.029691473721229295, score=0.941969 -   1.5s
-[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
-[CV]  c1=0.21506344691612903, c2=0.02416742878069053, score=0.712895 -   1.1s
-[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
-[CV]  c1=0.7552293645263738, c2=0.010542927773867011, score=0.764724 -   1.3s
-[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
-[CV]  c1=1.4589431115727765, c2=0.00462048934522589, score=0.691639 -   1.4s
-[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
-[CV]  c1=0.47432740691636344, c2=0.03758235542198346, score=0.765131 -   1.3s
-[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
-[CV]  c1=0.4819640275387183, c2=0.029691473721229295, score=0.891979 -   1.4s
-[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
-[CV]  c1=0.21506344691612903, c2=0.02416742878069053, score=0.704318 -   1.4s
-[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
-[CV]  c1=0.7552293645263738, c2=0.010542927773867011, score=0.679052 -   1.4s
-[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
-[CV]  c1=0.350973260533853, c2=0.010037581949873645, score=0.723654 -   1.3s
-[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
-[CV]  c1=0.47432740691636344, c2=0.03758235542198346, score=0.882037 -   1.4s
-[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
-[CV]  c1=0.4819640275387183, c2=0.029691473721229295, score=0.687400 -   1.3s
-[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
-[CV]  c1=0.21506344691612903, c2=0.02416742878069053, score=0.885770 -   1.5s
-[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
-[CV]  c1=0.298080277984045, c2=0.05416968597972857, score=0.895305 -   1.2s
-[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
-[CV]  c1=1.4589431115727765, c2=0.00462048934522589, score=0.782459 -   1.6s
-[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
-[CV]  c1=0.06546675625130262, c2=0.059226785100600615, score=0.911666 -   1.5s
-[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
-[CV]  c1=0.8446622313160173, c2=0.03942509766742223, score=0.697504 -   1.4s
-[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
-[CV]  c1=0.7034919312846388, c2=0.0024933361931142694, score=0.696275 -   0.9s
-[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
-[CV]  c1=0.298080277984045, c2=0.05416968597972857, score=0.706631 -   1.1s
-[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
-[CV]  c1=1.4589431115727765, c2=0.00462048934522589, score=0.685539 -   1.4s
-[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
-[CV]  c1=0.47432740691636344, c2=0.03758235542198346, score=0.871122 -   1.5s
-[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
-[CV]  c1=0.4819640275387183, c2=0.029691473721229295, score=0.765131 -   1.5s
-[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
-[CV]  c1=0.21506344691612903, c2=0.02416742878069053, score=0.747961 -   1.4s
-[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
-[CV]  c1=0.5467988707284427, c2=0.00803194900725053, score=0.704197 -   1.3s
-[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
-[CV]  c1=0.350973260533853, c2=0.010037581949873645, score=0.768514 -   1.3s
-[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
-[CV]  c1=0.06546675625130262, c2=0.059226785100600615, score=0.729114 -   1.4s
-[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
-[CV]  c1=0.7298207185304556, c2=0.03502458791701493, score=0.692390 -   1.3s
-[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
-[CV]  c1=0.21506344691612903, c2=0.02416742878069053, score=0.686683 -   1.4s
-[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
-[CV]  c1=0.7552293645263738, c2=0.010542927773867011, score=0.680303 -   1.2s
-[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
-[CV]  c1=1.4589431115727765, c2=0.00462048934522589, score=0.679944 -   1.3s
-[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
-[CV]  c1=0.47432740691636344, c2=0.03758235542198346, score=0.724757 -   1.4s
-[CV] c1=0.4819640275387183, c2=0.029691473721229295 ..................
-[CV]  c1=0.4819640275387183, c2=0.029691473721229295, score=0.700894 -   1.7s
-[CV] c1=0.21506344691612903, c2=0.02416742878069053 ..................
-[CV]  c1=0.21506344691612903, c2=0.02416742878069053, score=0.876503 -   1.6s
-[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
-[CV]  c1=0.5467988707284427, c2=0.00803194900725053, score=0.692577 -   1.2s
-[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
-[CV]  c1=0.350973260533853, c2=0.010037581949873645, score=0.882037 -   1.3s
-[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
-[CV]  c1=0.06546675625130262, c2=0.059226785100600615, score=0.866982 -   1.4s
-[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
-[CV]  c1=0.7298207185304556, c2=0.03502458791701493, score=0.874383 -   1.5s
-[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
-[CV]  c1=0.7034919312846388, c2=0.0024933361931142694, score=0.780716 -   1.3s
-[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
-[CV]  c1=0.24706375983667295, c2=0.024420937052355998, score=0.711689 -   1.3s
-[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
-[CV]  c1=1.0834398150991624, c2=0.003997536598295317, score=0.925608 -   1.3s
-[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
-[CV]  c1=0.0978143608714834, c2=0.07833099658452108, score=0.686683 -   1.2s
-[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
-[CV]  c1=0.7298207185304556, c2=0.03502458791701493, score=0.699064 -   1.2s
-[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
-[CV]  c1=0.7034919312846388, c2=0.0024933361931142694, score=0.891477 -   1.4s
-[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
-[CV]  c1=0.5467988707284427, c2=0.00803194900725053, score=0.746445 -   1.4s
-[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
-[CV]  c1=1.0834398150991624, c2=0.003997536598295317, score=0.704118 -   1.3s
-[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
-[CV]  c1=0.0978143608714834, c2=0.07833099658452108, score=0.889040 -   1.4s
-[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
-[CV]  c1=0.8446622313160173, c2=0.03942509766742223, score=0.758798 -   1.3s
-[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
-[CV]  c1=0.20192101167465534, c2=0.04531597351347868, score=0.714313 -   1.2s
-[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
-[CV]  c1=0.298080277984045, c2=0.05416968597972857, score=0.798839 -   1.5s
-[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
-[CV]  c1=1.0834398150991624, c2=0.003997536598295317, score=0.761432 -   1.4s
-[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
-[CV]  c1=0.0978143608714834, c2=0.07833099658452108, score=0.810699 -   1.5s
-[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
-[CV]  c1=0.8446622313160173, c2=0.03942509766742223, score=0.691266 -   1.1s
-[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
-[CV]  c1=0.7034919312846388, c2=0.0024933361931142694, score=0.925608 -   1.4s
-[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
-[CV]  c1=0.7552293645263738, c2=0.010542927773867011, score=0.859428 -   1.3s
-[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
-[CV]  c1=1.4589431115727765, c2=0.00462048934522589, score=0.716965 -   1.4s
-[CV] c1=0.47432740691636344, c2=0.03758235542198346 ..................
-[CV]  c1=0.47432740691636344, c2=0.03758235542198346, score=0.932342 -   1.5s
-[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
-[CV]  c1=0.7298207185304556, c2=0.03502458791701493, score=0.891477 -   1.5s
-[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
-[CV]  c1=0.7034919312846388, c2=0.0024933361931142694, score=0.816091 -   1.4s
-[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
-[CV]  c1=0.5467988707284427, c2=0.00803194900725053, score=0.876688 -   1.5s
-[CV] c1=1.0834398150991624, c2=0.003997536598295317 ..................
-[CV]  c1=1.0834398150991624, c2=0.003997536598295317, score=0.849726 -   1.5s
-[CV] c1=0.0978143608714834, c2=0.07833099658452108 ...................
-[CV]  c1=0.0978143608714834, c2=0.07833099658452108, score=0.711634 -   1.1s
-[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
-[CV]  c1=0.7298207185304556, c2=0.03502458791701493, score=0.771801 -   1.3s
-[CV] c1=0.7034919312846388, c2=0.0024933361931142694 .................
-[CV]  c1=0.7034919312846388, c2=0.0024933361931142694, score=0.849461 -   1.4s
-[CV] c1=0.7552293645263738, c2=0.010542927773867011 ..................
-[CV]  c1=0.7552293645263738, c2=0.010542927773867011, score=0.715703 -   1.4s
-[CV] c1=1.4589431115727765, c2=0.00462048934522589 ...................
-[CV]  c1=1.4589431115727765, c2=0.00462048934522589, score=0.846342 -   1.6s
-[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
-[CV]  c1=0.06546675625130262, c2=0.059226785100600615, score=0.888767 -   1.5s
-[CV] c1=0.8446622313160173, c2=0.03942509766742223 ...................
-[CV]  c1=0.8446622313160173, c2=0.03942509766742223, score=0.679944 -   1.5s
-[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
-[CV]  c1=0.20192101167465534, c2=0.04531597351347868, score=0.686683 -   1.2s
-[CV] c1=0.298080277984045, c2=0.05416968597972857 ....................
-[CV]  c1=0.298080277984045, c2=0.05416968597972857, score=0.718007 -   1.4s
-[CV] c1=0.350973260533853, c2=0.010037581949873645 ...................
-[CV]  c1=0.350973260533853, c2=0.010037581949873645, score=0.792078 -   1.4s
-[CV] c1=0.06546675625130262, c2=0.059226785100600615 .................
-[CV]  c1=0.06546675625130262, c2=0.059226785100600615, score=0.810699 -   1.4s
-[CV] c1=0.7298207185304556, c2=0.03502458791701493 ...................
-[CV]  c1=0.7298207185304556, c2=0.03502458791701493, score=0.925608 -   1.5s
-[CV] c1=0.20192101167465534, c2=0.04531597351347868 ..................
-[CV]  c1=0.20192101167465534, c2=0.04531597351347868, score=0.903464 -   1.3s
-[CV] c1=0.5467988707284427, c2=0.00803194900725053 ...................
-[CV]  c1=0.5467988707284427, c2=0.00803194900725053, score=0.880433 -   1.6s
-[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
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-[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
-[CV]  c1=0.3811975088263534, c2=0.09035610955818969, score=0.866982 -   1.3s
-[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
-[CV]  c1=0.24706375983667295, c2=0.024420937052355998, score=0.895305 -   1.5s
-[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
-[CV]  c1=0.5752830046115532, c2=0.029011946679537343, score=0.765131 -   1.4s
-[CV] c1=0.12822074735920433, c2=0.028255623123597452 .................
-[CV]  c1=0.12822074735920433, c2=0.028255623123597452, score=0.905956 -   1.5s
-[CV] c1=0.5405494603106622, c2=0.02185761043719437 ...................
-[CV]  c1=0.5405494603106622, c2=0.02185761043719437, score=0.941969 -   1.4s
-[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
-[CV]  c1=0.3811975088263534, c2=0.09035610955818969, score=0.877324 -   1.2s
-[CV] c1=0.24706375983667295, c2=0.024420937052355998 .................
-[CV]  c1=0.24706375983667295, c2=0.024420937052355998, score=0.943015 -   1.5s
-[CV] c1=0.5752830046115532, c2=0.029011946679537343 ..................
-[CV]  c1=0.5752830046115532, c2=0.029011946679537343, score=0.941969 -   1.5s
-[CV] c1=0.12822074735920433, c2=0.028255623123597452 .................
-[CV]  c1=0.12822074735920433, c2=0.028255623123597452, score=0.712895 -   1.3s
-[CV] c1=0.5405494603106622, c2=0.02185761043719437 ...................
-[CV]  c1=0.5405494603106622, c2=0.02185761043719437, score=0.746445 -   1.4s
-[CV] c1=0.3811975088263534, c2=0.09035610955818969 ...................
-[CV]  c1=0.3811975088263534, c2=0.09035610955818969, score=0.941969 -   1.2s
-Training done in: 9.118032s
-     Saving training model...
-        Saving training model done in: 0.013122s
-*********************************
-Prediction done in: 0.030181s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: False True
-Report file: _v9
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003814s
-{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
-{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
-[CV]  c1=0.016595180754549518, c2=0.030948306031002376, score=0.867500 -   1.3s
-[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
-[CV]  c1=0.7863468698144266, c2=0.0037442044888246354, score=0.903565 -   1.2s
-[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
-[CV]  c1=0.43749590188690224, c2=0.13150259694056668, score=0.883954 -   1.3s
-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
-[CV]  c1=1.5356087724511331, c2=0.14043664965912495, score=0.577372 -   1.1s
-[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
-[CV]  c1=0.016595180754549518, c2=0.030948306031002376, score=0.923613 -   1.4s
-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
-[CV]  c1=0.7789541450968716, c2=0.013394697180379615, score=0.651934 -   1.0s
-[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
-[CV]  c1=0.43749590188690224, c2=0.13150259694056668, score=0.917838 -   1.0s
-[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
-[CV]  c1=2.0055201578565307, c2=0.00218367124029512, score=0.674465 -   1.4s
-[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
-[CV]  c1=1.1186692278337627, c2=0.22309738782267205, score=0.571018 -   1.0s
-[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
-[CV]  c1=0.5233514980566518, c2=0.05607213609434676, score=0.860755 -   1.2s
-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
-[CV]  c1=0.7789541450968716, c2=0.013394697180379615, score=0.708065 -   1.1s
-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
-[CV]  c1=0.3568772328262357, c2=0.03679897833962741, score=0.899703 -   1.1s
-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
-[CV]  c1=1.5356087724511331, c2=0.14043664965912495, score=0.566968 -   1.0s
-[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
-[CV]  c1=0.5018716826309633, c2=0.04614139578392318, score=0.753693 -   0.8s
-[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
-[CV]  c1=0.5233514980566518, c2=0.05607213609434676, score=0.632439 -   1.1s
-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
-[CV]  c1=0.7789541450968716, c2=0.013394697180379615, score=0.684055 -   1.2s
-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
-[CV]  c1=0.3568772328262357, c2=0.03679897833962741, score=0.869740 -   1.1s
-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
-[CV]  c1=1.5356087724511331, c2=0.14043664965912495, score=0.771784 -   1.2s
-[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
-[CV]  c1=0.5018716826309633, c2=0.04614139578392318, score=0.774739 -   0.9s
-[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
-[CV]  c1=0.5233514980566518, c2=0.05607213609434676, score=0.814703 -   1.3s
-[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
-[CV]  c1=2.291960860484793, c2=0.020013816890766867, score=0.583163 -   1.0s
-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
-[CV]  c1=0.3568772328262357, c2=0.03679897833962741, score=0.592237 -   0.9s
-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
-[CV]  c1=1.5356087724511331, c2=0.14043664965912495, score=0.614085 -   1.3s
-[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
-[CV]  c1=0.3624734639674293, c2=0.06885589564532553, score=0.667917 -   1.0s
-[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
-[CV]  c1=0.1181247797079666, c2=0.014644040000881146, score=0.920970 -   1.1s
-[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
-[CV]  c1=2.291960860484793, c2=0.020013816890766867, score=0.562003 -   1.2s
-[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
-[CV]  c1=0.5286937810460386, c2=0.02768432633092313, score=0.899703 -   1.1s
-[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
-[CV]  c1=0.7423324269870698, c2=0.05489724550548968, score=0.704452 -   0.9s
-[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
-[CV]  c1=0.3624734639674293, c2=0.06885589564532553, score=0.899703 -   1.0s
-[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
-[CV]  c1=0.1181247797079666, c2=0.014644040000881146, score=0.906853 -   1.3s
-[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
-[CV]  c1=0.10489093988322791, c2=0.040276414459420484, score=0.740663 -   1.1s
-[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
-[CV]  c1=0.09784611146788476, c2=0.054300102474929904, score=0.906853 -   0.9s
-[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
-[CV]  c1=0.7423324269870698, c2=0.05489724550548968, score=0.576589 -   0.9s
-[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
-[CV]  c1=0.5018716826309633, c2=0.04614139578392318, score=0.899703 -   1.2s
-[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
-[CV]  c1=0.649264531621016, c2=0.031877071613145826, score=0.673541 -   1.0s
-[CV] c1=0.10489093988322791, c2=0.040276414459420484 .................
-[CV]  c1=0.10489093988322791, c2=0.040276414459420484, score=0.649654 -   1.0s
-[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
-[CV]  c1=0.5286937810460386, c2=0.02768432633092313, score=0.555809 -   0.8s
-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
-[CV]  c1=1.5356087724511331, c2=0.14043664965912495, score=0.509067 -   1.1s
-[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
-[CV]  c1=1.1186692278337627, c2=0.22309738782267205, score=0.722890 -   1.1s
-[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
-[CV]  c1=0.1181247797079666, c2=0.014644040000881146, score=0.721334 -   1.1s
-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
-[CV]  c1=0.7789541450968716, c2=0.013394697180379615, score=0.563354 -   1.0s
-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
-[CV]  c1=0.3568772328262357, c2=0.03679897833962741, score=0.858883 -   1.2s
-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
-[CV]  c1=1.5356087724511331, c2=0.14043664965912495, score=0.605840 -   1.1s
-[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
-[CV]  c1=1.1186692278337627, c2=0.22309738782267205, score=0.585484 -   1.0s
-[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
-[CV]  c1=0.5233514980566518, c2=0.05607213609434676, score=0.899703 -   1.1s
-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
-[CV]  c1=0.7789541450968716, c2=0.013394697180379615, score=0.872399 -   1.2s
-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
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-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
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-[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
-[CV]  c1=1.1186692278337627, c2=0.22309738782267205, score=0.698982 -   1.0s
-[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
-[CV]  c1=0.5233514980566518, c2=0.05607213609434676, score=0.557862 -   1.1s
-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
-[CV]  c1=0.7789541450968716, c2=0.013394697180379615, score=0.891760 -   1.2s
-[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
-[CV]  c1=0.5286937810460386, c2=0.02768432633092313, score=0.710539 -   1.1s
-[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
-[CV]  c1=0.7423324269870698, c2=0.05489724550548968, score=0.659121 -   1.1s
-[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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-[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
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-[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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-[CV] c1=1.1186692278337627, c2=0.22309738782267205 ...................
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-[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
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-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
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-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
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-[CV] c1=0.016595180754549518, c2=0.030948306031002376 ................
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-[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
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-[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
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-[CV] c1=0.09784611146788476, c2=0.054300102474929904 .................
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-[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
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-[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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-[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
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-[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
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-[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
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-[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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-[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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-[CV] c1=0.1181247797079666, c2=0.014644040000881146 ..................
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-[CV] c1=2.291960860484793, c2=0.020013816890766867 ...................
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-[CV] c1=0.5286937810460386, c2=0.02768432633092313 ...................
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-[CV] c1=0.7423324269870698, c2=0.05489724550548968 ...................
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-[CV] c1=0.5018716826309633, c2=0.04614139578392318 ...................
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-[CV] c1=0.5233514980566518, c2=0.05607213609434676 ...................
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-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
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-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
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-[CV] c1=0.3624734639674293, c2=0.06885589564532553 ...................
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-[CV] c1=0.649264531621016, c2=0.031877071613145826 ...................
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-[CV] c1=0.43749590188690224, c2=0.13150259694056668 ..................
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-[CV] c1=2.0055201578565307, c2=0.00218367124029512 ...................
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-[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
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-[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
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-[CV] c1=0.3136994988226159, c2=0.003462481114435929 ..................
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-[CV] c1=0.7789541450968716, c2=0.013394697180379615 ..................
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-[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
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-[CV]  c1=0.5233514980566518, c2=0.05607213609434676, score=0.721334 -   1.1s
-[CV] c1=0.7863468698144266, c2=0.0037442044888246354 .................
-[CV]  c1=0.7863468698144266, c2=0.0037442044888246354, score=0.891760 -   1.3s
-[CV] c1=0.3568772328262357, c2=0.03679897833962741 ...................
-[CV]  c1=0.3568772328262357, c2=0.03679897833962741, score=0.721334 -   1.1s
-[CV] c1=1.5356087724511331, c2=0.14043664965912495 ...................
-[CV]  c1=1.5356087724511331, c2=0.14043664965912495, score=0.654414 -   1.2s
-[CV] c1=0.44728536850250333, c2=0.015283238629035883 .................
-[CV]  c1=0.44728536850250333, c2=0.015283238629035883, score=0.899703 -   0.8s
-Training done in: 7.351656s
-     Saving training model...
-        Saving training model done in: 0.013628s
-*********************************
-Prediction done in: 0.024027s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: False True
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003641s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+           0         1
+0      lemma         2
+1     postag        CD
+2   -1:lemma  fructose
+3  -1:postag        NN
+4       word         2
+5    isUpper     False
+6    isLower     False
+7    isGreek     False
+8   isNumber      True
+9    -1:word  fructose
+--------------------------- FeaturesTest -----------------------------
+            0           1
+0       lemma  delta-arca
+1      postag          NN
+2    -1:lemma           _
+3   -1:postag          NN
+4    +1:lemma           _
+5   +1:postag          CD
+6        word  delta-arcA
+7     isUpper       False
+8     isLower       False
+9     isGreek       False
+10   isNumber       False
+11    -1:word           _
+12    +1:word           _
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
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+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
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+[CV] c1=0.022102126823387226, c2=0.06924520730038973 .................
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+[CV] c1=0.6378651675797636, c2=0.013941131343344033 ..................
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+[CV]  c1=0.11486416926458794, c2=0.02680674100354409, score=0.705243 -   1.5s
+[CV] c1=1.1984741556968186, c2=0.05653817320378769 ...................
+[CV]  c1=1.1984741556968186, c2=0.05653817320378769, score=0.839761 -   1.3s
+[CV] c1=2.593347208872597, c2=0.012299824833226647 ...................
+[CV]  c1=2.593347208872597, c2=0.012299824833226647, score=0.617476 -   1.5s
+[CV] c1=1.6065853828524328, c2=0.007959562254287294 ..................
+[CV]  c1=1.6065853828524328, c2=0.007959562254287294, score=0.846283 -   1.3s
+Training done in: 8.982838s
+     Saving training model...
+        Saving training model done in: 0.013084s
+*********************************
+Prediction done in: 0.033790s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: False True
-Report file: _v2
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003654s
--------------------------------- FEATURES --------------------------------
---------------------------Features Training ---------------------------
-           0      1
-0      lemma      1
-1     postag     CD
-2   -1:lemma     pq
-3  -1:postag     NN
-4       word      1
-5    isUpper  False
-6    isLower  False
-7    isGreek  False
-8   isNumber   True
-9    -1:word     PQ
---------------------------- FeaturesTest -----------------------------
-            0          1
-0       lemma  delta-fnr
-1      postag         NN
-2    -1:lemma          _
-3   -1:postag         NN
-4    +1:lemma          _
-5   +1:postag         CD
-6        word  delta-fnr
-7     isUpper      False
-8     isLower       True
-9     isGreek      False
-10   isNumber      False
-11    -1:word          _
-12    +1:word          _
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
-[CV]  c1=0.15911702521720522, c2=0.046161934701581496, score=0.630601 -   1.2s
-[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
-[CV]  c1=0.09008322955518538, c2=0.07446232300940821, score=0.848001 -   1.6s
-[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
-[CV]  c1=0.25902302075140105, c2=0.03091362551658973, score=0.899703 -   1.6s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.742271 -   1.4s
-[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
-[CV]  c1=0.031955518564645284, c2=0.004198138415764393, score=0.678771 -   1.1s
-[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
-[CV]  c1=0.8685665773754986, c2=0.040475472475883754, score=0.719617 -   1.4s
-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
-[CV]  c1=0.9997736934864921, c2=0.026878803960042243, score=0.873584 -   1.5s
-[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
-[CV]  c1=0.07999002423801141, c2=0.000868661924339573, score=0.690262 -   1.3s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.577546 -   1.2s
-[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
-[CV]  c1=0.18982871503169924, c2=0.046233745555238626, score=0.719481 -   1.1s
-[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
-[CV]  c1=0.2905084415493135, c2=0.01849397696699137, score=0.902737 -   1.6s
-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
-[CV]  c1=0.9997736934864921, c2=0.026878803960042243, score=0.549739 -   1.2s
-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
-[CV]  c1=0.22692190968141177, c2=0.023819618838019103, score=0.925743 -   1.5s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.848001 -   1.5s
-[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
-[CV]  c1=0.031955518564645284, c2=0.004198138415764393, score=0.940286 -   1.4s
-[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
-[CV]  c1=0.6747528619946138, c2=0.07283789541988857, score=0.849399 -   1.4s
-[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
-[CV]  c1=0.5665040037123241, c2=0.011962486026690578, score=0.887803 -   1.2s
-[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
-[CV]  c1=0.07999002423801141, c2=0.000868661924339573, score=0.853386 -   1.4s
-[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
-[CV]  c1=1.6511701323120827, c2=0.08558259304928574, score=0.632374 -   1.3s
-[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
-[CV]  c1=0.18982871503169924, c2=0.046233745555238626, score=0.857175 -   1.4s
-[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
-[CV]  c1=0.8685665773754986, c2=0.040475472475883754, score=0.863912 -   1.4s
-[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
-[CV]  c1=0.5665040037123241, c2=0.011962486026690578, score=0.768974 -   1.3s
-[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
-[CV]  c1=0.07999002423801141, c2=0.000868661924339573, score=0.938387 -   1.5s
-[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
-[CV]  c1=1.6511701323120827, c2=0.08558259304928574, score=0.624854 -   1.3s
-[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
-[CV]  c1=0.18982871503169924, c2=0.046233745555238626, score=0.721089 -   1.2s
-[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
-[CV]  c1=0.2905084415493135, c2=0.01849397696699137, score=0.624196 -   1.2s
-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
-[CV]  c1=0.9997736934864921, c2=0.026878803960042243, score=0.849399 -   1.5s
-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
-[CV]  c1=0.22692190968141177, c2=0.023819618838019103, score=0.904833 -   1.7s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.908205 -   1.4s
-[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
-[CV]  c1=0.18982871503169924, c2=0.046233745555238626, score=0.692991 -   1.3s
-[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
-[CV]  c1=0.8685665773754986, c2=0.040475472475883754, score=0.803642 -   1.5s
-[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
-[CV]  c1=0.5665040037123241, c2=0.011962486026690578, score=0.680458 -   1.3s
-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
-[CV]  c1=0.22692190968141177, c2=0.023819618838019103, score=0.919762 -   1.4s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.703784 -   1.5s
-[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
-[CV]  c1=0.11429489799744622, c2=0.01488578964446575, score=0.883871 -   1.0s
-[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
-[CV]  c1=0.2905084415493135, c2=0.01849397696699137, score=0.866790 -   1.6s
-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
-[CV]  c1=0.9997736934864921, c2=0.026878803960042243, score=0.871122 -   1.5s
-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
-[CV]  c1=0.22692190968141177, c2=0.023819618838019103, score=0.747448 -   1.5s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.757664 -   1.5s
-[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
-[CV]  c1=0.11429489799744622, c2=0.01488578964446575, score=0.708356 -   1.4s
-[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
-[CV]  c1=0.8685665773754986, c2=0.040475472475883754, score=0.675999 -   1.3s
-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
-[CV]  c1=0.9997736934864921, c2=0.026878803960042243, score=0.927708 -   1.5s
-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
-[CV]  c1=0.22692190968141177, c2=0.023819618838019103, score=0.899703 -   1.4s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.919762 -   1.6s
-[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
-[CV]  c1=0.11429489799744622, c2=0.01488578964446575, score=0.690262 -   1.1s
-[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
-[CV]  c1=0.2905084415493135, c2=0.01849397696699137, score=0.938387 -   1.5s
-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
-[CV]  c1=0.9997736934864921, c2=0.026878803960042243, score=0.737065 -   1.5s
-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
-[CV]  c1=0.22692190968141177, c2=0.023819618838019103, score=0.717966 -   1.5s
-[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
-[CV]  c1=1.6511701323120827, c2=0.08558259304928574, score=0.671836 -   1.5s
-[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
-[CV]  c1=0.11429489799744622, c2=0.01488578964446575, score=0.935584 -   1.1s
-[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
-[CV]  c1=0.2905084415493135, c2=0.01849397696699137, score=0.747448 -   1.5s
-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
-[CV]  c1=0.9997736934864921, c2=0.026878803960042243, score=0.687077 -   1.5s
-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
-[CV]  c1=0.22692190968141177, c2=0.023819618838019103, score=0.627027 -   1.2s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.857982 -   1.5s
-[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
-[CV]  c1=0.031955518564645284, c2=0.004198138415764393, score=0.731659 -   1.4s
-[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
-[CV]  c1=0.6747528619946138, c2=0.07283789541988857, score=0.719617 -   1.5s
-[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
-[CV]  c1=0.5665040037123241, c2=0.011962486026690578, score=0.929632 -   1.4s
-[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
-[CV]  c1=0.07999002423801141, c2=0.000868661924339573, score=0.602106 -   1.3s
-[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
-[CV]  c1=1.6511701323120827, c2=0.08558259304928574, score=0.779997 -   1.4s
-[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
-[CV]  c1=0.031955518564645284, c2=0.004198138415764393, score=0.823710 -   1.4s
-[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
-[CV]  c1=0.6747528619946138, c2=0.07283789541988857, score=0.706548 -   1.3s
-[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
-[CV]  c1=0.5665040037123241, c2=0.011962486026690578, score=0.720838 -   1.3s
-[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
-[CV]  c1=0.07999002423801141, c2=0.000868661924339573, score=0.752021 -   1.4s
-[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
-[CV]  c1=1.6511701323120827, c2=0.08558259304928574, score=0.726221 -   1.4s
-[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
-[CV]  c1=0.031955518564645284, c2=0.004198138415764393, score=0.900039 -   1.5s
-[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
-[CV]  c1=0.6747528619946138, c2=0.07283789541988857, score=0.532088 -   1.3s
-[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
-[CV]  c1=0.04258998203691286, c2=0.08845660294483688, score=0.738823 -   1.4s
-[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
-[CV]  c1=0.08442255640374982, c2=0.07334312442868467, score=0.665417 -   1.5s
-[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
-[CV]  c1=0.17037724024202613, c2=0.04579884459555339, score=0.690262 -   1.3s
-[CV] c1=0.031955518564645284, c2=0.004198138415764393 ................
-[CV]  c1=0.031955518564645284, c2=0.004198138415764393, score=0.620108 -   1.2s
-[CV] c1=0.6747528619946138, c2=0.07283789541988857 ...................
-[CV]  c1=0.6747528619946138, c2=0.07283789541988857, score=0.818254 -   1.5s
-[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
-[CV]  c1=0.04258998203691286, c2=0.08845660294483688, score=0.665417 -   1.3s
-[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
-[CV]  c1=0.08442255640374982, c2=0.07334312442868467, score=0.721089 -   1.5s
-[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
-[CV]  c1=0.17037724024202613, c2=0.04579884459555339, score=0.734882 -   1.3s
-[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
-[CV]  c1=0.18982871503169924, c2=0.046233745555238626, score=0.866790 -   1.5s
-[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
-[CV]  c1=0.8685665773754986, c2=0.040475472475883754, score=0.535633 -   1.2s
-[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
-[CV]  c1=0.5665040037123241, c2=0.011962486026690578, score=0.734882 -   1.4s
-[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
-[CV]  c1=0.07999002423801141, c2=0.000868661924339573, score=0.724270 -   1.5s
-[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
-[CV]  c1=1.6511701323120827, c2=0.08558259304928574, score=0.672403 -   1.4s
-[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
-[CV]  c1=0.11429489799744622, c2=0.01488578964446575, score=0.906853 -   1.4s
-[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
-[CV]  c1=0.8685665773754986, c2=0.040475472475883754, score=0.849399 -   1.5s
-[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
-[CV]  c1=0.5665040037123241, c2=0.011962486026690578, score=0.830312 -   1.5s
-[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
-[CV]  c1=0.07999002423801141, c2=0.000868661924339573, score=0.779574 -   1.6s
-[CV] c1=1.6511701323120827, c2=0.08558259304928574 ...................
-[CV]  c1=1.6511701323120827, c2=0.08558259304928574, score=0.521176 -   1.2s
-[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
-[CV]  c1=0.11429489799744622, c2=0.01488578964446575, score=0.740663 -   0.9s
-[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
-[CV]  c1=0.2905084415493135, c2=0.01849397696699137, score=0.723944 -   1.4s
-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
-[CV]  c1=0.9997736934864921, c2=0.026878803960042243, score=0.675999 -   1.4s
-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
-[CV]  c1=0.22692190968141177, c2=0.023819618838019103, score=0.728478 -   1.7s
-[CV] c1=0.25483228949461545, c2=0.13089764900278175 ..................
-[CV]  c1=0.25483228949461545, c2=0.13089764900278175, score=0.851068 -   1.6s
-[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
-[CV]  c1=0.11429489799744622, c2=0.01488578964446575, score=0.724270 -   1.4s
-[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
-[CV]  c1=0.2905084415493135, c2=0.01849397696699137, score=0.717243 -   2.0s
-[CV] c1=0.5665040037123241, c2=0.011962486026690578 ..................
-[CV]  c1=0.5665040037123241, c2=0.011962486026690578, score=0.594443 -   1.2s
-[CV] c1=0.07999002423801141, c2=0.000868661924339573 .................
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-[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
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-[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
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-[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
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-[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
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-[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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-[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
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-[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
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-[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
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-[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
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-[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
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-[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
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-[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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-[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
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-[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
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-[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
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-[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
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-[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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-[CV] c1=0.11429489799744622, c2=0.01488578964446575 ..................
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-[CV] c1=0.2905084415493135, c2=0.01849397696699137 ...................
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-[CV] c1=0.9997736934864921, c2=0.026878803960042243 ..................
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-[CV] c1=0.22692190968141177, c2=0.023819618838019103 .................
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-[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
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-[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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-[CV] c1=0.18982871503169924, c2=0.046233745555238626 .................
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-[CV] c1=0.8685665773754986, c2=0.040475472475883754 ..................
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-[CV] c1=0.04258998203691286, c2=0.08845660294483688 ..................
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-[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
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-[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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-[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
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-[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
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-[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
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-[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
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-[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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-[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
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-[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
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-[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
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-[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
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-[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
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-[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
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-[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
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-[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
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-[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
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-[CV] c1=0.08442255640374982, c2=0.07334312442868467 ..................
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-[CV] c1=0.17037724024202613, c2=0.04579884459555339 ..................
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-[CV] c1=0.15911702521720522, c2=0.046161934701581496 .................
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-[CV] c1=0.09008322955518538, c2=0.07446232300940821 ..................
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-[CV] c1=0.25902302075140105, c2=0.03091362551658973 ..................
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-[CV] c1=0.10267282220358842, c2=0.0004147936931735207 ................
-[CV]  c1=0.10267282220358842, c2=0.0004147936931735207, score=0.752021 -   1.4s
-[CV] c1=1.6087629131114594, c2=0.06538470359631814 ...................
-[CV]  c1=1.6087629131114594, c2=0.06538470359631814, score=0.624854 -   1.1s
-Training done in: 9.342762s
-     Saving training model...
-        Saving training model done in: 0.013957s
-*********************************
-Prediction done in: 0.032526s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: True True
-Report file: _v9
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003836s
-{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
-{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
-[CV]  c1=0.489724053657197, c2=0.044922427709806804, score=0.567237 -   0.9s
-[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
-[CV]  c1=0.5672718732034153, c2=0.02408083022682672, score=0.852821 -   1.1s
-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
-[CV]  c1=0.035487685725177805, c2=0.07066796438693485, score=0.654823 -   1.0s
-[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
-[CV]  c1=0.1942293390156905, c2=0.0118048238421011, score=0.921915 -   1.2s
-[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
-[CV]  c1=0.32462532886586554, c2=0.018288220546846753, score=0.899703 -   1.2s
-[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
-[CV]  c1=0.15761238349200285, c2=0.002525593517619589, score=0.920970 -   1.4s
-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
-[CV]  c1=0.035487685725177805, c2=0.07066796438693485, score=0.720311 -   1.3s
-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
-[CV]  c1=0.7754820747377101, c2=0.12099050393613156, score=0.675506 -   1.3s
-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
-[CV]  c1=0.38805051498984994, c2=0.01477620810001598, score=0.570419 -   1.0s
-[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
-[CV]  c1=0.489724053657197, c2=0.044922427709806804, score=0.723593 -   0.8s
-[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
-[CV]  c1=0.5672718732034153, c2=0.02408083022682672, score=0.710539 -   1.2s
-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
-[CV]  c1=0.035487685725177805, c2=0.07066796438693485, score=0.867500 -   1.1s
-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
-[CV]  c1=0.7754820747377101, c2=0.12099050393613156, score=0.701323 -   1.2s
-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
-[CV]  c1=0.38805051498984994, c2=0.01477620810001598, score=0.858883 -   1.2s
-[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
-[CV]  c1=0.08401658210095098, c2=0.01884625069711085, score=0.848230 -   0.7s
-[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
-[CV]  c1=0.5672718732034153, c2=0.02408083022682672, score=0.753693 -   1.2s
-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
-[CV]  c1=0.035487685725177805, c2=0.07066796438693485, score=0.766835 -   1.0s
-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
-[CV]  c1=0.7754820747377101, c2=0.12099050393613156, score=0.624832 -   1.2s
-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
-[CV]  c1=0.38805051498984994, c2=0.01477620810001598, score=0.679766 -   1.3s
-[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
-[CV]  c1=0.389627350050321, c2=0.20541641674647737, score=0.802426 -   0.9s
-[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
-[CV]  c1=0.5672718732034153, c2=0.02408083022682672, score=0.919762 -   1.1s
-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
-[CV]  c1=0.035487685725177805, c2=0.07066796438693485, score=0.887557 -   1.1s
-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
-[CV]  c1=0.7754820747377101, c2=0.12099050393613156, score=0.640353 -   1.1s
-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
-[CV]  c1=0.38805051498984994, c2=0.01477620810001598, score=0.848001 -   1.2s
-[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
-[CV]  c1=0.489724053657197, c2=0.044922427709806804, score=0.774739 -   0.9s
-[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
-[CV]  c1=0.5672718732034153, c2=0.02408083022682672, score=0.656490 -   1.1s
-[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
-[CV]  c1=0.10252491344185391, c2=0.035456409715521185, score=0.920970 -   1.2s
-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
-[CV]  c1=0.7754820747377101, c2=0.12099050393613156, score=0.691890 -   1.3s
-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
-[CV]  c1=0.38805051498984994, c2=0.01477620810001598, score=0.864316 -   1.2s
-[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
-[CV]  c1=0.389627350050321, c2=0.20541641674647737, score=0.717157 -   0.8s
-[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
-[CV]  c1=0.5672718732034153, c2=0.02408083022682672, score=0.761818 -   1.1s
-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
-[CV]  c1=0.035487685725177805, c2=0.07066796438693485, score=0.848001 -   1.2s
-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
-[CV]  c1=0.7754820747377101, c2=0.12099050393613156, score=0.853988 -   1.2s
-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
-[CV]  c1=0.38805051498984994, c2=0.01477620810001598, score=0.920970 -   1.2s
-[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
-[CV]  c1=0.08401658210095098, c2=0.01884625069711085, score=0.763058 -   0.9s
-[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
-[CV]  c1=0.037804502799856664, c2=0.17775310605580735, score=0.643807 -   1.2s
-[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
-[CV]  c1=0.48021458727568206, c2=0.024520344430852173, score=0.715300 -   1.1s
-[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
-[CV]  c1=1.1913664771508643, c2=0.02636126240604801, score=0.632407 -   1.0s
-[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
-[CV]  c1=0.011396903498125098, c2=0.08331303274987872, score=0.867500 -   1.1s
-[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
-[CV]  c1=0.489724053657197, c2=0.044922427709806804, score=0.852821 -   1.1s
-[CV] c1=0.5672718732034153, c2=0.02408083022682672 ...................
-[CV]  c1=0.5672718732034153, c2=0.02408083022682672, score=0.556973 -   1.0s
-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
-[CV]  c1=0.035487685725177805, c2=0.07066796438693485, score=0.731639 -   1.3s
-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
-[CV]  c1=0.7754820747377101, c2=0.12099050393613156, score=0.557241 -   1.0s
-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
-[CV]  c1=0.38805051498984994, c2=0.01477620810001598, score=0.737308 -   1.3s
-[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
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-[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
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-[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
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-[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
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-[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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-[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
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-[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
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-[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
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-[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
-[CV]  c1=1.1913664771508643, c2=0.02636126240604801, score=0.637423 -   1.0s
-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
-[CV]  c1=0.38805051498984994, c2=0.01477620810001598, score=0.899703 -   1.2s
-[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
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-[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
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-[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
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-[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
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-[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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-[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
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-[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
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-[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
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-[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
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-[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
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-[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
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-[CV] c1=0.10252491344185391, c2=0.035456409715521185 .................
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-[CV] c1=0.1942293390156905, c2=0.0118048238421011 ....................
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-[CV] c1=1.2077186464874288, c2=0.11106721030811739 ...................
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-[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
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-[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
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-[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
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-[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
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-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
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-[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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-[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
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-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
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-[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
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-[CV] c1=0.15761238349200285, c2=0.002525593517619589 .................
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-[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
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-[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
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-[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
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-[CV] c1=0.489724053657197, c2=0.044922427709806804 ...................
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-[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
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-[CV] c1=0.08401658210095098, c2=0.01884625069711085 ..................
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-[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
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-[CV] c1=0.035487685725177805, c2=0.07066796438693485 .................
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-[CV] c1=0.7754820747377101, c2=0.12099050393613156 ...................
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-[CV] c1=0.38805051498984994, c2=0.01477620810001598 ..................
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-[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
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-[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
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-[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
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-[CV] c1=0.725079276744011, c2=0.0025324013059438034 ..................
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-[CV] c1=0.037804502799856664, c2=0.17775310605580735 .................
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-[CV] c1=0.48021458727568206, c2=0.024520344430852173 .................
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-[CV] c1=1.1913664771508643, c2=0.02636126240604801 ...................
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-[CV] c1=0.011396903498125098, c2=0.08331303274987872 .................
-[CV]  c1=0.011396903498125098, c2=0.08331303274987872, score=0.866790 -   1.1s
-[CV] c1=0.389627350050321, c2=0.20541641674647737 ....................
-[CV]  c1=0.389627350050321, c2=0.20541641674647737, score=0.877067 -   1.1s
-[CV] c1=0.478213957506215, c2=0.020477014457446593 ...................
-[CV]  c1=0.478213957506215, c2=0.020477014457446593, score=0.793956 -   1.2s
-[CV] c1=0.585686407327112, c2=0.012901559348345326 ...................
-[CV]  c1=0.585686407327112, c2=0.012901559348345326, score=0.852821 -   1.4s
-[CV] c1=0.32462532886586554, c2=0.018288220546846753 .................
-[CV]  c1=0.32462532886586554, c2=0.018288220546846753, score=0.848001 -   1.3s
-[CV] c1=0.7414419018297659, c2=0.12193121091232882 ...................
-[CV]  c1=0.7414419018297659, c2=0.12193121091232882, score=0.853988 -   1.0s
-Training done in: 7.486107s
-     Saving training model...
-        Saving training model done in: 0.013334s
-*********************************
-Prediction done in: 0.023981s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: True True
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003649s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+             0         1
+0        lemma         2
+1       postag        CD
+2     -1:lemma  fructose
+3    -1:postag        NN
+4       hUpper     False
+5       hLower     False
+6       hGreek     False
+7         symb     False
+8    lemma[:1]         2
+9   postag[:1]         C
+10  postag[:2]        CD
+11        word         2
+12     isUpper     False
+13     isLower     False
+14     isGreek     False
+15    isNumber      True
+16     -1:word  fructose
+--------------------------- FeaturesTest -----------------------------
+             0           1
+0        lemma  delta-arca
+1       postag          NN
+2     -1:lemma           _
+3    -1:postag          NN
+4     +1:lemma           _
+5    +1:postag          CD
+6       hUpper        True
+7       hLower        True
+8       hGreek       False
+9         symb        True
+10   lemma[:1]           d
+11  postag[:1]           N
+12   lemma[:2]          de
+13  postag[:2]          NN
+14        word  delta-arcA
+15     isUpper       False
+16     isLower       False
+17     isGreek       False
+18    isNumber       False
+19     -1:word           _
+20     +1:word           _
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.789624 -   1.3s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.813743 -   1.7s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.949229 -   1.6s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.843361 -   1.9s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.820019 -   1.6s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.921016 -   1.6s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.892120 -   1.7s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.969625 -   1.9s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.896961 -   1.9s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.824874 -   1.5s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.851303 -   1.9s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.799176 -   1.7s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.923027 -   1.6s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.912280 -   1.6s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.834170 -   1.6s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.923027 -   1.5s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.921016 -   1.6s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.909289 -   1.5s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.718722 -   1.6s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.814665 -   1.3s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.823347 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.827976 -   1.8s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.826784 -   2.0s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.734353 -   1.7s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.730238 -   1.5s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.923027 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.794216 -   1.9s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.900463 -   1.9s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.847287 -   1.7s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.719240 -   1.7s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.924709 -   1.6s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.892120 -   1.5s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.741087 -   1.9s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.865380 -   1.5s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.867165 -   1.7s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.844380 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.865097 -   1.9s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.851303 -   1.8s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.843486 -   1.8s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.747025 -   1.7s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.820019 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.914885 -   1.8s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.899524 -   1.9s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.923027 -   1.7s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.914885 -   1.6s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.936198 -   1.7s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.820852 -   1.8s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.923229 -   1.8s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.916002 -   1.8s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.843908 -   1.7s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.719240 -   1.7s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.783387 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.718722 -   1.7s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.816050 -   1.5s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.830456 -   1.7s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.923229 -   1.8s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.797998 -   1.6s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.956017 -   2.0s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.817424 -   1.6s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.941585 -   1.8s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.733882 -   1.6s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.841027 -   1.8s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.823347 -   1.7s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.869064 -   1.9s
+[CV] c1=0.5383828181005542, c2=0.03841071924486563 ...................
+[CV]  c1=0.5383828181005542, c2=0.03841071924486563, score=0.799746 -   1.6s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.912280 -   1.5s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.740042 -   1.8s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.862696 -   1.8s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.946646 -   1.7s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.855838 -   1.6s
+[CV] c1=0.08116859297589825, c2=0.01402217610152598 ..................
+[CV]  c1=0.08116859297589825, c2=0.01402217610152598, score=0.827913 -   1.7s
+[CV] c1=0.4047465682558066, c2=0.024420878445861913 ..................
+[CV]  c1=0.4047465682558066, c2=0.024420878445861913, score=0.922774 -   1.7s
+[CV] c1=0.14106027770288562, c2=0.02011348479945861 ..................
+[CV]  c1=0.14106027770288562, c2=0.02011348479945861, score=0.917968 -   1.8s
+[CV] c1=0.4447485859982712, c2=0.0016484083449467537 .................
+[CV]  c1=0.4447485859982712, c2=0.0016484083449467537, score=0.892120 -   1.6s
+[CV] c1=0.8497482346216051, c2=0.13810348554922147 ...................
+[CV]  c1=0.8497482346216051, c2=0.13810348554922147, score=0.913219 -   1.9s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.799176 -   1.8s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.933588 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.866290 -   1.6s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.723924 -   1.6s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.820752 -   1.6s
+[CV] c1=0.45932518333010963, c2=0.05807947207491818 ..................
+[CV]  c1=0.45932518333010963, c2=0.05807947207491818, score=0.816050 -   1.7s
+[CV] c1=0.6223773708649032, c2=0.007605247773857023 ..................
+[CV]  c1=0.6223773708649032, c2=0.007605247773857023, score=0.883328 -   1.7s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.922774 -   1.7s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.843908 -   1.4s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.920107 -   1.7s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.912280 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
+[CV]  c1=0.2323716379870112, c2=0.06329296060320068, score=0.920107 -   1.7s
+[CV] c1=0.08296411755539199, c2=0.02012113673798377 ..................
+[CV]  c1=0.08296411755539199, c2=0.02012113673798377, score=0.839590 -   1.8s
+[CV] c1=0.07448098504603347, c2=9.667953584900881e-05 ................
+[CV]  c1=0.07448098504603347, c2=9.667953584900881e-05, score=0.936885 -   1.8s
+[CV] c1=0.35697431252186523, c2=0.053072104891904226 .................
+[CV]  c1=0.35697431252186523, c2=0.053072104891904226, score=0.830598 -   1.7s
+[CV] c1=0.3270597884667632, c2=0.010347987464658356 ..................
+[CV]  c1=0.3270597884667632, c2=0.010347987464658356, score=0.867165 -   1.6s
+[CV] c1=0.04937325798482469, c2=0.021347060592283952 .................
+[CV]  c1=0.04937325798482469, c2=0.021347060592283952, score=0.837807 -   1.6s
+[CV] c1=0.5404386702330402, c2=0.00940384945509182 ...................
+[CV]  c1=0.5404386702330402, c2=0.00940384945509182, score=0.938245 -   1.6s
+[CV] c1=0.8168034772987887, c2=0.06477230233366042 ...................
+[CV]  c1=0.8168034772987887, c2=0.06477230233366042, score=0.922774 -   1.4s
+[CV] c1=0.2530415538363529, c2=0.01421999529254304 ...................
+[CV]  c1=0.2530415538363529, c2=0.01421999529254304, score=0.926210 -   1.3s
+[CV] c1=0.0706583501364852, c2=0.007766154606045574 ..................
+[CV]  c1=0.0706583501364852, c2=0.007766154606045574, score=0.731210 -   1.6s
+[CV] c1=0.2323716379870112, c2=0.06329296060320068 ...................
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+Training done in: 11.158256s
+     Saving training model...
+        Saving training model done in: 0.014234s
+*********************************
+Prediction done in: 0.048239s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: True True
-Report file: _v2
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.004035s
--------------------------------- FEATURES --------------------------------
---------------------------Features Training ---------------------------
-            0      1
-0       lemma      1
-1      postag     CD
-2    -1:lemma     pq
-3   -1:postag     NN
-4      hUpper  False
-5      hLower  False
-6      hGreek  False
-7        symb  False
-8    word[:1]      1
-9        word      1
-10    isUpper  False
-11    isLower  False
-12    isGreek  False
-13   isNumber   True
-14    -1:word     PQ
---------------------------- FeaturesTest -----------------------------
-            0          1
-0       lemma  delta-fnr
-1      postag         NN
-2    -1:lemma          _
-3   -1:postag         NN
-4    +1:lemma          _
-5   +1:postag         CD
-6      hUpper      False
-7      hLower      False
-8      hGreek      False
-9        symb       True
-10   word[:1]          d
-11   word[:2]         de
-12       word  delta-fnr
-13    isUpper      False
-14    isLower       True
-15    isGreek      False
-16   isNumber      False
-17    -1:word          _
-18    +1:word          _
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.719482 -   1.7s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.964829 -   1.8s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.671893 -   1.4s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.860861 -   1.8s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.714313 -   1.7s
-[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
-[CV]  c1=0.5522760556298829, c2=0.011764289096805257, score=0.932342 -   1.5s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.893986 -   1.6s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.850267 -   1.6s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.713686 -   1.4s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.728846 -   1.7s
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.715320 -   1.7s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.854753 -   1.6s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.644709 -   1.7s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.868023 -   2.1s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.628257 -   1.6s
-[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
-[CV]  c1=0.4078998263978875, c2=0.03823537952712818, score=0.729114 -   1.5s
-[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
-[CV]  c1=1.0979918753546847, c2=0.002918879102946894, score=0.805804 -   1.7s
-[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
-[CV]  c1=1.9851987092826848, c2=0.05255571087688783, score=0.630354 -   1.3s
-[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
-[CV]  c1=0.7263916143048589, c2=0.031205799626709132, score=0.714493 -   1.6s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.750968 -   1.8s
-[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
-[CV]  c1=0.5522760556298829, c2=0.011764289096805257, score=0.696002 -   1.5s
-[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
-[CV]  c1=1.0979918753546847, c2=0.002918879102946894, score=0.664975 -   1.4s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.745162 -   1.7s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.792078 -   1.8s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.947941 -   1.6s
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.628257 -   1.4s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.718319 -   1.8s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.855472 -   1.7s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.757924 -   1.8s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.885770 -   1.9s
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.885770 -   1.8s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.708131 -   1.3s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.709305 -   1.6s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.709789 -   1.9s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.854474 -   1.8s
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.706850 -   1.6s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.778194 -   1.4s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.657958 -   1.7s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.718319 -   2.0s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.879698 -   1.9s
-[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
-[CV]  c1=0.5522760556298829, c2=0.011764289096805257, score=0.760487 -   1.3s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.733738 -   1.8s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.666232 -   1.7s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.887504 -   2.0s
-[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
-[CV]  c1=0.19555004078116134, c2=0.013719557943369584, score=0.729277 -   1.6s
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.766835 -   1.6s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.868023 -   1.8s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.682610 -   1.6s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.959209 -   1.8s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.778194 -   1.8s
-[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
-[CV]  c1=0.4078998263978875, c2=0.03823537952712818, score=0.885770 -   1.8s
-[CV] c1=0.6094784835218059, c2=0.01690933209411638 ...................
-[CV]  c1=0.6094784835218059, c2=0.01690933209411638, score=0.730987 -   1.4s
-[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
-[CV]  c1=0.4346959767707268, c2=0.004694241666253667, score=0.709789 -   1.6s
-[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
-[CV]  c1=0.7263916143048589, c2=0.031205799626709132, score=0.887052 -   1.7s
-[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
-[CV]  c1=0.19555004078116134, c2=0.013719557943369584, score=0.779163 -   1.6s
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.864078 -   1.8s
-[CV] c1=0.2858121257516539, c2=0.017143803593821803 ..................
-[CV]  c1=0.2858121257516539, c2=0.017143803593821803, score=0.747961 -   1.6s
-[CV] c1=1.6285175067140285, c2=0.06773142195214325 ...................
-[CV]  c1=1.6285175067140285, c2=0.06773142195214325, score=0.883968 -   1.6s
-[CV] c1=0.30683200632675367, c2=0.019783947264900577 .................
-[CV]  c1=0.30683200632675367, c2=0.019783947264900577, score=0.941969 -   1.8s
-[CV] c1=0.03158220752670695, c2=0.051210940198560144 .................
-[CV]  c1=0.03158220752670695, c2=0.051210940198560144, score=0.901159 -   1.9s
-[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
-[CV]  c1=0.4078998263978875, c2=0.03823537952712818, score=0.709789 -   1.7s
-[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
-[CV]  c1=1.0979918753546847, c2=0.002918879102946894, score=0.883806 -   1.6s
-[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
-[CV]  c1=1.9851987092826848, c2=0.05255571087688783, score=0.849709 -   1.7s
-[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
-[CV]  c1=0.7263916143048589, c2=0.031205799626709132, score=0.930418 -   1.7s
-[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
-[CV]  c1=0.19555004078116134, c2=0.013719557943369584, score=0.888519 -   1.7s
-[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
-[CV]  c1=0.4078998263978875, c2=0.03823537952712818, score=0.881641 -   1.8s
-[CV] c1=0.6094784835218059, c2=0.01690933209411638 ...................
-[CV]  c1=0.6094784835218059, c2=0.01690933209411638, score=0.887052 -   1.8s
-[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
-[CV]  c1=0.4346959767707268, c2=0.004694241666253667, score=0.720815 -   1.5s
-[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
-[CV]  c1=0.48552233382782606, c2=0.16512343963590606, score=0.852225 -   1.8s
-[CV] c1=0.4728739554959987, c2=0.22420666837898567 ...................
-[CV]  c1=0.4728739554959987, c2=0.22420666837898567, score=0.880778 -   1.4s
-[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
-[CV]  c1=0.5522760556298829, c2=0.011764289096805257, score=0.715254 -   1.7s
-[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
-[CV]  c1=1.0979918753546847, c2=0.002918879102946894, score=0.807056 -   1.6s
-[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
-[CV]  c1=1.9851987092826848, c2=0.05255571087688783, score=0.855472 -   1.8s
-[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
-[CV]  c1=0.7263916143048589, c2=0.031205799626709132, score=0.779866 -   1.7s
-[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
-[CV]  c1=0.19555004078116134, c2=0.013719557943369584, score=0.943602 -   1.8s
-[CV] c1=0.5522760556298829, c2=0.011764289096805257 ..................
-[CV]  c1=0.5522760556298829, c2=0.011764289096805257, score=0.847994 -   1.7s
-[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
-[CV]  c1=1.0979918753546847, c2=0.002918879102946894, score=0.919451 -   1.5s
-[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
-[CV]  c1=1.9851987092826848, c2=0.05255571087688783, score=0.657337 -   1.7s
-[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
-[CV]  c1=0.7263916143048589, c2=0.031205799626709132, score=0.876022 -   1.9s
-[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
-[CV]  c1=0.19555004078116134, c2=0.013719557943369584, score=0.943015 -   1.6s
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.941969 -   1.7s
-[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
-[CV]  c1=1.0979918753546847, c2=0.002918879102946894, score=0.704193 -   2.0s
-[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
-[CV]  c1=0.4346959767707268, c2=0.004694241666253667, score=0.729114 -   1.8s
-[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
-[CV]  c1=0.48552233382782606, c2=0.16512343963590606, score=0.696480 -   1.8s
-[CV] c1=0.4728739554959987, c2=0.22420666837898567 ...................
-[CV]  c1=0.4728739554959987, c2=0.22420666837898567, score=0.696480 -   1.7s
-[CV] c1=0.07231471163871557, c2=0.09430964775259432 ..................
-[CV]  c1=0.07231471163871557, c2=0.09430964775259432, score=0.901159 -   1.7s
-[CV] c1=1.0979918753546847, c2=0.002918879102946894 ..................
-[CV]  c1=1.0979918753546847, c2=0.002918879102946894, score=0.737623 -   1.9s
-[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
-[CV]  c1=1.9851987092826848, c2=0.05255571087688783, score=0.814578 -   1.8s
-[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
-[CV]  c1=0.7263916143048589, c2=0.031205799626709132, score=0.698638 -   1.6s
-[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
-[CV]  c1=0.19555004078116134, c2=0.013719557943369584, score=0.902851 -   1.7s
-[CV] c1=0.4078998263978875, c2=0.03823537952712818 ...................
-[CV]  c1=0.4078998263978875, c2=0.03823537952712818, score=0.893939 -   1.6s
-[CV] c1=0.6094784835218059, c2=0.01690933209411638 ...................
-[CV]  c1=0.6094784835218059, c2=0.01690933209411638, score=0.714493 -   1.3s
-[CV] c1=1.9851987092826848, c2=0.05255571087688783 ...................
-[CV]  c1=1.9851987092826848, c2=0.05255571087688783, score=0.644709 -   1.6s
-[CV] c1=0.7263916143048589, c2=0.031205799626709132 ..................
-[CV]  c1=0.7263916143048589, c2=0.031205799626709132, score=0.709841 -   1.9s
-[CV] c1=0.19555004078116134, c2=0.013719557943369584 .................
-[CV]  c1=0.19555004078116134, c2=0.013719557943369584, score=0.718319 -   1.8s
-[CV] c1=0.10648945642165056, c2=0.015449511254995961 .................
-[CV]  c1=0.10648945642165056, c2=0.015449511254995961, score=0.839790 -   1.6s
-[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
-[CV]  c1=0.8236049945299427, c2=0.15208965114284034, score=0.692982 -   1.6s
-[CV] c1=0.4346959767707268, c2=0.004694241666253667 ..................
-[CV]  c1=0.4346959767707268, c2=0.004694241666253667, score=0.746445 -   1.7s
-[CV] c1=0.48552233382782606, c2=0.16512343963590606 ..................
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-[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
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-[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
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-[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
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-[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
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-[CV] c1=0.10648945642165056, c2=0.015449511254995961 .................
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-[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
-[CV]  c1=0.8236049945299427, c2=0.15208965114284034, score=0.680329 -   1.3s
-[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
-[CV]  c1=0.046498819434789694, c2=0.007495861195002632, score=0.872268 -   1.7s
-[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
-[CV]  c1=1.3104946340308028, c2=0.016932301174739674, score=0.684029 -   1.6s
-[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
-[CV]  c1=0.021441360234559073, c2=0.04563400559940925, score=0.891699 -   1.5s
-[CV] c1=0.10648945642165056, c2=0.015449511254995961 .................
-[CV]  c1=0.10648945642165056, c2=0.015449511254995961, score=0.792078 -   1.6s
-[CV] c1=0.8236049945299427, c2=0.15208965114284034 ...................
-[CV]  c1=0.8236049945299427, c2=0.15208965114284034, score=0.925608 -   1.7s
-[CV] c1=0.046498819434789694, c2=0.007495861195002632 ................
-[CV]  c1=0.046498819434789694, c2=0.007495861195002632, score=0.870252 -   1.7s
-[CV] c1=1.3104946340308028, c2=0.016932301174739674 ..................
-[CV]  c1=1.3104946340308028, c2=0.016932301174739674, score=0.871212 -   1.7s
-[CV] c1=0.021441360234559073, c2=0.04563400559940925 .................
-[CV]  c1=0.021441360234559073, c2=0.04563400559940925, score=0.855704 -   1.4s
-Training done in: 11.278545s
-     Saving training model...
-        Saving training model done in: 0.014307s
-*********************************
-Prediction done in: 0.041099s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: False False
-Report file: _v9
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003781s
-{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
-{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
-[CV]  c1=0.6194603776098887, c2=0.003983838476166578, score=0.656490 -   1.1s
-[CV] c1=1.529507873115847, c2=0.024136783344165424 ...................
-[CV]  c1=1.529507873115847, c2=0.024136783344165424, score=0.643620 -   1.1s
-[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
-[CV]  c1=0.4486050985597108, c2=0.00923136182458732, score=0.710539 -   1.3s
-[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
-[CV]  c1=0.39114608628354247, c2=0.04029658321961293, score=0.899703 -   1.3s
-[CV] c1=0.02824756371284651, c2=0.0335948035118798 ...................
-[CV]  c1=0.02824756371284651, c2=0.0335948035118798, score=0.890667 -   1.1s
-[CV] c1=0.25969741666753743, c2=0.027938172584771492 .................
-[CV]  c1=0.25969741666753743, c2=0.027938172584771492, score=0.784613 -   1.2s
-[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
-[CV]  c1=0.4878310757485807, c2=0.05686345202582919, score=0.567237 -   0.9s
-[CV] c1=0.06596113672627639, c2=0.005613954965247502 .................
-[CV]  c1=0.06596113672627639, c2=0.005613954965247502, score=0.679766 -   1.0s
-[CV] c1=0.2467287269984389, c2=0.00376365828037806 ...................
-[CV]  c1=0.2467287269984389, c2=0.00376365828037806, score=0.710539 -   1.2s
-[CV] c1=0.02824756371284651, c2=0.0335948035118798 ...................
-[CV]  c1=0.02824756371284651, c2=0.0335948035118798, score=0.848001 -   1.1s
-[CV] c1=0.25969741666753743, c2=0.027938172584771492 .................
-[CV]  c1=0.25969741666753743, c2=0.027938172584771492, score=0.920970 -   1.1s
-[CV] c1=0.4878310757485807, c2=0.05686345202582919 ...................
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-[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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-[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
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-[CV] c1=0.02551053031873781, c2=0.07127942992256919 ..................
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-[CV] c1=0.6144514862830527, c2=0.07803079130334861 ...................
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-[CV] c1=0.6228806234995589, c2=0.261535114687589 .....................
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-[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
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-[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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-[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
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-[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
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-[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
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-[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
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-[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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-[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
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-[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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-[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
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-[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
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-[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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-[CV] c1=0.6194603776098887, c2=0.003983838476166578 ..................
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-[CV] c1=1.529507873115847, c2=0.024136783344165424 ...................
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-[CV] c1=0.02551053031873781, c2=0.07127942992256919 ..................
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-[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
-[CV]  c1=0.39114608628354247, c2=0.04029658321961293, score=0.721334 -   1.2s
-[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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-[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
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-[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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-[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
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-[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
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-[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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-[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
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-[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
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-[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
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-[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
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-[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
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-[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
-[CV]  c1=1.1631641707070273, c2=0.023763063982595384, score=0.678288 -   1.2s
-[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
-[CV]  c1=0.2526516086542792, c2=0.00238624899782224, score=0.740663 -   1.1s
-[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
-[CV]  c1=0.4486050985597108, c2=0.00923136182458732, score=0.860729 -   1.3s
-[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
-[CV]  c1=0.39114608628354247, c2=0.04029658321961293, score=0.920970 -   1.1s
-[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
-[CV]  c1=0.07271681477281164, c2=0.02046865622687442, score=0.763058 -   0.9s
-[CV] c1=1.1631641707070273, c2=0.023763063982595384 ..................
-[CV]  c1=1.1631641707070273, c2=0.023763063982595384, score=0.548196 -   1.0s
-[CV] c1=0.2526516086542792, c2=0.00238624899782224 ...................
-[CV]  c1=0.2526516086542792, c2=0.00238624899782224, score=0.899703 -   1.1s
-[CV] c1=0.4486050985597108, c2=0.00923136182458732 ...................
-[CV]  c1=0.4486050985597108, c2=0.00923136182458732, score=0.556932 -   0.9s
-[CV] c1=0.39114608628354247, c2=0.04029658321961293 ..................
-[CV]  c1=0.39114608628354247, c2=0.04029658321961293, score=0.679766 -   1.1s
-[CV] c1=0.07271681477281164, c2=0.02046865622687442 ..................
-[CV]  c1=0.07271681477281164, c2=0.02046865622687442, score=0.720311 -   0.9s
-Training done in: 7.364966s
-     Saving training model...
-        Saving training model done in: 0.014886s
-*********************************
-Prediction done in: 0.025883s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: False False
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003735s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+           0         1
+0      lemma         2
+1     postag        CD
+2   -1:lemma  fructose
+3  -1:postag        NN
+4   -2:lemma       Cra
+5  -2:postag       NNP
+--------------------------- FeaturesTest -----------------------------
+           0           1
+0      lemma  delta-arca
+1     postag          NN
+2   -1:lemma           _
+3  -1:postag          NN
+4   +1:lemma           _
+5  +1:postag          CD
+6   -2:lemma     affyexp
+7  -2:postag          JJ
+8   +2:lemma     glucose
+9  +2:postag          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.876754 -   1.0s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.870921 -   1.0s
+[CV] c1=0.5240513458580968, c2=0.013581892070558639 ..................
+[CV]  c1=0.5240513458580968, c2=0.013581892070558639, score=0.911799 -   1.4s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
+[CV]  c1=0.8398646451603109, c2=0.015812206995340566, score=0.911799 -   1.1s
+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
+[CV]  c1=0.08086735329920966, c2=0.046728936926976494, score=0.722395 -   1.2s
+[CV] c1=0.08426040318830852, c2=0.002328265004792895 .................
+[CV]  c1=0.08426040318830852, c2=0.002328265004792895, score=0.853481 -   1.0s
+[CV] c1=1.8566153502825635, c2=0.0595145726559928 ....................
+[CV]  c1=1.8566153502825635, c2=0.0595145726559928, score=0.679217 -   1.3s
+[CV] c1=1.6432543044010746, c2=0.052616499777765384 ..................
+[CV]  c1=1.6432543044010746, c2=0.052616499777765384, score=0.870921 -   1.2s
+[CV] c1=0.8398646451603109, c2=0.015812206995340566 ..................
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+[CV] c1=0.08086735329920966, c2=0.046728936926976494 .................
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+[CV] c1=0.04963393265100299, c2=0.088551724674726 ....................
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+[CV] c1=0.1938501827725464, c2=0.060963666181269166 ..................
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+[CV] c1=0.46250133950837036, c2=0.03491945784167068 ..................
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+[CV] c1=0.16709072688926693, c2=0.03966093568152965 ..................
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+[CV] c1=0.3021941878425496, c2=0.003216589098510098 ..................
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+[CV]  c1=0.39517791711719746, c2=0.009650373540785788, score=0.815919 -   0.9s
+Training done in: 8.310973s
+     Saving training model...
+        Saving training model done in: 0.013086s
+*********************************
+Prediction done in: 0.030126s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: False False
-Report file: _v2
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003701s
--------------------------------- FEATURES --------------------------------
---------------------------Features Training ---------------------------
-           0      1
-0      lemma      1
-1     postag     CD
-2   -1:lemma     pq
-3  -1:postag     NN
-4   -2:lemma  δsoxs
-5  -2:postag     NN
---------------------------- FeaturesTest -----------------------------
-           0          1
-0      lemma  delta-fnr
-1     postag         NN
-2   -1:lemma          _
-3  -1:postag         NN
-4   +1:lemma          _
-5  +1:postag         CD
-6   -2:lemma    affyexp
-7  -2:postag         JJ
-8   +2:lemma    glucose
-9  +2:postag         NN
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
-[CV]  c1=0.14009357256950483, c2=0.009314873469817363, score=0.765174 -   1.3s
-[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
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-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
-[CV]  c1=0.676799569030537, c2=0.05862110387649719, score=0.849739 -   1.3s
-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
-[CV]  c1=0.2644150178675066, c2=0.046160424707653254, score=0.850404 -   1.5s
-[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
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-[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
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-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
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-[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
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-[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
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-[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
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-[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
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-[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
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-[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
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-[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
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-[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
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-[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
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-[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
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-[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
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-[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
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-[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
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-[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
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-[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
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-[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
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-[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
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-[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
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-[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
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-[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
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-[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
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-[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
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-[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
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-[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
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-[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
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-[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
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-[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
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-[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
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-[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
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-[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
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-[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
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-[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
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-[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
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-[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
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-[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
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-[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
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-[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
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-[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
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-[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
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-[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
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-[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
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-[CV] c1=0.10611954839898095, c2=0.006346156532999689 .................
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-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
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-[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
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-[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
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-[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
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-[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
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-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
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-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
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-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
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-[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
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-[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
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-[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
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-[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
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-[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
-[CV]  c1=0.14009357256950483, c2=0.009314873469817363, score=0.673261 -   1.2s
-[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
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-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
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-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
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-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
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-[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
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-[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
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-[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
-[CV]  c1=0.21956205153360858, c2=0.009541738536313635, score=0.763666 -   1.3s
-[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
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-[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
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-[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
-[CV]  c1=0.14009357256950483, c2=0.009314873469817363, score=0.883871 -   1.5s
-[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
-[CV]  c1=0.5652943015138516, c2=0.0037589652831553928, score=0.737002 -   1.3s
-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
-[CV]  c1=0.676799569030537, c2=0.05862110387649719, score=0.737652 -   1.3s
-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
-[CV]  c1=0.2644150178675066, c2=0.046160424707653254, score=0.765174 -   1.2s
-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
-[CV]  c1=0.7156254494091757, c2=0.04252905244564888, score=0.603550 -   1.1s
-[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
-[CV]  c1=0.927177018037934, c2=0.023269220013262686, score=0.698500 -   1.3s
-[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
-[CV]  c1=0.061878622473100685, c2=0.008830927560874847, score=0.782739 -   1.3s
-[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
-[CV]  c1=0.12334803790775734, c2=0.016826815569305428, score=0.883871 -   1.7s
-[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
-[CV]  c1=0.6555816084765733, c2=0.022533357743075463, score=0.786546 -   1.4s
-[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
-[CV]  c1=0.5243479435689085, c2=0.020264421529990553, score=0.922694 -   1.1s
-[CV] c1=0.7356533023470947, c2=0.0013731489455130663 .................
-[CV]  c1=0.7356533023470947, c2=0.0013731489455130663, score=0.630265 -   1.1s
-[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
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-[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
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-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
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-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
-[CV]  c1=0.2644150178675066, c2=0.046160424707653254, score=0.657909 -   1.2s
-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
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-[CV] c1=0.48638772360527766, c2=0.06914443790613625 ..................
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-[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
-[CV]  c1=0.6705921332964635, c2=0.014427642144010306, score=0.867483 -   1.5s
-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
-[CV]  c1=0.676799569030537, c2=0.05862110387649719, score=0.830824 -   1.3s
-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
-[CV]  c1=0.2644150178675066, c2=0.046160424707653254, score=0.878755 -   1.4s
-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
-[CV]  c1=0.7156254494091757, c2=0.04252905244564888, score=0.708142 -   0.9s
-[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
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-[CV] c1=0.6705921332964635, c2=0.014427642144010306 ..................
-[CV]  c1=0.6705921332964635, c2=0.014427642144010306, score=0.781418 -   1.3s
-[CV] c1=0.21956205153360858, c2=0.009541738536313635 .................
-[CV]  c1=0.21956205153360858, c2=0.009541738536313635, score=0.764892 -   1.3s
-[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
-[CV]  c1=0.6555816084765733, c2=0.022533357743075463, score=0.848575 -   1.3s
-[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
-[CV]  c1=0.5243479435689085, c2=0.020264421529990553, score=0.873237 -   1.3s
-[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
-[CV]  c1=0.14009357256950483, c2=0.009314873469817363, score=0.846366 -   1.3s
-[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
-[CV]  c1=0.5652943015138516, c2=0.0037589652831553928, score=0.845960 -   1.3s
-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
-[CV]  c1=0.676799569030537, c2=0.05862110387649719, score=0.860961 -   1.4s
-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
-[CV]  c1=0.2644150178675066, c2=0.046160424707653254, score=0.832898 -   1.3s
-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
-[CV]  c1=0.7156254494091757, c2=0.04252905244564888, score=0.867483 -   1.1s
-[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
-[CV]  c1=0.927177018037934, c2=0.023269220013262686, score=0.843338 -   1.2s
-[CV] c1=0.061878622473100685, c2=0.008830927560874847 ................
-[CV]  c1=0.061878622473100685, c2=0.008830927560874847, score=0.883871 -   1.4s
-[CV] c1=0.12334803790775734, c2=0.016826815569305428 .................
-[CV]  c1=0.12334803790775734, c2=0.016826815569305428, score=0.630065 -   1.2s
-[CV] c1=1.0784241377074688, c2=0.041059790429751976 ..................
-[CV]  c1=1.0784241377074688, c2=0.041059790429751976, score=0.730707 -   1.4s
-[CV] c1=0.7489529455784063, c2=0.07012128593942421 ...................
-[CV]  c1=0.7489529455784063, c2=0.07012128593942421, score=0.906931 -   1.3s
-[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
-[CV]  c1=0.14009357256950483, c2=0.009314873469817363, score=0.636829 -   1.3s
-[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
-[CV]  c1=0.5652943015138516, c2=0.0037589652831553928, score=0.747753 -   1.2s
-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
-[CV]  c1=0.676799569030537, c2=0.05862110387649719, score=0.707931 -   1.3s
-[CV] c1=0.6555816084765733, c2=0.022533357743075463 ..................
-[CV]  c1=0.6555816084765733, c2=0.022533357743075463, score=0.584620 -   1.1s
-[CV] c1=0.5243479435689085, c2=0.020264421529990553 ..................
-[CV]  c1=0.5243479435689085, c2=0.020264421529990553, score=0.631124 -   1.1s
-[CV] c1=0.927177018037934, c2=0.023269220013262686 ...................
-[CV]  c1=0.927177018037934, c2=0.023269220013262686, score=0.906931 -   1.1s
-[CV] c1=1.439077844699842, c2=0.02774426387487829 ....................
-[CV]  c1=1.439077844699842, c2=0.02774426387487829, score=0.518811 -   1.1s
-[CV] c1=0.3918550763541644, c2=0.0010997783061468906 .................
-[CV]  c1=0.3918550763541644, c2=0.0010997783061468906, score=0.660872 -   1.2s
-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
-[CV]  c1=0.676799569030537, c2=0.05862110387649719, score=0.589040 -   1.2s
-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
-[CV]  c1=0.2644150178675066, c2=0.046160424707653254, score=0.777342 -   1.3s
-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
-[CV]  c1=0.7156254494091757, c2=0.04252905244564888, score=0.841965 -   1.1s
-[CV] c1=0.14009357256950483, c2=0.009314873469817363 .................
-[CV]  c1=0.14009357256950483, c2=0.009314873469817363, score=0.855731 -   1.3s
-[CV] c1=0.5652943015138516, c2=0.0037589652831553928 .................
-[CV]  c1=0.5652943015138516, c2=0.0037589652831553928, score=0.860160 -   1.2s
-[CV] c1=0.676799569030537, c2=0.05862110387649719 ....................
-[CV]  c1=0.676799569030537, c2=0.05862110387649719, score=0.612772 -   1.3s
-[CV] c1=0.2644150178675066, c2=0.046160424707653254 ..................
-[CV]  c1=0.2644150178675066, c2=0.046160424707653254, score=0.770299 -   1.5s
-[CV] c1=0.7156254494091757, c2=0.04252905244564888 ...................
-[CV]  c1=0.7156254494091757, c2=0.04252905244564888, score=0.776162 -   1.0s
-Training done in: 8.656537s
-     Saving training model...
-        Saving training model done in: 0.013108s
-*********************************
-Prediction done in: 0.028636s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: True False
-Report file: _v9
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003860s
-{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
-{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
-[CV]  c1=0.7431164639270406, c2=0.0027998889877337263, score=0.903565 -   1.2s
-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
-[CV]  c1=0.020829028765021226, c2=0.330913244342466, score=0.630985 -   1.0s
-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
-[CV]  c1=1.1133560080812872, c2=0.03524217248955633, score=0.559014 -   0.9s
-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
-[CV]  c1=2.2946346184092543, c2=0.026838185424639973, score=0.592492 -   1.1s
-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
-[CV]  c1=1.4864633814895774, c2=0.07443280995437437, score=0.582068 -   1.1s
-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
-[CV]  c1=0.7431164639270406, c2=0.0027998889877337263, score=0.743125 -   1.0s
-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
-[CV]  c1=0.09511707500453928, c2=0.0519939941697524, score=0.866790 -   1.2s
-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
-[CV]  c1=1.1133560080812872, c2=0.03524217248955633, score=0.825330 -   1.1s
-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
-[CV]  c1=2.2946346184092543, c2=0.026838185424639973, score=0.596309 -   1.1s
-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
-[CV]  c1=1.4864633814895774, c2=0.07443280995437437, score=0.789900 -   1.2s
-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
-[CV]  c1=0.1614939954077374, c2=0.06205814047571822, score=0.603251 -   1.0s
-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
-[CV]  c1=0.09511707500453928, c2=0.0519939941697524, score=0.920970 -   1.1s
-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
-[CV]  c1=1.1133560080812872, c2=0.03524217248955633, score=0.870586 -   1.1s
-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
-[CV]  c1=2.2946346184092543, c2=0.026838185424639973, score=0.660504 -   1.1s
-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
-[CV]  c1=1.4864633814895774, c2=0.07443280995437437, score=0.605840 -   1.1s
-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
-[CV]  c1=0.7431164639270406, c2=0.0027998889877337263, score=0.865533 -   1.2s
-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
-[CV]  c1=0.09511707500453928, c2=0.0519939941697524, score=0.906853 -   1.1s
-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
-[CV]  c1=1.1533562821101506, c2=0.019354995709139386, score=0.647745 -   1.1s
-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
-[CV]  c1=0.1266383951793103, c2=0.0393032467121349, score=0.649654 -   1.0s
-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
-[CV]  c1=1.4864633814895774, c2=0.07443280995437437, score=0.824341 -   1.1s
-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
-[CV]  c1=0.7431164639270406, c2=0.0027998889877337263, score=0.701461 -   1.0s
-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
-[CV]  c1=0.09511707500453928, c2=0.0519939941697524, score=0.840539 -   1.2s
-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
-[CV]  c1=1.1133560080812872, c2=0.03524217248955633, score=0.712560 -   1.2s
-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
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-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
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-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
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-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
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-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
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-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
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-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
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-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
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-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
-[CV]  c1=0.0033333355799007253, c2=0.01971173429048602, score=0.608985 -   0.9s
-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
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-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.7431164639270406, c2=0.0027998889877337263 .................
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-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
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-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
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-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
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-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.09511707500453928, c2=0.0519939941697524 ...................
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-[CV] c1=1.1133560080812872, c2=0.03524217248955633 ...................
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-[CV] c1=2.2946346184092543, c2=0.026838185424639973 ..................
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-[CV] c1=1.4864633814895774, c2=0.07443280995437437 ...................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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-[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
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-[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
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-[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
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-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
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-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
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-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
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-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=0.1266383951793103, c2=0.0393032467121349 ....................
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-[CV] c1=0.03116962391669711, c2=0.034902897212510296 .................
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-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
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-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
-[CV]  c1=0.0033333355799007253, c2=0.01971173429048602, score=0.902145 -   1.1s
-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
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-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
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-[CV] c1=0.1614939954077374, c2=0.06205814047571822 ...................
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-[CV] c1=0.020829028765021226, c2=0.330913244342466 ...................
-[CV]  c1=0.020829028765021226, c2=0.330913244342466, score=0.888112 -   1.1s
-[CV] c1=1.1533562821101506, c2=0.019354995709139386 ..................
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-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
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-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
-[CV]  c1=1.0354026125353881, c2=0.04748423868234282, score=0.815463 -   0.9s
-[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
-[CV]  c1=0.3213690128955612, c2=0.03898256391447408, score=0.899703 -   1.2s
-[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
-[CV]  c1=0.21271540606230951, c2=0.030620357980156894, score=0.906853 -   1.2s
-[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
-[CV]  c1=1.6722766965579237, c2=0.013291004231457602, score=0.515324 -   0.9s
-[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
-[CV]  c1=0.08475757164945485, c2=0.13819696066777126, score=0.875991 -   1.1s
-[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
-[CV]  c1=0.001922394963124772, c2=0.1166032351837375, score=0.654823 -   0.8s
-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
-[CV]  c1=0.4084834008911277, c2=0.06619217123115333, score=0.708833 -   1.1s
-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
-[CV]  c1=0.0033333355799007253, c2=0.01971173429048602, score=0.767606 -   1.1s
-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
-[CV]  c1=0.7225500746993299, c2=0.17031685283847245, score=0.804756 -   1.1s
-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
-[CV]  c1=2.0488638507950374, c2=0.05830217300206339, score=0.605600 -   1.1s
-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
-[CV]  c1=1.0354026125353881, c2=0.04748423868234282, score=0.720505 -   1.1s
-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
-[CV]  c1=0.4084834008911277, c2=0.06619217123115333, score=0.660012 -   1.0s
-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
-[CV]  c1=0.0033333355799007253, c2=0.01971173429048602, score=0.727470 -   1.2s
-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
-[CV]  c1=0.7225500746993299, c2=0.17031685283847245, score=0.648834 -   1.1s
-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
-[CV]  c1=2.0488638507950374, c2=0.05830217300206339, score=0.779045 -   1.1s
-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
-[CV]  c1=1.0354026125353881, c2=0.04748423868234282, score=0.870586 -   0.9s
-[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
-[CV]  c1=0.3213690128955612, c2=0.03898256391447408, score=0.721334 -   1.3s
-[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
-[CV]  c1=0.21271540606230951, c2=0.030620357980156894, score=0.920970 -   1.2s
-[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
-[CV]  c1=1.6722766965579237, c2=0.013291004231457602, score=0.824341 -   1.1s
-[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
-[CV]  c1=0.08475757164945485, c2=0.13819696066777126, score=0.608719 -   0.9s
-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
-[CV]  c1=1.0354026125353881, c2=0.04748423868234282, score=0.552580 -   0.9s
-[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
-[CV]  c1=0.3213690128955612, c2=0.03898256391447408, score=0.761418 -   1.1s
-[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
-[CV]  c1=0.21271540606230951, c2=0.030620357980156894, score=0.866790 -   1.1s
-[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
-[CV]  c1=1.6722766965579237, c2=0.013291004231457602, score=0.621156 -   1.1s
-[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
-[CV]  c1=0.08475757164945485, c2=0.13819696066777126, score=0.856015 -   1.2s
-[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
-[CV]  c1=0.001922394963124772, c2=0.1166032351837375, score=0.660510 -   0.8s
-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
-[CV]  c1=0.4084834008911277, c2=0.06619217123115333, score=0.854423 -   1.1s
-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
-[CV]  c1=0.0033333355799007253, c2=0.01971173429048602, score=0.867500 -   1.1s
-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
-[CV]  c1=0.7225500746993299, c2=0.17031685283847245, score=0.668774 -   1.2s
-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
-[CV]  c1=2.0488638507950374, c2=0.05830217300206339, score=0.596309 -   1.0s
-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
-[CV]  c1=1.0354026125353881, c2=0.04748423868234282, score=0.787287 -   1.1s
-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
-[CV]  c1=0.4084834008911277, c2=0.06619217123115333, score=0.860755 -   1.2s
-[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
-[CV]  c1=0.21271540606230951, c2=0.030620357980156894, score=0.674776 -   1.0s
-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
-[CV]  c1=0.7225500746993299, c2=0.17031685283847245, score=0.787287 -   1.2s
-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
-[CV]  c1=2.0488638507950374, c2=0.05830217300206339, score=0.503462 -   1.0s
-[CV] c1=1.0354026125353881, c2=0.04748423868234282 ...................
-[CV]  c1=1.0354026125353881, c2=0.04748423868234282, score=0.830130 -   1.1s
-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
-[CV]  c1=0.4084834008911277, c2=0.06619217123115333, score=0.919762 -   1.1s
-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
-[CV]  c1=0.0033333355799007253, c2=0.01971173429048602, score=0.935386 -   1.1s
-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
-[CV]  c1=0.7225500746993299, c2=0.17031685283847245, score=0.815463 -   1.1s
-[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
-[CV]  c1=0.08475757164945485, c2=0.13819696066777126, score=0.720311 -   1.2s
-[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
-[CV]  c1=0.001922394963124772, c2=0.1166032351837375, score=0.867500 -   0.9s
-[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
-[CV]  c1=0.3213690128955612, c2=0.03898256391447408, score=0.679766 -   1.1s
-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
-[CV]  c1=0.0033333355799007253, c2=0.01971173429048602, score=0.716313 -   1.1s
-[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
-[CV]  c1=1.6722766965579237, c2=0.013291004231457602, score=0.643620 -   1.1s
-[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
-[CV]  c1=0.08475757164945485, c2=0.13819696066777126, score=0.652192 -   1.3s
-[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
-[CV]  c1=0.001922394963124772, c2=0.1166032351837375, score=0.875991 -   0.9s
-[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
-[CV]  c1=0.3213690128955612, c2=0.03898256391447408, score=0.575822 -   0.9s
-[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
-[CV]  c1=0.21271540606230951, c2=0.030620357980156894, score=0.713945 -   1.1s
-[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
-[CV]  c1=1.6722766965579237, c2=0.013291004231457602, score=0.723537 -   1.1s
-[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
-[CV]  c1=0.08475757164945485, c2=0.13819696066777126, score=0.735257 -   1.2s
-[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
-[CV]  c1=0.001922394963124772, c2=0.1166032351837375, score=0.906853 -   0.9s
-[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
-[CV]  c1=0.3213690128955612, c2=0.03898256391447408, score=0.770586 -   1.1s
-[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
-[CV]  c1=0.21271540606230951, c2=0.030620357980156894, score=0.693714 -   1.2s
-[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
-[CV]  c1=1.6722766965579237, c2=0.013291004231457602, score=0.667190 -   1.1s
-[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
-[CV]  c1=0.08475757164945485, c2=0.13819696066777126, score=0.906853 -   1.1s
-[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
-[CV]  c1=0.001922394963124772, c2=0.1166032351837375, score=0.607039 -   0.8s
-[CV] c1=0.3213690128955612, c2=0.03898256391447408 ...................
-[CV]  c1=0.3213690128955612, c2=0.03898256391447408, score=0.867217 -   1.1s
-[CV] c1=0.21271540606230951, c2=0.030620357980156894 .................
-[CV]  c1=0.21271540606230951, c2=0.030620357980156894, score=0.814619 -   1.1s
-[CV] c1=1.6722766965579237, c2=0.013291004231457602 ..................
-[CV]  c1=1.6722766965579237, c2=0.013291004231457602, score=0.607625 -   1.1s
-[CV] c1=0.08475757164945485, c2=0.13819696066777126 ..................
-[CV]  c1=0.08475757164945485, c2=0.13819696066777126, score=0.680867 -   1.1s
-[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
-[CV]  c1=0.001922394963124772, c2=0.1166032351837375, score=0.848001 -   1.0s
-[CV] c1=0.4084834008911277, c2=0.06619217123115333 ...................
-[CV]  c1=0.4084834008911277, c2=0.06619217123115333, score=0.673541 -   1.1s
-[CV] c1=0.0033333355799007253, c2=0.01971173429048602 ................
-[CV]  c1=0.0033333355799007253, c2=0.01971173429048602, score=0.866790 -   1.1s
-[CV] c1=0.7225500746993299, c2=0.17031685283847245 ...................
-[CV]  c1=0.7225500746993299, c2=0.17031685283847245, score=0.852672 -   1.1s
-[CV] c1=2.0488638507950374, c2=0.05830217300206339 ...................
-[CV]  c1=2.0488638507950374, c2=0.05830217300206339, score=0.778713 -   1.2s
-[CV] c1=0.001922394963124772, c2=0.1166032351837375 ..................
-[CV]  c1=0.001922394963124772, c2=0.1166032351837375, score=0.724290 -   1.1s
-Training done in: 7.322848s
-     Saving training model...
-        Saving training model done in: 0.013721s
-*********************************
-Prediction done in: 0.023824s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: True False
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003670s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+             0         1
+0        lemma         2
+1       postag        CD
+2     -1:lemma  fructose
+3    -1:postag        NN
+4       hUpper     False
+5       hLower     False
+6       hGreek     False
+7         symb     False
+8    lemma[:1]         2
+9   postag[:1]         C
+10  postag[:2]        CD
+11    -2:lemma       Cra
+12   -2:postag       NNP
+--------------------------- FeaturesTest -----------------------------
+             0           1
+0        lemma  delta-arca
+1       postag          NN
+2     -1:lemma           _
+3    -1:postag          NN
+4     +1:lemma           _
+5    +1:postag          CD
+6       hUpper        True
+7       hLower        True
+8       hGreek       False
+9         symb        True
+10   lemma[:1]           d
+11  postag[:1]           N
+12   lemma[:2]          de
+13  postag[:2]          NN
+14    -2:lemma     affyexp
+15   -2:postag          JJ
+16    +2:lemma     glucose
+17   +2:postag          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.744355 -   1.3s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.822757 -   1.4s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.918061 -   1.9s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.894139 -   1.6s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.864177 -   1.5s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.876836 -   1.2s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.820742 -   1.6s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.825305 -   1.4s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.918061 -   1.4s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.683730 -   1.5s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.862409 -   1.2s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.974589 -   1.8s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.852603 -   1.6s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.856825 -   1.4s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.823313 -   1.6s
+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
+[CV]  c1=0.005294883330735351, c2=0.01797692767656751, score=0.892089 -   1.5s
+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
+[CV]  c1=0.4737963896619468, c2=0.010699938700759807, score=0.862528 -   1.6s
+[CV] c1=0.09326310944142512, c2=0.02293857362257262 ..................
+[CV]  c1=0.09326310944142512, c2=0.02293857362257262, score=0.926731 -   1.4s
+[CV] c1=0.19547632362615144, c2=0.051817682646593026 .................
+[CV]  c1=0.19547632362615144, c2=0.051817682646593026, score=0.839218 -   1.6s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.843508 -   1.3s
+[CV] c1=0.9362245178762235, c2=0.0036840823697806197 .................
+[CV]  c1=0.9362245178762235, c2=0.0036840823697806197, score=0.808908 -   1.2s
+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
+[CV]  c1=0.21944861613366148, c2=0.007493367060064349, score=0.850984 -   1.6s
+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
+[CV]  c1=0.13542106358526157, c2=0.06613572987227866, score=0.844946 -   1.6s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.854858 -   2.1s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.913115 -   1.5s
+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
+[CV]  c1=0.015260815191617596, c2=0.010533468233650554, score=0.817270 -   1.8s
+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.927009 -   2.0s
+[CV] c1=1.1770464694382454, c2=0.07280122254622126 ...................
+[CV]  c1=1.1770464694382454, c2=0.07280122254622126, score=0.593314 -   1.9s
+[CV] c1=0.151964914335486, c2=0.06419525243307017 ....................
+[CV]  c1=0.151964914335486, c2=0.06419525243307017, score=0.893806 -   1.5s
+[CV] c1=1.508340551127507, c2=0.021335543550593316 ...................
+[CV]  c1=1.508340551127507, c2=0.021335543550593316, score=0.593314 -   1.8s
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+[CV] c1=0.005294883330735351, c2=0.01797692767656751 .................
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+[CV] c1=0.4737963896619468, c2=0.010699938700759807 ..................
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+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
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+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
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+[CV] c1=0.41069923197664315, c2=0.02601572011706776 ..................
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+[CV] c1=0.6526918794500971, c2=0.014168653025375195 ..................
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+[CV] c1=0.21944861613366148, c2=0.007493367060064349 .................
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+[CV] c1=0.13542106358526157, c2=0.06613572987227866 ..................
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+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
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+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
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+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
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+[CV] c1=0.015260815191617596, c2=0.010533468233650554 ................
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+[CV] c1=1.1791456131357725, c2=0.009905947625121205 ..................
+[CV]  c1=1.1791456131357725, c2=0.009905947625121205, score=0.791058 -   1.6s
+[CV] c1=0.01625033152790397, c2=0.004437967561302151 .................
+[CV]  c1=0.01625033152790397, c2=0.004437967561302151, score=0.722450 -   1.9s
+[CV] c1=1.0574768522936129, c2=0.010094693629619428 ..................
+[CV]  c1=1.0574768522936129, c2=0.010094693629619428, score=0.868514 -   1.6s
+[CV] c1=0.4639226651882826, c2=0.1771708074662829 ....................
+[CV]  c1=0.4639226651882826, c2=0.1771708074662829, score=0.898935 -   1.4s
+Training done in: 10.548893s
+     Saving training model...
+        Saving training model done in: 0.013080s
+*********************************
+Prediction done in: 0.041656s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: True False
-Report file: _v2
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003824s
--------------------------------- FEATURES --------------------------------
---------------------------Features Training ---------------------------
-            0      1
-0       lemma      1
-1      postag     CD
-2    -1:lemma     pq
-3   -1:postag     NN
-4      hUpper  False
-5      hLower  False
-6      hGreek  False
-7        symb  False
-8    word[:1]      1
-9    -2:lemma  δsoxs
-10  -2:postag     NN
---------------------------- FeaturesTest -----------------------------
-            0          1
-0       lemma  delta-fnr
-1      postag         NN
-2    -1:lemma          _
-3   -1:postag         NN
-4    +1:lemma          _
-5   +1:postag         CD
-6      hUpper      False
-7      hLower      False
-8      hGreek      False
-9        symb       True
-10   word[:1]          d
-11   word[:2]         de
-12   -2:lemma    affyexp
-13  -2:postag         JJ
-14   +2:lemma    glucose
-15  +2:postag         NN
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
-[CV]  c1=0.2615074589465166, c2=0.00276705652339924, score=0.748989 -   1.5s
-[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
-[CV]  c1=0.5185417642698361, c2=0.053008807244735806, score=0.688607 -   1.2s
-[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
-[CV]  c1=0.15577693298267048, c2=0.06637448911598333, score=0.705446 -   1.3s
-[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
-[CV]  c1=0.823900513809091, c2=0.0387534873299443, score=0.844579 -   1.6s
-[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
-[CV]  c1=0.6399264634452653, c2=0.014870218135147216, score=0.682226 -   1.5s
-[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
-[CV]  c1=0.12876611002706792, c2=0.005687634151887815, score=0.701013 -   1.3s
-[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
-[CV]  c1=0.4343684628584727, c2=0.035865115766266005, score=0.895566 -   1.8s
-[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
-[CV]  c1=0.823900513809091, c2=0.0387534873299443, score=0.719074 -   1.7s
-[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
-[CV]  c1=0.6399264634452653, c2=0.014870218135147216, score=0.724487 -   1.6s
-[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
-[CV]  c1=0.11430921774270934, c2=0.06174595493921575, score=0.868519 -   1.1s
-[CV] c1=0.5185417642698361, c2=0.053008807244735806 ..................
-[CV]  c1=0.5185417642698361, c2=0.053008807244735806, score=0.682226 -   1.4s
-[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
-[CV]  c1=0.15577693298267048, c2=0.06637448911598333, score=0.947516 -   1.6s
-[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
-[CV]  c1=0.823900513809091, c2=0.0387534873299443, score=0.933155 -   1.6s
-[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
-[CV]  c1=0.6399264634452653, c2=0.014870218135147216, score=0.727054 -   1.3s
-[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
-[CV]  c1=0.2615074589465166, c2=0.00276705652339924, score=0.917847 -   1.3s
-[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
-[CV]  c1=0.4188873236253328, c2=0.0026616054692428534, score=0.738970 -   1.3s
-[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
-[CV]  c1=0.15577693298267048, c2=0.06637448911598333, score=0.907093 -   1.6s
-[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
-[CV]  c1=0.823900513809091, c2=0.0387534873299443, score=0.868659 -   1.7s
-[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
-[CV]  c1=0.6399264634452653, c2=0.014870218135147216, score=0.780640 -   1.5s
-[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
-[CV]  c1=1.3873487379708354, c2=0.05280678047492682, score=0.683958 -   1.4s
-[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
-[CV]  c1=0.4188873236253328, c2=0.0026616054692428534, score=0.705265 -   1.4s
-[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
-[CV]  c1=0.15577693298267048, c2=0.06637448911598333, score=0.732294 -   1.6s
-[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
-[CV]  c1=0.4187966865740437, c2=0.19166197167501114, score=0.931297 -   1.9s
-[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
-[CV]  c1=0.6399264634452653, c2=0.014870218135147216, score=0.878329 -   1.6s
-[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
-[CV]  c1=1.3873487379708354, c2=0.05280678047492682, score=0.773191 -   1.4s
-[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
-[CV]  c1=0.4188873236253328, c2=0.0026616054692428534, score=0.885638 -   1.6s
-[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
-[CV]  c1=0.15577693298267048, c2=0.06637448911598333, score=0.891699 -   1.7s
-[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
-[CV]  c1=0.823900513809091, c2=0.0387534873299443, score=0.673861 -   1.6s
-[CV] c1=0.6399264634452653, c2=0.014870218135147216 ..................
-[CV]  c1=0.6399264634452653, c2=0.014870218135147216, score=0.842875 -   1.7s
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-[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
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-[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
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-[CV] c1=0.25383138714597037, c2=0.04263753154943412 ..................
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-[CV] c1=0.5229213398180802, c2=0.05988470409107292 ...................
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-[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
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-[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
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-[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
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-[CV] c1=1.0068963881008774, c2=0.0209795411094058 ....................
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-[CV] c1=0.031180803180743573, c2=0.07896645089543503 .................
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-[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
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-[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
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-[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
-[CV]  c1=0.4187966865740437, c2=0.19166197167501114, score=0.802981 -   1.5s
-[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
-[CV]  c1=0.010635150805068118, c2=0.013559125772358571, score=0.726092 -   1.5s
-[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
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-[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
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-[CV] c1=0.25383138714597037, c2=0.04263753154943412 ..................
-[CV]  c1=0.25383138714597037, c2=0.04263753154943412, score=0.703965 -   1.3s
-[CV] c1=0.5229213398180802, c2=0.05988470409107292 ...................
-[CV]  c1=0.5229213398180802, c2=0.05988470409107292, score=0.870490 -   1.7s
-[CV] c1=1.0068963881008774, c2=0.0209795411094058 ....................
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-[CV] c1=0.031180803180743573, c2=0.07896645089543503 .................
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-[CV] c1=0.11430921774270934, c2=0.06174595493921575 ..................
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-[CV] c1=0.25383138714597037, c2=0.04263753154943412 ..................
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-[CV] c1=0.5229213398180802, c2=0.05988470409107292 ...................
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-[CV] c1=1.0068963881008774, c2=0.0209795411094058 ....................
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-[CV] c1=0.031180803180743573, c2=0.07896645089543503 .................
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-[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
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-[CV] c1=0.25383138714597037, c2=0.04263753154943412 ..................
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-[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
-[CV]  c1=0.4187966865740437, c2=0.19166197167501114, score=0.724487 -   1.8s
-[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
-[CV]  c1=0.010635150805068118, c2=0.013559125772358571, score=0.772487 -   1.5s
-[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
-[CV]  c1=0.5348883068759939, c2=0.00832448452340161, score=0.780640 -   1.2s
-[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
-[CV]  c1=1.3873487379708354, c2=0.05280678047492682, score=0.796445 -   1.5s
-[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
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-[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
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-[CV] c1=0.35338694963813927, c2=0.027153986749367698 .................
-[CV]  c1=0.35338694963813927, c2=0.027153986749367698, score=0.696425 -   2.1s
-[CV] c1=0.031180803180743573, c2=0.07896645089543503 .................
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-[CV] c1=1.3873487379708354, c2=0.05280678047492682 ...................
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-[CV] c1=0.4188873236253328, c2=0.0026616054692428534 .................
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-[CV] c1=0.15577693298267048, c2=0.06637448911598333 ..................
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-[CV] c1=0.823900513809091, c2=0.0387534873299443 .....................
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-[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
-[CV]  c1=0.010635150805068118, c2=0.013559125772358571, score=0.714227 -   1.4s
-[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
-[CV]  c1=0.5348883068759939, c2=0.00832448452340161, score=0.736407 -   1.2s
-[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
-[CV]  c1=0.12876611002706792, c2=0.005687634151887815, score=0.706154 -   1.6s
-[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
-[CV]  c1=0.4343684628584727, c2=0.035865115766266005, score=0.873506 -   1.7s
-[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
-[CV]  c1=0.4187966865740437, c2=0.19166197167501114, score=0.725229 -   1.8s
-[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
-[CV]  c1=0.010635150805068118, c2=0.013559125772358571, score=0.914459 -   1.5s
-[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
-[CV]  c1=0.5348883068759939, c2=0.00832448452340161, score=0.705264 -   1.0s
-[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
-[CV]  c1=0.12876611002706792, c2=0.005687634151887815, score=0.891699 -   1.8s
-[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
-[CV]  c1=0.4343684628584727, c2=0.035865115766266005, score=0.759154 -   1.5s
-[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
-[CV]  c1=0.4187966865740437, c2=0.19166197167501114, score=0.881296 -   1.5s
-[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
-[CV]  c1=0.010635150805068118, c2=0.013559125772358571, score=0.891699 -   1.6s
-[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
-[CV]  c1=0.5348883068759939, c2=0.00832448452340161, score=0.895584 -   1.4s
-[CV] c1=0.2615074589465166, c2=0.00276705652339924 ...................
-[CV]  c1=0.2615074589465166, c2=0.00276705652339924, score=0.933576 -   1.9s
-[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
-[CV]  c1=0.4343684628584727, c2=0.035865115766266005, score=0.727640 -   1.7s
-[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
-[CV]  c1=0.4187966865740437, c2=0.19166197167501114, score=0.894300 -   1.7s
-[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
-[CV]  c1=0.010635150805068118, c2=0.013559125772358571, score=0.903099 -   1.7s
-[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
-[CV]  c1=0.5348883068759939, c2=0.00832448452340161, score=0.759154 -   1.2s
-[CV] c1=0.12876611002706792, c2=0.005687634151887815 .................
-[CV]  c1=0.12876611002706792, c2=0.005687634151887815, score=0.914459 -   1.6s
-[CV] c1=0.4343684628584727, c2=0.035865115766266005 ..................
-[CV]  c1=0.4343684628584727, c2=0.035865115766266005, score=0.926812 -   1.5s
-[CV] c1=0.4187966865740437, c2=0.19166197167501114 ...................
-[CV]  c1=0.4187966865740437, c2=0.19166197167501114, score=0.855051 -   1.6s
-[CV] c1=0.010635150805068118, c2=0.013559125772358571 ................
-[CV]  c1=0.010635150805068118, c2=0.013559125772358571, score=0.886041 -   1.6s
-[CV] c1=0.5348883068759939, c2=0.00832448452340161 ...................
-[CV]  c1=0.5348883068759939, c2=0.00832448452340161, score=0.933155 -   1.2s
-Training done in: 10.407644s
-     Saving training model...
-        Saving training model done in: 0.013260s
-*********************************
-Prediction done in: 0.035441s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: False True
-Report file: _v9
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003661s
-{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
-{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
-[CV]  c1=0.8576127193843588, c2=0.011655958946285804, score=0.568777 -   0.8s
-[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
-[CV]  c1=0.6043003012819512, c2=0.0016246066449729678, score=0.761418 -   1.3s
-[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
-[CV]  c1=0.8830586244748654, c2=0.08016526354894071, score=0.815463 -   1.1s
-[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
-[CV]  c1=0.4160233685238722, c2=0.015614531623244441, score=0.761418 -   1.1s
-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
-[CV]  c1=0.7882460794764874, c2=0.008314409656759104, score=0.753693 -   1.1s
-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
-[CV]  c1=0.8576127193843588, c2=0.011655958946285804, score=0.651934 -   1.0s
-[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
-[CV]  c1=0.6043003012819512, c2=0.0016246066449729678, score=0.789190 -   1.2s
-[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
-[CV]  c1=0.8830586244748654, c2=0.08016526354894071, score=0.558164 -   0.9s
-[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
-[CV]  c1=0.4160233685238722, c2=0.015614531623244441, score=0.860729 -   1.2s
-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
-[CV]  c1=0.7882460794764874, c2=0.008314409656759104, score=0.794740 -   1.1s
-[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
-[CV]  c1=0.03962800005233316, c2=0.022576612705236622, score=0.866790 -   0.8s
-[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
-[CV]  c1=0.6043003012819512, c2=0.0016246066449729678, score=0.666440 -   1.0s
-[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
-[CV]  c1=0.8830586244748654, c2=0.08016526354894071, score=0.691890 -   1.0s
-[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
-[CV]  c1=1.4731035528519316, c2=0.0985918850323886, score=0.824341 -   1.2s
-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
-[CV]  c1=0.7882460794764874, c2=0.008314409656759104, score=0.694072 -   1.2s
-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.761418 -   1.1s
-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
-[CV]  c1=1.6387163642774465, c2=0.006347413830953892, score=0.662630 -   1.3s
-[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
-[CV]  c1=0.4160233685238722, c2=0.015614531623244441, score=0.703150 -   1.2s
-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
-[CV]  c1=0.7882460794764874, c2=0.008314409656759104, score=0.659253 -   1.0s
-[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
-[CV]  c1=0.6639775093102331, c2=0.05327533729445978, score=0.659121 -   1.0s
-[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
-[CV]  c1=0.6043003012819512, c2=0.0016246066449729678, score=0.538621 -   1.0s
-[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
-[CV]  c1=0.8830586244748654, c2=0.08016526354894071, score=0.712560 -   1.1s
-[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
-[CV]  c1=0.4160233685238722, c2=0.015614531623244441, score=0.920970 -   1.1s
-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
-[CV]  c1=0.7882460794764874, c2=0.008314409656759104, score=0.852821 -   1.2s
-[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
-[CV]  c1=0.03962800005233316, c2=0.022576612705236622, score=0.652192 -   0.8s
-[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
-[CV]  c1=0.6043003012819512, c2=0.0016246066449729678, score=0.716266 -   1.2s
-[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
-[CV]  c1=0.8830586244748654, c2=0.08016526354894071, score=0.716676 -   1.2s
-[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
-[CV]  c1=0.4160233685238722, c2=0.015614531623244441, score=0.867889 -   1.1s
-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
-[CV]  c1=0.7882460794764874, c2=0.008314409656759104, score=0.739174 -   1.2s
-[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
-[CV]  c1=0.03962800005233316, c2=0.022576612705236622, score=0.723492 -   1.0s
-[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
-[CV]  c1=0.6043003012819512, c2=0.0016246066449729678, score=0.857493 -   1.2s
-[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
-[CV]  c1=0.8830586244748654, c2=0.08016526354894071, score=0.826261 -   1.3s
-[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
-[CV]  c1=0.4160233685238722, c2=0.015614531623244441, score=0.553248 -   1.1s
-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
-[CV]  c1=0.7882460794764874, c2=0.008314409656759104, score=0.561630 -   1.2s
-[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
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-[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
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-[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
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-[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
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-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
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-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
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-[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.8830586244748654, c2=0.08016526354894071 ...................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.7882460794764874, c2=0.008314409656759104 ..................
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-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
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-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
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-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
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-[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
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-[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
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-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
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-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
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-[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
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-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
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-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
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-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
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-[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
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-[CV] c1=0.6043003012819512, c2=0.0016246066449729678 .................
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-[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
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-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
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-[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
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-[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
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-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
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-[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
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-[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
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-[CV] c1=2.2502498485352547, c2=0.014818926001867778 ..................
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-[CV] c1=0.061316816538251634, c2=0.10728243189441995 .................
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-[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
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-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
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-[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
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-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
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-[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
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-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
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-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
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-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
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-[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
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-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
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-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
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-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
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-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
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-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
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-[CV] c1=0.03962800005233316, c2=0.022576612705236622 .................
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-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
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-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
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-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
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-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
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-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
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-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
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-[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
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-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
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-[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
-[CV]  c1=1.4731035528519316, c2=0.0985918850323886, score=0.643620 -   1.1s
-[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
-[CV]  c1=0.2936978694984962, c2=0.18231632927233646, score=0.892456 -   1.0s
-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.679766 -   1.0s
-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
-[CV]  c1=0.09824882728525007, c2=0.01967357302620265, score=0.741434 -   1.2s
-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
-[CV]  c1=0.5517747693290754, c2=0.03723059660924028, score=0.729308 -   1.1s
-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
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-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.920970 -   1.1s
-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
-[CV]  c1=1.6387163642774465, c2=0.006347413830953892, score=0.723537 -   1.3s
-[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
-[CV]  c1=1.4731035528519316, c2=0.0985918850323886, score=0.682607 -   1.2s
-[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
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-[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
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-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.710539 -   1.1s
-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
-[CV]  c1=0.09824882728525007, c2=0.01967357302620265, score=0.598446 -   1.0s
-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
-[CV]  c1=0.5517747693290754, c2=0.03723059660924028, score=0.761818 -   1.2s
-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
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-[CV] c1=0.8576127193843588, c2=0.011655958946285804 ..................
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-[CV] c1=0.18334620784152844, c2=0.008065728975440238 .................
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-[CV] c1=0.9896982442127485, c2=0.029349684897034673 ..................
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-[CV] c1=0.7431358277276424, c2=0.011105476280036924 ..................
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-[CV] c1=0.2936978694984962, c2=0.18231632927233646 ...................
-[CV]  c1=0.2936978694984962, c2=0.18231632927233646, score=0.717219 -   1.1s
-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.899703 -   1.3s
-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
-[CV]  c1=1.6387163642774465, c2=0.006347413830953892, score=0.517508 -   0.9s
-[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
-[CV]  c1=1.4731035528519316, c2=0.0985918850323886, score=0.788076 -   1.2s
-[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
-[CV]  c1=0.03993462764763037, c2=0.10539193423951572, score=0.877650 -   1.2s
-[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
-[CV]  c1=0.011903408156662585, c2=0.0023869256052412744, score=0.935386 -   0.9s
-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.841313 -   1.2s
-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
-[CV]  c1=1.6387163642774465, c2=0.006347413830953892, score=0.673654 -   1.3s
-[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
-[CV]  c1=1.4731035528519316, c2=0.0985918850323886, score=0.518602 -   1.0s
-[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
-[CV]  c1=0.03993462764763037, c2=0.10539193423951572, score=0.654694 -   1.2s
-[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
-[CV]  c1=0.011903408156662585, c2=0.0023869256052412744, score=0.741434 -   0.9s
-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.863440 -   1.1s
-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
-[CV]  c1=1.6387163642774465, c2=0.006347413830953892, score=0.789900 -   1.2s
-[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
-[CV]  c1=1.4731035528519316, c2=0.0985918850323886, score=0.698163 -   1.1s
-[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
-[CV]  c1=0.03993462764763037, c2=0.10539193423951572, score=0.730124 -   1.0s
-[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
-[CV]  c1=0.011903408156662585, c2=0.0023869256052412744, score=0.664655 -   1.0s
-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.570419 -   0.9s
-[CV] c1=0.09824882728525007, c2=0.01967357302620265 ..................
-[CV]  c1=0.09824882728525007, c2=0.01967357302620265, score=0.920970 -   1.1s
-[CV] c1=0.5517747693290754, c2=0.03723059660924028 ...................
-[CV]  c1=0.5517747693290754, c2=0.03723059660924028, score=0.852821 -   1.2s
-[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
-[CV]  c1=0.03993462764763037, c2=0.10539193423951572, score=0.720311 -   1.3s
-[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
-[CV]  c1=0.011903408156662585, c2=0.0023869256052412744, score=0.923613 -   0.8s
-[CV] c1=0.38596509561932013, c2=0.021114690490169043 .................
-[CV]  c1=0.38596509561932013, c2=0.021114690490169043, score=0.772136 -   1.3s
-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
-[CV]  c1=1.6387163642774465, c2=0.006347413830953892, score=0.843581 -   1.2s
-[CV] c1=0.4160233685238722, c2=0.015614531623244441 ..................
-[CV]  c1=0.4160233685238722, c2=0.015614531623244441, score=0.679766 -   1.0s
-[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
-[CV]  c1=0.03993462764763037, c2=0.10539193423951572, score=0.875991 -   1.1s
-[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
-[CV]  c1=0.011903408156662585, c2=0.0023869256052412744, score=0.707036 -   0.9s
-[CV] c1=0.6639775093102331, c2=0.05327533729445978 ...................
-[CV]  c1=0.6639775093102331, c2=0.05327533729445978, score=0.682045 -   1.2s
-[CV] c1=1.6387163642774465, c2=0.006347413830953892 ..................
-[CV]  c1=1.6387163642774465, c2=0.006347413830953892, score=0.599660 -   1.3s
-[CV] c1=1.4731035528519316, c2=0.0985918850323886 ....................
-[CV]  c1=1.4731035528519316, c2=0.0985918850323886, score=0.605840 -   1.1s
-[CV] c1=0.03993462764763037, c2=0.10539193423951572 ..................
-[CV]  c1=0.03993462764763037, c2=0.10539193423951572, score=0.866790 -   1.2s
-[CV] c1=0.011903408156662585, c2=0.0023869256052412744 ...............
-[CV]  c1=0.011903408156662585, c2=0.0023869256052412744, score=0.927704 -   0.9s
-Training done in: 7.249866s
-     Saving training model...
-        Saving training model done in: 0.014392s
-*********************************
-Prediction done in: 0.025039s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: False True
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003621s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+            0         1
+0       lemma         2
+1      postag        CD
+2    -1:lemma  fructose
+3   -1:postag        NN
+4        word         2
+5     isUpper     False
+6     isLower     False
+7     isGreek     False
+8    isNumber      True
+9     -1:word  fructose
+10   -2:lemma       Cra
+11  -2:postag       NNP
+--------------------------- FeaturesTest -----------------------------
+            0           1
+0       lemma  delta-arca
+1      postag          NN
+2    -1:lemma           _
+3   -1:postag          NN
+4    +1:lemma           _
+5   +1:postag          CD
+6        word  delta-arcA
+7     isUpper       False
+8     isLower       False
+9     isGreek       False
+10   isNumber       False
+11    -1:word           _
+12    +1:word           _
+13   -2:lemma     affyexp
+14  -2:postag          JJ
+15   +2:lemma     glucose
+16  +2:postag          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.612088 -   1.6s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.807235 -   1.7s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.913784 -   1.8s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.882162 -   1.6s
+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
+[CV]  c1=1.31221984858164, c2=0.02750876882572302, score=0.846837 -   1.6s
+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.932685 -   1.8s
+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
+[CV]  c1=0.6959486853419434, c2=0.0462324893691317, score=0.832339 -   1.5s
+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.787078 -   1.5s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.839624 -   1.3s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
+[CV]  c1=0.9083002880554646, c2=0.06812733950477726, score=0.832339 -   1.3s
+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
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+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
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+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
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+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
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+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
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+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
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+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
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+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
+[CV]  c1=1.153575870900293, c2=0.05542813661094087, score=0.902496 -   1.5s
+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
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+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
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+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
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+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
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+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
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+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
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+[CV] c1=0.05358633536650553, c2=0.026273042598892418 .................
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+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
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+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
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+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
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+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
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+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
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+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
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+[CV] c1=1.4441295867817865, c2=0.04617298610100537 ...................
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+[CV] c1=0.4268730139997736, c2=0.05952759417093106 ...................
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+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
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+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
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+[CV] c1=0.5156471700537973, c2=0.02054673519357734 ...................
+[CV]  c1=0.5156471700537973, c2=0.02054673519357734, score=0.840175 -   1.0s
+[CV] c1=0.9083002880554646, c2=0.06812733950477726 ...................
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+[CV] c1=0.3260719095302179, c2=0.006813084571107944 ..................
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+[CV] c1=0.6959486853419434, c2=0.0462324893691317 ....................
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+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
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+[CV] c1=0.9736319201376714, c2=0.005278958003940855 ..................
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+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
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+[CV] c1=0.2523286024761347, c2=0.0139653511518441 ....................
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+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
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+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
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+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
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+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
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+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
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+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
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+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
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+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
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+[CV] c1=1.2139996411914353, c2=0.031522439704619994 ..................
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+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
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+[CV] c1=1.153575870900293, c2=0.05542813661094087 ....................
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+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
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+[CV] c1=1.31221984858164, c2=0.02750876882572302 .....................
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+[CV] c1=0.22410917154971952, c2=0.0741115060611966 ...................
+[CV]  c1=0.22410917154971952, c2=0.0741115060611966, score=0.931991 -   1.5s
+[CV] c1=0.3711464209171215, c2=0.026426512830792455 ..................
+[CV]  c1=0.3711464209171215, c2=0.026426512830792455, score=0.712169 -   1.6s
+[CV] c1=1.7997186106473309, c2=0.0754349182496969 ....................
+[CV]  c1=1.7997186106473309, c2=0.0754349182496969, score=0.774478 -   1.7s
+[CV] c1=0.33946363371240573, c2=0.06622555496570426 ..................
+[CV]  c1=0.33946363371240573, c2=0.06622555496570426, score=0.913784 -   1.2s
+Training done in: 10.202275s
+     Saving training model...
+        Saving training model done in: 0.014887s
+*********************************
+Prediction done in: 0.043297s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: False True
-Report file: _v2
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003552s
--------------------------------- FEATURES --------------------------------
---------------------------Features Training ---------------------------
-            0      1
-0       lemma      1
-1      postag     CD
-2    -1:lemma     pq
-3   -1:postag     NN
-4        word      1
-5     isUpper  False
-6     isLower  False
-7     isGreek  False
-8    isNumber   True
-9     -1:word     PQ
-10   -2:lemma  δsoxs
-11  -2:postag     NN
---------------------------- FeaturesTest -----------------------------
-            0          1
-0       lemma  delta-fnr
-1      postag         NN
-2    -1:lemma          _
-3   -1:postag         NN
-4    +1:lemma          _
-5   +1:postag         CD
-6        word  delta-fnr
-7     isUpper      False
-8     isLower       True
-9     isGreek      False
-10   isNumber      False
-11    -1:word          _
-12    +1:word          _
-13   -2:lemma    affyexp
-14  -2:postag         JJ
-15   +2:lemma    glucose
-16  +2:postag         NN
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
-[CV]  c1=0.17002935344175654, c2=0.03048089985747861, score=0.930099 -   1.6s
-[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
-[CV]  c1=0.4722267453140106, c2=0.001685255428968536, score=0.909545 -   1.9s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.636866 -   1.5s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.766937 -   1.6s
-[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
-[CV]  c1=0.7316013853643798, c2=0.25017196058094404, score=0.619815 -   1.4s
-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
-[CV]  c1=0.7934403590252077, c2=0.010140047052715413, score=0.751476 -   1.6s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.724597 -   1.5s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.788344 -   1.6s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.850760 -   1.6s
-[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
-[CV]  c1=0.16521043789445478, c2=0.12734995352729425, score=0.930099 -   1.6s
-[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
-[CV]  c1=0.08911978010699523, c2=0.0017540149814192383, score=0.614273 -   1.2s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.630631 -   1.3s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.893154 -   1.7s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.906170 -   1.6s
-[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
-[CV]  c1=0.7316013853643798, c2=0.25017196058094404, score=0.849859 -   1.5s
-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
-[CV]  c1=0.7934403590252077, c2=0.010140047052715413, score=0.711614 -   1.6s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.711518 -   1.6s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.930099 -   1.7s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.686192 -   1.4s
-[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
-[CV]  c1=0.7316013853643798, c2=0.25017196058094404, score=0.856270 -   1.5s
-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
-[CV]  c1=0.7934403590252077, c2=0.010140047052715413, score=0.874769 -   1.7s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.812021 -   1.6s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.845019 -   1.6s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.765174 -   1.6s
-[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
-[CV]  c1=0.7316013853643798, c2=0.25017196058094404, score=0.740712 -   1.5s
-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
-[CV]  c1=0.7934403590252077, c2=0.010140047052715413, score=0.844591 -   1.5s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.656309 -   1.6s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.734369 -   1.8s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.660529 -   1.7s
-[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
-[CV]  c1=0.7316013853643798, c2=0.25017196058094404, score=0.697156 -   1.5s
-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
-[CV]  c1=0.7934403590252077, c2=0.010140047052715413, score=0.622141 -   1.2s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.767031 -   1.7s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.866790 -   1.8s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.846366 -   1.5s
-[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
-[CV]  c1=0.7316013853643798, c2=0.25017196058094404, score=0.899125 -   1.5s
-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
-[CV]  c1=0.7934403590252077, c2=0.010140047052715413, score=0.750130 -   1.5s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.742502 -   1.5s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.759711 -   1.7s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.925309 -   1.6s
-[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
-[CV]  c1=0.16521043789445478, c2=0.12734995352729425, score=0.771474 -   1.7s
-[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
-[CV]  c1=0.19372696796129896, c2=0.018101673564889433, score=0.660529 -   1.5s
-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
-[CV]  c1=0.5210224789278901, c2=0.006751538594354206, score=0.675493 -   1.3s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.624751 -   1.4s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.883871 -   1.8s
-[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
-[CV]  c1=0.7316013853643798, c2=0.25017196058094404, score=0.810990 -   1.3s
-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
-[CV]  c1=0.7934403590252077, c2=0.010140047052715413, score=0.727141 -   1.8s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.862223 -   1.5s
-[CV] c1=0.038297678976678046, c2=0.1916126137406044 ..................
-[CV]  c1=0.038297678976678046, c2=0.1916126137406044, score=0.895358 -   1.8s
-[CV] c1=0.22369184983412724, c2=0.0039152206686826506 ................
-[CV]  c1=0.22369184983412724, c2=0.0039152206686826506, score=0.791491 -   1.8s
-[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
-[CV]  c1=0.14528662487494648, c2=0.20027010511973786, score=0.636866 -   1.5s
-[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
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-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
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-[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
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-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
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-[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
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-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
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-[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
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-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
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-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
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-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
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-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
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-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
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-[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
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-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
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-[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
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-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
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-[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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-[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
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-[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
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-[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
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-[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
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-[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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-[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
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-[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
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-[CV] c1=0.5210224789278901, c2=0.006751538594354206 ..................
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-[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
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-[CV] c1=0.34336652460986966, c2=0.023606219975479584 .................
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-[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
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-[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
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-[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
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-[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
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-[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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-[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
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-[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
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-[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
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-[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
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-[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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-[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
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-[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
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-[CV] c1=0.22991065454519655, c2=0.05704963083080379 ..................
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-[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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-[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
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-[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
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-[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
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-[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
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-[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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-[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
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-[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
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-[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
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-[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
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-[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
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-[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
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-[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
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-[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
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-[CV] c1=0.16521043789445478, c2=0.12734995352729425 ..................
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-[CV] c1=0.08911978010699523, c2=0.0017540149814192383 ................
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-[CV] c1=0.23396239601478247, c2=0.021554630281339932 .................
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-[CV] c1=1.1131285560759827, c2=0.0789492952007081 ....................
-[CV]  c1=1.1131285560759827, c2=0.0789492952007081, score=0.843338 -   1.6s
-[CV] c1=0.13789575918935962, c2=0.21129423093936495 ..................
-[CV]  c1=0.13789575918935962, c2=0.21129423093936495, score=0.896702 -   1.6s
-[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
-[CV]  c1=0.14528662487494648, c2=0.20027010511973786, score=0.861675 -   1.7s
-[CV] c1=0.19372696796129896, c2=0.018101673564889433 .................
-[CV]  c1=0.19372696796129896, c2=0.018101673564889433, score=0.804911 -   1.8s
-[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
-[CV]  c1=1.4620038736037526, c2=0.04868337460924114, score=0.746808 -   1.6s
-[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
-[CV]  c1=0.14069682863299926, c2=0.024714016482769777, score=0.860074 -   1.6s
-[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
-[CV]  c1=0.4862974700385636, c2=0.028075320941336974, score=0.677691 -   1.3s
-[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
-[CV]  c1=0.17002935344175654, c2=0.03048089985747861, score=0.846366 -   1.6s
-[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
-[CV]  c1=0.4722267453140106, c2=0.001685255428968536, score=0.797094 -   1.7s
-[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
-[CV]  c1=1.4620038736037526, c2=0.04868337460924114, score=0.872550 -   1.6s
-[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
-[CV]  c1=0.14069682863299926, c2=0.024714016482769777, score=0.930099 -   1.7s
-[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
-[CV]  c1=0.4862974700385636, c2=0.028075320941336974, score=0.631503 -   1.0s
-[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
-[CV]  c1=0.14528662487494648, c2=0.20027010511973786, score=0.732991 -   1.9s
-[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
-[CV]  c1=0.4722267453140106, c2=0.001685255428968536, score=0.742545 -   1.7s
-[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
-[CV]  c1=1.4620038736037526, c2=0.04868337460924114, score=0.697646 -   1.6s
-[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
-[CV]  c1=0.14069682863299926, c2=0.024714016482769777, score=0.788778 -   1.8s
-[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
-[CV]  c1=0.4862974700385636, c2=0.028075320941336974, score=0.783286 -   1.3s
-[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
-[CV]  c1=0.17002935344175654, c2=0.03048089985747861, score=0.771474 -   1.6s
-[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
-[CV]  c1=0.4722267453140106, c2=0.001685255428968536, score=0.870647 -   1.6s
-[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
-[CV]  c1=1.4620038736037526, c2=0.04868337460924114, score=0.862223 -   1.7s
-[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
-[CV]  c1=0.14069682863299926, c2=0.024714016482769777, score=0.765174 -   1.5s
-[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
-[CV]  c1=0.4862974700385636, c2=0.028075320941336974, score=0.878755 -   1.4s
-[CV] c1=0.17002935344175654, c2=0.03048089985747861 ..................
-[CV]  c1=0.17002935344175654, c2=0.03048089985747861, score=0.883883 -   1.6s
-[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
-[CV]  c1=0.4722267453140106, c2=0.001685255428968536, score=0.903665 -   1.7s
-[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
-[CV]  c1=1.4620038736037526, c2=0.04868337460924114, score=0.715035 -   1.7s
-[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
-[CV]  c1=0.14069682863299926, c2=0.024714016482769777, score=0.771474 -   1.5s
-[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
-[CV]  c1=0.4862974700385636, c2=0.028075320941336974, score=0.891002 -   1.4s
-[CV] c1=0.7316013853643798, c2=0.25017196058094404 ...................
-[CV]  c1=0.7316013853643798, c2=0.25017196058094404, score=0.613639 -   1.3s
-[CV] c1=0.7934403590252077, c2=0.010140047052715413 ..................
-[CV]  c1=0.7934403590252077, c2=0.010140047052715413, score=0.664382 -   1.4s
-[CV] c1=1.2484765854262996, c2=0.03066474574094165 ...................
-[CV]  c1=1.2484765854262996, c2=0.03066474574094165, score=0.709002 -   1.6s
-[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
-[CV]  c1=1.4620038736037526, c2=0.04868337460924114, score=0.568876 -   1.3s
-[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
-[CV]  c1=0.14069682863299926, c2=0.024714016482769777, score=0.883871 -   1.9s
-[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
-[CV]  c1=0.4862974700385636, c2=0.028075320941336974, score=0.906931 -   1.2s
-[CV] c1=0.14528662487494648, c2=0.20027010511973786 ..................
-[CV]  c1=0.14528662487494648, c2=0.20027010511973786, score=0.879541 -   1.9s
-[CV] c1=0.4722267453140106, c2=0.001685255428968536 ..................
-[CV]  c1=0.4722267453140106, c2=0.001685255428968536, score=0.871207 -   1.7s
-[CV] c1=1.4620038736037526, c2=0.04868337460924114 ...................
-[CV]  c1=1.4620038736037526, c2=0.04868337460924114, score=0.803851 -   1.8s
-[CV] c1=0.14069682863299926, c2=0.024714016482769777 .................
-[CV]  c1=0.14069682863299926, c2=0.024714016482769777, score=0.697441 -   1.3s
-[CV] c1=0.4862974700385636, c2=0.028075320941336974 ..................
-[CV]  c1=0.4862974700385636, c2=0.028075320941336974, score=0.871207 -   1.4s
-Training done in: 10.702919s
-     Saving training model...
-        Saving training model done in: 0.013511s
-*********************************
-Prediction done in: 0.037534s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: True True
-Report file: _v9
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003941s
-{'lemma': 'δsoxs', 'postag': 'NN', '+1:lemma': 'pq', '+1:postag': 'NN'}
-{'lemma': 'affyexp', 'postag': 'JJ', '+1:lemma': '_', '+1:postag': 'NN'}
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
-[CV]  c1=0.6805169695271499, c2=0.059941860636124, score=0.739174 -   1.1s
-[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
-[CV]  c1=0.002248053678487388, c2=0.022468299598165514, score=0.867500 -   1.2s
-[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
-[CV]  c1=0.11105424454358216, c2=0.015741660010216145, score=0.883871 -   1.2s
-[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
-[CV]  c1=0.6648810381927359, c2=0.08001031738332513, score=0.682045 -   1.3s
-[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
-[CV]  c1=0.3610226719997963, c2=0.029611486118589044, score=0.592237 -   0.8s
-[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
-[CV]  c1=0.0893601644204355, c2=0.024019081127496116, score=0.674776 -   1.0s
-[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
-[CV]  c1=0.002248053678487388, c2=0.022468299598165514, score=0.861398 -   1.1s
-[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
-[CV]  c1=0.11105424454358216, c2=0.015741660010216145, score=0.592237 -   0.9s
-[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
-[CV]  c1=0.6648810381927359, c2=0.08001031738332513, score=0.747150 -   1.4s
-[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
-[CV]  c1=0.3610226719997963, c2=0.029611486118589044, score=0.679766 -   0.8s
-[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
-[CV]  c1=0.0893601644204355, c2=0.024019081127496116, score=0.713945 -   1.1s
-[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
-[CV]  c1=0.2107941425103855, c2=0.07645318409354064, score=0.713945 -   1.2s
-[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
-[CV]  c1=0.43870196113001303, c2=0.10254088863167253, score=0.632439 -   1.0s
-[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
-[CV]  c1=0.4124010091584731, c2=0.03226124445670804, score=0.721334 -   1.2s
-[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
-[CV]  c1=0.14547316667964716, c2=0.04275866782811716, score=0.735607 -   1.0s
-[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
-[CV]  c1=0.0893601644204355, c2=0.024019081127496116, score=0.593330 -   1.0s
-[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
-[CV]  c1=0.2107941425103855, c2=0.07645318409354064, score=0.848001 -   1.2s
-[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
-[CV]  c1=0.43870196113001303, c2=0.10254088863167253, score=0.753693 -   1.1s
-[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
-[CV]  c1=0.4124010091584731, c2=0.03226124445670804, score=0.761418 -   1.2s
-[CV] c1=0.005890787510878062, c2=0.06901405430753309 .................
-[CV]  c1=0.005890787510878062, c2=0.06901405430753309, score=0.724290 -   1.1s
-[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
-[CV]  c1=0.7907559657386046, c2=0.04221232955070474, score=0.578486 -   0.9s
-[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
-[CV]  c1=0.2107941425103855, c2=0.07645318409354064, score=0.906853 -   1.3s
-[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
-[CV]  c1=0.33894023669353496, c2=0.021885953440521758, score=0.737308 -   1.2s
-[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
-[CV]  c1=0.48934294075061485, c2=0.059643580535587194, score=0.556324 -   0.9s
-[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
-[CV]  c1=0.3610226719997963, c2=0.029611486118589044, score=0.920970 -   1.2s
-[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
-[CV]  c1=0.7907559657386046, c2=0.04221232955070474, score=0.704452 -   1.1s
-[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
-[CV]  c1=0.6067183285356851, c2=0.02508677467384688, score=0.912680 -   1.1s
-[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
-[CV]  c1=0.33894023669353496, c2=0.021885953440521758, score=0.581649 -   1.0s
-[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
-[CV]  c1=0.48934294075061485, c2=0.059643580535587194, score=0.715320 -   1.1s
-[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
-[CV]  c1=0.3610226719997963, c2=0.029611486118589044, score=0.784950 -   1.0s
-[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
-[CV]  c1=0.0893601644204355, c2=0.024019081127496116, score=0.814619 -   1.1s
-[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
-[CV]  c1=0.2107941425103855, c2=0.07645318409354064, score=0.854246 -   1.3s
-[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
-[CV]  c1=0.43870196113001303, c2=0.10254088863167253, score=0.899703 -   1.2s
-[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
-[CV]  c1=0.4124010091584731, c2=0.03226124445670804, score=0.563779 -   1.1s
-[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
-[CV]  c1=0.14547316667964716, c2=0.04275866782811716, score=0.740663 -   1.0s
-[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
-[CV]  c1=0.0893601644204355, c2=0.024019081127496116, score=0.906853 -   1.1s
-[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
-[CV]  c1=0.2107941425103855, c2=0.07645318409354064, score=0.920970 -   1.1s
-[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
-[CV]  c1=0.43870196113001303, c2=0.10254088863167253, score=0.819818 -   1.1s
-[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
-[CV]  c1=0.4124010091584731, c2=0.03226124445670804, score=0.860755 -   1.3s
-[CV] c1=0.14547316667964716, c2=0.04275866782811716 ..................
-[CV]  c1=0.14547316667964716, c2=0.04275866782811716, score=0.652192 -   1.1s
-[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
-[CV]  c1=0.7907559657386046, c2=0.04221232955070474, score=0.669071 -   1.1s
-[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
-[CV]  c1=0.6067183285356851, c2=0.02508677467384688, score=0.656490 -   1.0s
-[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
-[CV]  c1=0.43870196113001303, c2=0.10254088863167253, score=0.705332 -   1.1s
-[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
-[CV]  c1=0.4124010091584731, c2=0.03226124445670804, score=0.920970 -   1.2s
-[CV] c1=0.3610226719997963, c2=0.029611486118589044 ..................
-[CV]  c1=0.3610226719997963, c2=0.029611486118589044, score=0.737308 -   1.0s
-[CV] c1=0.0893601644204355, c2=0.024019081127496116 ..................
-[CV]  c1=0.0893601644204355, c2=0.024019081127496116, score=0.887557 -   1.1s
-[CV] c1=0.2107941425103855, c2=0.07645318409354064 ...................
-[CV]  c1=0.2107941425103855, c2=0.07645318409354064, score=0.865426 -   1.2s
-[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
-[CV]  c1=0.43870196113001303, c2=0.10254088863167253, score=0.860755 -   1.3s
-[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
-[CV]  c1=0.48934294075061485, c2=0.059643580535587194, score=0.656490 -   1.1s
-[CV] c1=0.005890787510878062, c2=0.06901405430753309 .................
-[CV]  c1=0.005890787510878062, c2=0.06901405430753309, score=0.906853 -   1.0s
-[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
-[CV]  c1=0.7907559657386046, c2=0.04221232955070474, score=0.872399 -   1.1s
-[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
-[CV]  c1=0.6067183285356851, c2=0.02508677467384688, score=0.753693 -   1.1s
-[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
-[CV]  c1=0.33894023669353496, c2=0.021885953440521758, score=0.814619 -   1.1s
-[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
-[CV]  c1=0.48934294075061485, c2=0.059643580535587194, score=0.854423 -   1.0s
-[CV] c1=0.005890787510878062, c2=0.06901405430753309 .................
-[CV]  c1=0.005890787510878062, c2=0.06901405430753309, score=0.652192 -   1.0s
-[CV] c1=0.7907559657386046, c2=0.04221232955070474 ...................
-[CV]  c1=0.7907559657386046, c2=0.04221232955070474, score=0.794740 -   1.1s
-[CV] c1=0.6067183285356851, c2=0.02508677467384688 ...................
-[CV]  c1=0.6067183285356851, c2=0.02508677467384688, score=0.860755 -   1.1s
-[CV] c1=0.33894023669353496, c2=0.021885953440521758 .................
-[CV]  c1=0.33894023669353496, c2=0.021885953440521758, score=0.869740 -   1.2s
-[CV] c1=0.48934294075061485, c2=0.059643580535587194 .................
-[CV]  c1=0.48934294075061485, c2=0.059643580535587194, score=0.723593 -   1.0s
-[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
-[CV]  c1=0.6805169695271499, c2=0.059941860636124, score=0.704866 -   1.0s
-[CV] c1=0.1827955499307428, c2=0.002673779161901005 ..................
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-[CV] c1=0.43870196113001303, c2=0.10254088863167253 ..................
-[CV]  c1=0.43870196113001303, c2=0.10254088863167253, score=0.562376 -   0.9s
-[CV] c1=0.4124010091584731, c2=0.03226124445670804 ...................
-[CV]  c1=0.4124010091584731, c2=0.03226124445670804, score=0.784950 -   0.9s
-[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
-[CV]  c1=0.06371903845172723, c2=0.09382386151498534, score=0.607039 -   0.7s
-[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
-[CV]  c1=0.6805169695271499, c2=0.059941860636124, score=0.747150 -   1.1s
-[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
-[CV]  c1=0.002248053678487388, c2=0.022468299598165514, score=0.687454 -   1.1s
-[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
-[CV]  c1=0.11105424454358216, c2=0.015741660010216145, score=0.935386 -   1.1s
-[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
-[CV]  c1=0.6648810381927359, c2=0.08001031738332513, score=0.852821 -   1.1s
-[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
-[CV]  c1=0.06371903845172723, c2=0.09382386151498534, score=0.660510 -   0.9s
-[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
-[CV]  c1=0.6805169695271499, c2=0.059941860636124, score=0.912680 -   1.4s
-[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
-[CV]  c1=0.002248053678487388, c2=0.022468299598165514, score=0.608985 -   1.0s
-[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
-[CV]  c1=0.11105424454358216, c2=0.015741660010216145, score=0.923613 -   1.2s
-[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
-[CV]  c1=0.6648810381927359, c2=0.08001031738332513, score=0.878327 -   1.1s
-[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
-[CV]  c1=0.06371903845172723, c2=0.09382386151498534, score=0.775757 -   0.9s
-[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
-[CV]  c1=0.6805169695271499, c2=0.059941860636124, score=0.578486 -   1.1s
-[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
-[CV]  c1=0.002248053678487388, c2=0.022468299598165514, score=0.902145 -   1.2s
-[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
-[CV]  c1=0.11105424454358216, c2=0.015741660010216145, score=0.920970 -   1.3s
-[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
-[CV]  c1=0.6648810381927359, c2=0.08001031738332513, score=0.578486 -   0.9s
-[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
-[CV]  c1=0.06371903845172723, c2=0.09382386151498534, score=0.866790 -   1.0s
-[CV] c1=0.6805169695271499, c2=0.059941860636124 .....................
-[CV]  c1=0.6805169695271499, c2=0.059941860636124, score=0.794740 -   1.1s
-[CV] c1=0.002248053678487388, c2=0.022468299598165514 ................
-[CV]  c1=0.002248053678487388, c2=0.022468299598165514, score=0.935386 -   1.2s
-[CV] c1=0.11105424454358216, c2=0.015741660010216145 .................
-[CV]  c1=0.11105424454358216, c2=0.015741660010216145, score=0.741434 -   1.1s
-[CV] c1=0.6648810381927359, c2=0.08001031738332513 ...................
-[CV]  c1=0.6648810381927359, c2=0.08001031738332513, score=0.794740 -   1.1s
-[CV] c1=0.06371903845172723, c2=0.09382386151498534 ..................
-[CV]  c1=0.06371903845172723, c2=0.09382386151498534, score=0.881938 -   1.0s
-Training done in: 7.467291s
-     Saving training model...
-        Saving training model done in: 0.015227s
-*********************************
-Prediction done in: 0.026117s

+-------------------------------- PARAMETERS --------------------------------
+Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with training data set: training-data-set-70.txt
+Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
+File with test data set: test-data-set-30.txt
+Exclude stop words: False
+Levels: True True
+Report file: _v11
+Exclude symbols: False
+-------------------------------- PROCESSING --------------------------------
+Reading corpus...
+   Sentences training data: 286
+   Sentences test data: 123
+Reading corpus done in: 0.003623s
+-------------------------------- FEATURES --------------------------------
+--------------------------Features Training ---------------------------
+             0         1
+0        lemma         2
+1       postag        CD
+2     -1:lemma  fructose
+3    -1:postag        NN
+4       hUpper     False
+5       hLower     False
+6       hGreek     False
+7         symb     False
+8    lemma[:1]         2
+9   postag[:1]         C
+10  postag[:2]        CD
+11        word         2
+12     isUpper     False
+13     isLower     False
+14     isGreek     False
+15    isNumber      True
+16     -1:word  fructose
+17    -2:lemma       Cra
+18   -2:postag       NNP
+--------------------------- FeaturesTest -----------------------------
+             0           1
+0        lemma  delta-arca
+1       postag          NN
+2     -1:lemma           _
+3    -1:postag          NN
+4     +1:lemma           _
+5    +1:postag          CD
+6       hUpper        True
+7       hLower        True
+8       hGreek       False
+9         symb        True
+10   lemma[:1]           d
+11  postag[:1]           N
+12   lemma[:2]          de
+13  postag[:2]          NN
+14        word  delta-arcA
+15     isUpper       False
+16     isLower       False
+17     isGreek       False
+18    isNumber       False
+19     -1:word           _
+20     +1:word           _
+21    -2:lemma     affyexp
+22   -2:postag          JJ
+23    +2:lemma     glucose
+24   +2:postag          NN
+Fitting 10 folds for each of 20 candidates, totalling 200 fits
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.886214 -   1.6s
+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
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+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.917614 -   1.9s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.901459 -   1.8s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.917472 -   1.7s
+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
+[CV]  c1=0.005630188558136274, c2=0.0901354093196231, score=0.886214 -   1.7s
+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
+[CV]  c1=0.34832253122622947, c2=0.0024260335577202747, score=0.927028 -   2.0s
+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
+[CV]  c1=1.3925811330953486, c2=0.01587323954257908, score=0.897464 -   1.8s
+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
+[CV]  c1=0.23763693406252395, c2=0.15562360351028884, score=0.807866 -   2.0s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.872077 -   1.9s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
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+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
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+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
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+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
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+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
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+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
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+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
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+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
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+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
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+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
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+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
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+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
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+[CV] c1=1.6782438716438826, c2=0.005852028918477585 ..................
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+[CV] c1=1.448745475188601, c2=0.026142389740376516 ...................
+[CV]  c1=1.448745475188601, c2=0.026142389740376516, score=0.897464 -   1.9s
+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
+[CV]  c1=0.3528158466716618, c2=0.02622785537868205, score=0.923585 -   1.8s
+[CV] c1=0.6426016214333032, c2=0.013291072696330009 ..................
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+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
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+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
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+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
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+[CV] c1=0.46546093853678977, c2=0.10881019404335167 ..................
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+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
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+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
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+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
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+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
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+[CV] c1=0.3528158466716618, c2=0.02622785537868205 ...................
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+[CV] c1=0.005630188558136274, c2=0.0901354093196231 ..................
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+[CV] c1=0.34832253122622947, c2=0.0024260335577202747 ................
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+[CV] c1=1.3925811330953486, c2=0.01587323954257908 ...................
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+[CV] c1=0.23763693406252395, c2=0.15562360351028884 ..................
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+[CV] c1=0.037354859851607435, c2=0.07305354899253944 .................
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+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.888272 -   1.5s
+[CV] c1=0.019077332979171517, c2=0.03842571004062146 .................
+[CV]  c1=0.019077332979171517, c2=0.03842571004062146, score=0.945871 -   1.8s
+[CV] c1=0.9295470777582396, c2=0.06136448305133849 ...................
+[CV]  c1=0.9295470777582396, c2=0.06136448305133849, score=0.744355 -   2.1s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.950725 -   2.0s
+[CV] c1=1.5389567508867608, c2=0.0341172934690459 ....................
+[CV]  c1=1.5389567508867608, c2=0.0341172934690459, score=0.745317 -   2.1s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.832180 -   1.5s
+[CV] c1=0.23410168766018233, c2=0.007576332674008764 .................
+[CV]  c1=0.23410168766018233, c2=0.007576332674008764, score=0.872077 -   1.9s
+[CV] c1=0.05139054695837179, c2=0.0988983229417386 ...................
+[CV]  c1=0.05139054695837179, c2=0.0988983229417386, score=0.927296 -   1.6s
+[CV] c1=0.42695722657704505, c2=0.061285485086823 ....................
+[CV]  c1=0.42695722657704505, c2=0.061285485086823, score=0.923585 -   1.9s
+[CV] c1=0.6285063975967342, c2=0.00047708053019435885 ................
+[CV]  c1=0.6285063975967342, c2=0.00047708053019435885, score=0.923585 -   2.0s
+[CV] c1=0.04223966754804299, c2=0.014836666503726496 .................
+[CV]  c1=0.04223966754804299, c2=0.014836666503726496, score=0.870571 -   1.7s
+Training done in: 12.658946s
+     Saving training model...
+        Saving training model done in: 0.013450s
+*********************************
+Prediction done in: 0.050529s

--------------------------------- PARAMETERS --------------------------------
-Path of training data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with training data set: training-data-set-70_v4.txt
-Path of test data set: /home/egaytan/automatic-extraction-growth-conditions/CRF/data-sets
-File with test data set: test-data-set-30_v4.txt
-Exclude stop words: False
-Levels: True True
-Report file: _v2
-Exclude symbols: False
--------------------------------- PROCESSING --------------------------------
-Reading corpus...
-   Sentences training data: 283
-   Sentences test data: 122
-Reading corpus done in: 0.003745s
--------------------------------- FEATURES --------------------------------
---------------------------Features Training ---------------------------
-            0      1
-0       lemma      1
-1      postag     CD
-2    -1:lemma     pq
-3   -1:postag     NN
-4      hUpper  False
-5      hLower  False
-6      hGreek  False
-7        symb  False
-8    word[:1]      1
-9        word      1
-10    isUpper  False
-11    isLower  False
-12    isGreek  False
-13   isNumber   True
-14    -1:word     PQ
-15   -2:lemma  δsoxs
-16  -2:postag     NN
---------------------------- FeaturesTest -----------------------------
-            0          1
-0       lemma  delta-fnr
-1      postag         NN
-2    -1:lemma          _
-3   -1:postag         NN
-4    +1:lemma          _
-5   +1:postag         CD
-6      hUpper      False
-7      hLower      False
-8      hGreek      False
-9        symb       True
-10   word[:1]          d
-11   word[:2]         de
-12       word  delta-fnr
-13    isUpper      False
-14    isLower       True
-15    isGreek      False
-16   isNumber      False
-17    -1:word          _
-18    +1:word          _
-19   -2:lemma    affyexp
-20  -2:postag         JJ
-21   +2:lemma    glucose
-22  +2:postag         NN
-Fitting 10 folds for each of 20 candidates, totalling 200 fits
-[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
-[CV]  c1=0.08997152792208764, c2=0.004363773952774669, score=0.860686 -   1.4s
-[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
-[CV]  c1=0.49898154231973574, c2=0.00020584758644216306, score=0.856606 -   2.1s
-[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
-[CV]  c1=0.16114579362036052, c2=0.09197634743194505, score=0.860686 -   1.6s
-[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
-[CV]  c1=0.9049035713403341, c2=0.021741456177008588, score=0.711685 -   1.9s
-[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
-[CV]  c1=1.1812306284364236, c2=0.008430514440727933, score=0.918560 -   2.1s
-[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
-[CV]  c1=0.08369291557347798, c2=0.012233988100281703, score=0.715283 -   1.5s
-[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
-[CV]  c1=0.3286068152393628, c2=0.10962981701798313, score=0.883499 -   1.9s
-[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
-[CV]  c1=0.6822425755498431, c2=0.020713938001918012, score=0.724487 -   1.9s
-[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
-[CV]  c1=0.37575104918065877, c2=0.014068909404949474, score=0.680522 -   1.8s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.697314 -   1.5s
-[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
-[CV]  c1=0.08369291557347798, c2=0.012233988100281703, score=0.860686 -   1.5s
-[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
-[CV]  c1=0.3286068152393628, c2=0.10962981701798313, score=0.727640 -   2.1s
-[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
-[CV]  c1=0.6822425755498431, c2=0.020713938001918012, score=0.871735 -   1.7s
-[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
-[CV]  c1=0.9049035713403341, c2=0.021741456177008588, score=0.722958 -   1.6s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.860776 -   1.9s
-[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
-[CV]  c1=0.05199276558605893, c2=0.0702365499252205, score=0.795468 -   1.6s
-[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
-[CV]  c1=0.49898154231973574, c2=0.00020584758644216306, score=0.759154 -   1.9s
-[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
-[CV]  c1=0.16114579362036052, c2=0.09197634743194505, score=0.855051 -   1.9s
-[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
-[CV]  c1=0.9049035713403341, c2=0.021741456177008588, score=0.863709 -   1.9s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.778562 -   1.8s
-[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
-[CV]  c1=0.08997152792208764, c2=0.004363773952774669, score=0.708096 -   1.3s
-[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
-[CV]  c1=0.49898154231973574, c2=0.00020584758644216306, score=0.727640 -   1.9s
-[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
-[CV]  c1=0.16114579362036052, c2=0.09197634743194505, score=0.673283 -   2.1s
-[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
-[CV]  c1=0.9049035713403341, c2=0.021741456177008588, score=0.845435 -   2.0s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.847925 -   2.1s
-[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
-[CV]  c1=0.05199276558605893, c2=0.0702365499252205, score=0.621599 -   1.6s
-[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
-[CV]  c1=0.49898154231973574, c2=0.00020584758644216306, score=0.717756 -   1.7s
-[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
-[CV]  c1=0.16114579362036052, c2=0.09197634743194505, score=0.795468 -   1.8s
-[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
-[CV]  c1=0.9049035713403341, c2=0.021741456177008588, score=0.801799 -   2.1s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.779671 -   1.9s
-[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
-[CV]  c1=0.08997152792208764, c2=0.004363773952774669, score=0.961600 -   1.8s
-[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
-[CV]  c1=0.49898154231973574, c2=0.00020584758644216306, score=0.933241 -   2.0s
-[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
-[CV]  c1=0.16114579362036052, c2=0.09197634743194505, score=0.706732 -   1.8s
-[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
-[CV]  c1=0.9049035713403341, c2=0.021741456177008588, score=0.750626 -   1.9s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.759154 -   1.9s
-[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
-[CV]  c1=0.08997152792208764, c2=0.004363773952774669, score=0.705910 -   1.5s
-[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
-[CV]  c1=0.49898154231973574, c2=0.00020584758644216306, score=0.802981 -   1.8s
-[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
-[CV]  c1=0.16114579362036052, c2=0.09197634743194505, score=0.891699 -   2.0s
-[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
-[CV]  c1=0.9049035713403341, c2=0.021741456177008588, score=0.848726 -   2.2s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.933241 -   2.0s
-[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
-[CV]  c1=0.1380082549956592, c2=0.015618296578657088, score=0.868519 -   1.8s
-[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
-[CV]  c1=0.14146941159261275, c2=0.0623745074286256, score=0.855051 -   1.9s
-[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
-[CV]  c1=0.5149952083751863, c2=0.020547420013119894, score=0.790731 -   2.2s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.667213 -   1.9s
-[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
-[CV]  c1=0.08997152792208764, c2=0.004363773952774669, score=0.906414 -   1.4s
-[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
-[CV]  c1=0.49898154231973574, c2=0.00020584758644216306, score=0.860682 -   2.0s
-[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
-[CV]  c1=0.16114579362036052, c2=0.09197634743194505, score=0.917580 -   2.1s
-[CV] c1=0.9049035713403341, c2=0.021741456177008588 ..................
-[CV]  c1=0.9049035713403341, c2=0.021741456177008588, score=0.795856 -   1.9s
-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
-[CV]  c1=0.603209677420507, c2=0.0025056598967555105, score=0.885638 -   2.0s
-[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
-[CV]  c1=0.08369291557347798, c2=0.012233988100281703, score=0.746316 -   1.8s
-[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
-[CV]  c1=0.3286068152393628, c2=0.10962981701798313, score=0.705446 -   1.7s
-[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
-[CV]  c1=0.6822425755498431, c2=0.020713938001918012, score=0.885638 -   1.9s
-[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
-[CV]  c1=0.37575104918065877, c2=0.014068909404949474, score=0.896573 -   1.9s
-[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
-[CV]  c1=0.5180245113660787, c2=0.03601101440244791, score=0.677691 -   1.6s
-[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
-[CV]  c1=0.05199276558605893, c2=0.0702365499252205, score=0.732294 -   1.9s
-[CV] c1=0.3286068152393628, c2=0.10962981701798313 ...................
-[CV]  c1=0.3286068152393628, c2=0.10962981701798313, score=0.895764 -   2.1s
-[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
-[CV]  c1=0.6822425755498431, c2=0.020713938001918012, score=0.802130 -   1.8s
-[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
-[CV]  c1=0.37575104918065877, c2=0.014068909404949474, score=0.784018 -   1.9s
-[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
-[CV]  c1=0.5180245113660787, c2=0.03601101440244791, score=0.860350 -   1.8s
-[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
-[CV]  c1=0.08369291557347798, c2=0.012233988100281703, score=0.691162 -   1.6s
-[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
-[CV]  c1=0.06155533734282551, c2=0.11747794204884306, score=0.735598 -   1.9s
-[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
-[CV]  c1=0.32267196716974095, c2=0.030929293399615435, score=0.705265 -   1.8s
-[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
-[CV]  c1=0.37575104918065877, c2=0.014068909404949474, score=0.702864 -   1.6s
-[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
-[CV]  c1=0.5180245113660787, c2=0.03601101440244791, score=0.730482 -   1.8s
-[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
-[CV]  c1=0.1380082549956592, c2=0.015618296578657088, score=0.680522 -   1.6s
-[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
-[CV]  c1=0.06155533734282551, c2=0.11747794204884306, score=0.660504 -   1.8s
-[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
-[CV]  c1=0.6822425755498431, c2=0.020713938001918012, score=0.778562 -   1.8s
-[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
-[CV]  c1=0.37575104918065877, c2=0.014068909404949474, score=0.917580 -   2.0s
-[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
-[CV]  c1=0.5180245113660787, c2=0.03601101440244791, score=0.768697 -   1.7s
-[CV] c1=0.05199276558605893, c2=0.0702365499252205 ...................
-[CV]  c1=0.05199276558605893, c2=0.0702365499252205, score=0.906414 -   2.1s
-[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
-[CV]  c1=0.06155533734282551, c2=0.11747794204884306, score=0.900313 -   1.9s
-[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
-[CV]  c1=0.32267196716974095, c2=0.030929293399615435, score=0.730917 -   1.9s
-[CV] c1=0.8844076483955583, c2=0.11585472431298503 ...................
-[CV]  c1=0.8844076483955583, c2=0.11585472431298503, score=0.657484 -   1.9s
-[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
-[CV]  c1=0.5180245113660787, c2=0.03601101440244791, score=0.738645 -   1.6s
-[CV] c1=0.1380082549956592, c2=0.015618296578657088 ..................
-[CV]  c1=0.1380082549956592, c2=0.015618296578657088, score=0.865290 -   1.8s
-[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
-[CV]  c1=0.06155533734282551, c2=0.11747794204884306, score=0.618706 -   1.6s
-[CV] c1=0.6822425755498431, c2=0.020713938001918012 ..................
-[CV]  c1=0.6822425755498431, c2=0.020713938001918012, score=0.868519 -   1.9s
-[CV] c1=0.37575104918065877, c2=0.014068909404949474 .................
-[CV]  c1=0.37575104918065877, c2=0.014068909404949474, score=0.933241 -   1.9s
-[CV] c1=0.5180245113660787, c2=0.03601101440244791 ...................
-[CV]  c1=0.5180245113660787, c2=0.03601101440244791, score=0.906753 -   1.8s
-[CV] c1=0.08997152792208764, c2=0.004363773952774669 .................
-[CV]  c1=0.08997152792208764, c2=0.004363773952774669, score=0.818747 -   1.8s
-[CV] c1=0.49898154231973574, c2=0.00020584758644216306 ...............
-[CV]  c1=0.49898154231973574, c2=0.00020584758644216306, score=0.790731 -   2.0s
-[CV] c1=0.16114579362036052, c2=0.09197634743194505 ..................
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-[CV] c1=0.603209677420507, c2=0.0025056598967555105 ..................
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-[CV]  c1=1.1812306284364236, c2=0.008430514440727933, score=0.717051 -   1.7s
-[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
-[CV]  c1=0.8585868277805841, c2=0.018563372539478897, score=0.863709 -   1.6s
-[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
-[CV]  c1=0.08369291557347798, c2=0.012233988100281703, score=0.906414 -   2.0s
-[CV] c1=0.06155533734282551, c2=0.11747794204884306 ..................
-[CV]  c1=0.06155533734282551, c2=0.11747794204884306, score=0.855051 -   1.9s
-[CV] c1=0.32267196716974095, c2=0.030929293399615435 .................
-[CV]  c1=0.32267196716974095, c2=0.030929293399615435, score=0.925895 -   2.0s
-[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
-[CV]  c1=1.1812306284364236, c2=0.008430514440727933, score=0.699424 -   1.9s
-[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
-[CV]  c1=0.8585868277805841, c2=0.018563372539478897, score=0.821625 -   1.7s
-[CV] c1=0.08369291557347798, c2=0.012233988100281703 .................
-[CV]  c1=0.08369291557347798, c2=0.012233988100281703, score=0.908780 -   2.0s
-[CV] c1=0.14146941159261275, c2=0.0623745074286256 ...................
-[CV]  c1=0.14146941159261275, c2=0.0623745074286256, score=0.732294 -   2.2s
-[CV] c1=0.5149952083751863, c2=0.020547420013119894 ..................
-[CV]  c1=0.5149952083751863, c2=0.020547420013119894, score=0.791382 -   1.9s
-[CV] c1=1.1812306284364236, c2=0.008430514440727933 ..................
-[CV]  c1=1.1812306284364236, c2=0.008430514440727933, score=0.827582 -   1.9s
-[CV] c1=0.8585868277805841, c2=0.018563372539478897 ..................
-[CV]  c1=0.8585868277805841, c2=0.018563372539478897, score=0.795856 -   1.7s
-Training done in: 12.580321s
-     Saving training model...
-        Saving training model done in: 0.013719s
-*********************************
-Prediction done in: 0.043038s

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.008401850714357223, 'c2': 0.010433611834050949}
-best CV score:0.8001659242959697
-model size: 0.10M
-
-Flat F1: 0.8047780251190458
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.780     0.742     0.760        62
-       Anti      1.000     0.667     0.800         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.867     0.802     0.833       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.869     0.684     0.765       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.866     0.762     0.805       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.023468
-OD     -> OD      5.987741
-Anti   -> Anti    5.339561
-O      -> O       5.206576
-Temp   -> Temp    5.181595
-Med    -> Med     5.180925
-Air    -> Air     4.646819
-Gversion -> Gversion 4.293932
-Gtype  -> Gtype   4.243250
-Phase  -> Phase   4.214400
-Supp   -> Supp    4.068489
-Technique -> Technique 3.260803
-pH     -> pH      2.779994
-O      -> Supp    1.733365
-Substrain -> Gtype   1.597482
-O      -> Technique 1.105926
-Gtype  -> Supp    1.074709
-O      -> Gtype   0.988353
-Technique -> Air     0.947990
-O      -> Anti    0.752151
-O      -> Temp    0.715991
-Gtype  -> pH      0.687911
-O      -> Strain  0.484049
-Air    -> O       0.435475
-Gtype  -> Air     0.237417
-O      -> pH      0.237401
-O      -> Gversion 0.212779
-O      -> Vess    0.076820
-O      -> Phase   0.037554
-pH     -> Gversion -0.000018
-OD     -> Strain  -0.003457
-Phase  -> Strain  -0.004908
-Air    -> Vess    -0.005394
-Phase  -> Gversion -0.014599
-Gtype  -> Agit    -0.016123
-Gversion -> Med     -0.016983
-Vess   -> O       -0.017867
-Gtype  -> Strain  -0.043341
-Anti   -> Gversion -0.044629
-Agit   -> Air     -0.049411
-Gversion -> Anti    -0.055390
-OD     -> pH      -0.057387
-Gtype  -> Vess    -0.065585
-Substrain -> Supp    -0.071178
-Agit   -> Supp    -0.075952
-Phase  -> O       -0.085482
-Air    -> Substrain -0.092852
-Air    -> Agit    -0.094494
-pH     -> OD      -0.094754
-Strain -> OD      -0.101112
-
-
-Top unlikely transitions:
-Med    -> Technique -0.617122
-Anti   -> Gtype   -0.648491
-Technique -> Supp    -0.653349
-Air    -> Gtype   -0.674312
-Phase  -> Supp    -0.687180
-Supp   -> pH      -0.691310
-OD     -> Temp    -0.720203
-Phase  -> Med     -0.735659
-OD     -> Technique -0.736152
-Gtype  -> Gversion -0.736973
-Gtype  -> Technique -0.792645
-Supp   -> Vess    -0.796725
-Gversion -> Air     -0.836299
-Air    -> Temp    -0.858957
-Temp   -> Med     -0.902701
-Air    -> Phase   -0.915814
-Supp   -> O       -0.968464
-Supp   -> Gversion -0.977110
-Med    -> Air     -1.000282
-Supp   -> Temp    -1.033968
-Agit   -> O       -1.058024
-Supp   -> OD      -1.067605
-OD     -> Supp    -1.103342
-Phase  -> Technique -1.118669
-Med    -> Anti    -1.133071
-Anti   -> OD      -1.138727
-Gtype  -> Med     -1.277127
-Air    -> Supp    -1.287339
-Gtype  -> Phase   -1.342335
-OD     -> Med     -1.360718
-Supp   -> Gtype   -1.375229
-Supp   -> Phase   -1.381910
-OD     -> Gtype   -1.386571
-Supp   -> Anti    -1.412562
-Air    -> Med     -1.437236
-OD     -> O       -1.444132
-Gtype  -> OD      -1.484604
-Supp   -> Technique -1.559328
-Substrain -> O       -1.575494
-O      -> Air     -1.706096
-Gtype  -> Anti    -1.722995
-Supp   -> Air     -1.758624
-Technique -> Gtype   -1.763985
-Technique -> pH      -1.821163
-Technique -> OD      -1.868841
-OD     -> Air     -2.015499
-Med    -> Supp    -2.311994
-Air    -> OD      -2.334329
-Supp   -> Med     -2.339867
-Phase  -> OD      -3.142146
-
-
-Top positive:
-9.100852 Phase    b'lemma:stationary'
-8.999666 O        b'lemma:_'
-7.748243 O        b'lemma:1'
-7.006071 Supp     b'lemma:Iron'
-6.641579 O        b'lemma:2'
-6.624553 Strain   b'lemma:k-12'
-6.534879 Air      b'lemma:anaerobic'
-6.384186 Technique b'lemma:ChIP-exo'
-6.173586 Phase    b'lemma:mid-log'
-6.148502 Technique b'lemma:chipseq'
-6.098091 Air      b'lemma:aerobic'
-6.023461 O        b'lemma:3'
-6.014984 O        b'lemma:rpob'
-5.860186 Air      b'-1:lemma:ChIP-Seq'
-5.802538 Supp     b'lemma:pq'
-5.638935 O        b'-1:lemma:tag'
-5.602314 O        b'lemma:rep1'
-5.589299 Gtype    b'lemma:flag-tag'
-5.589299 Gtype    b'-1:lemma:c-terminal'
-5.581884 O        b'lemma:Custom'
-5.540635 Gtype    b'lemma:\xce\xb4cra'
-5.474812 Gtype    b'lemma:arca8myc'
-5.435564 Gversion b'lemma:asm584v2'
-5.394282 O        b'lemma:rep2'
-5.304494 Supp     b'lemma:nh4cl'
-5.296910 Supp     b'lemma:nitrate'
-5.214813 O        b'lemma:Cra'
-5.213416 O        b'lemma:rep3'
-5.212603 Supp     b'lemma:acetate'
-5.118628 Supp     b'lemma:glucose'
-5.066237 Gtype    b'lemma:wt'
-5.033217 Substrain b'lemma:mg1655'
-4.964764 Gtype    b'lemma:fnr8myc'
-4.937549 Med      b'lemma:MOPS'
-4.932561 Gtype    b'lemma:delta-arca'
-4.932143 O        b'-1:lemma:0.3-0.35'
-4.874040 Med      b'lemma:LB'
-4.818460 O        b'lemma:b'
-4.732064 Technique b'lemma:rna-seq'
-4.724853 Supp     b'lemma:no3'
-4.706345 Air      b'lemma:Aerobic'
-4.654200 Supp     b'+1:lemma:Deficient'
-4.633561 Supp     b'+1:lemma:\xc2\xb5m'
-4.585571 Supp     b'-1:lemma:Cra'
-4.563109 O        b'lemma:a'
-4.553217 Anti     b'lemma:none'
-4.530685 O        b'lemma:\xcf\x8332'
-4.515755 O        b'lemma:with'
-4.479081 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.475079 Supp     b'lemma:Fe'
-4.452629 Technique b'lemma:chip-seq'
-4.444236 O        b'-1:lemma:Aerobic'
-4.435460 Anti     b'lemma:seqa'
-4.292325 O        b'lemma:.'
-4.292325 O        b'postag:.'
-4.273737 O        b'+1:postag:RB'
-4.252089 Gtype    b'lemma:delta-fnr'
-4.231472 Med      b'lemma:lb'
-4.224780 O        b'-1:lemma:ChIP-exo'
-4.206346 Supp     b'lemma:rifampicin'
-4.199432 Supp     b'lemma:dpd'
-4.196830 Technique b'lemma:rnaseq'
-4.150761 Gversion b'lemma:chip-seq'
-4.119365 O        b'lemma:CEL'
-4.091076 Supp     b'+1:lemma:1'
-4.009950 O        b'+1:lemma:od600'
-3.985436 Gversion b'lemma:nc'
-3.944251 O        b'postag::'
-3.932450 Supp     b'lemma:arginine'
-3.929084 OD       b'lemma:od600'
-3.904034 O        b'postag:IN'
-3.892475 OD       b'lemma:od450'
-3.890673 O        b'-1:lemma:glucose'
-3.863795 Strain   b'+1:lemma:substr'
-3.821365 O        b'lemma:chip-arca'
-3.806189 Med      b'+1:lemma:0.4'
-3.785919 Gtype    b'lemma:type'
-3.769177 Gtype    b'lemma:\xce\xb4fur'
-3.757933 O        b'lemma:-'
-3.738083 O        b'lemma:at'
-3.718639 O        b'lemma:s'
-3.712990 Vess     b'lemma:flask'
-3.712990 Vess     b'-1:lemma:warm'
-3.710102 Supp     b'lemma:fructose'
-3.662732 Anti     b'lemma:anti-myc'
-3.626865 O        b'lemma:ompr'
-3.624215 O        b'lemma:affyexp'
-3.616354 OD       b'+1:lemma:stationary'
-3.602114 O        b'lemma:oxyr'
-3.576976 O        b'-1:lemma:lb'
-3.569370 Gtype    b'lemma:\xce\xb4soxs'
-3.553173 O        b'-1:lemma:anaerobic'
-3.551741 Supp     b'-1:lemma:+'
-3.536448 Supp     b'+1:lemma:2'
-3.514973 Supp     b'lemma:nacl'
-3.503853 Supp     b'+1:lemma:_'
-3.482883 Air      b'lemma:Anaerobic'
-3.480740 O        b'lemma:2-3'
-3.480105 Gtype    b'lemma:WT'
-3.474757 Gtype    b'lemma:wild-type'
-3.469456 O        b'lemma:argr'
-3.457060 Med      b'+1:lemma:2.0'
-3.419049 O        b'lemma:for'
-3.379644 pH       b'lemma:ph5'
-3.379644 pH       b'+1:lemma:.5'
-3.367140 O        b'postag:VBN'
-3.356569 Gtype    b'lemma:\xce\xb4ompr'
-3.317528 Med      b'lemma:m63'
-3.306615 Supp     b'lemma:Leu'
-3.296772 Supp     b'lemma:Adenine'
-3.296739 Air      b'postag:RB'
-3.294576 Gtype    b'lemma:nsrr'
-3.286258 O        b'+1:lemma:chip-seq'
-3.282887 O        b'lemma:purr'
-3.266319 Air      b'lemma:anerobically'
-3.218805 Gtype    b'lemma:\xe2\x88\x86'
-3.190285 Med      b'+1:lemma:minimal'
-3.188756 Gtype    b'+1:lemma:type'
-3.170208 Gtype    b'+1:lemma:with'
-3.161736 O        b'-1:lemma:type'
-3.148922 O        b'-1:lemma:stpa'
-3.133657 Gversion b'lemma:u00096'
-3.133657 Gversion b'+1:lemma:.2'
-3.125085 Gversion b'lemma:.2'
-3.125085 Gversion b'-1:lemma:u00096'
-3.118643 Med      b'-1:lemma:ml'
-3.117225 Gtype    b'lemma:deltaseqa'
-3.117225 Gtype    b'-1:lemma:old'
-3.112128 O        b'lemma:pt7'
-3.102115 O        b'lemma:Lrp'
-3.099621 Technique b'lemma:ChIP-Seq'
-3.081419 Air      b'lemma:anaerobically'
-3.067625 O        b'lemma:or'
-3.063004 Gversion b'lemma:000913'
-3.052833 O        b'lemma:Fur'
-3.018143 Gtype    b'lemma:pk4854'
-3.011617 O        b'lemma:soxs'
-3.011617 O        b'lemma:soxr'
-3.000132 Gtype    b'+1:lemma:pq'
-2.985754 Gtype    b'-1:lemma:ptac'
-2.973552 Temp     b'lemma:43'
-2.963324 Gtype    b'-1:lemma:rpob'
-2.958448 Temp     b'lemma:\xc2\xb0c'
-2.953047 Gtype    b'+1:lemma:flagtag'
-2.940589 Temp     b'-1:lemma:43'
-2.931670 Air      b'-1:lemma:-'
-2.908980 O        b'+1:lemma:pq'
-2.898571 O        b'+1:lemma:o.d.'
-2.897413 Phase    b'+1:lemma:for'
-2.889124 Supp     b'+1:lemma:deficient'
-2.883315 Technique b'-1:lemma:IP'
-2.862356 Med      b'postag:NNP'
-2.855084 Gtype    b'lemma:dfnr'
-2.854348 O        b'-1:lemma:min'
-2.825991 Gtype    b'lemma:\xce\xb4oxyr'
-2.825899 Substrain b'+1:lemma:phtpg'
-2.805567 Technique b'+1:lemma:chip-exo'
-2.802057 Phase    b'+1:lemma:phase'
-2.795215 Gtype    b'lemma:\xce\xb4soxr'
-2.789107 Gversion b'-1:lemma:nc'
-2.785366 Gtype    b'lemma:ptac'
-2.776048 Temp     b'-1:lemma:37'
-2.774544 O        b'lemma:chip-fnr'
-2.770176 O        b'lemma:chip'
-2.760772 Temp     b'lemma:37'
-2.745440 O        b'-1:lemma:dpd'
-2.743110 Technique b'-1:lemma:input'
-2.730665 Air      b'+1:lemma:at'
-2.727900 Anti     b'lemma:anti-rpos'
-2.727268 O        b'+1:lemma:43'
-2.717795 Supp     b'lemma:iptg'
-2.713876 O        b'-1:lemma:0.3'
-2.687853 Gtype    b'+1:lemma:aerobic'
-2.619262 OD       b'-1:lemma:~'
-2.616842 Temp     b'+1:lemma:\xc2\xb0c'
-2.608331 Gtype    b'+1:lemma:ph5'
-2.591172 Gtype    b'lemma:flagtag'
-2.589296 Med      b'lemma:L'
-2.589296 Med      b'+1:lemma:broth'
-2.584541 Phase    b'-1:lemma:until'
-2.584059 Gtype    b'+1:lemma:knock-out'
-2.575608 O        b'-1:lemma:nh4cl'
-2.574656 Technique b'-1:lemma:chip-exo'
-2.564254 Med      b'lemma:glucose'
-2.556390 Gversion b'lemma:_'
-2.554626 Air      b'-1:lemma:_'
-2.549785 O        b'postag:SYM'
-2.549729 O        b'+1:lemma:mid-log'
-2.543869 Air      b'-1:lemma:phase'
-2.541328 O        b'lemma:A'
-2.537440 Gtype    b'-1:lemma:_'
-2.525410 Supp     b'lemma:leucine'
-2.522615 O        b'lemma:lrp'
-2.522036 Gtype    b'-1:lemma:express'
-2.521629 O        b'-1:lemma:\xc2\xb0c'
-2.520010 O        b'lemma:csir'
-2.520010 O        b'lemma:ntrc'
-2.474244 Anti     b'+1:lemma:antibody'
-2.461694 Supp     b'+1:lemma:leucine'
-2.454280 O        b'lemma:genotype/variation'
-
-
-Top negative:
--0.120022 Gtype    b'-1:postag:,'
--0.120523 O        b'-1:lemma:in'
--0.122664 O        b'+1:lemma:sample'
--0.127328 O        b'+1:lemma:mm'
--0.133270 OD       b'+1:postag:CD'
--0.138198 O        b'-1:lemma:affinity'
--0.142281 O        b'lemma:paraquat'
--0.145257 O        b'+1:lemma:-rrb-'
--0.146006 Supp     b'lemma:2'
--0.150887 Anti     b'-1:postag:NN'
--0.154225 Gtype    b'lemma:_'
--0.158596 Gtype    b'+1:postag:NNS'
--0.161604 O        b'-1:postag:IN'
--0.163779 Gtype    b'+1:lemma:b'
--0.166301 O        b'-1:lemma:chip-exo'
--0.167220 O        b'-1:lemma:of'
--0.171664 O        b'-1:lemma:-lrb-'
--0.180434 Gversion b'+1:postag:NN'
--0.192357 O        b'lemma:o2'
--0.202260 O        b'lemma:e.'
--0.206741 Gtype    b'+1:lemma:a'
--0.208788 O        b'+1:postag:-RRB-'
--0.212004 O        b'-1:lemma:e.'
--0.218110 O        b'-1:postag:-LRB-'
--0.235338 O        b'+1:lemma:antibody'
--0.236328 O        b'+1:lemma:b'
--0.239367 Anti     b'+1:postag:JJ'
--0.249593 Gtype    b'-1:lemma:mg1655'
--0.249870 Supp     b'-1:postag:NNP'
--0.251500 O        b'+1:lemma:delta'
--0.252232 Supp     b'+1:postag:IN'
--0.256537 O        b'-1:lemma:20'
--0.258317 O        b'lemma:grow'
--0.269042 O        b'lemma:medium'
--0.273182 Temp     b'-1:postag:IN'
--0.274173 Gtype    b'-1:postag:CD'
--0.280038 O        b'lemma:8'
--0.280993 O        b'lemma:n2'
--0.288611 Supp     b'-1:lemma:-'
--0.293962 Gtype    b'lemma:ompr'
--0.301245 Strain   b'+1:postag:NN'
--0.303251 Med      b'-1:lemma:MOPS'
--0.306188 O        b'-1:lemma:0.1'
--0.306847 O        b'-1:lemma:n2'
--0.308913 O        b'+1:lemma:0.4'
--0.314484 Temp     b'postag:JJ'
--0.318718 Med      b'+1:postag:IN'
--0.318797 Gtype    b'postag:NNS'
--0.319631 Supp     b'+1:lemma:glucose'
--0.321045 O        b'lemma:m63'
--0.324374 O        b'lemma:aerobically'
--0.325816 O        b'lemma:30'
--0.326188 Med      b'-1:postag:CD'
--0.329836 Phase    b'-1:lemma:at'
--0.332152 O        b'+1:postag:VB'
--0.332842 Med      b'postag:CD'
--0.334256 O        b'lemma:co2'
--0.334810 O        b'lemma:minimal'
--0.342218 O        b'+1:lemma:minimal'
--0.349745 Gtype    b'+1:lemma:2'
--0.351934 Supp     b'lemma:and'
--0.354493 O        b'-1:lemma:minimal'
--0.358012 O        b'lemma:mg1655'
--0.358237 O        b'+1:lemma:.'
--0.358237 O        b'+1:postag:.'
--0.363596 O        b'-1:lemma:rna'
--0.370839 O        b'+1:lemma:2.0'
--0.375043 Supp     b'-1:postag:NN'
--0.376200 O        b'-1:lemma:with'
--0.392061 O        b'+1:lemma:cell'
--0.395304 O        b'-1:lemma:g/l'
--0.395511 Technique b'-1:lemma::'
--0.397546 O        b'+1:lemma:shake'
--0.401170 O        b'lemma:mg/ml'
--0.401170 O        b'-1:lemma:150'
--0.409541 O        b'-1:lemma:um'
--0.409541 O        b'+1:lemma:paraquat'
--0.409762 O        b'+1:lemma:from'
--0.419746 O        b'+1:lemma:300'
--0.421010 O        b'lemma:\xc2\xb0c'
--0.434499 O        b'lemma:of'
--0.436286 O        b'postag:RB'
--0.439656 Med      b'+1:postag:NN'
--0.444355 O        b'+1:lemma:dissolve'
--0.452235 O        b'+1:lemma:until'
--0.455261 O        b'lemma:nacl'
--0.456077 O        b'lemma:glucose'
--0.463464 O        b'-1:lemma:grow'
--0.463968 O        b'-1:lemma:fresh'
--0.464076 Phase    b'-1:postag:NN'
--0.486872 O        b'-1:lemma:rifampicin'
--0.523137 O        b'+1:postag:IN'
--0.525151 Technique b'-1:postag::'
--0.531783 O        b'+1:lemma:phase'
--0.538887 OD       b'+1:postag:NN'
--0.555616 O        b'+1:lemma:or'
--0.565115 O        b'+1:lemma:strain'
--0.566606 O        b'lemma:od600'
--0.578470 Gtype    b'-1:postag:SYM'
--0.578637 OD       b'lemma:-lrb-'
--0.601008 Med      b'+1:postag:NNS'
--0.607701 Med      b'postag:-LRB-'
--0.612346 O        b'-1:lemma:od600'
--0.613297 O        b'+1:lemma:%'
--0.632846 O        b'lemma:dissolve'
--0.636917 O        b'-1:lemma:cra'
--0.637702 O        b'+1:lemma:_'
--0.645606 pH       b'postag:NN'
--0.660680 Supp     b'postag:CC'
--0.661544 O        b'lemma:phase'
--0.663541 O        b'-1:lemma:co2'
--0.666296 Temp     b'-1:lemma:\xc2\xb0c'
--0.668061 Temp     b'postag:NN'
--0.677959 O        b'-1:lemma:from'
--0.689244 Air      b'-1:postag:NNP'
--0.689646 OD       b'postag:-LRB-'
--0.695039 O        b'-1:lemma:30'
--0.695571 Anti     b'+1:lemma:anti-fur'
--0.716001 O        b'-1:lemma:~'
--0.731399 O        b'lemma:150'
--0.731399 O        b'+1:lemma:mg/ml'
--0.739656 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.759740 Supp     b'+1:postag:VBN'
--0.763772 O        b'+1:lemma:Aerobic'
--0.766890 O        b'-1:lemma:\xe2\x88\x86'
--0.766971 O        b'-1:lemma:mid-log'
--0.768804 OD       b'+1:lemma:and'
--0.768894 O        b'+1:lemma:\xc2\xb0c'
--0.776396 Med      b'lemma:-lrb-'
--0.781865 Supp     b'+1:lemma:rifampicin'
--0.809383 O        b'-1:lemma:until'
--0.873765 Med      b'-1:postag:IN'
--0.887188 O        b'-1:lemma:0.2'
--0.914214 OD       b'+1:postag:CC'
--0.937224 O        b'+1:lemma:c'
--0.951430 O        b'+1:lemma:arginine'
--0.975038 O        b'lemma:20'
--0.984860 O        b'lemma:dpd'
--0.995326 Gtype    b'-1:postag:DT'
--0.997365 O        b'lemma:mid-log'
--1.001839 O        b'-1:lemma:1'
--1.007082 Phase    b'-1:postag:JJ'
--1.016639 O        b'+1:postag:NNS'
--1.024920 O        b'lemma:k-12'
--1.035792 Gtype    b'lemma:delta'
--1.035978 O        b'lemma:anaerobically'
--1.046001 O        b'lemma:media'
--1.073102 O        b'+1:lemma:fecl2'
--1.102636 Temp     b'+1:lemma:to'
--1.102636 Temp     b'+1:postag:TO'
--1.121716 Supp     b'+1:lemma:acetate'
--1.138292 O        b'+1:lemma:supplement'
--1.168057 O        b'lemma:purify'
--1.184745 O        b'lemma:anaerobic'
--1.205475 O        b'+1:lemma:rep1'
--1.215530 O        b'lemma:2h'
--1.215530 O        b'-1:lemma:additional'
--1.234334 Air      b'-1:postag:JJ'
--1.241734 O        b'+1:lemma:0.3'
--1.301983 O        b'-1:lemma:dissolve'
--1.301983 O        b'+1:lemma:methanol'
--1.303550 O        b'lemma:0.3'
--1.345097 O        b'lemma:0.1'
--1.379870 Supp     b'-1:postag:VBG'
--1.382375 O        b'+1:lemma:at'
--1.396032 O        b'lemma:\xe2\x88\x86'
--1.417143 O        b'+1:lemma:in'
--1.417204 O        b'lemma:0.2'
--1.503850 OD       b'postag:JJ'
--1.525722 O        b'lemma:\xce\xb4fur'
--1.542072 Air      b'postag:NN'
--1.579787 O        b'lemma:37'
--1.621701 O        b'-1:lemma:ml'
--1.630192 O        b'-1:lemma:sample'
--1.655725 O        b'-1:lemma:rpob'
--1.681294 O        b'+1:postag:VBG'
--1.700082 Air      b'+1:postag:JJ'
--1.700251 O        b'lemma:fecl2'
--1.715116 O        b'-1:postag:VBG'
--1.721605 O        b'lemma:wt'
--1.755559 O        b'-1:lemma:IP'
--1.757192 O        b'-1:postag::'
--1.825748 O        b'+1:lemma:g/l'
--1.826698 Supp     b'-1:lemma:%'
--1.900808 O        b'-1:lemma:ompr'
--1.900850 Supp     b'postag:JJ'
--2.012610 O        b'lemma:methanol'
--2.081277 Anti     b'postag:NNP'
--2.159396 O        b'-1:lemma:nsrr'
--2.166881 O        b'postag:VBP'
--2.270620 O        b'lemma:rifampicin'
--2.391350 O        b'-1:lemma:2'
--2.579475 O        b'+1:lemma:2'
--2.672474 O        b'-1:lemma:37'
--2.981970 O        b'+1:lemma:1'
--3.081557 O        b'+1:lemma:hour'
--3.094094 O        b'+1:lemma:+'
--3.525755 Phase    b'postag:JJ'
--3.662675 O        b'-1:lemma:_'
--4.650283 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.20934163148847484, 'c2': 5.972574594521125e-05}
+best CV score:0.8647885676297223
+model size: 0.05M
+
+Flat F1: 0.7568876974674016
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      0.955     0.913     0.933        23
+        Med      1.000     0.925     0.961        53
+       Temp      1.000     0.690     0.816        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.543     0.362     0.435        69
+       Anti      0.786     1.000     0.880        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.863     0.812     0.836        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.607     0.784     0.684       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.774     0.758     0.757       451
+
+
+Top likely transitions:
+Temp   -> Temp    6.372271
+Agit   -> Agit    6.336087
+Med    -> Med     5.775362
+Supp   -> Supp    5.599916
+OD     -> OD      5.514939
+Anti   -> Anti    5.400862
+Phase  -> Phase   5.214849
+Air    -> Air     4.870530
+Gtype  -> Gtype   4.826805
+O      -> O       4.601602
+Gversion -> Gversion 4.343416
+Technique -> Technique 4.055366
+pH     -> pH      3.102886
+Substrain -> Gtype   1.934887
+Air    -> O       1.597978
+O      -> Supp    1.582569
+Gtype  -> Supp    1.508336
+O      -> Technique 1.406325
+O      -> Gtype   1.205559
+O      -> Temp    0.833133
+Supp   -> O       0.751090
+O      -> Phase   0.676762
+Temp   -> O       0.670412
+Gtype  -> Air     0.616010
+Med    -> O       0.606543
+O      -> Anti    0.311020
+Technique -> Air     0.225375
+OD     -> O       0.192356
+O      -> Med     0.168459
+Phase  -> O       0.168068
+O      -> Gversion 0.143784
+O      -> pH      0.078839
+O      -> OD      0.075883
+Strain -> O       0.069008
+Gtype  -> Med     -0.229150
+Gtype  -> O       -0.660221
+O      -> Air     -0.746238
+Substrain -> O       -0.760215
+Phase  -> OD      -0.885028
+Technique -> Gtype   -1.154393
+Med    -> Supp    -1.787447
+
+
+Top unlikely transitions:
+Temp   -> Temp    6.372271
+Agit   -> Agit    6.336087
+Med    -> Med     5.775362
+Supp   -> Supp    5.599916
+OD     -> OD      5.514939
+Anti   -> Anti    5.400862
+Phase  -> Phase   5.214849
+Air    -> Air     4.870530
+Gtype  -> Gtype   4.826805
+O      -> O       4.601602
+Gversion -> Gversion 4.343416
+Technique -> Technique 4.055366
+pH     -> pH      3.102886
+Substrain -> Gtype   1.934887
+Air    -> O       1.597978
+O      -> Supp    1.582569
+Gtype  -> Supp    1.508336
+O      -> Technique 1.406325
+O      -> Gtype   1.205559
+O      -> Temp    0.833133
+Supp   -> O       0.751090
+O      -> Phase   0.676762
+Temp   -> O       0.670412
+Gtype  -> Air     0.616010
+Med    -> O       0.606543
+O      -> Anti    0.311020
+Technique -> Air     0.225375
+OD     -> O       0.192356
+O      -> Med     0.168459
+Phase  -> O       0.168068
+O      -> Gversion 0.143784
+O      -> pH      0.078839
+O      -> OD      0.075883
+Strain -> O       0.069008
+Gtype  -> Med     -0.229150
+Gtype  -> O       -0.660221
+O      -> Air     -0.746238
+Substrain -> O       -0.760215
+Phase  -> OD      -0.885028
+Technique -> Gtype   -1.154393
+Med    -> Supp    -1.787447
+
+
+Top positive:
+10.190054 Supp     b'lemma:Iron'
+9.112733 O        b'lemma:_'
+7.880021 Air      b'lemma:anaerobic'
+7.549281 Technique b'lemma:ChIP-exo'
+7.465093 Strain   b'+1:lemma:substr'
+7.422565 Med      b'lemma:MOPS'
+7.415432 Phase    b'lemma:exponential'
+7.415432 Phase    b'lemma:stationary'
+7.398082 Air      b'-1:lemma:ChIP-Seq'
+7.166683 O        b'lemma:2'
+7.146221 O        b'lemma:-'
+7.132564 Supp     b'lemma:pq'
+6.977885 Air      b'lemma:aerobic'
+6.744626 Gtype    b'lemma:wt'
+6.631092 Phase    b'lemma:mid-log'
+6.560555 O        b'lemma:1'
+6.447344 Technique b'lemma:chipseq'
+6.389162 Gtype    b'lemma:\xce\xb4cra'
+6.371591 Gversion b'lemma:asm584v2'
+6.280253 Supp     b'+1:lemma:\xc2\xb5m'
+6.224426 O        b'lemma:3'
+6.224046 O        b'-1:lemma:tag'
+6.202217 Air      b'lemma:Aerobic'
+6.046396 O        b'lemma:rpob'
+5.857469 Gversion b'lemma:nc'
+5.848042 O        b'lemma:Custom'
+5.738285 Gtype    b'lemma:wild-type'
+5.702974 O        b'lemma:Cra'
+5.644004 O        b'lemma:b'
+5.533358 Gtype    b'lemma:flag-tag'
+5.533358 Gtype    b'-1:lemma:c-terminal'
+5.521522 O        b'lemma:a'
+5.328505 Gtype    b'lemma:type'
+5.276884 Supp     b'lemma:nacl'
+5.252181 O        b'-1:lemma:ChIP-exo'
+5.206802 Gtype    b'+1:lemma:ph5'
+5.150774 Technique b'lemma:ChIP-Seq'
+5.068213 O        b'postag:IN'
+5.035817 O        b'lemma:rep1'
+4.983308 Vess     b'lemma:flask'
+4.983308 Vess     b'-1:lemma:warm'
+4.943797 O        b'lemma:rep3'
+4.854929 Supp     b'-1:lemma:Cra'
+4.845807 Gtype    b'lemma:\xe2\x88\x86'
+4.794055 Gtype    b'+1:lemma:type'
+4.645526 Gtype    b'lemma:arca8myc'
+4.620794 Gtype    b'lemma:\xce\xb4fur'
+4.559495 O        b'lemma:\xcf\x8332'
+4.549068 O        b'-1:lemma:type'
+4.420072 Supp     b'lemma:rifampicin'
+4.386336 Technique b'lemma:rna-seq'
+4.375116 Supp     b'lemma:acetate'
+4.337376 O        b'lemma:ompr'
+4.249331 O        b'postag:CC'
+4.232009 Supp     b'lemma:nitrate'
+4.189729 Supp     b'lemma:glucose'
+4.169856 Substrain b'lemma:mg1655'
+4.152149 Gtype    b'lemma:dfnr'
+4.143746 Supp     b'lemma:nh4cl'
+4.056334 O        b'+1:lemma:pq'
+4.052385 Gtype    b'lemma:pk4854'
+4.037199 Gtype    b'lemma:fnr8myc'
+3.985929 Anti     b'lemma:none'
+3.957986 Gtype    b'lemma:delta-fnr'
+3.954172 Med      b'lemma:lb'
+3.939606 Supp     b'-1:lemma:+'
+3.935266 Technique b'lemma:chip-seq'
+3.929436 O        b'postag:VBN'
+3.908650 Med      b'-1:lemma:ml'
+3.884593 Gversion b'-1:lemma:nc'
+3.878464 Anti     b'lemma:\xcf\x8332'
+3.863072 O        b'lemma:.'
+3.863072 O        b'postag:.'
+3.860626 O        b'lemma:chip'
+3.854556 Technique b'lemma:rnaseq'
+3.854116 O        b'postag::'
+3.783932 Agit     b'+1:lemma:rpm'
+3.781020 Gtype    b'lemma:\xce\xb4ompr'
+3.721025 Air      b'-1:lemma:-'
+3.718911 Agit     b'lemma:rpm'
+3.658315 O        b'-1:lemma:glucose'
+3.650822 Gtype    b'-1:lemma:\xe2\x88\x86'
+3.626592 Gtype    b'lemma:nsrr'
+3.625435 Supp     b'-1:lemma:with'
+3.621959 Med      b'+1:lemma:0.4'
+3.534472 Gtype    b'lemma:\xce\xb4soxr'
+3.534031 Supp     b'lemma:no3'
+3.532340 O        b'-1:lemma:0.3'
+3.529130 Temp     b'-1:lemma:sample'
+3.523066 O        b'lemma:with'
+3.479777 OD       b'lemma:od450'
+3.451557 Gtype    b'lemma:delta-arca'
+3.421135 Anti     b'lemma:seqa'
+3.408004 O        b'lemma:rep2'
+3.394045 O        b'-1:lemma:Aerobic'
+3.391719 Gversion b'lemma:chip-seq'
+3.391021 Supp     b'lemma:dpd'
+3.352795 O        b'-1:lemma:lb'
+3.334642 Technique b'-1:lemma:IP'
+3.303675 O        b'-1:lemma:0.3-0.35'
+3.272998 Air      b'lemma:anaerobically'
+3.245394 Supp     b'lemma:Leu'
+3.235692 Supp     b'lemma:Fe'
+3.223774 Technique b'-1:lemma:chip-exo'
+3.209091 Air      b'lemma:aerobically'
+3.198219 O        b'postag:VBG'
+3.170084 O        b'lemma:harbor'
+3.168019 Temp     b'-1:lemma:43'
+3.163951 Supp     b'lemma:arginine'
+3.160003 Gtype    b'+1:lemma:pq'
+3.153015 Anti     b'+1:lemma:antibody'
+3.115121 Strain   b'lemma:k-12'
+3.074034 Technique b'+1:lemma:chip-exo'
+3.071794 Air      b'postag:RB'
+3.069425 Substrain b'lemma:mg1655star'
+3.062133 Supp     b'lemma:Adenine'
+3.060892 Air      b'lemma:anaeroibc'
+3.056193 Temp     b'-1:lemma:\xcf\x8332'
+3.042361 Supp     b'+1:lemma:mm'
+3.019482 Gtype    b'-1:lemma:ptac'
+2.998564 O        b'-1:lemma:into'
+2.994519 pH       b'lemma:5.5'
+2.973677 Gversion b'lemma:.2'
+2.973677 Gversion b'-1:lemma:u00096'
+2.973445 O        b'-1:lemma:\xc2\xb0c'
+2.958977 Med      b'lemma:media'
+2.930356 O        b'+1:lemma:chip-seq'
+2.896285 Gtype    b'+1:lemma:with'
+2.895621 Gtype    b'-1:lemma:rpob'
+2.894434 Gtype    b'+1:lemma:flagtag'
+2.893824 O        b'lemma:CEL'
+2.871221 O        b'+1:lemma:arca-8myc'
+2.854072 Temp     b'+1:lemma:in'
+2.819779 Gtype    b'-1:lemma:delta'
+2.816913 O        b'+1:lemma:250'
+2.810671 O        b'+1:lemma:od600'
+2.799953 O        b'+1:lemma:mid-log'
+2.791088 Supp     b'-1:lemma:vol'
+2.782754 Gversion b'lemma:u00096'
+2.782754 Gversion b'+1:lemma:.2'
+2.762169 O        b'lemma:ml'
+2.714953 O        b'+1:postag:NNP'
+2.698964 Gtype    b'lemma:\xce\xb4oxyr'
+2.673462 Gtype    b'-1:postag:VBG'
+2.672861 Med      b'lemma:L'
+2.672861 Med      b'+1:lemma:broth'
+2.665253 O        b'+1:lemma:acetate'
+2.647014 Phase    b'-1:lemma:mid-log'
+2.641349 Med      b'lemma:m63'
+2.626973 Substrain b'+1:lemma:phtpg'
+2.622910 Gversion b'lemma:000913'
+2.605384 O        b'lemma::'
+2.594999 pH       b'+1:postag:CD'
+2.538219 O        b'lemma:s'
+2.537207 Med      b'lemma:broth'
+2.537207 Med      b'-1:lemma:L'
+2.527821 pH       b'lemma:ph5'
+2.527821 pH       b'+1:lemma:.5'
+2.515586 O        b'+1:lemma:coli'
+2.509864 Supp     b'+1:lemma:1'
+2.508452 Med      b'-1:lemma:fresh'
+2.494059 Supp     b'lemma:fructose'
+2.475120 Temp     b'lemma:43'
+2.463892 O        b'-1:lemma:rpm'
+2.434009 Anti     b'lemma:anti-myc'
+2.426928 O        b'+1:postag:RB'
+2.422956 Gtype    b'+1:lemma:_'
+2.396151 Med      b'+1:lemma:2.0'
+2.362312 O        b'lemma:condition'
+2.343697 O        b'+1:lemma:or'
+2.310123 Med      b'-1:lemma:glucose'
+2.304110 Temp     b'lemma:\xc2\xb0c'
+2.250756 Gtype    b'+1:postag::'
+2.243158 Med      b'lemma:minimal'
+2.236131 Temp     b'-1:lemma:37'
+2.232349 Temp     b'+1:lemma:\xc2\xb0c'
+2.215545 Gtype    b'lemma:deltaseqa'
+2.215545 Gtype    b'-1:lemma:old'
+2.168823 O        b'postag:NNS'
+2.142782 pH       b'+1:lemma:5.5'
+2.133425 O        b'lemma:at'
+2.127108 Gtype    b'-1:lemma:factor'
+2.118652 O        b'lemma:agitation'
+2.100263 Med      b'+1:lemma:minimal'
+2.099378 Supp     b'+1:lemma:min'
+2.099095 Phase    b'lemma:phase'
+2.087589 Supp     b'+1:lemma:and'
+2.072277 O        b'+1:lemma:sparging'
+2.066002 Supp     b'+1:lemma:Deficient'
+2.054354 O        b'+1:lemma:anti-fur'
+2.053062 O        b'lemma:genotype/variation'
+2.041875 O        b'-1:lemma:l1'
+2.039194 Gtype    b'-1:lemma::'
+2.031026 Supp     b'-1:lemma:\xc2\xb5m'
+2.010199 O        b'postag:DT'
+2.007491 O        b'lemma:culture'
+2.000485 O        b'postag:VBD'
+1.989764 OD       b'lemma:0.3-0.35'
+1.982940 Supp     b'-1:lemma:sodium'
+1.980905 Gversion b'postag:CD'
+
+
+Top negative:
+0.039807 OD       b'+1:postag:,'
+0.039185 O        b'lemma:um'
+0.035254 O        b'+1:postag:JJ'
+0.030051 O        b'+1:postag:SYM'
+0.027873 Supp     b'-1:lemma:m'
+0.025396 O        b"lemma:'s"
+0.025396 O        b'postag:POS'
+0.025396 O        b'-1:lemma:manufacturer'
+0.025396 O        b'+1:lemma:instruction'
+0.024333 Supp     b'-1:lemma:rifampicin'
+0.023672 O        b'+1:lemma:more'
+0.023672 O        b'+1:postag:JJR'
+0.017097 O        b'lemma:final'
+0.014163 O        b'+1:lemma:_'
+0.013275 O        b'lemma:mm'
+0.012005 Anti     b'lemma:subunit'
+0.012005 Anti     b'+1:lemma:\xce\xb2'
+0.003898 Gtype    b'lemma:Fur'
+0.002851 Gtype    b'+1:postag:NNP'
+0.002190 O        b'lemma:%'
+0.001946 Gtype    b'lemma:transcription'
+0.001946 Gtype    b'+1:lemma:factor'
+0.001569 O        b'postag:VBZ'
+0.001233 O        b'lemma:short'
+0.001233 O        b'+1:lemma:rnase'
+0.000698 Air      b'-1:lemma:anaerobically'
+0.000218 Med      b'+1:postag:VBG'
+0.000187 Temp     b'-1:lemma:control'
+0.000185 Gversion b'-1:lemma::'
+0.000177 Phase    b'-1:postag::'
+0.000113 Supp     b'+1:postag:RB'
+0.000102 O        b'+1:lemma:37'
+0.000083 Supp     b'lemma:ph'
+0.000058 Phase    b'+1:lemma:.'
+0.000058 Phase    b'+1:postag:.'
+0.000058 Supp     b'-1:lemma:ph'
+0.000040 O        b'-1:lemma:m63'
+0.000031 Gtype    b'+1:lemma:,'
+0.000031 Gtype    b'+1:postag:,'
+0.000023 O        b'lemma:IP'
+0.000019 Supp     b'lemma:300'
+0.000019 Supp     b'+1:lemma:\xc2\xb5l'
+0.000009 Temp     b'lemma:sample'
+0.000007 Temp     b'-1:lemma:see'
+0.000007 Supp     b'lemma:feso4'
+0.000004 O        b'lemma:acetate'
+0.000002 O        b'lemma:1:500'
+0.000002 O        b'-1:lemma:back'
+0.000001 Temp     b'lemma:control'
+-0.000014 O        b'+1:lemma:7.6'
+-0.000065 O        b'lemma:aerobic'
+-0.000130 O        b'-1:lemma:rpob'
+-0.000160 Temp     b'postag:JJ'
+-0.000216 O        b'+1:lemma:contain'
+-0.000303 O        b'-1:lemma:minimal'
+-0.000303 O        b'+1:lemma:of'
+-0.000650 O        b'+1:lemma:95'
+-0.002197 O        b'-1:lemma:m'
+-0.002284 O        b'-1:postag:JJ'
+-0.002326 O        b'+1:lemma:,'
+-0.002326 O        b'+1:postag:,'
+-0.003392 Gtype    b'+1:postag:NN'
+-0.004717 O        b'+1:lemma:fnr'
+-0.005411 Gversion b'+1:postag:NN'
+-0.005829 Air      b'-1:postag:VBN'
+-0.010227 Supp     b'+1:lemma:of'
+-0.011686 O        b'+1:lemma:~'
+-0.011760 Gtype    b'+1:postag:CD'
+-0.011855 O        b'-1:lemma:5'
+-0.012174 O        b'-1:lemma:.'
+-0.012174 O        b'-1:postag:.'
+-0.014528 O        b'lemma:20'
+-0.016459 Agit     b'postag:NN'
+-0.020390 Technique b'-1:lemma::'
+-0.022295 O        b'+1:lemma:-lrb-'
+-0.023051 O        b'lemma:od600'
+-0.027871 Gtype    b'postag:VBG'
+-0.033411 O        b'-1:postag:-RRB-'
+-0.035506 O        b'lemma:m63'
+-0.038491 Supp     b'-1:lemma:10'
+-0.043161 O        b'+1:lemma:%'
+-0.051673 Gtype    b'-1:postag:NN'
+-0.053797 Supp     b'lemma:mm'
+-0.055546 Air      b'+1:postag:CD'
+-0.061075 O        b'lemma:1m'
+-0.068387 O        b'+1:lemma:for'
+-0.069911 O        b'+1:lemma:-rrb-'
+-0.075578 O        b'-1:lemma:37'
+-0.091100 O        b'-1:lemma:of'
+-0.094169 O        b'-1:lemma:until'
+-0.099146 Supp     b'postag:CD'
+-0.114939 O        b'+1:lemma:ph'
+-0.122454 O        b'lemma:wt'
+-0.126051 O        b'-1:postag:DT'
+-0.132413 Anti     b'+1:postag:JJ'
+-0.132521 O        b'-1:lemma:iptg'
+-0.138791 O        b'-1:lemma:from'
+-0.142787 Supp     b'+1:postag:-RRB-'
+-0.148089 Gtype    b'postag:CD'
+-0.160312 O        b'-1:lemma:-lrb-'
+-0.163006 O        b'+1:postag:-LRB-'
+-0.163639 O        b'lemma:medium'
+-0.171523 Supp     b'+1:lemma:fructose'
+-0.175650 Air      b'postag:CD'
+-0.176789 Gtype    b'-1:lemma:mg1655'
+-0.209413 Supp     b'lemma:10'
+-0.229904 Agit     b'-1:postag:NN'
+-0.233855 Supp     b'postag:NN'
+-0.254205 Supp     b'-1:lemma:dpd'
+-0.270474 O        b'-1:lemma:\xe2\x88\x86'
+-0.322402 O        b'-1:lemma:1m'
+-0.327143 Supp     b'postag:CC'
+-0.327477 O        b'lemma:aerobically'
+-0.334210 Med      b'-1:postag:CD'
+-0.337947 O        b'lemma:mid-log'
+-0.351998 O        b'lemma:minimal'
+-0.358452 Phase    b'-1:lemma:at'
+-0.378720 O        b'-1:lemma:final'
+-0.390763 Supp     b'+1:lemma:dpd'
+-0.395432 Med      b'postag:CD'
+-0.398943 O        b'lemma:37'
+-0.413061 O        b'+1:lemma:+'
+-0.428486 Gtype    b'+1:lemma:-lrb-'
+-0.435167 O        b'lemma:\xce\xb4fur'
+-0.445119 O        b'-1:lemma:delta'
+-0.454315 O        b'+1:lemma:.'
+-0.454315 O        b'+1:postag:.'
+-0.455581 Supp     b'-1:lemma:-lrb-'
+-0.463177 Phase    b'+1:postag:NN'
+-0.463568 Med      b'+1:postag:NN'
+-0.470619 Supp     b'+1:postag:VBN'
+-0.474915 O        b'-1:lemma:sample'
+-0.477379 Med      b'-1:postag:NN'
+-0.481602 O        b'lemma:nitrogen'
+-0.484766 O        b'lemma:ph'
+-0.504002 O        b'-1:postag:-LRB-'
+-0.509161 Supp     b'-1:postag:-LRB-'
+-0.510610 Air      b'-1:lemma:or'
+-0.519487 O        b'+1:lemma:supplement'
+-0.524200 O        b'-1:lemma:n2'
+-0.543542 O        b'+1:postag:IN'
+-0.594418 pH       b'postag:NN'
+-0.615404 O        b'-1:postag:IN'
+-0.619607 O        b'-1:lemma:cra'
+-0.656333 O        b'-1:lemma:mm'
+-0.688334 O        b'+1:postag:-RRB-'
+-0.710435 O        b'-1:lemma:ml'
+-0.716844 O        b'lemma:anaerobically'
+-0.730927 O        b'+1:lemma:until'
+-0.747298 O        b'lemma:media'
+-0.754688 O        b'+1:lemma:mm'
+-0.768772 Med      b'-1:postag:IN'
+-0.775892 Supp     b'+1:lemma:acetate'
+-0.788215 Technique b'-1:postag::'
+-0.802700 O        b'-1:lemma:co2'
+-0.820146 O        b'lemma:methanol'
+-0.863797 Supp     b'-1:postag:NNP'
+-0.897516 O        b'+1:lemma:at'
+-0.907339 O        b'+1:lemma:2.0'
+-0.918505 O        b'-1:postag::'
+-0.945238 O        b'-1:lemma:dissolve'
+-0.945238 O        b'+1:lemma:methanol'
+-0.959379 Supp     b'+1:lemma:rifampicin'
+-0.986744 O        b'-1:lemma:nsrr'
+-0.993158 O        b'+1:lemma:g/l'
+-1.104395 O        b'lemma:2h'
+-1.104395 O        b'-1:lemma:additional'
+-1.107657 O        b'+1:lemma:1m'
+-1.131265 O        b'+1:postag:VBG'
+-1.178961 O        b'lemma:of'
+-1.201973 O        b'-1:lemma:fresh'
+-1.209225 O        b'postag:VBP'
+-1.212055 O        b'-1:lemma:ph'
+-1.241153 Phase    b'-1:postag:JJ'
+-1.329472 O        b'lemma:30'
+-1.335303 Temp     b'postag:NN'
+-1.335403 Supp     b'+1:lemma:-lrb-'
+-1.347076 O        b'-1:lemma:IP'
+-1.360555 Air      b'+1:postag:JJ'
+-1.373057 Supp     b'+1:postag:-LRB-'
+-1.494837 O        b'-1:lemma:30'
+-1.531593 Anti     b'postag:NNP'
+-1.575468 Phase    b'postag:JJ'
+-1.599957 Temp     b'+1:postag:IN'
+-1.732683 Air      b'postag:NN'
+-1.747609 OD       b'+1:postag:NN'
+-1.793039 O        b'lemma:rifampicin'
+-1.853309 Supp     b'postag:JJ'
+-1.930986 O        b'+1:lemma:1'
+-1.993172 Supp     b'+1:lemma:,'
+-1.993172 Supp     b'+1:postag:,'
+-2.085464 O        b'-1:lemma:2'
+-2.086023 O        b'+1:lemma:in'
+-2.172547 O        b'lemma:0.3'
+-2.181747 O        b'-1:postag:VBG'
+-2.236719 O        b'-1:lemma:1'
+-2.380060 O        b'-1:lemma:vol'
+-2.454507 O        b'+1:lemma:2'
+-4.266439 O        b'-1:lemma:_'
+-4.856613 O        b'-1:lemma::'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.014516456694382724, 'c2': 0.020326963729101803}
-best CV score:0.7978697547192418
-model size: 0.10M
-
-Flat F1: 0.7980283470747447
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.667     0.800         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.862     0.764     0.810       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.869     0.684     0.765       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.861     0.754     0.798       480
-
-
-Top likely transitions:
-OD     -> OD      5.560370
-Med    -> Med     5.323219
-Agit   -> Agit    5.320147
-Anti   -> Anti    5.296542
-Temp   -> Temp    5.103287
-O      -> O       4.922938
-Air    -> Air     4.793927
-Gversion -> Gversion 4.409724
-Phase  -> Phase   4.282790
-Gtype  -> Gtype   4.185033
-Supp   -> Supp    3.873567
-Technique -> Technique 3.092187
-pH     -> pH      2.533873
-Substrain -> Gtype   2.083775
-O      -> Supp    1.586928
-Gtype  -> Supp    1.409951
-O      -> Technique 1.210201
-Air    -> O       1.150012
-O      -> Gtype   1.137322
-Technique -> Air     0.988159
-O      -> Temp    0.874873
-Gtype  -> pH      0.834090
-O      -> Anti    0.676973
-Gtype  -> Air     0.351268
-O      -> pH      0.312385
-O      -> Gversion 0.250755
-O      -> Strain  0.242825
-Med    -> O       0.156921
-Phase  -> O       0.156793
-O      -> Vess    0.116805
-Strain -> O       0.014803
-Phase  -> Anti    -0.000003
-O      -> Med     -0.000752
-Temp   -> O       -0.003264
-Anti   -> Gversion -0.005246
-Substrain -> OD      -0.006112
-Anti   -> O       -0.012910
-Vess   -> Temp    -0.013445
-Gtype  -> Strain  -0.014292
-Gtype  -> Agit    -0.018808
-Agit   -> Air     -0.019198
-pH     -> Gversion -0.019841
-Gtype  -> Vess    -0.027646
-Anti   -> pH      -0.041855
-Supp   -> Substrain -0.048654
-pH     -> O       -0.051317
-pH     -> Temp    -0.051548
-OD     -> Strain  -0.053471
-Technique -> Phase   -0.059693
-Air    -> Anti    -0.065992
-
-
-Top unlikely transitions:
-Gversion -> Technique -0.391299
-Gversion -> Supp    -0.406688
-Technique -> Gversion -0.428288
-Supp   -> Vess    -0.430488
-Phase  -> Supp    -0.437798
-Technique -> O       -0.448599
-Air    -> Gtype   -0.476159
-Anti   -> Gtype   -0.500852
-Supp   -> pH      -0.583991
-Air    -> Temp    -0.602302
-OD     -> Anti    -0.617350
-Gversion -> Air     -0.617810
-OD     -> Technique -0.621252
-Gtype  -> Phase   -0.623518
-Gtype  -> Technique -0.650072
-OD     -> Supp    -0.671572
-Technique -> Supp    -0.688870
-Supp   -> Phase   -0.709665
-Air    -> Med     -0.773311
-Med    -> Air     -0.783002
-Gtype  -> Gversion -0.797279
-Anti   -> OD      -0.803027
-Supp   -> Temp    -0.806667
-OD     -> Temp    -0.831917
-Gtype  -> Med     -0.857691
-Supp   -> Anti    -0.870891
-Supp   -> Gversion -0.871973
-Phase  -> Technique -0.889830
-Air    -> Supp    -0.929944
-OD     -> Med     -0.949017
-Temp   -> Med     -0.966397
-Agit   -> O       -1.011105
-Gtype  -> Anti    -1.040477
-Supp   -> Gtype   -1.040776
-Supp   -> Technique -1.044847
-Supp   -> OD      -1.045914
-OD     -> O       -1.090042
-O      -> Air     -1.160281
-OD     -> Air     -1.213400
-OD     -> Gtype   -1.220713
-Supp   -> Air     -1.227062
-Air    -> OD      -1.334679
-Technique -> Gtype   -1.446717
-Substrain -> O       -1.450017
-Gtype  -> OD      -1.452352
-Supp   -> Med     -1.509084
-Technique -> pH      -1.527185
-Technique -> OD      -1.622827
-Med    -> Supp    -2.072342
-Phase  -> OD      -2.635203
-
-
-Top positive:
-7.689893 O        b'lemma:_'
-6.547225 O        b'lemma:1'
-6.266708 Phase    b'lemma:stationary'
-6.090095 Supp     b'lemma:Iron'
-5.988669 Air      b'lemma:anaerobic'
-5.820969 O        b'lemma:2'
-5.673994 Strain   b'lemma:k-12'
-5.616058 Technique b'lemma:ChIP-exo'
-5.566871 Technique b'lemma:chipseq'
-5.425819 O        b'lemma:rpob'
-5.405712 Air      b'lemma:aerobic'
-5.246162 Phase    b'lemma:mid-log'
-5.241102 O        b'lemma:3'
-5.223694 Supp     b'lemma:pq'
-4.895058 Gtype    b'lemma:arca8myc'
-4.866546 O        b'lemma:rep1'
-4.849967 Gtype    b'lemma:flag-tag'
-4.849967 Gtype    b'-1:lemma:c-terminal'
-4.824569 Supp     b'lemma:nh4cl'
-4.797323 Gtype    b'lemma:\xce\xb4cra'
-4.775172 Gversion b'lemma:asm584v2'
-4.709551 O        b'lemma:Cra'
-4.640113 O        b'lemma:rep2'
-4.639482 Supp     b'lemma:glucose'
-4.557425 Air      b'-1:lemma:ChIP-Seq'
-4.515191 O        b'-1:lemma:tag'
-4.493134 Substrain b'lemma:mg1655'
-4.481774 O        b'lemma:rep3'
-4.480956 Med      b'lemma:MOPS'
-4.471922 Gtype    b'lemma:wt'
-4.376044 Supp     b'lemma:acetate'
-4.334523 Med      b'lemma:lb'
-4.283076 Supp     b'+1:lemma:\xc2\xb5m'
-4.262932 Supp     b'lemma:nitrate'
-4.214237 Gtype    b'lemma:delta-arca'
-4.182534 Med      b'lemma:LB'
-4.133282 Supp     b'lemma:no3'
-4.105821 Technique b'lemma:rna-seq'
-4.070487 Gtype    b'lemma:fnr8myc'
-4.070471 Air      b'lemma:Aerobic'
-4.038314 O        b'-1:lemma:Aerobic'
-4.015333 Anti     b'lemma:none'
-3.997371 O        b'lemma:b'
-3.963707 O        b'postag:IN'
-3.955535 O        b'lemma:a'
-3.955270 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.924171 Supp     b'lemma:Fe'
-3.902126 Anti     b'lemma:seqa'
-3.896361 O        b'lemma:\xcf\x8332'
-3.864684 Technique b'lemma:chip-seq'
-3.813831 Technique b'lemma:rnaseq'
-3.720604 Supp     b'-1:lemma:Cra'
-3.706354 O        b'lemma:.'
-3.706354 O        b'postag:.'
-3.645774 Gtype    b'lemma:delta-fnr'
-3.637816 O        b'+1:postag:RB'
-3.621220 Supp     b'lemma:dpd'
-3.613509 O        b'lemma:CEL'
-3.579889 O        b'postag::'
-3.569191 Supp     b'+1:lemma:Deficient'
-3.564359 O        b'-1:lemma:ChIP-exo'
-3.554295 Gversion b'lemma:chip-seq'
-3.542155 Supp     b'lemma:rifampicin'
-3.526053 Supp     b'lemma:fructose'
-3.521805 O        b'lemma:Custom'
-3.473156 OD       b'lemma:od450'
-3.342102 Air      b'postag:RB'
-3.326021 Gtype    b'+1:lemma:with'
-3.297006 O        b'lemma:with'
-3.288934 Med      b'lemma:m63'
-3.287331 Supp     b'lemma:arginine'
-3.278166 Supp     b'+1:lemma:1'
-3.240003 Med      b'+1:lemma:0.4'
-3.218381 O        b'lemma:-'
-3.216059 Gtype    b'lemma:type'
-3.202503 Gtype    b'lemma:\xce\xb4fur'
-3.194189 Gtype    b'+1:lemma:type'
-3.193082 O        b'-1:lemma:0.3-0.35'
-3.189850 OD       b'lemma:od600'
-3.166033 O        b'-1:lemma:glucose'
-3.165613 O        b'lemma:chip-arca'
-3.154829 Vess     b'lemma:flask'
-3.154829 Vess     b'-1:lemma:warm'
-3.153229 O        b'lemma:oxyr'
-3.147911 Supp     b'-1:lemma:+'
-3.129038 Anti     b'lemma:anti-myc'
-3.109625 O        b'lemma:s'
-3.097715 Gtype    b'lemma:\xe2\x88\x86'
-3.093620 O        b'lemma:ompr'
-3.084476 O        b'lemma:affyexp'
-3.081752 Gtype    b'lemma:wild-type'
-3.079295 Gversion b'lemma:nc'
-3.078281 Temp     b'lemma:\xc2\xb0c'
-3.063891 Gtype    b'lemma:WT'
-3.052218 pH       b'lemma:ph5'
-3.052218 pH       b'+1:lemma:.5'
-3.037788 O        b'+1:lemma:anti-fur'
-3.014541 Gtype    b'lemma:\xce\xb4soxs'
-3.011193 O        b'+1:lemma:od600'
-3.008729 O        b'lemma:argr'
-3.008102 O        b'-1:lemma:lb'
-2.997116 Strain   b'+1:lemma:substr'
-2.984041 Supp     b'+1:lemma:hour'
-2.972494 O        b'-1:lemma:anaerobic'
-2.971809 O        b'+1:lemma:mid-log'
-2.955837 Gtype    b'lemma:nsrr'
-2.926831 O        b'lemma:purr'
-2.916380 Gversion b'lemma:.2'
-2.916380 Gversion b'-1:lemma:u00096'
-2.905573 Air      b'lemma:Anaerobic'
-2.889288 O        b'postag:VBN'
-2.860540 O        b'-1:lemma:stpa'
-2.860204 Gversion b'lemma:u00096'
-2.860204 Gversion b'+1:lemma:.2'
-2.852943 Gtype    b'lemma:\xce\xb4ompr'
-2.843988 Technique b'lemma:ChIP-Seq'
-2.824246 O        b'+1:lemma:pq'
-2.822786 Supp     b'+1:lemma:2'
-2.803844 Supp     b'lemma:Leu'
-2.775354 O        b'lemma:or'
-2.765101 O        b'lemma:for'
-2.762328 Gversion b'lemma:000913'
-2.728995 Supp     b'+1:lemma:_'
-2.717013 Gtype    b'lemma:ptac'
-2.710470 Supp     b'lemma:nacl'
-2.700499 Gversion b'-1:lemma:nc'
-2.693007 O        b'lemma:Lrp'
-2.666936 Supp     b'lemma:Adenine'
-2.666749 Gtype    b'lemma:deltaseqa'
-2.666749 Gtype    b'-1:lemma:old'
-2.666456 Technique b'-1:lemma:IP'
-2.657018 Gtype    b'-1:lemma:ptac'
-2.656609 O        b'+1:lemma:chip-seq'
-2.651756 Phase    b'lemma:phase'
-2.645047 Med      b'+1:lemma:2.0'
-2.635317 O        b'lemma:at'
-2.634819 O        b'-1:lemma:type'
-2.630111 Temp     b'-1:lemma:37'
-2.603214 Gtype    b'-1:lemma:rpob'
-2.591068 Phase    b'+1:lemma:for'
-2.583108 O        b'lemma:soxs'
-2.583108 O        b'lemma:soxr'
-2.582233 Med      b'+1:lemma:minimal'
-2.581503 OD       b'+1:lemma:stationary'
-2.578479 Gtype    b'+1:lemma:pq'
-2.546464 O        b'lemma:Fur'
-2.517595 O        b'postag:SYM'
-2.510648 Gtype    b'+1:lemma:flagtag'
-2.478430 Gtype    b'lemma:pk4854'
-2.476858 O        b'lemma:chip'
-2.476469 Temp     b'lemma:43'
-2.467259 Anti     b'+1:lemma:antibody'
-2.464347 Gtype    b'lemma:\xce\xb4oxyr'
-2.456036 Technique b'-1:lemma:input'
-2.439409 Air      b'lemma:anerobically'
-2.439013 Supp     b'lemma:iptg'
-2.427281 Phase    b'-1:lemma:until'
-2.422079 O        b'lemma:pt7'
-2.420462 Gtype    b'lemma:\xce\xb4soxr'
-2.412058 O        b'+1:lemma:o.d.'
-2.408051 Gtype    b'+1:lemma:aerobic'
-2.394275 O        b'lemma:2-3'
-2.382935 Air      b'+1:lemma:at'
-2.372931 Technique b'-1:lemma:chip-exo'
-2.369521 Anti     b'lemma:anti-rpos'
-2.363747 Substrain b'+1:lemma:phtpg'
-2.362943 O        b'lemma:chip-fnr'
-2.354731 Med      b'-1:lemma:ml'
-2.334266 Temp     b'-1:lemma:43'
-2.309210 Gtype    b'-1:lemma:nsrr'
-2.303678 Med      b'postag:NNP'
-2.285357 O        b'+1:lemma:43'
-2.282215 Air      b'-1:lemma:-'
-2.273224 Gversion b'+1:lemma:000913'
-2.271839 Air      b'-1:postag::'
-2.266287 Technique b'+1:lemma:chip-exo'
-2.264396 Med      b'lemma:L'
-2.264396 Med      b'+1:lemma:broth'
-2.262410 Air      b'lemma:anaerobically'
-2.203015 Gtype    b'lemma:dfnr'
-2.189315 pH       b'lemma:.5'
-2.189315 pH       b'-1:lemma:ph5'
-2.188404 Med      b'lemma:glucose'
-2.187878 Gtype    b'-1:lemma:_'
-2.186093 O        b'postag:CC'
-2.181846 Vess     b'-1:postag:VBN'
-2.178752 O        b'-1:lemma:0.3'
-2.171387 O        b'lemma:culture'
-2.168119 Gtype    b'+1:lemma:ph5'
-2.151683 Gtype    b'lemma:flagtag'
-2.151117 Supp     b'+1:lemma:respiratory'
-2.148355 Technique b'postag:NNP'
-2.143403 Supp     b'+1:lemma:leucine'
-2.130979 O        b'lemma:A'
-2.126486 O        b'-1:lemma:dpd'
-2.125151 O        b'lemma:genotype/variation'
-2.124402 Air      b'-1:lemma:_'
-2.119304 Gtype    b'-1:lemma:express'
-2.116025 O        b'-1:lemma:\xc2\xb0c'
-2.113245 Med      b'-1:lemma:LB'
-
-
-Top negative:
--0.149474 O        b'-1:lemma:150'
--0.156324 Supp     b'+1:lemma:glucose'
--0.166525 O        b'+1:lemma:or'
--0.166657 Gtype    b'+1:lemma:cra'
--0.169192 Air      b'postag:CD'
--0.171249 O        b'-1:lemma:delta'
--0.175879 Gtype    b'lemma:ompr'
--0.178610 O        b'-1:lemma:-lrb-'
--0.179471 O        b'+1:lemma:mm'
--0.183332 O        b'lemma:e.'
--0.187133 O        b'lemma:paraquat'
--0.187912 O        b'-1:lemma:purify'
--0.190418 O        b'-1:lemma:of'
--0.193237 O        b'-1:lemma:the'
--0.196917 Gtype    b'-1:lemma:,'
--0.196917 Gtype    b'-1:postag:,'
--0.207686 O        b'-1:postag:VBP'
--0.211483 Gtype    b'-1:lemma:-lrb-'
--0.212783 O        b'lemma:aerobically'
--0.213130 O        b'-1:lemma:e.'
--0.215721 O        b'+1:postag:-RRB-'
--0.215839 Supp     b'+1:postag:IN'
--0.218911 Supp     b'lemma:and'
--0.223065 Med      b'+1:lemma:media'
--0.225231 Gtype    b'lemma:control'
--0.230542 Supp     b'-1:postag:NN'
--0.230830 O        b'-1:postag:-LRB-'
--0.235271 Gtype    b'-1:lemma:mg1655'
--0.251142 Med      b'-1:postag:NN'
--0.251447 Temp     b'-1:postag:IN'
--0.253195 O        b'+1:lemma:from'
--0.254622 Gtype    b'postag:CD'
--0.254892 O        b'lemma:lb'
--0.256765 O        b'-1:lemma:300'
--0.260131 Gtype    b'+1:lemma:a'
--0.260302 Med      b'-1:postag:CD'
--0.260618 O        b'+1:lemma:antibody'
--0.264891 O        b'lemma:m63'
--0.266272 O        b'+1:lemma:.'
--0.266272 O        b'+1:postag:.'
--0.266629 O        b'-1:lemma:with'
--0.268778 Med      b'-1:lemma:MOPS'
--0.269344 Phase    b'-1:lemma:at'
--0.269854 Gtype    b'+1:lemma:2'
--0.272035 Gtype    b'postag:NNS'
--0.274858 O        b'-1:lemma:minimal'
--0.277854 O        b'lemma:n2'
--0.278065 O        b'lemma:grow'
--0.278999 O        b'lemma:8'
--0.281569 Med      b'+1:postag:NNS'
--0.293395 O        b'lemma:minimal'
--0.295919 O        b'-1:lemma:mm'
--0.305450 Gtype    b'+1:lemma:b'
--0.305852 Gtype    b'+1:postag:NNS'
--0.307660 Supp     b'postag:CC'
--0.307762 Technique b'-1:lemma::'
--0.307991 OD       b'+1:lemma:in'
--0.317047 O        b'-1:lemma:rna'
--0.320066 O        b'lemma:co2'
--0.325889 O        b'+1:lemma:0.4'
--0.328270 O        b'+1:lemma:-lcb-'
--0.339366 O        b'-1:lemma:n2'
--0.341156 Temp     b'postag:JJ'
--0.344639 Gtype    b'lemma:_'
--0.356368 Gtype    b'-1:postag:CD'
--0.357550 O        b'lemma:30'
--0.367269 O        b'postag:RB'
--0.374575 O        b'-1:lemma:0.1'
--0.377633 O        b'+1:postag:IN'
--0.390722 O        b'+1:lemma:delta'
--0.393066 O        b'-1:lemma:iptg'
--0.393438 O        b'-1:lemma:20'
--0.397913 Technique b'-1:postag::'
--0.402618 O        b'-1:lemma:chip-exo'
--0.404112 O        b'-1:lemma:grow'
--0.409921 Anti     b'+1:postag:JJ'
--0.417260 O        b'-1:lemma:g/l'
--0.428925 O        b'lemma:glucose'
--0.432215 Med      b'+1:postag:IN'
--0.434983 OD       b'+1:postag:NN'
--0.441704 O        b'+1:lemma:phase'
--0.446493 O        b'+1:lemma:shake'
--0.450617 O        b'-1:lemma:30'
--0.457886 O        b'+1:lemma:%'
--0.468431 OD       b'+1:postag:CC'
--0.468469 O        b'lemma:of'
--0.472653 O        b'+1:lemma:cell'
--0.473701 Temp     b'-1:lemma:\xc2\xb0c'
--0.476616 O        b'-1:lemma:cra'
--0.480503 O        b'+1:lemma:dissolve'
--0.480603 Med      b'lemma:-lrb-'
--0.484800 OD       b'+1:lemma:and'
--0.485490 O        b'+1:lemma:_'
--0.489193 O        b'-1:lemma:affinity'
--0.501511 O        b'+1:lemma:strain'
--0.503046 O        b'lemma:\xc2\xb0c'
--0.519614 O        b'+1:lemma:until'
--0.520710 O        b'lemma:nacl'
--0.522191 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.533499 Med      b'postag:CD'
--0.534388 O        b'-1:lemma:um'
--0.534388 O        b'+1:lemma:paraquat'
--0.534863 pH       b'postag:NN'
--0.548817 O        b'+1:lemma:300'
--0.557597 O        b'-1:lemma:o2'
--0.560591 O        b'-1:lemma:mid-log'
--0.563679 O        b'-1:lemma:rifampicin'
--0.578432 O        b'lemma:phase'
--0.584471 O        b'-1:lemma:from'
--0.585725 Air      b'-1:lemma:or'
--0.594033 O        b'-1:lemma:fresh'
--0.597339 Med      b'postag:-LRB-'
--0.604705 OD       b'lemma:-lrb-'
--0.615198 O        b'-1:lemma:od600'
--0.623443 Supp     b'+1:postag:VBN'
--0.646640 O        b'+1:lemma:Aerobic'
--0.653308 O        b'+1:lemma:b'
--0.657858 Supp     b'-1:postag:VBG'
--0.666631 Gtype    b'-1:postag:SYM'
--0.704110 OD       b'postag:-LRB-'
--0.706773 Gtype    b'-1:postag:DT'
--0.707294 O        b'lemma:mg1655'
--0.715679 Supp     b'+1:lemma:rifampicin'
--0.720336 O        b'lemma:dissolve'
--0.723788 O        b'+1:lemma:c'
--0.727949 O        b'+1:lemma:rep1'
--0.753817 O        b'lemma:150'
--0.753817 O        b'+1:lemma:mg/ml'
--0.778468 O        b'+1:lemma:arginine'
--0.780795 O        b'lemma:purify'
--0.809568 Med      b'-1:postag:IN'
--0.813987 O        b'+1:postag:NNS'
--0.838649 Temp     b'+1:lemma:to'
--0.838649 Temp     b'+1:postag:TO'
--0.849944 Temp     b'postag:NN'
--0.860992 O        b'+1:lemma:\xc2\xb0c'
--0.865219 O        b'-1:lemma:1'
--0.874261 O        b'-1:lemma:\xe2\x88\x86'
--0.881565 O        b'-1:lemma:~'
--0.915657 Supp     b'-1:lemma:%'
--0.928703 Anti     b'+1:lemma:anti-fur'
--0.960297 O        b'lemma:20'
--0.970042 O        b'+1:lemma:0.3'
--0.979767 O        b'lemma:anaerobically'
--0.987659 O        b'-1:lemma:co2'
--0.993540 O        b'-1:lemma:0.2'
--0.993726 OD       b'postag:JJ'
--1.006779 O        b'lemma:dpd'
--1.009452 O        b'lemma:mid-log'
--1.021860 O        b'-1:lemma:until'
--1.039817 Air      b'-1:postag:JJ'
--1.045265 O        b'lemma:od600'
--1.056795 O        b'lemma:media'
--1.088631 O        b'+1:lemma:fecl2'
--1.105343 O        b'lemma:anaerobic'
--1.112271 O        b'lemma:0.2'
--1.113717 O        b'lemma:0.3'
--1.126838 O        b'lemma:\xe2\x88\x86'
--1.130388 O        b'lemma:0.1'
--1.131645 O        b'+1:lemma:supplement'
--1.150779 O        b'lemma:fecl2'
--1.165447 Phase    b'-1:postag:JJ'
--1.167544 Supp     b'+1:lemma:acetate'
--1.170520 Gtype    b'lemma:delta'
--1.179414 O        b'-1:lemma:dissolve'
--1.179414 O        b'+1:lemma:methanol'
--1.248724 O        b'lemma:2h'
--1.248724 O        b'-1:lemma:additional'
--1.254425 O        b'+1:lemma:in'
--1.288356 O        b'+1:postag:VBG'
--1.296222 O        b'+1:lemma:at'
--1.331987 O        b'+1:lemma:g/l'
--1.341740 O        b'-1:lemma:sample'
--1.346196 O        b'-1:postag:VBG'
--1.378677 O        b'lemma:\xce\xb4fur'
--1.510150 O        b'-1:lemma:ml'
--1.524262 O        b'-1:lemma:ompr'
--1.555514 Air      b'postag:NN'
--1.598034 O        b'-1:postag::'
--1.620081 O        b'-1:lemma:rpob'
--1.620254 O        b'lemma:k-12'
--1.654660 Supp     b'postag:JJ'
--1.689276 O        b'-1:lemma:37'
--1.759178 Anti     b'postag:NNP'
--1.772606 Air      b'+1:postag:JJ'
--1.784898 O        b'-1:lemma:nsrr'
--1.793413 O        b'lemma:37'
--1.813616 O        b'lemma:wt'
--1.828954 O        b'postag:VBP'
--1.829052 O        b'lemma:methanol'
--1.928972 O        b'-1:lemma:IP'
--1.940994 Phase    b'postag:JJ'
--1.956302 O        b'lemma:rifampicin'
--1.960859 O        b'+1:lemma:hour'
--2.041737 O        b'-1:lemma:2'
--2.306261 O        b'+1:lemma:2'
--2.397974 O        b'+1:lemma:+'
--2.892885 O        b'+1:lemma:1'
--3.539807 O        b'-1:lemma:_'
--3.548713 O        b'-1:lemma::'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.17443878436909793, 'c2': 0.025545309300829405}
-best CV score:0.8013809966284335
-model size: 0.07M
-
-Flat F1: 0.7888604569464981
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.889     0.842     0.865        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.863     0.774     0.816       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.865     0.662     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.876     0.735     0.789       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.306877
-OD     -> OD      6.147632
-Temp   -> Temp    5.545039
-Anti   -> Anti    5.171893
-Med    -> Med     5.147638
-Air    -> Air     4.902392
-Phase  -> Phase   4.459229
-O      -> O       4.458501
-Gtype  -> Gtype   4.423121
-Gversion -> Gversion 4.364069
-Supp   -> Supp    4.020395
-Technique -> Technique 3.591576
-O      -> Supp    2.031115
-Gtype  -> Supp    1.883986
-pH     -> pH      1.853329
-Air    -> O       1.713991
-Substrain -> Gtype   1.583252
-O      -> Gtype   1.310027
-O      -> Technique 1.273208
-O      -> Anti    0.815027
-Technique -> Air     0.812634
-O      -> Temp    0.731105
-Med    -> O       0.704800
-Temp   -> O       0.557160
-Gtype  -> pH      0.523657
-O      -> Gversion 0.472268
-Supp   -> O       0.279601
-Gtype  -> Air     0.238299
-Phase  -> O       0.228824
-OD     -> Phase   0.203194
-O      -> Med     0.116408
-O      -> Phase   0.053144
-O      -> OD      0.051079
-O      -> Strain  0.044893
-Anti   -> O       0.000291
-Supp   -> OD      -0.000005
-Anti   -> OD      -0.000026
-Technique -> O       -0.000302
-Supp   -> Technique -0.017197
-Gtype  -> Gversion -0.044939
-Gtype  -> O       -0.049058
-Supp   -> Gversion -0.122184
-Supp   -> Gtype   -0.141890
-Technique -> OD      -0.217801
-OD     -> Med     -0.233349
-Gtype  -> Med     -0.266427
-OD     -> Gtype   -0.270554
-OD     -> Air     -0.350613
-Supp   -> Air     -0.370520
-Gtype  -> Anti    -0.385968
-
-
-Top unlikely transitions:
-Supp   -> Supp    4.020395
-Technique -> Technique 3.591576
-O      -> Supp    2.031115
-Gtype  -> Supp    1.883986
-pH     -> pH      1.853329
-Air    -> O       1.713991
-Substrain -> Gtype   1.583252
-O      -> Gtype   1.310027
-O      -> Technique 1.273208
-O      -> Anti    0.815027
-Technique -> Air     0.812634
-O      -> Temp    0.731105
-Med    -> O       0.704800
-Temp   -> O       0.557160
-Gtype  -> pH      0.523657
-O      -> Gversion 0.472268
-Supp   -> O       0.279601
-Gtype  -> Air     0.238299
-Phase  -> O       0.228824
-OD     -> Phase   0.203194
-O      -> Med     0.116408
-O      -> Phase   0.053144
-O      -> OD      0.051079
-O      -> Strain  0.044893
-Anti   -> O       0.000291
-Supp   -> OD      -0.000005
-Anti   -> OD      -0.000026
-Technique -> O       -0.000302
-Supp   -> Technique -0.017197
-Gtype  -> Gversion -0.044939
-Gtype  -> O       -0.049058
-Supp   -> Gversion -0.122184
-Supp   -> Gtype   -0.141890
-Technique -> OD      -0.217801
-OD     -> Med     -0.233349
-Gtype  -> Med     -0.266427
-OD     -> Gtype   -0.270554
-OD     -> Air     -0.350613
-Supp   -> Air     -0.370520
-Gtype  -> Anti    -0.385968
-OD     -> O       -0.418172
-Technique -> pH      -0.477927
-Technique -> Gtype   -0.483798
-Agit   -> O       -0.566238
-Gtype  -> OD      -0.640169
-O      -> Air     -0.714813
-Substrain -> O       -0.787403
-Supp   -> Med     -1.021657
-Med    -> Supp    -1.114839
-Phase  -> OD      -1.698506
-
-
-Top positive:
-7.703197 O        b'lemma:_'
-6.586493 O        b'lemma:1'
-6.452806 Supp     b'lemma:Iron'
-6.361401 Air      b'lemma:anaerobic'
-5.975656 Air      b'lemma:aerobic'
-5.920948 Technique b'lemma:ChIP-exo'
-5.738728 Strain   b'lemma:k-12'
-5.658145 Phase    b'lemma:stationary'
-5.415422 O        b'lemma:2'
-5.410677 O        b'lemma:rpob'
-5.181966 Technique b'lemma:chipseq'
-5.121249 Air      b'-1:lemma:ChIP-Seq'
-5.109143 Phase    b'lemma:mid-log'
-5.088706 O        b'lemma:3'
-4.962756 Supp     b'lemma:nitrate'
-4.946743 Supp     b'lemma:pq'
-4.905311 O        b'postag:IN'
-4.838793 Substrain b'lemma:mg1655'
-4.488840 Gtype    b'lemma:flag-tag'
-4.488840 Gtype    b'-1:lemma:c-terminal'
-4.477738 Gversion b'lemma:asm584v2'
-4.418207 O        b'lemma:rep1'
-4.390936 Supp     b'lemma:nh4cl'
-4.364183 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.354227 Gtype    b'lemma:\xce\xb4cra'
-4.193812 Air      b'lemma:Aerobic'
-4.171274 Supp     b'lemma:glucose'
-4.140212 O        b'lemma:\xcf\x8332'
-4.133873 Supp     b'+1:lemma:\xc2\xb5m'
-4.133709 O        b'lemma:rep2'
-4.094915 Med      b'lemma:MOPS'
-4.091880 O        b'postag::'
-4.082369 O        b'-1:lemma:tag'
-4.079739 Med      b'lemma:lb'
-4.056839 OD       b'lemma:od600'
-4.039045 Gtype    b'lemma:wt'
-3.989316 O        b'lemma:Cra'
-3.968660 Gtype    b'lemma:arca8myc'
-3.943132 O        b'lemma:rep3'
-3.855516 Gversion b'lemma:nc'
-3.813109 Med      b'lemma:LB'
-3.805010 O        b'-1:lemma:ChIP-exo'
-3.780222 O        b'lemma:b'
-3.776136 O        b'lemma:a'
-3.762332 Gtype    b'lemma:type'
-3.692897 Technique b'lemma:ChIP-Seq'
-3.685963 Technique b'lemma:rna-seq'
-3.608750 Supp     b'lemma:Fe'
-3.602563 Gtype    b'lemma:delta-arca'
-3.582946 O        b'lemma:Custom'
-3.480469 Supp     b'lemma:acetate'
-3.448871 Gversion b'-1:lemma:nc'
-3.444218 Supp     b'lemma:no3'
-3.437906 O        b'lemma:.'
-3.437906 O        b'postag:.'
-3.437516 Technique b'lemma:chip-seq'
-3.389135 Supp     b'lemma:rifampicin'
-3.386406 Gtype    b'lemma:fnr8myc'
-3.384496 Gtype    b'+1:lemma:type'
-3.339808 OD       b'lemma:od450'
-3.322726 Gtype    b'lemma:\xe2\x88\x86'
-3.304027 Technique b'lemma:rnaseq'
-3.256257 O        b'+1:lemma:od600'
-3.186356 Anti     b'lemma:none'
-3.181887 Supp     b'lemma:dpd'
-3.055580 O        b'-1:lemma:0.3-0.35'
-3.054658 Gtype    b'lemma:nsrr'
-3.030442 Gtype    b'lemma:\xce\xb4fur'
-3.025184 Vess     b'lemma:flask'
-3.025184 Vess     b'-1:lemma:warm'
-3.015874 O        b'lemma:-'
-3.009573 Gtype    b'lemma:delta-fnr'
-2.998130 Supp     b'lemma:fructose'
-2.988910 O        b'lemma:CEL'
-2.974937 pH       b'lemma:ph5'
-2.974937 pH       b'+1:lemma:.5'
-2.972759 Anti     b'+1:lemma:antibody'
-2.954856 Med      b'+1:lemma:0.4'
-2.925179 O        b'-1:lemma:Aerobic'
-2.879985 O        b'+1:postag:RB'
-2.865018 Med      b'lemma:m63'
-2.859747 Gtype    b'-1:lemma:ptac'
-2.825574 Supp     b'lemma:arginine'
-2.824511 Technique b'-1:lemma:IP'
-2.817298 O        b'postag:VBN'
-2.813172 Anti     b'lemma:seqa'
-2.812406 Temp     b'-1:lemma:sample'
-2.763158 Gtype    b'+1:lemma:with'
-2.754310 Temp     b'lemma:\xc2\xb0c'
-2.723063 Supp     b'+1:lemma:1'
-2.675834 O        b'-1:lemma:type'
-2.671720 Gversion b'lemma:chip-seq'
-2.653537 Supp     b'+1:lemma:2'
-2.650378 Air      b'postag:RB'
-2.631712 Gversion b'lemma:u00096'
-2.631712 Gversion b'+1:lemma:.2'
-2.616863 Supp     b'-1:lemma:Cra'
-2.615297 O        b'-1:lemma:glucose'
-2.613954 O        b'postag:CC'
-2.589956 Gtype    b'-1:lemma:rpob'
-2.582195 O        b'lemma:with'
-2.540802 Gversion b'lemma:000913'
-2.539352 Gversion b'lemma:.2'
-2.539352 Gversion b'-1:lemma:u00096'
-2.503419 O        b'lemma:chip'
-2.502065 Gtype    b'lemma:wild-type'
-2.487392 Technique b'+1:lemma:chip-exo'
-2.444920 Supp     b'+1:lemma:_'
-2.434479 O        b'-1:lemma:anaerobic'
-2.420671 Gtype    b'+1:lemma:flagtag'
-2.395183 Anti     b'lemma:anti-myc'
-2.385218 Strain   b'+1:lemma:substr'
-2.376772 Technique b'-1:lemma:chip-exo'
-2.348313 pH       b'lemma:.5'
-2.348313 pH       b'-1:lemma:ph5'
-2.334952 O        b'lemma:s'
-2.334641 OD       b'+1:lemma:stationary'
-2.330137 O        b'-1:lemma:lb'
-2.298914 Air      b'lemma:anaerobically'
-2.282617 Supp     b'+1:lemma:Deficient'
-2.277510 Med      b'+1:lemma:minimal'
-2.269747 Gtype    b'+1:lemma:ph5'
-2.257564 Gtype    b'+1:lemma:pq'
-2.256911 Temp     b'-1:lemma:\xcf\x8332'
-2.250901 O        b'lemma:oxyr'
-2.238383 Gtype    b'lemma:\xce\xb4ompr'
-2.232015 Gtype    b'lemma:\xce\xb4soxs'
-2.222768 O        b'lemma:or'
-2.220103 Supp     b'-1:lemma:+'
-2.219418 Anti     b'lemma:anti-rpos'
-2.194736 Supp     b'+1:lemma:hour'
-2.194499 Temp     b'-1:lemma:43'
-2.187158 O        b'postag:VBG'
-2.177204 pH       b'+1:postag:CD'
-2.177114 Supp     b'-1:lemma:\xc2\xb5m'
-2.151093 Supp     b'lemma:nacl'
-2.140203 O        b'postag:DT'
-2.133179 O        b'+1:lemma:pq'
-2.131891 O        b'-1:lemma:stpa'
-2.130575 O        b'lemma:affyexp'
-2.104996 Temp     b'lemma:43'
-2.103942 O        b'+1:lemma:o.d.'
-2.096381 O        b'lemma:for'
-2.062239 O        b'-1:lemma:l1'
-2.059181 O        b'-1:lemma:\xc2\xb0c'
-2.056904 O        b'lemma:chip-arca'
-2.042964 Gtype    b'+1:lemma:_'
-2.037784 Air      b'-1:lemma:-'
-2.033829 Supp     b'lemma:20'
-2.033283 Med      b'+1:lemma:2.0'
-2.030340 Air      b'lemma:Anaerobic'
-2.025461 O        b'lemma:culture'
-2.007866 O        b'+1:postag:NNP'
-2.002694 Supp     b'lemma:Leu'
-1.992014 O        b'lemma:Lrp'
-1.990572 O        b'+1:lemma:anti-fur'
-1.987491 O        b'lemma:ompr'
-1.985226 Temp     b'lemma:37'
-1.981458 Temp     b'+1:lemma:\xc2\xb0c'
-1.954050 Technique b'-1:lemma:input'
-1.939671 Air      b'-1:lemma:co2'
-1.933847 Gtype    b'lemma:deltaseqa'
-1.933847 Gtype    b'-1:lemma:old'
-1.924772 O        b'+1:lemma:chip-seq'
-1.922580 O        b'lemma:Fur'
-1.920444 Med      b'-1:lemma:ml'
-1.908513 Gtype    b'lemma:ptac'
-1.905616 Supp     b'lemma:iptg'
-1.905043 Temp     b'-1:lemma:37'
-1.897096 Med      b'lemma:glucose'
-1.886045 O        b'+1:lemma:mid-log'
-1.880944 Supp     b'lemma:Adenine'
-1.871549 Med      b'lemma:media'
-1.869057 Gtype    b'lemma:pk4854'
-1.858978 Med      b'lemma:L'
-1.858978 Med      b'+1:lemma:broth'
-1.849089 O        b'postag:SYM'
-1.839128 Supp     b'lemma:0.2'
-1.838608 Gtype    b'lemma:WT'
-1.834443 Gtype    b'+1:lemma:aerobic'
-1.824894 Supp     b'-1:lemma:with'
-1.808905 O        b'+1:lemma:43'
-1.792132 O        b'lemma:argr'
-1.790393 Substrain b'+1:lemma:phtpg'
-1.786085 Phase    b'-1:lemma:mid-log'
-1.783387 Technique b'+1:lemma:rna-seq'
-1.774887 Med      b'+1:lemma:g/l'
-1.773397 Gtype    b'-1:lemma:nsrr'
-1.771235 Med      b'+1:lemma:+'
-1.769899 Med      b'postag:NNP'
-1.769535 Supp     b'-1:lemma:mm'
-1.763683 Air      b'-1:postag:CD'
-1.752886 OD       b'-1:lemma:~'
-1.749965 O        b'-1:lemma:0.3'
-1.744858 O        b'lemma:at'
-1.740916 Supp     b'lemma:methanol'
-1.740449 O        b'lemma:purr'
-1.740138 Technique b'-1:lemma:_'
-1.740075 Med      b'lemma:broth'
-1.740075 Med      b'-1:lemma:L'
-
-
-Top negative:
-0.000364 O        b'+1:lemma:70'
-0.000332 O        b'lemma:fresh'
-0.000294 O        b'postag:VBZ'
-0.000275 OD       b'+1:lemma::'
-0.000231 O        b'-1:lemma:medium'
-0.000175 Supp     b'-1:postag:NN'
-0.000167 Gtype    b'-1:lemma:hn'
-0.000124 O        b'lemma:coli'
-0.000118 OD       b'+1:lemma:0.15'
-0.000060 Agit     b'+1:postag:VBG'
-0.000056 Gversion b'-1:lemma:the'
-0.000042 O        b'+1:lemma:harvest'
-0.000028 Med      b'-1:lemma:2'
-0.000027 O        b'lemma:w0002'
-0.000026 Anti     b'-1:postag:NN'
-0.000024 O        b'lemma:50'
-0.000023 O        b'-1:lemma:with'
-0.000023 Supp     b'lemma:hour'
-0.000022 Gversion b'-1:postag:DT'
-0.000013 Supp     b'-1:lemma:10'
-0.000010 Substrain b'postag:NN'
-0.000009 Med      b'lemma:-rrb-'
-0.000009 Gtype    b'lemma:the'
-0.000009 O        b'+1:lemma:um'
-0.000007 Med      b'postag:-RRB-'
-0.000004 Gtype    b'-1:lemma:cra'
--0.000007 Med      b'+1:postag:NNS'
--0.000009 O        b'+1:lemma:aerobically'
--0.000017 O        b'-1:lemma:until'
--0.000027 O        b'lemma:mg/ml'
--0.000027 O        b'-1:lemma:150'
--0.000033 O        b'+1:lemma:phase'
--0.000034 OD       b'postag:NNS'
--0.000193 Gversion b'-1:postag:NN'
--0.000221 O        b'lemma:glucose'
--0.000434 O        b'lemma:purify'
--0.000743 O        b'+1:lemma:grow'
--0.000794 O        b'lemma:\xc2\xb0c'
--0.000895 O        b'+1:lemma:mg1655'
--0.001880 O        b'+1:lemma:n2'
--0.003127 O        b'-1:lemma:20'
--0.003470 Gtype    b'-1:postag:NN'
--0.003555 Temp     b'-1:lemma:\xc2\xb0c'
--0.003698 OD       b'+1:lemma:0.4'
--0.003819 Gtype    b'+1:postag:NNS'
--0.003979 OD       b'-1:postag:DT'
--0.004093 Air      b'-1:lemma:anaerobically'
--0.005847 OD       b'lemma:~'
--0.007703 OD       b'+1:lemma:-lrb-'
--0.008413 OD       b'+1:lemma:~'
--0.010004 OD       b'+1:lemma:and'
--0.011677 Air      b'+1:lemma:-lrb-'
--0.015840 OD       b'+1:postag:NNS'
--0.022634 Air      b'+1:postag:-LRB-'
--0.022941 O        b'lemma:m63'
--0.024873 OD       b'+1:postag:CD'
--0.025582 O        b'lemma:dpd'
--0.030490 Supp     b'+1:postag:VBN'
--0.041555 Air      b'-1:postag:CC'
--0.047125 Supp     b'+1:lemma:-rrb-'
--0.048162 Phase    b'-1:postag:NN'
--0.048198 Air      b'-1:lemma:70'
--0.056727 O        b'+1:lemma:rep1'
--0.061184 O        b'-1:lemma:-lrb-'
--0.062123 O        b'lemma:e.'
--0.067649 O        b'-1:lemma:mid-log'
--0.079172 O        b'-1:lemma:e.'
--0.079999 Med      b'-1:postag:IN'
--0.081811 Air      b'postag:CC'
--0.082914 Supp     b'+1:postag:-RRB-'
--0.084681 OD       b'postag:JJ'
--0.087207 O        b'-1:lemma:,'
--0.087207 O        b'-1:postag:,'
--0.091606 O        b'-1:lemma:from'
--0.094097 Air      b'postag:CD'
--0.094790 O        b'-1:lemma:o2'
--0.098442 Gtype    b'-1:postag:SYM'
--0.101371 O        b'lemma:30'
--0.102952 O        b'-1:lemma:30'
--0.104458 Med      b'-1:postag:NN'
--0.104966 O        b'-1:postag:VBN'
--0.106487 OD       b'+1:postag:-LRB-'
--0.115379 O        b'-1:lemma:0.1'
--0.123943 Gtype    b'postag:CD'
--0.125483 O        b'lemma:n2'
--0.128182 O        b'+1:lemma:5'
--0.130795 Air      b'-1:lemma:or'
--0.131840 O        b'lemma:co2'
--0.131841 Supp     b'lemma:and'
--0.133586 O        b'-1:lemma:g/l'
--0.139512 Phase    b'-1:lemma:at'
--0.139664 O        b'+1:lemma:300'
--0.140814 Gtype    b'-1:postag:CD'
--0.148051 Temp     b'postag:JJ'
--0.148722 O        b'-1:lemma:n2'
--0.151800 Phase    b'+1:postag:NN'
--0.154097 O        b'+1:lemma:shake'
--0.157668 O        b'-1:lemma:rifampicin'
--0.160737 Supp     b'postag:CC'
--0.163938 Technique b'-1:lemma::'
--0.192959 Med      b'postag:CD'
--0.196077 Gversion b'+1:postag:NN'
--0.197347 Med      b'+1:postag:IN'
--0.198353 O        b'-1:lemma:the'
--0.210857 O        b'+1:lemma:.'
--0.210857 O        b'+1:postag:.'
--0.212158 O        b'-1:postag:IN'
--0.224946 Anti     b'+1:postag:JJ'
--0.229079 O        b'lemma:lb'
--0.229762 O        b'-1:lemma:iptg'
--0.230713 O        b'-1:lemma:0.2'
--0.230962 O        b'lemma:k-12'
--0.231370 O        b'-1:lemma:of'
--0.233847 O        b'lemma:150'
--0.233847 O        b'+1:lemma:mg/ml'
--0.235755 O        b'+1:lemma:\xc2\xb0c'
--0.239301 O        b'+1:lemma:until'
--0.241454 O        b'+1:lemma:-rrb-'
--0.291406 Med      b'+1:postag:NN'
--0.300667 O        b'-1:lemma:1'
--0.301872 O        b'-1:postag:-LRB-'
--0.304883 Phase    b'-1:postag:JJ'
--0.316741 O        b'+1:lemma:arginine'
--0.323570 O        b'-1:lemma:cra'
--0.324550 pH       b'postag:NN'
--0.337342 O        b'lemma:\xe2\x88\x86'
--0.341398 Anti     b'+1:lemma:anti-fur'
--0.348116 O        b'+1:postag:IN'
--0.392002 O        b'+1:lemma:%'
--0.397249 O        b'lemma:phase'
--0.397709 O        b'lemma:anaerobic'
--0.418316 O        b'+1:postag:-RRB-'
--0.425489 O        b'lemma:dissolve'
--0.429358 O        b'+1:lemma:0.3'
--0.434377 Supp     b'-1:lemma:%'
--0.452106 Temp     b'+1:lemma:to'
--0.452106 Temp     b'+1:postag:TO'
--0.459401 Phase    b'postag:JJ'
--0.481800 O        b'+1:lemma:c'
--0.510217 O        b'lemma:\xce\xb4fur'
--0.512490 O        b'+1:lemma:fecl2'
--0.514242 O        b'-1:lemma:od600'
--0.519690 O        b'-1:lemma:ml'
--0.534845 O        b'lemma:media'
--0.543546 O        b'+1:postag:NNS'
--0.552477 O        b'lemma:20'
--0.554174 O        b'lemma:0.3'
--0.554563 O        b'postag:VBP'
--0.558858 Supp     b'+1:lemma:rifampicin'
--0.584166 O        b'-1:lemma:rpob'
--0.595632 OD       b'+1:lemma:of'
--0.601347 OD       b'lemma:-lrb-'
--0.606330 O        b'-1:lemma:~'
--0.609828 Air      b'-1:postag:JJ'
--0.617562 O        b'+1:lemma:cell'
--0.628406 O        b'-1:lemma:sample'
--0.648795 O        b'-1:lemma:co2'
--0.650443 Supp     b'+1:lemma:acetate'
--0.661394 O        b'lemma:anaerobically'
--0.661739 Technique b'-1:postag::'
--0.694556 Temp     b'postag:NN'
--0.699281 O        b'+1:postag:VBG'
--0.806053 O        b'-1:lemma:grow'
--0.835270 OD       b'postag:-LRB-'
--0.843540 O        b'lemma:fecl2'
--0.844938 O        b'lemma:2h'
--0.844938 O        b'-1:lemma:additional'
--0.860246 O        b'lemma:0.2'
--0.918603 O        b'lemma:0.1'
--0.919972 OD       b'+1:postag:NN'
--0.923722 O        b'lemma:od600'
--0.997956 O        b'lemma:37'
--1.049790 O        b'+1:lemma:supplement'
--1.054918 O        b'-1:lemma:dissolve'
--1.054918 O        b'+1:lemma:methanol'
--1.059657 O        b'lemma:of'
--1.079576 O        b'+1:lemma:g/l'
--1.102935 O        b'-1:postag:VBG'
--1.103027 O        b'lemma:mid-log'
--1.131823 O        b'-1:lemma:37'
--1.134618 O        b'-1:postag::'
--1.186603 O        b'-1:lemma:ompr'
--1.219384 O        b'+1:lemma:hour'
--1.220567 O        b'+1:lemma:+'
--1.256620 O        b'+1:lemma:at'
--1.304576 O        b'+1:lemma:in'
--1.348770 O        b'lemma:rifampicin'
--1.369043 O        b'lemma:wt'
--1.372537 Supp     b'postag:JJ'
--1.416841 O        b'lemma:methanol'
--1.441519 Air      b'postag:NN'
--1.482367 Air      b'+1:postag:JJ'
--1.497730 Anti     b'postag:NNP'
--1.498466 O        b'-1:lemma:nsrr'
--1.531484 O        b'-1:lemma:IP'
--2.013157 O        b'+1:lemma:2'
--2.053762 O        b'-1:lemma:2'
--2.424183 O        b'+1:lemma:1'
--3.562427 O        b'-1:lemma::'
--3.910745 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.036962186699730476, 'c2': 0.0007197340103941715}
-best CV score:0.8049563498270011
-model size: 0.08M
-
-Flat F1: 0.8014090034358301
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.803     0.860     0.831        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.920     0.742     0.821        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.878     0.811     0.843       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.830     0.684     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.880     0.754     0.801       480
-
-
-Top likely transitions:
-Agit   -> Agit    7.652221
-Anti   -> Anti    6.905048
-OD     -> OD      6.644654
-Temp   -> Temp    6.392371
-Med    -> Med     5.897259
-Gtype  -> Gtype   5.885016
-Gversion -> Gversion 5.871628
-Phase  -> Phase   5.642567
-Air    -> Air     5.394223
-O      -> O       5.148014
-Technique -> Technique 4.714602
-Supp   -> Supp    4.403242
-pH     -> pH      2.882239
-Substrain -> Gtype   1.688067
-Gtype  -> Supp    1.322012
-O      -> Supp    1.067852
-O      -> Technique 0.764618
-O      -> Gtype   0.648760
-O      -> Phase   0.314348
-O      -> Anti    0.311802
-Air    -> O       0.261909
-O      -> Vess    0.047068
-Technique -> Air     0.046094
-Gtype  -> pH      0.025742
-O      -> Gversion 0.014285
-Strain -> O       -0.000027
-OD     -> Gtype   -0.000088
-Med    -> O       -0.009150
-pH     -> O       -0.021922
-O      -> Agit    -0.054019
-Phase  -> Air     -0.057034
-Supp   -> Gversion -0.109041
-Phase  -> pH      -0.126867
-Phase  -> Supp    -0.149179
-Gtype  -> Anti    -0.177305
-Gtype  -> Phase   -0.275685
-Supp   -> Temp    -0.301687
-O      -> OD      -0.348061
-Air    -> Phase   -0.353316
-Gtype  -> Med     -0.401859
-Gtype  -> O       -0.403896
-Supp   -> OD      -0.422683
-OD     -> Phase   -0.428221
-Technique -> O       -0.452620
-Technique -> pH      -0.467777
-Supp   -> Phase   -0.485969
-Supp   -> Gtype   -0.488284
-OD     -> Temp    -0.615341
-Supp   -> Anti    -0.639507
-Phase  -> O       -0.706192
-
-
-Top unlikely transitions:
-Gtype  -> pH      0.025742
-O      -> Gversion 0.014285
-Strain -> O       -0.000027
-OD     -> Gtype   -0.000088
-Med    -> O       -0.009150
-pH     -> O       -0.021922
-O      -> Agit    -0.054019
-Phase  -> Air     -0.057034
-Supp   -> Gversion -0.109041
-Phase  -> pH      -0.126867
-Phase  -> Supp    -0.149179
-Gtype  -> Anti    -0.177305
-Gtype  -> Phase   -0.275685
-Supp   -> Temp    -0.301687
-O      -> OD      -0.348061
-Air    -> Phase   -0.353316
-Gtype  -> Med     -0.401859
-Gtype  -> O       -0.403896
-Supp   -> OD      -0.422683
-OD     -> Phase   -0.428221
-Technique -> O       -0.452620
-Technique -> pH      -0.467777
-Supp   -> Phase   -0.485969
-Supp   -> Gtype   -0.488284
-OD     -> Temp    -0.615341
-Supp   -> Anti    -0.639507
-Phase  -> O       -0.706192
-Anti   -> OD      -0.844857
-Phase  -> Med     -0.902223
-O      -> Med     -0.935765
-OD     -> Supp    -0.978463
-Supp   -> O       -1.084719
-Agit   -> O       -1.097714
-OD     -> Air     -1.126328
-Air    -> Med     -1.132598
-Gtype  -> OD      -1.139180
-Supp   -> Technique -1.250739
-Technique -> Gtype   -1.250976
-Air    -> OD      -1.277975
-O      -> Air     -1.291423
-Air    -> Supp    -1.303586
-Supp   -> Air     -1.334582
-Temp   -> Med     -1.516161
-OD     -> Med     -1.658158
-OD     -> O       -1.907052
-Technique -> OD      -1.926078
-Substrain -> O       -2.266894
-Med    -> Supp    -2.671557
-Supp   -> Med     -2.793078
-Phase  -> OD      -4.004033
-
-
-Top positive:
-14.736732 Supp     b'lemma:Iron'
-14.465018 Phase    b'lemma:stationary'
-11.931234 Air      b'lemma:anaerobic'
-11.755072 O        b'lemma:_'
-11.500878 Air      b'lemma:aerobic'
-10.776302 O        b'lemma:Custom'
-9.977404 Med      b'lemma:MOPS'
-9.507368 O        b'lemma:1'
-9.383805 O        b'lemma:rpob'
-9.319544 Technique b'lemma:ChIP-exo'
-9.016782 Supp     b'lemma:nitrate'
-8.629834 OD       b'+1:lemma:stationary'
-8.582738 Technique b'lemma:chipseq'
-8.331021 Strain   b'lemma:k-12'
-8.185729 Supp     b'lemma:pq'
-8.108336 Air      b'lemma:Aerobic'
-8.081666 O        b'-1:lemma:tag'
-7.987196 Gtype    b'lemma:flag-tag'
-7.987196 Gtype    b'-1:lemma:c-terminal'
-7.969290 O        b'lemma:\xcf\x8332'
-7.864454 Air      b'-1:lemma:ChIP-Seq'
-7.779218 Phase    b'lemma:mid-log'
-7.699581 Technique b'lemma:ChIP-Seq'
-7.693879 Gtype    b'lemma:\xce\xb4cra'
-7.488490 O        b'lemma:2'
-7.378100 Gversion b'lemma:asm584v2'
-7.205543 O        b'lemma:3'
-7.115380 O        b'lemma:b'
-7.043756 Med      b'lemma:LB'
-6.950209 O        b'lemma:for'
-6.905886 O        b'lemma:rep1'
-6.892700 O        b'lemma:rep2'
-6.829683 O        b'-1:lemma:ChIP-exo'
-6.826037 Gtype    b'lemma:arca8myc'
-6.814538 OD       b'lemma:od450'
-6.663495 O        b'postag::'
-6.587073 Supp     b'-1:lemma:Cra'
-6.555197 Supp     b'+1:lemma:\xc2\xb5m'
-6.542596 Gtype    b'lemma:delta-arca'
-6.493295 O        b'lemma:rep3'
-6.402654 Gtype    b'lemma:fnr8myc'
-6.392757 Gtype    b'lemma:type'
-6.351940 O        b'-1:lemma:0.3-0.35'
-6.347501 Supp     b'lemma:Fe'
-6.273476 O        b'lemma:Cra'
-6.182315 Gtype    b'lemma:delta-fnr'
-6.177522 Substrain b'lemma:mg1655'
-6.170615 Air      b'lemma:Anaerobic'
-6.113701 O        b'lemma:with'
-5.936854 O        b'-1:lemma:Aerobic'
-5.932249 Technique b'lemma:rnaseq'
-5.914672 O        b'lemma:a'
-5.800356 Gtype    b'-1:lemma:\xe2\x88\x86'
-5.783221 O        b'lemma:chip'
-5.753480 Technique b'lemma:rna-seq'
-5.693444 Supp     b'lemma:rifampicin'
-5.670336 Gtype    b'lemma:\xce\xb4fur'
-5.653053 Supp     b'lemma:nh4cl'
-5.619758 Gtype    b'lemma:nsrr'
-5.548861 Gversion b'lemma:nc'
-5.511691 O        b'-1:lemma:anaerobic'
-5.500216 Supp     b'lemma:no3'
-5.430117 Anti     b'lemma:none'
-5.416869 Gtype    b'lemma:wt'
-5.398199 O        b'+1:lemma:chip-seq'
-5.372251 Strain   b'+1:lemma:substr'
-5.367205 Supp     b'lemma:glucose'
-5.288350 Supp     b'lemma:arginine'
-5.224904 O        b'+1:lemma:sparging'
-5.195289 Gtype    b'-1:lemma:rpob'
-5.120201 O        b'+1:lemma:od600'
-5.119304 Anti     b'lemma:seqa'
-5.065756 O        b'lemma:.'
-5.065756 O        b'postag:.'
-4.958683 O        b'+1:postag:RB'
-4.957995 Supp     b'-1:lemma:+'
-4.942087 Anti     b'lemma:anti-rpos'
-4.940685 O        b'-1:lemma:type'
-4.936711 Temp     b'-1:lemma:\xcf\x8332'
-4.912250 Gtype    b'+1:lemma:ph5'
-4.895200 Med      b'lemma:lb'
-4.815819 Gtype    b'-1:lemma:ptac'
-4.811978 O        b'lemma:2-3'
-4.810818 O        b'-1:lemma:glucose'
-4.792895 Supp     b'lemma:Leu'
-4.733669 O        b'-1:lemma:0.3'
-4.703956 Supp     b'+1:lemma:hour'
-4.701672 Anti     b'lemma:anti-myc'
-4.688605 Gtype    b'+1:lemma:type'
-4.685195 Technique b'+1:lemma:chip-exo'
-4.663539 Gtype    b'lemma:\xce\xb4ompr'
-4.630196 O        b'lemma:at'
-4.627640 OD       b'lemma:od600'
-4.627504 Gversion b'-1:lemma:nc'
-4.614675 O        b'lemma:ompr'
-4.580496 O        b'lemma:oxyr'
-4.534418 Gtype    b'lemma:WT'
-4.489105 Air      b'lemma:anerobically'
-4.453615 Med      b'+1:lemma:0.4'
-4.449035 Vess     b'lemma:flask'
-4.449035 Vess     b'-1:lemma:warm'
-4.421452 Technique b'lemma:chip-seq'
-4.387313 Gtype    b'lemma:pk4854'
-4.372903 Technique b'-1:lemma:input'
-4.333388 Supp     b'+1:lemma:1'
-4.325171 pH       b'lemma:ph5'
-4.325171 pH       b'+1:lemma:.5'
-4.293581 O        b'-1:lemma:dpd'
-4.280002 Air      b'lemma:anaerobically'
-4.273687 Supp     b'lemma:Adenine'
-4.255972 Temp     b'-1:lemma:37'
-4.227681 Supp     b'lemma:acetate'
-4.213628 O        b'lemma:chip-arca'
-4.212847 Technique b'-1:lemma:IP'
-4.207389 Med      b'+1:lemma:contain'
-4.195958 O        b'lemma:s'
-4.194941 Supp     b'lemma:fructose'
-4.188294 O        b'postag:IN'
-4.148814 O        b'postag:VBN'
-4.113823 O        b'lemma:CEL'
-4.077959 O        b'lemma:argr'
-4.042281 Supp     b'lemma:dpd'
-3.997796 Gversion b'lemma:chip-seq'
-3.996937 Med      b'-1:lemma:complete'
-3.979910 O        b'lemma:or'
-3.977533 Supp     b'lemma:iptg'
-3.966804 Gtype    b'+1:lemma:pq'
-3.958145 Gtype    b'lemma:\xe2\x88\x86'
-3.955065 Med      b'+1:lemma:2.0'
-3.950822 Gtype    b'lemma:wild-type'
-3.949211 O        b'lemma:soxs'
-3.949211 O        b'lemma:soxr'
-3.941119 Med      b'lemma:m63'
-3.931242 Substrain b'+1:lemma:phtpg'
-3.927386 O        b'+1:lemma:o.d.'
-3.916508 Gtype    b'lemma:deltaseqa'
-3.916508 Gtype    b'-1:lemma:old'
-3.914220 Gtype    b'lemma:\xce\xb4soxs'
-3.907586 O        b'lemma:purr'
-3.892156 Gtype    b'-1:lemma:phtpg'
-3.890329 Gtype    b'lemma:ptac'
-3.850631 Gversion b'lemma:000913'
-3.838063 O        b'+1:lemma:pq'
-3.814358 Med      b'-1:lemma:ml'
-3.787653 Gtype    b'lemma:dfnr'
-3.771572 Temp     b'-1:lemma:sample'
-3.744540 Supp     b'+1:lemma:2'
-3.742952 Supp     b'+1:lemma:and'
-3.728733 Gversion b'lemma:u00096'
-3.728733 Gversion b'+1:lemma:.2'
-3.711200 O        b'-1:lemma:lb'
-3.705509 O        b'lemma:-'
-3.691676 Gtype    b'+1:lemma:flagtag'
-3.674793 Gversion b'lemma:.2'
-3.674793 Gversion b'-1:lemma:u00096'
-3.653013 Supp     b'lemma:nacl'
-3.643673 Phase    b'lemma:exponentially'
-3.585772 Technique b'+1:lemma:rna-seq'
-3.575806 O        b'postag:DT'
-3.570513 OD       b'-1:lemma:about'
-3.563376 Phase    b'+1:lemma:for'
-3.528626 O        b'-1:lemma:\xc2\xb0c'
-3.519471 Supp     b'-1:lemma:\xc2\xb5m'
-3.512500 Temp     b'lemma:\xc2\xb0c'
-3.492555 Med      b'lemma:L'
-3.492555 Med      b'+1:lemma:broth'
-3.475007 Phase    b'-1:lemma:until'
-3.468148 Anti     b'+1:lemma:antibody'
-3.443352 Gtype    b'+1:lemma:knock-out'
-3.428406 O        b'lemma:pt7'
-3.424672 O        b'lemma:delta'
-3.402918 Temp     b'-1:lemma:43'
-3.373540 OD       b'lemma:0.3'
-3.365163 O        b'+1:postag:VBP'
-3.352185 Gtype    b'lemma:\xce\xb4soxr'
-3.346484 O        b'-1:lemma:min'
-3.328874 O        b'lemma:affyexp'
-3.326810 Gtype    b'-1:lemma:ptrc'
-3.318952 Med      b'-1:lemma:LB'
-3.316906 Gtype    b'lemma:\xce\xb4oxyr'
-3.293421 O        b'lemma:Fur'
-3.287509 Gtype    b'lemma:soxs-8myc'
-3.287509 Gtype    b'lemma:soxr-8myc'
-3.284962 O        b'-1:lemma:one'
-3.281320 Supp     b'+1:lemma:_'
-3.258770 OD       b'lemma:0.35'
-3.241590 Med      b'+1:lemma:minimal'
-3.241148 Temp     b'lemma:37'
-3.196351 O        b'+1:postag:NNP'
-3.162352 Supp     b'lemma:leucine'
-3.132572 Supp     b'lemma:methanol'
-3.118836 Supp     b'+1:lemma:iptg'
-3.117955 O        b'lemma:Lrp'
-3.114567 O        b'-1:lemma:l1'
-3.104623 Technique b'-1:lemma:chip-exo'
-3.095609 Temp     b'lemma:43'
-3.070949 Gtype    b'lemma:purr-8myc'
-3.038562 O        b'lemma:chip-fnr'
-3.038302 Temp     b'-1:lemma:degree'
-2.983839 O        b'+1:lemma:0.2'
-
-
-Top negative:
--0.001880 O        b'-1:lemma:20'
--0.002666 O        b'lemma:k-12'
--0.002968 O        b'+1:lemma:min'
--0.003084 Med      b'lemma:-lrb-'
--0.003121 Med      b'postag:-LRB-'
--0.004653 O        b'-1:lemma:iptg'
--0.004849 O        b'-1:lemma:at'
--0.005085 O        b'+1:postag:CD'
--0.007587 O        b'-1:lemma:cra'
--0.010544 O        b'+1:lemma:95'
--0.011683 O        b'lemma:m63'
--0.012501 O        b'lemma:medium'
--0.012898 OD       b'-1:postag:DT'
--0.013161 O        b'+1:lemma:25'
--0.013797 Gtype    b'postag::'
--0.013997 Agit     b'-1:postag:NN'
--0.014419 Anti     b'+1:postag:JJ'
--0.015431 Supp     b'-1:postag:DT'
--0.019000 O        b'-1:lemma:30'
--0.019225 O        b'+1:lemma:shake'
--0.020830 OD       b'-1:lemma:a'
--0.025221 Air      b'-1:postag:NNP'
--0.025592 Anti     b'postag:NN'
--0.028086 Gtype    b'-1:lemma:,'
--0.028086 Gtype    b'-1:postag:,'
--0.031137 Gtype    b'-1:postag:JJ'
--0.040614 O        b'-1:lemma:mm'
--0.041284 O        b'+1:lemma:-rrb-'
--0.042740 O        b'lemma:cell'
--0.043305 Air      b'-1:postag:CC'
--0.043495 O        b'+1:lemma:300'
--0.051111 Med      b'-1:postag:NN'
--0.055942 Phase    b'+1:postag:NN'
--0.059007 O        b'-1:lemma:-lrb-'
--0.059506 O        b'-1:lemma:until'
--0.060593 O        b'lemma:purify'
--0.062294 Med      b'-1:lemma:m63'
--0.063502 Med      b'+1:postag:CC'
--0.064443 Med      b'+1:postag:NNS'
--0.065194 O        b'lemma:30'
--0.067235 O        b'+1:lemma:antibody'
--0.068873 O        b'+1:lemma:arginine'
--0.074074 Anti     b'+1:lemma:anti-fur'
--0.074512 Supp     b'-1:lemma:the'
--0.075699 Agit     b'postag:NN'
--0.076342 OD       b'postag:JJ'
--0.081383 O        b'lemma:mg/ml'
--0.081383 O        b'-1:lemma:150'
--0.083167 O        b'+1:lemma:mm'
--0.084553 OD       b'+1:postag:CD'
--0.088239 O        b'+1:lemma:5'
--0.092963 O        b'lemma:o2'
--0.102549 O        b'+1:lemma:0.4'
--0.103355 Air      b'-1:lemma:95'
--0.106456 Supp     b'-1:postag:NNP'
--0.108567 O        b'-1:lemma:of'
--0.115119 Gversion b'-1:postag:NN'
--0.120133 O        b'lemma:aerobically'
--0.120470 Gtype    b'-1:postag:NN'
--0.120546 O        b'+1:lemma:or'
--0.120740 O        b'+1:lemma:culture'
--0.127755 Supp     b'-1:postag:NN'
--0.129556 Supp     b'-1:lemma:-'
--0.133917 O        b'-1:postag:-LRB-'
--0.134138 Supp     b'-1:postag:VBG'
--0.138473 O        b'-1:lemma:fresh'
--0.140719 O        b'-1:postag:IN'
--0.142122 O        b'lemma:mg1655'
--0.143719 OD       b'+1:lemma:0.4'
--0.143799 O        b'lemma:grow'
--0.148543 O        b'-1:lemma:with'
--0.150394 Air      b'-1:lemma:or'
--0.152699 Air      b'postag:CD'
--0.159127 O        b'-1:lemma:o2'
--0.164529 Anti     b'-1:postag:NN'
--0.167167 Supp     b'+1:postag:IN'
--0.171276 Technique b'-1:postag::'
--0.171821 O        b'-1:lemma:n2'
--0.176160 Gtype    b'+1:lemma:-'
--0.194927 O        b'-1:lemma:IP'
--0.195160 O        b'lemma:n2'
--0.198789 Phase    b'lemma:pahse'
--0.201995 O        b'lemma:e.'
--0.205638 Supp     b'lemma:and'
--0.207287 O        b'-1:lemma:from'
--0.208015 O        b'lemma:minimal'
--0.210261 Technique b'-1:lemma::'
--0.212191 Med      b'+1:postag:IN'
--0.217993 O        b'lemma:co2'
--0.228390 O        b'-1:lemma:e.'
--0.232055 O        b'-1:lemma:delta'
--0.235967 O        b'lemma:anaerobic'
--0.240188 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.252858 Air      b'+1:postag:NN'
--0.253575 O        b'lemma:\xce\xb4fur'
--0.255267 O        b'+1:lemma:until'
--0.278004 OD       b'+1:lemma:and'
--0.279260 Strain   b'postag:NN'
--0.290950 Phase    b'+1:lemma:pahse'
--0.303132 O        b'+1:postag:-RRB-'
--0.303655 O        b'-1:lemma:0.1'
--0.306332 O        b'lemma:lb'
--0.321340 Strain   b'+1:postag:NN'
--0.322047 O        b'-1:lemma:um'
--0.322047 O        b'+1:lemma:paraquat'
--0.322249 O        b'-1:postag:VBN'
--0.349326 O        b'lemma:\xc2\xb0c'
--0.361160 O        b'-1:lemma:od600'
--0.367243 OD       b'+1:postag:CC'
--0.370391 O        b'+1:postag:IN'
--0.371202 O        b'+1:lemma:cell'
--0.376309 Gtype    b'postag:CD'
--0.379638 O        b'lemma:glucose'
--0.391908 Med      b'postag:CD'
--0.423766 Phase    b'-1:lemma:at'
--0.429012 O        b'-1:lemma:rifampicin'
--0.467242 O        b'lemma:phase'
--0.467472 O        b'+1:lemma:phase'
--0.475017 O        b'postag:RB'
--0.477051 Temp     b'postag:NN'
--0.488107 O        b'+1:lemma:.'
--0.488107 O        b'+1:postag:.'
--0.490917 pH       b'postag:NN'
--0.497406 Supp     b'+1:lemma:rifampicin'
--0.508914 OD       b'+1:postag:NN'
--0.512657 O        b'+1:lemma:minimal'
--0.519173 O        b'-1:lemma:0.2'
--0.530979 O        b'lemma:od600'
--0.533526 O        b'-1:lemma:ml'
--0.543008 O        b'-1:lemma:grow'
--0.578806 O        b'+1:lemma:\xc2\xb0c'
--0.598896 O        b'+1:lemma:%'
--0.630328 Anti     b'postag:NNP'
--0.634341 O        b'+1:postag:NNS'
--0.638897 O        b'lemma:anaerobically'
--0.646464 Med      b'+1:postag:NN'
--0.654278 O        b'lemma:dissolve'
--0.657625 O        b'+1:lemma:0.3'
--0.663655 O        b'-1:lemma:~'
--0.667007 O        b'+1:lemma:c'
--0.671527 OD       b'lemma:-lrb-'
--0.695001 Supp     b'+1:lemma:acetate'
--0.719232 Supp     b'+1:postag:VBN'
--0.736651 OD       b'postag:-LRB-'
--0.748690 O        b'lemma:150'
--0.748690 O        b'+1:lemma:mg/ml'
--0.748744 O        b'-1:lemma:mid-log'
--0.757228 O        b'lemma:of'
--0.765669 O        b'lemma:0.3'
--0.775445 Phase    b'-1:postag:NN'
--0.785838 O        b'+1:lemma:_'
--0.836798 O        b'+1:lemma:+'
--0.838706 O        b'lemma:media'
--0.850667 Temp     b'+1:lemma:to'
--0.850667 Temp     b'+1:postag:TO'
--0.853884 O        b'lemma:20'
--0.858396 O        b'+1:lemma:fecl2'
--0.888463 O        b'-1:lemma:37'
--0.889531 O        b'+1:postag:VBG'
--0.894578 Supp     b'postag:CC'
--0.921012 O        b'-1:lemma:sample'
--0.924636 O        b'-1:lemma:rpob'
--0.961486 O        b'-1:lemma:dissolve'
--0.961486 O        b'+1:lemma:methanol'
--0.968540 O        b'+1:lemma:g/l'
--0.990992 O        b'-1:lemma:co2'
--1.021480 Air      b'postag:NN'
--1.067624 O        b'postag:VBP'
--1.081123 O        b'lemma:37'
--1.089911 O        b'lemma:0.2'
--1.170615 O        b'-1:postag:VBG'
--1.208578 Med      b'-1:postag:IN'
--1.244210 O        b'lemma:dpd'
--1.275258 Gversion b'+1:postag:NN'
--1.294393 O        b'+1:lemma:in'
--1.403685 O        b'-1:postag::'
--1.414702 O        b'-1:lemma:nsrr'
--1.415899 O        b'+1:lemma:supplement'
--1.418323 O        b'lemma:fecl2'
--1.446252 O        b'lemma:2h'
--1.446252 O        b'-1:lemma:additional'
--1.614291 Air      b'-1:postag:JJ'
--1.668024 Phase    b'-1:postag:JJ'
--1.735170 O        b'+1:lemma:at'
--1.739701 Air      b'+1:postag:JJ'
--1.761325 O        b'lemma:0.1'
--1.911105 O        b'lemma:wt'
--1.984681 O        b'-1:lemma:ompr'
--1.985595 O        b'lemma:mid-log'
--2.042857 Supp     b'postag:JJ'
--2.130120 Supp     b'-1:lemma:%'
--2.172496 O        b'+1:lemma:hour'
--2.277278 O        b'lemma:rifampicin'
--2.459658 O        b'-1:lemma:2'
--2.504857 O        b'lemma:methanol'
--2.599172 O        b'+1:lemma:2'
--3.335267 O        b'+1:lemma:1'
--4.632191 O        b'-1:lemma:_'
--4.728214 Phase    b'postag:JJ'
--5.510009 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.09054223875215395, 'c2': 0.0023518182968725273}
+best CV score:0.8689308276485085
+model size: 0.08M
+
+Flat F1: 0.7754340877116509
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.943     0.971        53
+       Temp      1.000     0.690     0.816        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.543     0.362     0.435        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.868     0.776     0.820        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.700     0.784     0.739       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.810     0.754     0.775       451
+
+
+Top likely transitions:
+Agit   -> Agit    7.626632
+Temp   -> Temp    7.045132
+Supp   -> Supp    6.489590
+Med    -> Med     6.142134
+Anti   -> Anti    5.984670
+Phase  -> Phase   5.518817
+OD     -> OD      5.345555
+Gtype  -> Gtype   5.176791
+Gversion -> Gversion 5.166638
+Air    -> Air     4.592159
+O      -> O       4.393244
+pH     -> pH      3.826126
+Technique -> Technique 3.732727
+O      -> Supp    1.143221
+O      -> Technique 0.922279
+Air    -> O       0.769652
+Substrain -> Gtype   0.641263
+O      -> Gtype   0.629642
+Gtype  -> Supp    0.604798
+O      -> Temp    0.290538
+O      -> Phase   0.232866
+Temp   -> O       0.222973
+Supp   -> O       0.152297
+Gtype  -> Air     0.133118
+Phase  -> O       0.090499
+O      -> Anti    0.049867
+Strain -> O       0.017575
+Phase  -> Air     0.001750
+O      -> pH      0.000507
+Med    -> O       0.000355
+pH     -> O       0.000352
+Air    -> Agit    -0.001348
+Phase  -> OD      -0.008421
+Air    -> Supp    -0.050545
+Agit   -> Air     -0.052125
+Anti   -> O       -0.059732
+OD     -> O       -0.120587
+Technique -> pH      -0.229765
+O      -> Med     -0.258685
+Technique -> OD      -0.288848
+Air    -> Phase   -0.339706
+O      -> OD      -0.391929
+Gtype  -> Med     -0.529268
+Air    -> Temp    -0.898446
+Supp   -> Med     -0.919358
+Technique -> O       -1.026211
+OD     -> Air     -1.149284
+O      -> Air     -1.334781
+Gtype  -> O       -1.407268
+Med    -> Supp    -1.495850
+
+
+Top unlikely transitions:
+Temp   -> Temp    7.045132
+Supp   -> Supp    6.489590
+Med    -> Med     6.142134
+Anti   -> Anti    5.984670
+Phase  -> Phase   5.518817
+OD     -> OD      5.345555
+Gtype  -> Gtype   5.176791
+Gversion -> Gversion 5.166638
+Air    -> Air     4.592159
+O      -> O       4.393244
+pH     -> pH      3.826126
+Technique -> Technique 3.732727
+O      -> Supp    1.143221
+O      -> Technique 0.922279
+Air    -> O       0.769652
+Substrain -> Gtype   0.641263
+O      -> Gtype   0.629642
+Gtype  -> Supp    0.604798
+O      -> Temp    0.290538
+O      -> Phase   0.232866
+Temp   -> O       0.222973
+Supp   -> O       0.152297
+Gtype  -> Air     0.133118
+Phase  -> O       0.090499
+O      -> Anti    0.049867
+Strain -> O       0.017575
+Phase  -> Air     0.001750
+O      -> pH      0.000507
+Med    -> O       0.000355
+pH     -> O       0.000352
+Air    -> Agit    -0.001348
+Phase  -> OD      -0.008421
+Air    -> Supp    -0.050545
+Agit   -> Air     -0.052125
+Anti   -> O       -0.059732
+OD     -> O       -0.120587
+Technique -> pH      -0.229765
+O      -> Med     -0.258685
+Technique -> OD      -0.288848
+Air    -> Phase   -0.339706
+O      -> OD      -0.391929
+Gtype  -> Med     -0.529268
+Air    -> Temp    -0.898446
+Supp   -> Med     -0.919358
+Technique -> O       -1.026211
+OD     -> Air     -1.149284
+O      -> Air     -1.334781
+Gtype  -> O       -1.407268
+Med    -> Supp    -1.495850
+Substrain -> O       -2.598977
+
+
+Top positive:
+10.185301 Technique b'lemma[:2]:Ch'
+8.021086 O        b'-1:lemma:tag'
+6.996653 Gtype    b'lemma[:1]:\xce\xb4'
+6.769097 O        b'lemma:2'
+6.193177 O        b'lemma:1'
+6.092689 Air      b'lemma:anaerobic'
+5.980202 Phase    b'lemma:stationary'
+5.955259 Supp     b'+1:lemma:\xc2\xb5m'
+5.876491 O        b'lemma:3'
+5.874142 O        b'lemma:with'
+5.804642 O        b'lemma:-'
+5.578233 Supp     b'lemma:Iron'
+5.578233 Supp     b'lemma[:2]:Ir'
+5.487985 O        b'lemma[:2]:re'
+5.341246 Temp     b'+1:lemma:in'
+5.328334 Supp     b'-1:lemma:Cra'
+5.243720 Strain   b'+1:lemma:substr'
+5.241759 Phase    b'lemma:mid-log'
+5.207769 Substrain b'lemma[:2]:mg'
+5.202431 O        b'lemma:b'
+5.093704 Supp     b'-1:lemma:+'
+4.978877 Supp     b'-1:lemma:vol'
+4.960498 O        b'lemma:_'
+4.960498 O        b'lemma[:1]:_'
+4.785889 Gtype    b'-1:lemma:\xe2\x88\x86'
+4.773191 Technique b'lemma:chipseq'
+4.718733 O        b'-1:lemma:lb'
+4.679807 O        b'lemma:a'
+4.628908 Gversion b'-1:lemma:nc'
+4.467825 O        b'+1:lemma:pq'
+4.445709 Air      b'-1:lemma:ChIP-Seq'
+4.378030 O        b'-1:lemma:glucose'
+4.329558 Air      b'lemma[:2]:ae'
+4.328211 O        b'lemma:rpob'
+4.198740 O        b'lemma:delta'
+4.173979 Med      b'-1:lemma:ml'
+4.095801 Supp     b'lemma:acetate'
+4.022526 O        b'lemma:Custom'
+4.022526 O        b'lemma[:2]:Cu'
+4.014705 O        b'-1:lemma:0.3'
+4.002057 Supp     b'-1:lemma:with'
+3.969838 Med      b'+1:lemma:0.4'
+3.874806 Supp     b'lemma:pq'
+3.874806 Supp     b'lemma[:2]:pq'
+3.827929 Gtype    b'lemma:type'
+3.827929 Gtype    b'lemma[:2]:ty'
+3.798612 O        b'lemma:chip'
+3.738737 Supp     b'lemma:arginine'
+3.738664 O        b'lemma:ompr'
+3.673537 Med      b'+1:lemma:2.0'
+3.658221 Agit     b'+1:lemma:rpm'
+3.493765 O        b'-1:lemma:into'
+3.452810 Air      b'lemma:Aerobic'
+3.452810 Air      b'lemma[:2]:Ae'
+3.452043 Temp     b'-1:lemma:\xcf\x8332'
+3.425411 Temp     b'-1:lemma:sample'
+3.422615 Gversion b'lemma:chip-seq'
+3.364562 Gtype    b'lemma:fnr8myc'
+3.351216 O        b'-1:lemma:type'
+3.349721 Gtype    b'lemma:arca8myc'
+3.319200 O        b'+1:lemma:od600'
+3.296763 Gtype    b'lemma[:2]:pk'
+3.278704 O        b'-1:lemma:Aerobic'
+3.266869 O        b'+1:lemma:mid-log'
+3.263095 Gtype    b'lemma[:2]:cr'
+3.249020 Supp     b'lemma:rifampicin'
+3.239748 O        b'+1:lemma:sparging'
+3.237458 Supp     b'lemma[:2]:ri'
+3.210269 O        b'-1:lemma:0.3-0.35'
+3.205436 Technique b'lemma[:2]:rn'
+3.180683 O        b'lemma[:1]:h'
+3.156042 Phase    b'lemma[:2]:ex'
+3.140201 Air      b'lemma:aerobic'
+3.137123 O        b'+1:lemma:250'
+3.129608 Anti     b'lemma[:2]:an'
+3.121981 Supp     b'-1:lemma:final'
+3.117574 O        b'lemma[:2]:ge'
+3.100954 Air      b'-1:lemma:-'
+3.095232 Technique b'-1:lemma:input'
+3.095018 Med      b'-1:lemma:fresh'
+3.052910 O        b'lemma:.'
+3.052910 O        b'postag:.'
+3.052910 O        b'postag[:1]:.'
+3.041093 Technique b'lemma[:2]:ch'
+3.027376 Supp     b'+1:lemma:1'
+3.017384 Phase    b'lemma:exponential'
+3.011507 Gtype    b'lemma[:1]:W'
+3.000727 Supp     b'lemma[:2]:gl'
+3.000345 Med      b'lemma:MOPS'
+3.000345 Med      b'lemma[:1]:M'
+3.000345 Med      b'lemma[:2]:MO'
+2.946850 Anti     b'lemma:none'
+2.913481 Supp     b'lemma:fructose'
+2.906897 Gtype    b'lemma:flag-tag'
+2.906897 Gtype    b'-1:lemma:c-terminal'
+2.891578 Phase    b'-1:lemma:until'
+2.885138 O        b'lemma:n'
+2.870143 O        b'+1:lemma:43'
+2.866970 O        b'+1:postag:RB'
+2.866043 Gtype    b'+1:lemma::'
+2.843685 O        b'postag::'
+2.843685 O        b'postag[:1]::'
+2.823299 Air      b'lemma[:2]:an'
+2.803059 Gtype    b'lemma[:1]:w'
+2.801040 Gtype    b'lemma[:2]:de'
+2.793153 Gtype    b'+1:lemma:flagtag'
+2.782454 Gversion b'lemma:asm584v2'
+2.771209 Gversion b'lemma[:2]:as'
+2.728848 O        b'+1:postag:NNP'
+2.710278 O        b'-1:lemma:ChIP-exo'
+2.685529 O        b'+1:lemma:or'
+2.672360 Med      b'lemma:broth'
+2.672360 Med      b'-1:lemma:L'
+2.672360 Med      b'lemma[:2]:br'
+2.653066 Gtype    b'lemma:nsrr'
+2.653066 Gtype    b'lemma[:2]:ns'
+2.644949 Gtype    b'lemma:wt'
+2.644949 Gtype    b'lemma[:2]:wt'
+2.643481 O        b'+1:lemma:acetate'
+2.640438 Gtype    b'lemma[:2]:ar'
+2.625663 Gversion b'lemma:nc'
+2.625663 Gversion b'lemma[:2]:nc'
+2.605563 Anti     b'+1:lemma:antibody'
+2.591652 Technique b'-1:lemma:chip-exo'
+2.575198 O        b'lemma[:2]:fo'
+2.565649 Gtype    b'-1:lemma:vector'
+2.556891 Gtype    b'-1:postag:VBG'
+2.531858 Substrain b'+1:lemma:phtpg'
+2.530034 O        b'lemma:0.4'
+2.515928 OD       b'lemma:od450'
+2.506637 O        b'lemma[:1]:C'
+2.500720 Supp     b'lemma:sodium'
+2.401085 O        b'+1:lemma:coli'
+2.393881 Supp     b'+1:lemma:phosphate'
+2.376464 O        b'-1:postag:NNS'
+2.374397 Temp     b'-1:lemma:43'
+2.366322 Supp     b'+1:lemma:_'
+2.344507 Supp     b'lemma[:2]:ni'
+2.318294 O        b'lemma[:2]:Cr'
+2.313838 O        b'lemma[:2]:om'
+2.312761 O        b'-1:lemma:anaerobic'
+2.297530 Gtype    b'-1:lemma:rpob'
+2.286218 O        b'-1:lemma:phase'
+2.285928 Gversion b'lemma[:2]:00'
+2.270036 Supp     b'lemma:iptg'
+2.264276 Supp     b'lemma[:1]:I'
+2.248929 O        b'+1:lemma:30'
+2.245626 O        b'lemma:oxyr'
+2.240334 O        b'lemma:Cra'
+2.237370 Gtype    b'-1:lemma:_'
+2.220905 Med      b'lemma:L'
+2.220905 Med      b'+1:lemma:broth'
+2.217317 Supp     b'lemma:nacl'
+2.217317 Supp     b'lemma[:2]:na'
+2.191402 Temp     b'lemma:43'
+2.191402 Temp     b'lemma[:2]:43'
+2.169633 Supp     b'lemma:Fe'
+2.169633 Supp     b'lemma[:2]:Fe'
+2.169099 pH       b'lemma[:2]:ph'
+2.167053 O        b'lemma:ml'
+2.167053 O        b'lemma[:2]:ml'
+2.163570 Gtype    b'lemma:dfnr'
+2.163570 Gtype    b'lemma[:2]:df'
+2.115282 OD       b'lemma[:1]:o'
+2.113233 OD       b'lemma:0.3-0.35'
+2.096796 Supp     b'lemma:no3'
+2.092494 O        b'-1:lemma:aerobically'
+2.080983 Phase    b'lemma[:1]:e'
+2.077238 Anti     b'-1:lemma::'
+2.069956 O        b'lemma[:2]:ha'
+2.068054 Supp     b'lemma:dpd'
+2.068054 Supp     b'lemma[:2]:dp'
+2.065958 Supp     b'lemma[:2]:ac'
+2.065024 Gtype    b'+1:lemma:type'
+2.034166 O        b'+1:lemma:nitrate'
+2.033879 Gtype    b'lemma[:1]:f'
+2.029691 Gtype    b'-1:lemma:knock-out'
+2.028831 pH       b'+1:postag:CD'
+2.022928 Gtype    b'+1:lemma:_'
+1.993507 Supp     b'lemma:Leu'
+1.993507 Supp     b'lemma[:2]:Le'
+1.979381 O        b'-1:lemma:stpa'
+1.969036 Technique b'lemma[:1]:C'
+1.953152 Technique b'+1:lemma:chip-exo'
+1.940011 Air      b'+1:postag:IN'
+1.924352 Supp     b'lemma[:2]:30'
+1.903191 O        b'lemma:purr'
+1.902904 Air      b'lemma[:1]:a'
+1.895935 O        b'lemma:A'
+1.889757 Gtype    b'+1:lemma:with'
+1.884874 O        b'+1:lemma:dfnr'
+1.875072 Supp     b'-1:lemma:30'
+1.870747 Supp     b'-1:lemma::'
+1.864656 Technique b'-1:lemma:rna-seq'
+1.858198 Gtype    b'lemma[:1]:t'
+1.836001 O        b'lemma[:2]:in'
+1.821777 pH       b'lemma:ph5'
+1.821777 pH       b'+1:lemma:.5'
+1.813827 Supp     b'lemma:Adenine'
+1.813827 Supp     b'lemma[:2]:Ad'
+
+
+Top negative:
+-0.122503 O        b'+1:lemma:vol'
+-0.122503 O        b'lemma[:2]:1/'
+-0.125682 Supp     b'+1:postag:NNS'
+-0.128364 O        b'lemma[:1]:5'
+-0.128783 Med      b'postag[:1]:C'
+-0.131277 Supp     b'postag:CD'
+-0.131277 Supp     b'postag[:2]:CD'
+-0.131348 Supp     b'-1:postag::'
+-0.133721 Gtype    b'lemma:-lrb-'
+-0.135824 Phase    b'lemma[:2]:pa'
+-0.136598 O        b'lemma:grow'
+-0.140727 Air      b'+1:lemma:-lrb-'
+-0.148264 O        b'lemma:ph'
+-0.150736 O        b'+1:lemma:ph'
+-0.159027 O        b'+1:postag:CD'
+-0.160597 OD       b'+1:lemma:0.4'
+-0.165913 O        b'+1:lemma:phosphate'
+-0.169625 Air      b'-1:postag:CC'
+-0.171481 OD       b'postag[:1]:N'
+-0.171481 OD       b'postag[:2]:NN'
+-0.171501 O        b'lemma:1m'
+-0.171501 O        b'lemma[:2]:1m'
+-0.176117 Supp     b'-1:lemma:.'
+-0.176117 Supp     b'-1:postag:.'
+-0.177236 Temp     b'postag[:1]:N'
+-0.177236 Temp     b'postag[:2]:NN'
+-0.184780 Supp     b'+1:postag:-RRB-'
+-0.189482 Gversion b'+1:postag:NN'
+-0.191580 O        b'+1:lemma:1/100'
+-0.194798 Med      b'lemma[:1]:c'
+-0.201698 Gtype    b'+1:postag:CD'
+-0.208826 O        b'lemma:150'
+-0.208826 O        b'+1:lemma:mg/ml'
+-0.208826 O        b'lemma[:2]:15'
+-0.209680 O        b'+1:lemma:supplement'
+-0.211723 O        b'lemma[:1]:p'
+-0.211762 O        b'-1:lemma:g/l'
+-0.218211 O        b'lemma:30'
+-0.218501 Temp     b'-1:lemma:\xc2\xb0c'
+-0.223383 O        b'lemma:7.6'
+-0.223383 O        b'+1:lemma:;'
+-0.223383 O        b'lemma[:2]:7.'
+-0.230315 O        b'-1:postag:-LRB-'
+-0.234210 Air      b'-1:postag:VBN'
+-0.234317 Air      b'+1:postag:-LRB-'
+-0.238132 O        b'lemma:\xe2\x88\x86'
+-0.238132 O        b'lemma[:1]:\xe2\x88\x86'
+-0.239813 O        b'lemma[:2]:20'
+-0.243759 Supp     b'lemma[:2]:ph'
+-0.268591 O        b'-1:lemma:-lrb-'
+-0.273129 O        b'+1:lemma:.'
+-0.273129 O        b'+1:postag:.'
+-0.274515 Gtype    b'-1:postag:NN'
+-0.276640 O        b'lemma:aerobic'
+-0.280353 pH       b'postag[:1]:N'
+-0.280353 pH       b'postag[:2]:NN'
+-0.281176 O        b'+1:lemma:co2'
+-0.284309 OD       b'hUpper'
+-0.284309 OD       b'hLower'
+-0.299607 O        b'+1:lemma:rep2'
+-0.305286 Supp     b'+1:postag::'
+-0.305442 O        b'-1:lemma:1m'
+-0.307656 O        b'lemma[:2]:an'
+-0.311346 Supp     b'lemma[:1]:s'
+-0.313198 O        b'-1:lemma:IP'
+-0.327309 O        b'+1:lemma:1m'
+-0.328461 Med      b'+1:postag:NN'
+-0.331739 Supp     b'-1:lemma:dpd'
+-0.332765 O        b'-1:lemma:n2'
+-0.333171 Supp     b'postag[:1]:C'
+-0.334484 O        b'+1:lemma:-rrb-'
+-0.335881 Technique b'postag:NN'
+-0.336835 Supp     b'-1:lemma:%'
+-0.343844 O        b'lemma:37'
+-0.343844 O        b'lemma[:2]:37'
+-0.352890 O        b'lemma:co2'
+-0.366891 O        b'-1:lemma:rpob'
+-0.372918 O        b'-1:lemma:of'
+-0.379129 O        b'lemma[:1]:k'
+-0.385300 Supp     b'lemma:10'
+-0.411833 O        b'lemma[:2]:od'
+-0.414482 O        b'lemma:20'
+-0.419047 Supp     b'-1:lemma:-lrb-'
+-0.423807 Air      b'postag:NN'
+-0.429435 O        b'lemma:anaerobically'
+-0.430690 Med      b'-1:postag:NN'
+-0.435460 Gtype    b'postag[:1]:V'
+-0.435460 Gtype    b'postag[:2]:VB'
+-0.436108 O        b'-1:lemma:with'
+-0.436725 Supp     b'postag:JJ'
+-0.448963 O        b'-1:lemma:from'
+-0.449583 Supp     b'postag[:1]:J'
+-0.449583 Supp     b'postag[:2]:JJ'
+-0.452505 O        b'lemma:wt'
+-0.452505 O        b'lemma[:2]:wt'
+-0.456297 Med      b'+1:postag:IN'
+-0.460912 O        b'lemma:of'
+-0.460912 O        b'lemma[:2]:of'
+-0.464084 O        b'lemma[:2]:ph'
+-0.476123 Phase    b'+1:postag:NN'
+-0.478646 O        b'-1:lemma:37'
+-0.479822 O        b'lemma[:2]:mg'
+-0.490640 O        b'lemma:glucose'
+-0.494749 O        b'-1:lemma:mm'
+-0.513617 O        b'+1:postag:IN'
+-0.520527 O        b'+1:lemma:2.0'
+-0.524819 Phase    b'+1:lemma:pahse'
+-0.528372 O        b'lemma:media'
+-0.534673 Temp     b'postag:NN'
+-0.544692 Air      b'-1:lemma:or'
+-0.551287 Air      b'-1:postag:JJ'
+-0.559988 O        b'-1:lemma:\xe2\x88\x86'
+-0.572775 Air      b'+1:postag:JJ'
+-0.575164 O        b'+1:postag:VBG'
+-0.579204 Air      b'postag[:1]:N'
+-0.579204 Air      b'postag[:2]:NN'
+-0.579634 Supp     b'+1:lemma:fructose'
+-0.613266 O        b'lemma[:2]:ae'
+-0.626767 Anti     b'symb'
+-0.633791 Med      b'+1:postag:NNS'
+-0.643773 O        b'+1:lemma:+'
+-0.653623 O        b'lemma[:2]:me'
+-0.686630 O        b'-1:lemma:delta'
+-0.691758 Phase    b'postag[:1]:J'
+-0.691758 Phase    b'postag[:2]:JJ'
+-0.695582 Gtype    b'lemma[:1]:c'
+-0.707615 Agit     b'symb'
+-0.710847 O        b'lemma[:1]:n'
+-0.719133 O        b'lemma:mid-log'
+-0.720783 O        b'lemma[:2]:0.'
+-0.727230 O        b'lemma:0.3'
+-0.730648 Supp     b'-1:postag:-LRB-'
+-0.737779 Gtype    b'lemma[:1]:r'
+-0.743565 Med      b'-1:postag:CD'
+-0.750347 O        b'+1:lemma:for'
+-0.760505 Air      b'symb'
+-0.775646 O        b'lemma[:2]:30'
+-0.777433 O        b'lemma:2h'
+-0.777433 O        b'-1:lemma:additional'
+-0.777433 O        b'lemma[:2]:2h'
+-0.811526 O        b'-1:lemma:final'
+-0.812240 O        b'lemma[:1]:0'
+-0.816482 Gtype    b'-1:lemma:-lrb-'
+-0.821802 O        b'-1:lemma:30'
+-0.824390 O        b'lemma[:2]:gl'
+-0.845131 Supp     b'lemma[:1]:a'
+-0.845884 O        b'lemma:methanol'
+-0.854110 Technique b'-1:postag::'
+-0.866570 O        b'+1:lemma:until'
+-0.885272 Supp     b'+1:lemma:rifampicin'
+-0.885699 O        b'-1:lemma:nsrr'
+-0.888698 O        b'-1:lemma:cra'
+-0.904476 O        b'+1:lemma:at'
+-0.932299 Med      b'symb'
+-0.942332 O        b'-1:lemma:co2'
+-0.962304 O        b'+1:lemma:g/l'
+-0.962951 O        b'+1:lemma:mm'
+-0.972177 O        b'lemma:soxs-8myc'
+-0.976305 O        b'-1:lemma:dissolve'
+-0.976305 O        b'+1:lemma:methanol'
+-1.026438 O        b'lemma[:2]:ar'
+-1.071623 Gtype    b'lemma[:1]:a'
+-1.074211 Gtype    b'+1:lemma:-rrb-'
+-1.085129 Phase    b'postag:JJ'
+-1.096666 O        b'-1:lemma:ph'
+-1.111621 Supp     b'-1:postag:NNP'
+-1.112692 Phase    b'hUpper'
+-1.112692 Phase    b'hLower'
+-1.151925 Anti     b'postag:NNP'
+-1.166449 Supp     b'symb'
+-1.186999 Phase    b'-1:postag:JJ'
+-1.188170 O        b'-1:lemma:until'
+-1.246650 Agit     b'hUpper'
+-1.246650 Agit     b'hLower'
+-1.262971 O        b'+1:lemma:in'
+-1.269087 O        b'-1:lemma:ml'
+-1.380405 OD       b'+1:postag:NN'
+-1.438101 Supp     b'+1:postag:VBN'
+-1.535115 Supp     b'hGreek'
+-1.573856 Supp     b'+1:lemma:-lrb-'
+-1.599754 Supp     b'+1:postag:-LRB-'
+-1.625658 O        b'-1:postag:VBG'
+-1.641325 O        b'-1:postag::'
+-1.657440 O        b'lemma[:2]:ri'
+-1.696650 O        b'-1:lemma:1'
+-1.882679 O        b'+1:lemma:1'
+-1.947502 O        b'lemma:rifampicin'
+-2.109295 O        b'-1:lemma:sample'
+-2.179742 O        b'-1:lemma:fresh'
+-2.704413 Supp     b'+1:lemma:,'
+-2.704413 Supp     b'+1:postag:,'
+-2.995590 Supp     b'lemma[:1]:c'
+-3.044999 O        b'+1:lemma:2'
+-3.183494 O        b'lemma[:2]:fl'
+-3.486906 O        b'-1:lemma:vol'
+-3.568659 O        b'-1:lemma:2'
+-3.575405 Temp     b'+1:postag:IN'
+-4.334558 O        b'postag:VBP'
+-5.276604 O        b'-1:lemma:_'
+-5.933765 O        b'-1:lemma::'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.12822074735920433, 'c2': 0.028255623123597452}
-best CV score:0.8237380408677073
-model size: 0.08M
-
-Flat F1: 0.8193415910917898
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.898     0.930     0.914        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.810     0.758     0.783        62
-       Anti      1.000     0.667     0.800         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.927     0.840     0.881       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.883     0.669     0.762       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.889     0.771     0.819       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.565409
-OD     -> OD      6.231734
-Temp   -> Temp    5.402921
-Med    -> Med     5.359382
-Anti   -> Anti    5.104770
-O      -> O       4.742896
-Air    -> Air     4.719911
-Supp   -> Supp    4.287498
-Phase  -> Phase   4.241142
-Gtype  -> Gtype   4.089050
-Gversion -> Gversion 4.032429
-Technique -> Technique 3.850995
-pH     -> pH      1.963947
-O      -> Supp    1.603550
-Air    -> O       1.398467
-O      -> Technique 1.240044
-Substrain -> Gtype   1.119453
-O      -> Gtype   0.875238
-Gtype  -> Supp    0.858295
-O      -> Temp    0.596269
-Phase  -> O       0.564175
-O      -> Anti    0.517085
-Med    -> O       0.386943
-Supp   -> O       0.353705
-O      -> Gversion 0.348096
-Temp   -> O       0.185839
-OD     -> Phase   0.161408
-Technique -> Air     0.128857
-O      -> pH      0.118475
-O      -> Strain  0.096954
-O      -> Med     0.052178
-Anti   -> O       0.009171
-O      -> Phase   0.000467
-O      -> OD      -0.005897
-Phase  -> Technique -0.012764
-Supp   -> Temp    -0.013683
-Technique -> Gtype   -0.021909
-Supp   -> OD      -0.033848
-Phase  -> Air     -0.069264
-Supp   -> Air     -0.090838
-Gtype  -> Technique -0.113048
-Gtype  -> Gversion -0.157086
-Gtype  -> Phase   -0.202957
-Technique -> pH      -0.208178
-Gtype  -> O       -0.210311
-OD     -> Gtype   -0.231184
-Air    -> Supp    -0.257429
-Technique -> OD      -0.285302
-Technique -> O       -0.341935
-Supp   -> Gversion -0.342115
-
-
-Top unlikely transitions:
-Air    -> O       1.398467
-O      -> Technique 1.240044
-Substrain -> Gtype   1.119453
-O      -> Gtype   0.875238
-Gtype  -> Supp    0.858295
-O      -> Temp    0.596269
-Phase  -> O       0.564175
-O      -> Anti    0.517085
-Med    -> O       0.386943
-Supp   -> O       0.353705
-O      -> Gversion 0.348096
-Temp   -> O       0.185839
-OD     -> Phase   0.161408
-Technique -> Air     0.128857
-O      -> pH      0.118475
-O      -> Strain  0.096954
-O      -> Med     0.052178
-Anti   -> O       0.009171
-O      -> Phase   0.000467
-O      -> OD      -0.005897
-Phase  -> Technique -0.012764
-Supp   -> Temp    -0.013683
-Technique -> Gtype   -0.021909
-Supp   -> OD      -0.033848
-Phase  -> Air     -0.069264
-Supp   -> Air     -0.090838
-Gtype  -> Technique -0.113048
-Gtype  -> Gversion -0.157086
-Gtype  -> Phase   -0.202957
-Technique -> pH      -0.208178
-Gtype  -> O       -0.210311
-OD     -> Gtype   -0.231184
-Air    -> Supp    -0.257429
-Technique -> OD      -0.285302
-Technique -> O       -0.341935
-Supp   -> Gversion -0.342115
-Gtype  -> Med     -0.344684
-Supp   -> Gtype   -0.358479
-Air    -> Temp    -0.449831
-OD     -> O       -0.500326
-Gtype  -> Anti    -0.517041
-Agit   -> O       -0.543034
-O      -> Air     -0.641599
-Phase  -> OD      -0.787199
-OD     -> Air     -0.831209
-Supp   -> Technique -0.892537
-Supp   -> Med     -0.914717
-Gtype  -> OD      -0.923871
-Substrain -> O       -0.971193
-Med    -> Supp    -1.319670
-
-
-Top positive:
-6.042889 O        b'lemma:1'
-5.378037 O        b'lemma:2'
-4.814602 O        b'word[:2]:re'
-4.742997 O        b'lemma:3'
-4.604194 Air      b'word[:2]:Ae'
-4.582747 O        b'-1:lemma:tag'
-4.358279 Technique b'word[:2]:Ch'
-4.152239 Air      b'lemma:anaerobic'
-4.066499 O        b'lemma:a'
-4.065258 O        b'lemma:_'
-4.065258 O        b'word[:1]:_'
-4.064588 O        b'postag:IN'
-3.716431 O        b'postag::'
-3.606992 Gtype    b'word[:2]:Fl'
-3.524792 Phase    b'lemma:mid-log'
-3.467339 Gtype    b'lemma:arca8myc'
-3.410721 O        b'lemma:with'
-3.368507 Phase    b'lemma:stationary'
-3.359342 Gtype    b'word[:1]:\xce\x94'
-3.271176 O        b'+1:lemma:od600'
-3.232433 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.205920 Med      b'word[:2]:LB'
-3.145263 O        b'lemma:.'
-3.145263 O        b'postag:.'
-3.128776 Supp     b'+1:lemma:\xc2\xb5m'
-3.096928 O        b'-1:lemma:Aerobic'
-3.056649 O        b'word[:1]:S'
-3.049272 O        b'word[:2]:ge'
-2.996386 O        b'postag:VBN'
-2.992231 O        b'word[:2]:Rp'
-2.901111 Supp     b'lemma:Iron'
-2.901111 Supp     b'word[:2]:Ir'
-2.888425 Supp     b'lemma:arginine'
-2.815369 Supp     b'word[:1]:I'
-2.784841 Supp     b'lemma:nitrate'
-2.784841 Supp     b'word[:2]:ni'
-2.775372 Med      b'word[:1]:M'
-2.760314 Air      b'-1:lemma:ChIP-Seq'
-2.752516 Supp     b'-1:lemma:Cra'
-2.738888 O        b'lemma:delta'
-2.690700 Anti     b'+1:lemma:antibody'
-2.680938 Technique b'word[:2]:RN'
-2.640855 O        b'-1:lemma:0.3-0.35'
-2.630147 O        b'word[:2]:Cu'
-2.628890 O        b'word[:2]:Cr'
-2.628035 Supp     b'+1:lemma:1'
-2.611639 Air      b'word[:2]:An'
-2.563252 Supp     b'+1:lemma:2'
-2.537665 Gtype    b'word[:2]:cr'
-2.505368 Air      b'word[:1]:A'
-2.488531 O        b'word[:1]:G'
-2.467070 O        b'+1:postag:RB'
-2.451239 O        b'lemma:argr'
-2.433577 Gtype    b'lemma:flag-tag'
-2.433577 Gtype    b'-1:lemma:c-terminal'
-2.391502 O        b'word[:1]:B'
-2.376551 O        b'+1:lemma:pq'
-2.369827 O        b'lemma:-'
-2.356850 O        b'lemma:A'
-2.330843 O        b'postag:CC'
-2.301360 Med      b'word[:1]:L'
-2.282908 Gtype    b'word[:1]:d'
-2.281497 O        b'+1:lemma:mid-log'
-2.281275 O        b'+1:lemma:o.d.'
-2.274064 O        b'-1:lemma:glucose'
-2.272588 Gversion b'-1:lemma:nc'
-2.261134 Supp     b'lemma:pq'
-2.261134 Supp     b'word[:2]:PQ'
-2.254663 O        b'word[:2]:ch'
-2.242812 O        b'lemma:at'
-2.229584 O        b'-1:lemma:lb'
-2.216086 Gtype    b'-1:lemma:_'
-2.208080 O        b'-1:lemma:anaerobic'
-2.203650 Gtype    b'lemma:type'
-2.203650 Gtype    b'word[:2]:ty'
-2.188456 Med      b'lemma:MOPS'
-2.188456 Med      b'word[:2]:MO'
-2.154914 OD       b'word[:1]:O'
-2.150169 Supp     b'-1:lemma:+'
-2.148437 Supp     b'+1:lemma:hour'
-2.145965 O        b'lemma:purr'
-2.130562 Strain   b'lemma:k-12'
-2.130562 Strain   b'word[:2]:K-'
-2.128273 Gversion b'lemma:chip-seq'
-2.124653 Gversion b'lemma:asm584v2'
-2.124653 Gversion b'word[:2]:AS'
-2.114191 Supp     b'word[:2]:mg'
-2.079751 Gtype    b'lemma:wt'
-2.079618 Strain   b'word[:1]:K'
-2.074663 O        b'lemma:rpob'
-2.068933 OD       b'+1:lemma:stationary'
-2.065663 Gversion b'word[:2]:00'
-2.061985 O        b'lemma:b'
-2.056038 Temp     b'-1:lemma:sample'
-2.053114 Phase    b'word[:2]:st'
-2.043604 O        b'postag:DT'
-2.037822 O        b'word[:2]:Lr'
-2.022730 Gtype    b'lemma:nsrr'
-2.022730 Gtype    b'word[:2]:Ns'
-2.021608 Temp     b'-1:lemma:\xcf\x8332'
-2.002870 Gversion b'lemma:nc'
-2.002870 Gversion b'word[:2]:NC'
-1.998257 Supp     b'lemma:fructose'
-1.989806 OD       b'word[:2]:OD'
-1.984624 O        b'word[:2]:fo'
-1.983155 Med      b'+1:lemma:0.4'
-1.978931 Air      b'postag:RB'
-1.970422 O        b'lemma:\xcf\x8332'
-1.970422 O        b'word[:1]:\xcf\x83'
-1.970422 O        b'word[:2]:\xcf\x833'
-1.968991 Substrain b'lemma:mg1655'
-1.968991 Substrain b'word[:2]:MG'
-1.949696 O        b'lemma:Custom'
-1.942668 pH       b'lemma:ph5'
-1.942668 pH       b'+1:lemma:.5'
-1.942559 O        b'-1:lemma:type'
-1.939421 Gtype    b'word[:1]:W'
-1.927720 O        b'lemma:0.4'
-1.918769 Air      b'lemma:aerobic'
-1.911973 Supp     b'lemma:rifampicin'
-1.899971 Supp     b'word[:2]:ri'
-1.892762 O        b'-1:lemma:stpa'
-1.891369 Supp     b'word[:2]:gl'
-1.883496 Vess     b'lemma:flask'
-1.883496 Vess     b'-1:lemma:warm'
-1.883496 Vess     b'word[:2]:fl'
-1.866473 Gtype    b'+1:lemma:type'
-1.858048 Gtype    b'hGreek'
-1.846301 Substrain b'word[:1]:M'
-1.843289 Gtype    b'+1:lemma:flagtag'
-1.839432 Supp     b'-1:lemma:with'
-1.808519 Anti     b'word[:2]:an'
-1.796182 Supp     b'word[:2]:Fe'
-1.770222 Air      b'-1:lemma:co2'
-1.757419 O        b'+1:postag:NNP'
-1.756260 Supp     b'lemma:acetate'
-1.756125 Air      b'-1:lemma:phase'
-1.744786 Supp     b'word[:1]:2'
-1.742628 Temp     b'lemma:43'
-1.742628 Temp     b'word[:2]:43'
-1.737898 Technique b'lemma:ChIP-exo'
-1.733503 Gtype    b'lemma:fnr8myc'
-1.733503 Gtype    b'word[:2]:Fn'
-1.717668 O        b'+1:lemma:chip-seq'
-1.717668 O        b'word[:2]:In'
-1.711566 Supp     b'+1:lemma:_'
-1.706442 O        b'+1:lemma:anerobically'
-1.702869 Temp     b'-1:lemma:43'
-1.697874 O        b'word[:1]:E'
-1.679257 O        b'+1:lemma:nacl'
-1.676751 Temp     b'word[:1]:3'
-1.674101 Strain   b'+1:lemma:substr'
-1.668117 Gtype    b'+1:lemma::'
-1.662871 Gtype    b'-1:lemma:rpob'
-1.659272 Phase    b'+1:lemma:for'
-1.658740 Med      b'+1:lemma:-lrb-'
-1.653292 Supp     b'lemma:nacl'
-1.645217 Med      b'+1:postag:-LRB-'
-1.644387 Phase    b'-1:lemma:until'
-1.633923 Supp     b'word[:2]:0.'
-1.631245 O        b'word[:2]:Om'
-1.629217 O        b'-1:lemma:\xc2\xb0c'
-1.609945 O        b'lemma:antibody'
-1.602620 O        b'word[:2]:Pu'
-1.596753 Supp     b'word[:2]:ac'
-1.589715 Gtype    b'word[:2]:so'
-1.579402 Supp     b'+1:postag:CC'
-1.576836 Med      b'+1:lemma:supplement'
-1.575982 Gtype    b'-1:postag:VBG'
-1.572483 Supp     b'lemma:nh4cl'
-1.572483 Supp     b'word[:2]:NH'
-1.571642 Gtype    b'lemma:\xe2\x88\x86'
-1.571642 Gtype    b'word[:1]:\xe2\x88\x86'
-1.541168 Air      b'+1:lemma:at'
-1.539300 O        b'-1:lemma:dpd'
-1.538899 Technique b'lemma:rnaseq'
-1.524271 pH       b'+1:postag:CD'
-1.521425 O        b'lemma:oxyr'
-1.521425 O        b'word[:2]:Ox'
-1.520812 Supp     b'word[:1]:\xc2\xb5'
-1.518532 pH       b'lemma:.5'
-1.518532 pH       b'-1:lemma:ph5'
-1.518532 pH       b'word[:2]:.5'
-1.516502 O        b'+1:postag::'
-1.513634 Temp     b'+1:lemma:\xc2\xb0c'
-1.512169 Supp     b'+1:lemma:and'
-1.512098 Gtype    b'-1:lemma:ptac'
-1.512061 O        b'word[:1]:C'
-1.511111 Supp     b'word[:1]:1'
-1.508414 O        b'postag:VBG'
-1.489242 Med      b'postag:NNP'
-1.476047 O        b'-1:lemma:0.3'
-1.472256 Air      b'word[:2]:an'
-1.471863 Air      b'-1:lemma:_'
-1.463959 O        b'word[:1]:c'
-1.460284 O        b'lemma:for'
-1.457885 Gtype    b'+1:lemma:with'
-1.450344 Gversion b'word[:2]:Ch'
-1.449241 O        b'word[:2]:or'
-1.445626 Gversion b'lemma:.2'
-
-
-Top negative:
--0.086688 Air      b'symb'
--0.087278 O        b'+1:postag:JJ'
--0.088979 O        b'lemma:0.1'
--0.090012 Gtype    b'lemma:,'
--0.090012 Gtype    b'postag:,'
--0.090760 O        b'word[:1]:M'
--0.091539 O        b'-1:lemma:g/l'
--0.092936 Gtype    b'word[:1]:,'
--0.093150 O        b'word[:1]:p'
--0.094182 Phase    b'-1:postag:JJ'
--0.096715 O        b'lemma:e.'
--0.096913 O        b'-1:postag:IN'
--0.097475 Gtype    b'-1:lemma:mg1655'
--0.097915 Gtype    b'+1:lemma:cra'
--0.098266 Supp     b'-1:postag:NN'
--0.099523 Gtype    b'+1:lemma:-rrb-'
--0.101642 OD       b'+1:lemma:0.4'
--0.103503 Gversion b'-1:postag:NN'
--0.104284 Technique b'-1:lemma::'
--0.107474 Air      b'-1:postag:CC'
--0.107802 Supp     b'+1:lemma:dpd'
--0.109425 O        b'lemma:k-12'
--0.109425 O        b'word[:2]:K-'
--0.109862 Gtype    b'-1:postag:SYM'
--0.110589 O        b'-1:lemma:n2'
--0.116375 Med      b'postag:NN'
--0.118693 O        b'lemma:o2'
--0.118693 O        b'word[:2]:O2'
--0.124126 O        b'word[:1]:g'
--0.128725 O        b'-1:lemma:e.'
--0.131057 O        b'-1:postag:VBN'
--0.134797 Supp     b'-1:postag:NNP'
--0.134945 Vess     b'hUpper'
--0.134945 Vess     b'hLower'
--0.141446 O        b'lemma:\xc2\xb0c'
--0.141446 O        b'word[:1]:\xc2\xb0'
--0.141446 O        b'word[:2]:\xc2\xb0C'
--0.148538 O        b'-1:lemma:mm'
--0.150981 O        b'word[:2]:cr'
--0.154676 OD       b'postag:IN'
--0.155036 O        b'word[:2]:LB'
--0.160269 O        b'-1:lemma:o2'
--0.172623 O        b'word[:2]:20'
--0.179442 O        b'+1:lemma:fecl2'
--0.180162 O        b'+1:lemma:or'
--0.181662 Supp     b'-1:postag:VBG'
--0.183004 Air      b'postag:CC'
--0.184330 O        b'+1:lemma:_'
--0.190642 Gtype    b'+1:postag:CD'
--0.193285 Phase    b'-1:lemma:at'
--0.196188 O        b'lemma:od600'
--0.197981 O        b'-1:postag:-LRB-'
--0.201396 pH       b'postag:NN'
--0.204068 O        b'lemma:co2'
--0.204068 O        b'word[:2]:CO'
--0.204520 Supp     b'+1:lemma:acetate'
--0.206835 O        b'+1:lemma:delta'
--0.210712 O        b'word[:2]:gl'
--0.213914 O        b'-1:lemma:0.2'
--0.219505 O        b'+1:lemma:300'
--0.223188 O        b'word[:2]:de'
--0.223436 Gtype    b'-1:postag:NN'
--0.224373 O        b'-1:lemma:the'
--0.225222 OD       b'postag:-LRB-'
--0.225222 OD       b'word[:2]:-L'
--0.226307 OD       b'lemma:-lrb-'
--0.227748 O        b'+1:lemma:dissolve'
--0.230155 Med      b'+1:postag:NN'
--0.234353 Air      b'-1:lemma:or'
--0.235996 Gtype    b'word[:1]:A'
--0.238857 Gtype    b'+1:lemma:-lrb-'
--0.240915 O        b'+1:lemma:-lcb-'
--0.245779 O        b'+1:lemma:%'
--0.254436 O        b'+1:lemma:.'
--0.254436 O        b'+1:postag:.'
--0.256154 O        b'-1:lemma:od600'
--0.258786 Supp     b'lemma:2'
--0.267133 O        b'lemma:dpd'
--0.267133 O        b'word[:2]:DP'
--0.268311 Temp     b'-1:lemma:\xc2\xb0c'
--0.268819 O        b'lemma:dissolve'
--0.269284 O        b'+1:lemma:minimal'
--0.273587 O        b'-1:lemma:um'
--0.273587 O        b'+1:lemma:paraquat'
--0.283755 O        b'+1:lemma:until'
--0.290161 O        b'word[:2]:30'
--0.295390 Supp     b'+1:postag:VBN'
--0.301685 Anti     b'+1:lemma:anti-fur'
--0.310527 Med      b'-1:postag:NN'
--0.313589 O        b'+1:lemma:arginine'
--0.329477 Temp     b'postag:NN'
--0.330016 Gtype    b'word[:1]:g'
--0.331259 O        b'lemma:150'
--0.331259 O        b'+1:lemma:mg/ml'
--0.331259 O        b'word[:2]:15'
--0.343722 O        b'+1:lemma:antibody'
--0.345190 O        b'+1:lemma:rep1'
--0.346985 O        b'word[:2]:mg'
--0.352336 O        b'-1:lemma:until'
--0.352901 O        b'lemma:\xe2\x88\x86'
--0.352901 O        b'word[:1]:\xe2\x88\x86'
--0.368005 OD       b'+1:postag:CD'
--0.374288 O        b'word[:2]:OD'
--0.379040 Technique b'-1:postag::'
--0.379664 O        b'word[:1]:K'
--0.381633 Gtype    b'-1:lemma:,'
--0.381633 Gtype    b'-1:postag:,'
--0.382431 O        b'+1:postag:CD'
--0.395128 O        b'lemma:of'
--0.395128 O        b'word[:2]:of'
--0.403132 O        b'+1:lemma:-rrb-'
--0.408197 O        b'-1:lemma:1'
--0.409223 Agit     b'symb'
--0.412681 O        b'+1:lemma:c'
--0.421053 O        b'word[:2]:me'
--0.422060 O        b'lemma:2h'
--0.422060 O        b'-1:lemma:additional'
--0.422060 O        b'word[:2]:2h'
--0.432550 O        b'+1:lemma:\xc2\xb0c'
--0.442411 O        b'-1:lemma:ml'
--0.474987 O        b'lemma:20'
--0.493548 Agit     b'hUpper'
--0.493548 Agit     b'hLower'
--0.497447 O        b'-1:lemma:grow'
--0.508442 O        b'+1:postag:-RRB-'
--0.511400 O        b'lemma:anaerobic'
--0.515457 O        b'lemma:37'
--0.515457 O        b'word[:2]:37'
--0.516266 Anti     b'+1:postag:JJ'
--0.527188 Supp     b'+1:lemma:rifampicin'
--0.529171 O        b'lemma:anaerobically'
--0.542987 O        b'word[:2]:ce'
--0.545817 O        b'word[:2]:Fe'
--0.550246 OD       b'+1:postag:NN'
--0.555017 O        b'-1:lemma:\xe2\x88\x86'
--0.585692 O        b'word[:2]:ri'
--0.590663 O        b'+1:lemma:cell'
--0.598318 O        b'word[:1]:F'
--0.602384 Temp     b'+1:lemma:to'
--0.602384 Temp     b'+1:postag:TO'
--0.630497 O        b'-1:lemma:ompr'
--0.651154 O        b'+1:postag:IN'
--0.657357 Air      b'+1:postag:JJ'
--0.662332 O        b'+1:postag:NNS'
--0.671056 O        b'-1:lemma:cra'
--0.677411 O        b'postag:RB'
--0.683285 O        b'postag:VBP'
--0.704946 Anti     b'postag:NNP'
--0.717280 Med      b'+1:postag:IN'
--0.747461 Phase    b'hUpper'
--0.747461 Phase    b'hLower'
--0.771466 Supp     b'postag:CD'
--0.774933 O        b'word[:1]:N'
--0.784937 Med      b'symb'
--0.797919 O        b'word[:2]:0.'
--0.823981 O        b'word[:1]:d'
--0.834163 O        b'lemma:methanol'
--0.845016 Supp     b'word[:2]:an'
--0.863890 Temp     b'hGreek'
--0.887768 O        b'+1:lemma:supplement'
--0.891809 O        b'lemma:mid-log'
--0.932608 O        b'-1:lemma:dissolve'
--0.932608 O        b'+1:lemma:methanol'
--0.938549 Supp     b'-1:lemma:%'
--0.941138 O        b'+1:lemma:at'
--0.941437 O        b'+1:postag:VBG'
--0.966149 O        b'-1:lemma:IP'
--0.967650 O        b'lemma:rifampicin'
--0.971114 O        b'word[:1]:0'
--1.027819 Supp     b'word[:1]:C'
--1.038642 O        b'-1:lemma:co2'
--1.053342 O        b'-1:lemma:sample'
--1.074523 O        b'-1:lemma:37'
--1.082863 O        b'lemma:wt'
--1.085639 O        b'word[:1]:\xce\x94'
--1.088972 O        b'+1:lemma:+'
--1.101307 O        b'-1:lemma:rpob'
--1.101534 Gtype    b'lemma:delta'
--1.131224 O        b'-1:postag:VBG'
--1.200680 O        b'+1:lemma:g/l'
--1.209964 O        b'-1:lemma:nsrr'
--1.223269 Gtype    b'word[:1]:C'
--1.236557 Air      b'-1:postag:JJ'
--1.342495 O        b'+1:lemma:in'
--1.418170 Air      b'postag:NN'
--1.475103 Technique b'postag:NN'
--1.489457 Supp     b'postag:JJ'
--1.565345 Phase    b'postag:JJ'
--1.566076 O        b'word[:1]:P'
--1.602127 Supp     b'hGreek'
--1.627987 O        b'+1:lemma:hour'
--1.632857 O        b'-1:postag::'
--1.709919 O        b'word[:2]:Ch'
--1.721470 Supp     b'symb'
--2.064654 O        b'+1:lemma:2'
--2.235497 O        b'-1:lemma:2'
--2.286957 OD       b'word[:1]:-'
--2.535031 O        b'+1:lemma:1'
--3.735809 O        b'-1:lemma:_'
--3.940448 O        b'-1:lemma::'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.016463867524667154, 'c2': 0.009787977090088149}
-best CV score:0.8002661257453753
-model size: 0.09M
-
-Flat F1: 0.7993777341659613
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.812     0.912     0.860        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.667     0.800         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.865     0.783     0.822       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.877     0.684     0.769       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.870     0.758     0.799       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.618554
-OD     -> OD      6.046990
-Med    -> Med     5.731787
-Anti   -> Anti    5.560967
-Temp   -> Temp    5.475319
-O      -> O       5.246611
-Air    -> Air     5.069288
-Gversion -> Gversion 4.782679
-Phase  -> Phase   4.419771
-Gtype  -> Gtype   4.416987
-Supp   -> Supp    4.342876
-Technique -> Technique 3.476989
-pH     -> pH      2.858102
-Substrain -> Gtype   1.991185
-O      -> Supp    1.682496
-O      -> Technique 1.282752
-Gtype  -> Supp    1.102213
-O      -> Temp    1.095977
-O      -> Gtype   1.088815
-Technique -> Air     0.953696
-Air    -> O       0.896546
-Gtype  -> pH      0.886031
-O      -> Anti    0.734178
-O      -> Strain  0.608646
-Gtype  -> Air     0.454671
-O      -> Gversion 0.272689
-O      -> Vess    0.158893
-O      -> pH      0.140174
-Med    -> O       0.029214
-Phase  -> O       0.002020
-O      -> Agit    -0.000006
-Anti   -> Med     -0.000156
-Gversion -> Temp    -0.000292
-Temp   -> O       -0.000334
-Gtype  -> Substrain -0.000924
-Agit   -> OD      -0.002021
-Strain -> Supp    -0.005596
-Temp   -> OD      -0.020991
-O      -> Phase   -0.034932
-Med    -> Technique -0.051093
-Med    -> Gtype   -0.075674
-Gtype  -> Temp    -0.095825
-Gversion -> Gtype   -0.096016
-OD     -> Phase   -0.103930
-Air    -> Technique -0.110545
-Gversion -> Technique -0.112689
-Phase  -> Temp    -0.112941
-O      -> Med     -0.122397
-Gversion -> OD      -0.151378
-OD     -> Anti    -0.154828
-
-
-Top unlikely transitions:
-Gtype  -> O       -0.318325
-Phase  -> pH      -0.345234
-Air    -> Gtype   -0.347582
-Phase  -> Air     -0.350325
-Supp   -> O       -0.358385
-Phase  -> Gtype   -0.365635
-Gversion -> Air     -0.381458
-Technique -> O       -0.390564
-Phase  -> Med     -0.406160
-Phase  -> Supp    -0.460254
-Technique -> Supp    -0.517689
-Med    -> Air     -0.551360
-Anti   -> Gtype   -0.565812
-Gtype  -> Technique -0.566337
-Air    -> Phase   -0.631229
-OD     -> Supp    -0.647555
-Air    -> Temp    -0.656794
-Supp   -> Gversion -0.715756
-Supp   -> Phase   -0.716453
-Gtype  -> Gversion -0.757530
-OD     -> Temp    -0.788537
-Gtype  -> Phase   -0.824421
-Supp   -> Gtype   -0.884540
-Supp   -> OD      -0.900562
-Supp   -> Anti    -0.903053
-Phase  -> Technique -0.906097
-Anti   -> OD      -0.909132
-O      -> Air     -0.914911
-Agit   -> O       -0.935018
-Gtype  -> Med     -0.944769
-OD     -> Gtype   -0.960373
-OD     -> Air     -0.960499
-Supp   -> Temp    -0.978389
-OD     -> Med     -1.056468
-Supp   -> Technique -1.067708
-Supp   -> Air     -1.075407
-Temp   -> Med     -1.177952
-Air    -> Med     -1.190708
-Air    -> Supp    -1.204177
-OD     -> O       -1.212915
-Gtype  -> Anti    -1.370912
-Gtype  -> OD      -1.436838
-Air    -> OD      -1.503021
-Technique -> pH      -1.506307
-Technique -> Gtype   -1.536980
-Substrain -> O       -1.668439
-Technique -> OD      -1.715161
-Supp   -> Med     -1.733906
-Med    -> Supp    -2.443927
-Phase  -> OD      -3.131759
-
-
-Top positive:
-9.305065 O        b'lemma:_'
-8.732993 Phase    b'lemma:stationary'
-7.760917 O        b'lemma:1'
-7.168896 Supp     b'lemma:Iron'
-7.028020 Phase    b'lemma:mid-log'
-6.779175 Air      b'lemma:aerobic'
-6.665098 O        b'lemma:2'
-6.423370 O        b'lemma:rpob'
-6.362007 Technique b'lemma:chipseq'
-6.331838 Air      b'lemma:anaerobic'
-6.325395 Strain   b'lemma:k-12'
-6.235497 Technique b'lemma:ChIP-exo'
-6.089690 O        b'lemma:3'
-5.978696 O        b'-1:lemma:tag'
-5.761282 Supp     b'lemma:pq'
-5.719069 Air      b'-1:lemma:ChIP-Seq'
-5.577060 O        b'lemma:Cra'
-5.510085 O        b'lemma:rep1'
-5.467485 Med      b'lemma:MOPS'
-5.467177 Gtype    b'lemma:flag-tag'
-5.467177 Gtype    b'-1:lemma:c-terminal'
-5.453183 O        b'lemma:rep2'
-5.426293 Gtype    b'lemma:\xce\xb4cra'
-5.397017 Gversion b'lemma:asm584v2'
-5.390386 Supp     b'lemma:nitrate'
-5.341842 Supp     b'lemma:nh4cl'
-5.337281 Gtype    b'lemma:arca8myc'
-5.304554 O        b'lemma:rep3'
-5.196226 Supp     b'lemma:glucose'
-5.117424 Substrain b'lemma:mg1655'
-5.026581 Air      b'lemma:Aerobic'
-4.803005 Med      b'lemma:lb'
-4.772452 Gtype    b'lemma:wt'
-4.771894 Supp     b'lemma:acetate'
-4.766600 Supp     b'lemma:no3'
-4.729731 Gtype    b'lemma:delta-arca'
-4.713097 Technique b'lemma:rna-seq'
-4.682193 O        b'lemma:b'
-4.655495 O        b'-1:lemma:ChIP-exo'
-4.654042 O        b'lemma:Custom'
-4.608813 O        b'lemma:\xcf\x8332'
-4.600330 Med      b'lemma:LB'
-4.589780 Anti     b'lemma:none'
-4.569387 O        b'-1:lemma:Aerobic'
-4.552809 Supp     b'lemma:Fe'
-4.549722 Gtype    b'lemma:fnr8myc'
-4.469111 O        b'lemma:a'
-4.442862 Supp     b'+1:lemma:\xc2\xb5m'
-4.411648 Anti     b'lemma:seqa'
-4.399167 Technique b'lemma:chip-seq'
-4.385270 O        b'lemma:with'
-4.372699 O        b'-1:lemma:0.3-0.35'
-4.269887 Supp     b'+1:lemma:Deficient'
-4.261397 Supp     b'lemma:fructose'
-4.249331 O        b'lemma:.'
-4.249331 O        b'postag:.'
-4.242020 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.234560 Supp     b'lemma:rifampicin'
-4.204294 Supp     b'-1:lemma:Cra'
-4.144998 Technique b'lemma:rnaseq'
-4.131518 O        b'-1:lemma:glucose'
-4.112814 O        b'lemma:CEL'
-4.104546 Gtype    b'lemma:delta-fnr'
-4.079795 Supp     b'+1:lemma:1'
-4.079552 O        b'postag::'
-4.058149 Gversion b'lemma:chip-seq'
-4.037325 O        b'lemma:for'
-4.034489 Supp     b'lemma:dpd'
-4.010338 Strain   b'+1:lemma:substr'
-3.921894 Supp     b'lemma:arginine'
-3.871845 Med      b'lemma:m63'
-3.869832 O        b'lemma:-'
-3.804951 OD       b'lemma:od450'
-3.804811 OD       b'lemma:od600'
-3.798413 Gtype    b'+1:lemma:type'
-3.780914 Supp     b'+1:lemma:2'
-3.777061 O        b'lemma:oxyr'
-3.772675 Gtype    b'lemma:nsrr'
-3.768154 O        b'postag:IN'
-3.745620 O        b'-1:lemma:0.3'
-3.739942 O        b'-1:lemma:lb'
-3.716105 O        b'+1:postag:RB'
-3.704808 O        b'lemma:ompr'
-3.699123 Gtype    b'lemma:\xce\xb4fur'
-3.679821 O        b'-1:lemma:anaerobic'
-3.674972 Gtype    b'lemma:WT'
-3.633705 Med      b'+1:lemma:0.4'
-3.613670 O        b'lemma:chip-arca'
-3.584593 Anti     b'lemma:anti-myc'
-3.583514 Gtype    b'+1:lemma:with'
-3.582395 Gtype    b'lemma:type'
-3.580941 Gversion b'lemma:nc'
-3.569260 Vess     b'lemma:flask'
-3.569260 Vess     b'-1:lemma:warm'
-3.558952 Gtype    b'lemma:\xce\xb4soxs'
-3.551122 O        b'+1:lemma:od600'
-3.521427 OD       b'+1:lemma:stationary'
-3.499509 Gtype    b'lemma:\xe2\x88\x86'
-3.497229 O        b'lemma:s'
-3.444243 O        b'lemma:affyexp'
-3.441867 O        b'lemma:at'
-3.432521 O        b'lemma:argr'
-3.430692 O        b'lemma:2-3'
-3.429569 O        b'lemma:or'
-3.420226 pH       b'lemma:ph5'
-3.420226 pH       b'+1:lemma:.5'
-3.329303 Supp     b'+1:lemma:_'
-3.325338 Air      b'lemma:anerobically'
-3.313930 Phase    b'+1:lemma:for'
-3.313428 Air      b'lemma:Anaerobic'
-3.306548 Gtype    b'lemma:\xce\xb4ompr'
-3.295126 Gversion b'lemma:u00096'
-3.295126 Gversion b'+1:lemma:.2'
-3.293291 O        b'lemma:purr'
-3.280062 O        b'postag:VBN'
-3.276907 Med      b'+1:lemma:minimal'
-3.266429 Gversion b'lemma:.2'
-3.266429 Gversion b'-1:lemma:u00096'
-3.204837 Technique b'lemma:ChIP-Seq'
-3.195028 Supp     b'lemma:Leu'
-3.194814 Air      b'postag:RB'
-3.190453 Gtype    b'lemma:wild-type'
-3.189580 Gversion b'lemma:000913'
-3.165016 O        b'+1:lemma:o.d.'
-3.164940 O        b'-1:lemma:stpa'
-3.152706 Gtype    b'-1:lemma:ptac'
-3.148350 Supp     b'-1:lemma:+'
-3.129438 Gversion b'-1:lemma:nc'
-3.118509 Supp     b'lemma:nacl'
-3.114692 O        b'lemma:Lrp'
-3.092621 Supp     b'lemma:Adenine'
-3.091939 O        b'lemma:soxs'
-3.091939 O        b'lemma:soxr'
-3.077192 O        b'-1:lemma:type'
-3.075201 Gtype    b'lemma:pk4854'
-3.057817 Med      b'+1:lemma:2.0'
-3.055002 Gtype    b'lemma:deltaseqa'
-3.055002 Gtype    b'-1:lemma:old'
-3.024702 Temp     b'lemma:\xc2\xb0c'
-3.023864 Gtype    b'lemma:\xce\xb4soxr'
-3.009504 Technique b'-1:lemma:chip-exo'
-2.999113 O        b'+1:lemma:chip-seq'
-2.997979 Gtype    b'lemma:\xce\xb4oxyr'
-2.994098 O        b'+1:lemma:pq'
-2.988197 Technique b'-1:lemma:IP'
-2.978971 Gtype    b'+1:lemma:flagtag'
-2.950109 Gtype    b'+1:lemma:pq'
-2.932317 O        b'lemma:Fur'
-2.930678 Temp     b'lemma:43'
-2.927639 Supp     b'+1:lemma:hour'
-2.912329 Technique b'-1:lemma:input'
-2.909510 Gtype    b'lemma:ptac'
-2.890332 O        b'+1:lemma:mid-log'
-2.887693 Anti     b'+1:lemma:antibody'
-2.861197 Phase    b'-1:lemma:until'
-2.834560 O        b'lemma:pt7'
-2.813666 Temp     b'-1:lemma:43'
-2.812461 Med      b'-1:lemma:LB'
-2.807067 O        b'+1:lemma:anti-fur'
-2.805769 Med      b'lemma:glucose'
-2.792580 Med      b'postag:NNP'
-2.791499 Substrain b'+1:lemma:phtpg'
-2.780205 Anti     b'lemma:anti-rpos'
-2.775436 O        b'lemma:chip'
-2.773005 Air      b'lemma:anaerobically'
-2.745128 Technique b'+1:lemma:chip-exo'
-2.707884 Temp     b'-1:lemma:37'
-2.695840 Gtype    b'-1:lemma:rpob'
-2.695400 O        b'lemma:A'
-2.688169 Gtype    b'+1:lemma:aerobic'
-2.675347 O        b'-1:lemma:media'
-2.666679 Gversion b'lemma:_'
-2.657459 O        b'lemma:chip-fnr'
-2.651315 O        b'+1:lemma:sparging'
-2.632748 Air      b'-1:lemma:-'
-2.627781 Med      b'-1:lemma:ml'
-2.615678 Temp     b'lemma:37'
-2.605568 Supp     b'lemma:iptg'
-2.594624 O        b'postag:SYM'
-2.562170 Med      b'lemma:L'
-2.562170 Med      b'+1:lemma:broth'
-2.557929 Air      b'-1:lemma:anerobically'
-2.557567 Supp     b'lemma:methanol'
-2.541889 Air      b'+1:lemma:at'
-2.532330 pH       b'lemma:.5'
-2.532330 pH       b'-1:lemma:ph5'
-2.504689 Gtype    b'lemma:dfnr'
-2.502393 Supp     b'lemma:leucine'
-2.498877 O        b'+1:postag:NNP'
-2.497838 O        b'lemma:culture'
-2.494675 Supp     b'+1:lemma:leucine'
-2.484413 Med      b'+1:lemma:-lrb-'
-2.481062 Technique b'postag:NNP'
-2.479247 O        b'lemma:genotype/variation'
-2.478491 O        b'lemma:delta'
-2.475426 Gtype    b'lemma:soxs-8myc'
-2.475426 Gtype    b'lemma:soxr-8myc'
-2.462314 Temp     b'-1:lemma:\xcf\x8332'
-2.420303 O        b'-1:lemma:min'
-2.407878 O        b'-1:lemma:\xc2\xb0c'
-
-
-Top negative:
--0.078472 Gtype    b'-1:lemma:,'
--0.078472 Gtype    b'-1:postag:,'
--0.082841 Gtype    b'+1:lemma:cra'
--0.082999 O        b'-1:postag:IN'
--0.084148 O        b'+1:lemma:sample'
--0.086745 Air      b'-1:lemma:-rrb-'
--0.089656 O        b'-1:lemma:delta'
--0.090120 Supp     b'+1:lemma:glucose'
--0.094631 Med      b'+1:lemma:media'
--0.096766 OD       b'+1:postag:CD'
--0.101591 Anti     b'+1:postag:JJ'
--0.105414 Air      b'postag:CD'
--0.106119 O        b'+1:lemma:5'
--0.106327 O        b'lemma:glucose'
--0.106774 O        b'-1:lemma:300'
--0.110381 O        b'+1:lemma:strain'
--0.115429 OD       b'+1:lemma:mid-log'
--0.116504 O        b'-1:lemma:o2'
--0.116849 O        b'lemma:8'
--0.117115 Air      b'-1:postag:-RRB-'
--0.131943 O        b'-1:postag:VBP'
--0.140837 O        b'+1:lemma:-rrb-'
--0.145581 O        b'lemma:o2'
--0.145602 Med      b'-1:postag:NN'
--0.148797 Gtype    b'+1:lemma:a'
--0.149824 O        b'+1:lemma:antibody'
--0.155765 OD       b'+1:lemma:0.4'
--0.160857 O        b'-1:lemma:Fe'
--0.165249 Supp     b'-1:postag:NN'
--0.176258 O        b'lemma:n2'
--0.179426 Gtype    b'-1:postag:DT'
--0.190182 O        b'lemma:nacl'
--0.190914 O        b'lemma:paraquat'
--0.199978 O        b'-1:lemma:affinity'
--0.202133 Phase    b'lemma:pahse'
--0.206981 O        b'-1:lemma:-lrb-'
--0.209922 O        b'-1:lemma:purify'
--0.212225 O        b'-1:lemma:e.'
--0.214834 Phase    b'-1:lemma:at'
--0.215972 O        b'lemma:grow'
--0.220853 O        b'+1:postag:-RRB-'
--0.233967 O        b'+1:lemma:0.4'
--0.234246 O        b'lemma:m63'
--0.234336 O        b'+1:lemma:delta'
--0.236935 O        b'-1:lemma:iptg'
--0.237356 Supp     b'-1:lemma:-'
--0.238564 Temp     b'-1:postag:IN'
--0.241298 O        b'lemma:lb'
--0.252180 Air      b'-1:lemma:or'
--0.259409 Gtype    b'-1:postag:CD'
--0.263557 Gtype    b'postag:CD'
--0.263957 O        b'lemma:e.'
--0.273851 O        b'+1:lemma:-lcb-'
--0.277750 Supp     b'-1:lemma:and'
--0.279144 O        b'-1:lemma:um'
--0.279144 O        b'+1:lemma:paraquat'
--0.282397 O        b'-1:postag:-LRB-'
--0.283298 Supp     b'+1:postag:IN'
--0.287914 Gtype    b'+1:postag:NNS'
--0.295366 O        b'lemma:co2'
--0.297637 Med      b'+1:postag:NNS'
--0.299889 Med      b'-1:lemma:MOPS'
--0.302541 O        b'lemma:aerobically'
--0.306345 Supp     b'lemma:and'
--0.309099 O        b'-1:lemma:n2'
--0.312324 Gversion b'+1:postag:NN'
--0.315967 O        b'-1:lemma:g/l'
--0.323765 O        b'+1:lemma:or'
--0.331216 O        b'-1:lemma:20'
--0.334167 O        b'-1:lemma:30'
--0.344013 O        b'+1:lemma:cell'
--0.344949 O        b'postag:RB'
--0.346100 O        b'lemma:of'
--0.352206 Temp     b'-1:lemma:\xc2\xb0c'
--0.355150 OD       b'postag:JJ'
--0.358507 O        b'+1:lemma:from'
--0.364055 O        b'+1:lemma:shake'
--0.367716 O        b'lemma:minimal'
--0.372888 Gtype    b'postag:NNS'
--0.374545 O        b'+1:lemma:.'
--0.374545 O        b'+1:postag:.'
--0.376161 pH       b'postag:NN'
--0.376856 O        b'-1:lemma:minimal'
--0.379126 Phase    b'-1:postag:JJ'
--0.380474 O        b'lemma:mg1655'
--0.388065 Technique b'-1:lemma::'
--0.398201 O        b'+1:postag:IN'
--0.405322 O        b'+1:lemma:minimal'
--0.424455 O        b'lemma:30'
--0.427384 O        b'+1:lemma:until'
--0.436028 O        b'-1:lemma:fresh'
--0.460571 O        b'-1:lemma:from'
--0.465690 O        b'-1:lemma:grow'
--0.476082 O        b'lemma:\xc2\xb0c'
--0.479886 O        b'+1:lemma:b'
--0.490814 OD       b'+1:postag:NN'
--0.494543 Med      b'+1:postag:IN'
--0.502282 O        b'-1:lemma:0.1'
--0.522523 O        b'+1:lemma:%'
--0.524523 Supp     b'+1:postag:VBN'
--0.531557 O        b'+1:lemma:c'
--0.538489 O        b'+1:lemma:_'
--0.550066 OD       b'lemma:-lrb-'
--0.556057 Med      b'+1:postag:NN'
--0.559263 O        b'-1:lemma:with'
--0.566146 O        b'+1:lemma:300'
--0.569839 O        b'-1:lemma:od600'
--0.574777 O        b'-1:lemma:rifampicin'
--0.580814 O        b'-1:lemma:~'
--0.580908 O        b'lemma:phase'
--0.595586 O        b'-1:lemma:co2'
--0.603665 O        b'+1:lemma:dissolve'
--0.610355 O        b'lemma:k-12'
--0.623982 O        b'-1:lemma:mid-log'
--0.633959 Med      b'postag:CD'
--0.640260 O        b'+1:lemma:Aerobic'
--0.655574 OD       b'postag:-LRB-'
--0.666724 Technique b'-1:postag::'
--0.670459 O        b'lemma:od600'
--0.673345 OD       b'+1:lemma:and'
--0.674316 Temp     b'postag:NN'
--0.676209 Gtype    b'lemma:delta'
--0.694986 Gtype    b'-1:postag:SYM'
--0.708935 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.723413 O        b'+1:lemma:phase'
--0.728416 O        b'-1:lemma:cra'
--0.739107 O        b'lemma:dissolve'
--0.745574 Med      b'lemma:-lrb-'
--0.748120 O        b'-1:lemma:1'
--0.779677 Med      b'postag:-LRB-'
--0.783075 Supp     b'-1:postag:VBG'
--0.805015 Supp     b'+1:lemma:rifampicin'
--0.822331 O        b'lemma:mid-log'
--0.826614 O        b'+1:lemma:\xc2\xb0c'
--0.828084 O        b'-1:lemma:\xe2\x88\x86'
--0.834813 O        b'lemma:150'
--0.834813 O        b'+1:lemma:mg/ml'
--0.847218 O        b'+1:lemma:arginine'
--0.850600 O        b'lemma:purify'
--0.856637 O        b'+1:lemma:rep1'
--0.863375 Supp     b'postag:CC'
--0.911226 O        b'+1:lemma:0.3'
--0.939105 OD       b'+1:postag:CC'
--0.955944 Air      b'-1:postag:JJ'
--0.962224 O        b'lemma:media'
--0.965799 O        b'-1:lemma:0.2'
--0.969028 O        b'lemma:anaerobically'
--0.984393 Supp     b'+1:lemma:acetate'
--0.986157 O        b'lemma:20'
--0.994939 O        b'+1:postag:NNS'
--1.003238 O        b'lemma:\xe2\x88\x86'
--1.020262 O        b'lemma:dpd'
--1.021474 O        b'+1:postag:VBG'
--1.023814 O        b'-1:lemma:until'
--1.028655 Temp     b'+1:lemma:to'
--1.028655 Temp     b'+1:postag:TO'
--1.034923 O        b'+1:lemma:fecl2'
--1.048621 O        b'+1:lemma:in'
--1.093228 Anti     b'+1:lemma:anti-fur'
--1.117750 O        b'+1:lemma:supplement'
--1.118079 O        b'-1:lemma:dissolve'
--1.118079 O        b'+1:lemma:methanol'
--1.153383 Med      b'-1:postag:IN'
--1.161827 O        b'lemma:0.1'
--1.240288 O        b'lemma:0.2'
--1.240360 O        b'lemma:0.3'
--1.281903 O        b'-1:lemma:ml'
--1.331319 O        b'lemma:\xce\xb4fur'
--1.347884 O        b'lemma:2h'
--1.347884 O        b'-1:lemma:additional'
--1.412330 O        b'lemma:fecl2'
--1.425201 O        b'lemma:anaerobic'
--1.445822 O        b'+1:lemma:at'
--1.482178 Air      b'+1:postag:JJ'
--1.484222 O        b'-1:lemma:sample'
--1.563764 Supp     b'-1:lemma:%'
--1.568716 O        b'+1:lemma:g/l'
--1.573165 O        b'-1:postag:VBG'
--1.579364 Air      b'postag:NN'
--1.717872 O        b'-1:lemma:IP'
--1.738726 O        b'postag:VBP'
--1.761183 Supp     b'postag:JJ'
--1.765703 O        b'lemma:wt'
--1.767819 O        b'lemma:37'
--1.807701 O        b'-1:postag::'
--1.827545 O        b'lemma:rifampicin'
--1.961081 Anti     b'postag:NNP'
--2.001886 O        b'-1:lemma:ompr'
--2.126948 O        b'-1:lemma:nsrr'
--2.271346 O        b'-1:lemma:rpob'
--2.333080 O        b'lemma:methanol'
--2.336287 O        b'-1:lemma:37'
--2.381339 O        b'-1:lemma:2'
--2.515516 O        b'+1:lemma:2'
--2.555444 O        b'+1:lemma:hour'
--2.633630 O        b'+1:lemma:+'
--2.844080 Phase    b'postag:JJ'
--3.202166 O        b'+1:lemma:1'
--3.918526 O        b'-1:lemma:_'
--4.322819 O        b'-1:lemma::'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.15010361345548673, 'c2': 5.707111790479162e-05}
-best CV score:0.797496608146535
-model size: 0.06M
-
-Flat F1: 0.7827228028395358
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.803     0.860     0.831        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.780     0.742     0.760        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.857     0.792     0.824       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.810     0.691     0.746       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.828     0.752     0.783       480
-
-
-Top likely transitions:
-Agit   -> Agit    7.341089
-OD     -> OD      6.495857
-Anti   -> Anti    6.092589
-Med    -> Med     6.071567
-Temp   -> Temp    5.874329
-Air    -> Air     5.660813
-Gtype  -> Gtype   5.201158
-Phase  -> Phase   5.016982
-Gversion -> Gversion 4.915266
-O      -> O       4.868094
-Technique -> Technique 4.801722
-Supp   -> Supp    4.049658
-pH     -> pH      2.237488
-Substrain -> Gtype   1.851589
-O      -> Technique 1.624886
-O      -> Supp    1.553107
-Gtype  -> Supp    1.547690
-Air    -> O       1.440675
-O      -> Gtype   1.359381
-O      -> Anti    0.638902
-Technique -> Air     0.616017
-Med    -> O       0.445325
-O      -> Temp    0.344531
-O      -> Gversion 0.281572
-Temp   -> O       0.271329
-O      -> Med     0.092068
-Phase  -> O       0.061858
-Gtype  -> pH      0.046191
-Anti   -> O       0.018884
-Gtype  -> Air     0.007955
-O      -> OD      -0.012110
-OD     -> Med     -0.056297
-Technique -> O       -0.194680
-Gtype  -> Anti    -0.249294
-Supp   -> O       -0.300903
-Gtype  -> O       -0.529562
-Agit   -> O       -0.538328
-OD     -> O       -0.737964
-Supp   -> Med     -0.744059
-Gtype  -> OD      -0.843006
-O      -> Air     -0.935708
-Substrain -> O       -1.186882
-Phase  -> OD      -1.409016
-Med    -> Supp    -2.610420
-
-
-Top unlikely transitions:
-Agit   -> Agit    7.341089
-OD     -> OD      6.495857
-Anti   -> Anti    6.092589
-Med    -> Med     6.071567
-Temp   -> Temp    5.874329
-Air    -> Air     5.660813
-Gtype  -> Gtype   5.201158
-Phase  -> Phase   5.016982
-Gversion -> Gversion 4.915266
-O      -> O       4.868094
-Technique -> Technique 4.801722
-Supp   -> Supp    4.049658
-pH     -> pH      2.237488
-Substrain -> Gtype   1.851589
-O      -> Technique 1.624886
-O      -> Supp    1.553107
-Gtype  -> Supp    1.547690
-Air    -> O       1.440675
-O      -> Gtype   1.359381
-O      -> Anti    0.638902
-Technique -> Air     0.616017
-Med    -> O       0.445325
-O      -> Temp    0.344531
-O      -> Gversion 0.281572
-Temp   -> O       0.271329
-O      -> Med     0.092068
-Phase  -> O       0.061858
-Gtype  -> pH      0.046191
-Anti   -> O       0.018884
-Gtype  -> Air     0.007955
-O      -> OD      -0.012110
-OD     -> Med     -0.056297
-Technique -> O       -0.194680
-Gtype  -> Anti    -0.249294
-Supp   -> O       -0.300903
-Gtype  -> O       -0.529562
-Agit   -> O       -0.538328
-OD     -> O       -0.737964
-Supp   -> Med     -0.744059
-Gtype  -> OD      -0.843006
-O      -> Air     -0.935708
-Substrain -> O       -1.186882
-Phase  -> OD      -1.409016
-Med    -> Supp    -2.610420
-
-
-Top positive:
-14.131694 Supp     b'lemma:Iron'
-10.668753 Phase    b'lemma:stationary'
-9.969031 O        b'lemma:_'
-9.952965 Air      b'lemma:anaerobic'
-9.573463 Air      b'lemma:aerobic'
-9.006576 Supp     b'lemma:nitrate'
-8.765618 Med      b'lemma:MOPS'
-8.630149 Air      b'-1:lemma:ChIP-Seq'
-8.541642 O        b'lemma:1'
-8.103189 Technique b'lemma:ChIP-exo'
-8.056769 Strain   b'lemma:k-12'
-7.747915 Phase    b'lemma:mid-log'
-7.630132 O        b'lemma:Custom'
-7.452221 O        b'-1:lemma:ChIP-exo'
-7.430108 O        b'lemma:rpob'
-7.256881 O        b'-1:lemma:tag'
-7.192950 O        b'lemma:\xcf\x8332'
-7.181976 Gversion b'-1:lemma:nc'
-6.998365 Gversion b'lemma:asm584v2'
-6.702349 Technique b'lemma:chipseq'
-6.548039 Supp     b'lemma:pq'
-6.424562 O        b'lemma:2'
-6.390388 Gtype    b'lemma:\xce\xb4cra'
-6.379061 Air      b'lemma:Aerobic'
-6.327455 Substrain b'lemma:mg1655'
-6.271147 O        b'lemma:3'
-6.216371 O        b'lemma:rep1'
-6.036273 Gtype    b'lemma:type'
-5.982713 Gtype    b'lemma:flag-tag'
-5.982713 Gtype    b'-1:lemma:c-terminal'
-5.978106 O        b'lemma:rep2'
-5.928876 Supp     b'+1:lemma:\xc2\xb5m'
-5.927978 O        b'lemma:rep3'
-5.711298 OD       b'lemma:od600'
-5.700340 Gversion b'lemma:nc'
-5.674933 Med      b'lemma:LB'
-5.635847 O        b'lemma:b'
-5.491319 Supp     b'lemma:rifampicin'
-5.340763 OD       b'lemma:od450'
-5.280658 Supp     b'lemma:nh4cl'
-5.236869 O        b'postag::'
-5.185016 O        b'postag:IN'
-5.179346 O        b'lemma:a'
-5.171656 O        b'lemma:Cra'
-5.156885 Supp     b'lemma:glucose'
-5.045265 Gtype    b'-1:lemma:\xe2\x88\x86'
-5.014858 Technique b'lemma:rna-seq'
-5.004572 Supp     b'lemma:Fe'
-4.986002 Anti     b'lemma:none'
-4.960380 OD       b'+1:lemma:stationary'
-4.954569 Gtype    b'lemma:wt'
-4.846980 O        b'-1:lemma:0.3'
-4.808425 O        b'-1:lemma:0.3-0.35'
-4.735890 Supp     b'lemma:arginine'
-4.724865 Gtype    b'lemma:arca8myc'
-4.722199 O        b'lemma:or'
-4.712517 Gtype    b'lemma:delta-arca'
-4.694670 Med      b'lemma:lb'
-4.665780 Supp     b'lemma:acetate'
-4.592959 O        b'-1:lemma:Aerobic'
-4.582847 Supp     b'lemma:dpd'
-4.579677 Anti     b'lemma:seqa'
-4.553469 Technique b'lemma:ChIP-Seq'
-4.524775 Gtype    b'lemma:fnr8myc'
-4.512285 Gtype    b'lemma:\xce\xb4fur'
-4.453319 Supp     b'lemma:fructose'
-4.385121 Vess     b'lemma:flask'
-4.385121 Vess     b'-1:lemma:warm'
-4.362610 Gtype    b'+1:lemma:type'
-4.241639 Technique b'lemma:chip-seq'
-4.222711 O        b'lemma:-'
-4.122116 Technique b'+1:lemma:chip-exo'
-4.119390 O        b'lemma:.'
-4.119390 O        b'postag:.'
-4.094206 Anti     b'lemma:anti-myc'
-4.064301 Gtype    b'+1:lemma:ph5'
-4.047658 O        b'+1:lemma:od600'
-4.033297 Temp     b'-1:lemma:sample'
-4.027077 Temp     b'-1:lemma:\xcf\x8332'
-3.988494 Supp     b'lemma:no3'
-3.987819 Gtype    b'lemma:delta-fnr'
-3.965541 Technique b'lemma:rnaseq'
-3.901419 Gtype    b'lemma:wild-type'
-3.858758 Gtype    b'lemma:nsrr'
-3.839972 O        b'-1:lemma:anaerobic'
-3.809743 O        b'lemma:chip'
-3.768275 Gtype    b'-1:lemma:rpob'
-3.759291 O        b'+1:postag:NNP'
-3.753503 Technique b'-1:lemma:IP'
-3.744094 Gtype    b'-1:lemma:ptac'
-3.724227 O        b'-1:lemma:type'
-3.681895 Gtype    b'+1:lemma:flagtag'
-3.671930 Anti     b'lemma:anti-rpos'
-3.640672 O        b'postag:VBN'
-3.635571 Supp     b'-1:lemma:+'
-3.615075 Gversion b'lemma:chip-seq'
-3.609485 Supp     b'+1:lemma:1'
-3.603583 Gtype    b'lemma:\xe2\x88\x86'
-3.583908 Gversion b'lemma:u00096'
-3.583908 Gversion b'+1:lemma:.2'
-3.578924 Supp     b'lemma:methanol'
-3.558572 O        b'+1:postag:RB'
-3.531371 O        b'lemma:CEL'
-3.519433 Med      b'+1:lemma:0.4'
-3.514351 Supp     b'lemma:iptg'
-3.492482 pH       b'lemma:ph5'
-3.492482 pH       b'+1:lemma:.5'
-3.478227 O        b'lemma:for'
-3.447690 O        b'-1:lemma:glucose'
-3.435499 O        b'lemma:oxyr'
-3.435413 Anti     b'+1:lemma:antibody'
-3.406205 Med      b'lemma:m63'
-3.361046 O        b'lemma:s'
-3.340573 Gtype    b'lemma:\xce\xb4ompr'
-3.334851 Supp     b'-1:lemma:\xc2\xb5m'
-3.300340 O        b'lemma:with'
-3.267870 Supp     b'-1:lemma:Cra'
-3.225692 Supp     b'+1:lemma:2'
-3.198663 Supp     b'lemma:nacl'
-3.197021 Air      b'lemma:anaerobically'
-3.140248 Strain   b'+1:lemma:substr'
-3.081035 O        b'lemma:ompr'
-3.072833 Supp     b'+1:lemma:hour'
-3.032040 Supp     b'+1:lemma:_'
-3.019379 Gtype    b'+1:lemma:with'
-3.003302 Gtype    b'lemma:pk4854'
-2.949430 Gtype    b'+1:lemma:pq'
-2.942687 Supp     b'lemma:Leu'
-2.920502 Med      b'-1:lemma:ml'
-2.911185 Temp     b'-1:lemma:37'
-2.907442 O        b'+1:lemma:chip-seq'
-2.901178 Gversion b'lemma:.2'
-2.901178 Gversion b'-1:lemma:u00096'
-2.895104 Med      b'+1:lemma:2.0'
-2.847883 Technique b'-1:lemma:chip-exo'
-2.841679 Air      b'lemma:anerobically'
-2.787857 OD       b'-1:lemma:about'
-2.786869 O        b'lemma:at'
-2.783750 Supp     b'lemma:20'
-2.722669 pH       b'lemma:.5'
-2.722669 pH       b'-1:lemma:ph5'
-2.714038 Air      b'-1:lemma:-'
-2.712647 Technique b'+1:lemma:rna-seq'
-2.694003 O        b'postag:DT'
-2.684568 O        b'lemma:soxs'
-2.684568 O        b'lemma:soxr'
-2.665698 Med      b'+1:lemma:minimal'
-2.649710 O        b'+1:lemma:o.d.'
-2.645351 O        b'+1:lemma:sparging'
-2.643627 Gtype    b'lemma:\xce\xb4soxs'
-2.641818 Med      b'lemma:media'
-2.594213 Gtype    b'-1:lemma:phtpg'
-2.579796 Gtype    b'-1:lemma:nsrr'
-2.565558 O        b'lemma:condition'
-2.564623 Gtype    b'lemma:deltaseqa'
-2.564623 Gtype    b'-1:lemma:old'
-2.553746 Substrain b'+1:lemma:phtpg'
-2.552012 O        b'postag:VBG'
-2.519921 O        b'+1:lemma:pq'
-2.506331 O        b'-1:lemma:lb'
-2.497453 OD       b'lemma:0.3'
-2.462504 O        b'+1:lemma:acetate'
-2.438317 O        b'-1:lemma:stpa'
-2.438025 Supp     b'+1:lemma:iptg'
-2.427624 Supp     b'+1:lemma:and'
-2.425953 Med      b'+1:lemma:g/l'
-2.424623 Supp     b'lemma:Adenine'
-2.400881 Technique b'-1:lemma:input'
-2.375136 O        b'-1:lemma:media'
-2.359950 Supp     b'lemma:0.2'
-2.343865 Med      b'+1:lemma:supplement'
-2.341893 O        b'-1:lemma:l1'
-2.334122 O        b'lemma:culture'
-2.293428 Temp     b'lemma:\xc2\xb0c'
-2.283387 Gversion b'lemma:000913'
-2.277001 Temp     b'lemma:37'
-2.270319 Temp     b'lemma:43'
-2.267164 Gversion b'postag:CD'
-2.265729 Supp     b'lemma:0.1'
-2.263323 Gtype    b'-1:lemma:vector'
-2.252869 O        b'lemma:chip-arca'
-2.246589 O        b'-1:lemma:dpd'
-2.245090 Gtype    b'lemma:ptac'
-2.239134 Med      b'lemma:L'
-2.239134 Med      b'+1:lemma:broth'
-2.238728 Gtype    b'+1:lemma:_'
-2.225573 Temp     b'-1:lemma:43'
-2.222881 O        b'+1:postag:VBP'
-2.192564 OD       b'-1:lemma:~'
-2.185774 Air      b'postag:RB'
-2.184138 Phase    b'-1:lemma:mid-log'
-2.182400 Phase    b'-1:lemma:until'
-2.180459 Med      b'lemma:broth'
-2.180459 Med      b'-1:lemma:L'
-2.178459 Gtype    b'lemma:\xce\xb4oxyr'
-2.172998 Med      b'lemma:glucose'
-2.081891 Supp     b'-1:lemma:with'
-2.081163 O        b'lemma:Lrp'
-2.056042 Supp     b'lemma:of'
-2.054403 O        b'+1:lemma:rifampicin'
-
-
-Top negative:
-0.004444 OD       b'+1:lemma:~'
-0.002512 O        b'+1:lemma:media'
-0.002348 Technique b'-1:postag:NNP'
-0.001954 Anti     b'-1:lemma:monoclonal'
-0.001373 Supp     b'lemma:250'
-0.001330 O        b'+1:lemma:n2'
-0.001020 OD       b'-1:lemma:cell'
-0.000979 Air      b'lemma:70'
-0.000779 Gtype    b'-1:lemma:of'
-0.000613 Agit     b'+1:lemma:at'
-0.000612 OD       b'-1:postag:VBN'
-0.000570 Anti     b'-1:postag:NN'
-0.000562 OD       b'+1:postag:VBN'
-0.000343 OD       b'postag:VBN'
-0.000250 Supp     b'lemma:feso4'
-0.000211 Supp     b'lemma:um'
-0.000200 O        b'lemma:harvest'
-0.000172 Supp     b'-1:lemma:250'
-0.000169 O        b'+1:lemma:harvest'
-0.000161 O        b'+1:lemma:minute'
-0.000152 O        b'+1:lemma:rna'
-0.000142 Gtype    b'lemma:input'
-0.000138 Gtype    b'lemma:mutant'
-0.000125 Gtype    b'lemma:-rcb-'
-0.000110 Gtype    b'postag::'
-0.000080 Phase    b'-1:postag:IN'
-0.000061 Phase    b'+1:lemma:aerobically'
-0.000056 OD       b'postag:IN'
-0.000055 Phase    b'+1:postag:RB'
-0.000045 Supp     b'lemma:2'
-0.000036 OD       b'+1:lemma:mid-log'
-0.000020 O        b'-1:lemma:m9'
-0.000015 Supp     b'lemma:\xc2\xb5m'
-0.000013 Supp     b'-1:lemma:10'
-0.000012 O        b'+1:postag:SYM'
-0.000012 Med      b'-1:lemma:g/l'
-0.000011 O        b'+1:lemma:min'
--0.000010 O        b'-1:lemma:g/l'
--0.000013 O        b'lemma:cell'
--0.000022 O        b'-1:lemma:1'
--0.000023 O        b'+1:lemma:mm'
--0.000025 O        b'+1:lemma:medium'
--0.000054 Gtype    b'+1:lemma:2'
--0.000084 O        b'lemma:10'
--0.000087 OD       b'-1:postag:DT'
--0.000166 Gtype    b'postag:CD'
--0.000166 O        b'+1:lemma:rep1'
--0.000189 O        b'-1:lemma:um'
--0.000189 O        b'+1:lemma:paraquat'
--0.000301 O        b'lemma:m63'
--0.000348 OD       b'+1:postag:NNS'
--0.000501 OD       b'+1:postag:-LRB-'
--0.001014 O        b'lemma:lb'
--0.001025 O        b'+1:lemma:300'
--0.001085 O        b'+1:lemma:minimal'
--0.001319 O        b'+1:lemma:phase'
--0.001982 O        b'+1:lemma:fnr'
--0.002311 O        b'+1:lemma:grow'
--0.003075 O        b'+1:lemma:until'
--0.003743 O        b'+1:lemma:0.3'
--0.004269 O        b'lemma:grow'
--0.004318 O        b'+1:lemma:0.4'
--0.005882 O        b'+1:lemma:25'
--0.005961 O        b'-1:lemma:,'
--0.005961 O        b'-1:postag:,'
--0.006723 O        b'-1:lemma:n2'
--0.006973 Air      b'-1:lemma:and'
--0.007306 Supp     b'-1:lemma:for'
--0.007868 O        b'lemma:5'
--0.011921 O        b'lemma:95'
--0.012399 O        b'-1:lemma:95'
--0.015125 O        b'+1:lemma:antibody'
--0.018199 O        b'lemma:25'
--0.020534 OD       b'-1:lemma:a'
--0.021998 O        b'-1:lemma:25'
--0.024040 OD       b'+1:lemma:and'
--0.027503 O        b'-1:lemma:70'
--0.030355 Air      b'postag:CC'
--0.031431 O        b'-1:postag:VBN'
--0.034243 OD       b'+1:postag:CD'
--0.035178 O        b'-1:lemma:mm'
--0.037036 Air      b'-1:lemma:aerobically'
--0.044409 O        b'-1:lemma:-lrb-'
--0.045497 O        b'-1:lemma:\xe2\x88\x86'
--0.053514 O        b'+1:lemma:o2'
--0.057056 pH       b'postag:NN'
--0.059321 O        b'lemma:e.'
--0.060480 O        b'+1:lemma:arginine'
--0.064459 O        b'-1:lemma:0.1'
--0.065478 O        b'lemma:o2'
--0.086735 O        b'-1:postag:IN'
--0.088151 Supp     b'postag:CC'
--0.090770 O        b'+1:lemma:5'
--0.090829 Med      b'+1:postag:NNS'
--0.097005 O        b'-1:lemma:e.'
--0.102356 O        b'-1:lemma:from'
--0.105701 O        b'-1:lemma:rifampicin'
--0.107290 Supp     b'lemma:and'
--0.111321 Gtype    b'+1:postag:IN'
--0.122840 O        b'+1:lemma:-rrb-'
--0.131840 O        b'-1:lemma:mid-log'
--0.136836 OD       b'+1:postag:CC'
--0.145723 O        b'-1:postag:-LRB-'
--0.146980 O        b'-1:lemma:o2'
--0.156899 O        b'-1:lemma:of'
--0.167701 Phase    b'-1:lemma:at'
--0.175342 Anti     b'+1:postag:JJ'
--0.183517 OD       b'+1:postag:NN'
--0.190021 O        b'-1:lemma:30'
--0.208806 Temp     b'postag:NN'
--0.208824 Temp     b'postag:JJ'
--0.215629 O        b'lemma:co2'
--0.221546 Air      b'-1:lemma:or'
--0.241850 O        b'lemma:\xe2\x88\x86'
--0.242801 Technique b'-1:lemma::'
--0.243926 Supp     b'+1:postag:VBN'
--0.244243 O        b'lemma:30'
--0.246547 Med      b'-1:postag:IN'
--0.268422 O        b'-1:lemma:ml'
--0.274527 Med      b'+1:postag:IN'
--0.289790 O        b'+1:postag:IN'
--0.291195 O        b'+1:postag:-RRB-'
--0.293140 Med      b'+1:postag:NN'
--0.299342 O        b'lemma:phase'
--0.302946 O        b'+1:postag:NNS'
--0.306118 O        b'+1:lemma:.'
--0.306118 O        b'+1:postag:.'
--0.308929 Gtype    b'-1:postag:NN'
--0.317569 Air      b'-1:postag:CC'
--0.323438 Phase    b'-1:postag:NN'
--0.327100 O        b'-1:lemma:cra'
--0.329119 Med      b'-1:postag:NN'
--0.343139 O        b'+1:lemma:+'
--0.359236 O        b'+1:lemma:%'
--0.360527 Air      b'postag:CD'
--0.364000 O        b'lemma:0.3'
--0.365750 O        b'lemma:aerobically'
--0.415947 O        b'-1:lemma:sample'
--0.429967 O        b'-1:lemma:od600'
--0.455391 O        b'lemma:dissolve'
--0.463970 O        b'postag:RB'
--0.467344 Technique b'-1:postag::'
--0.494024 Temp     b'+1:lemma:to'
--0.494024 Temp     b'+1:postag:TO'
--0.508881 O        b'-1:lemma:rpob'
--0.523986 O        b'lemma:media'
--0.535749 Air      b'-1:postag:JJ'
--0.551274 O        b'lemma:anaerobically'
--0.552430 Phase    b'+1:postag:NN'
--0.564731 O        b'lemma:20'
--0.567109 O        b'-1:lemma:0.2'
--0.605741 O        b'-1:lemma:grow'
--0.649536 O        b'lemma:0.2'
--0.661223 Supp     b'+1:lemma:rifampicin'
--0.663522 O        b'-1:lemma:37'
--0.665065 O        b'+1:lemma:fecl2'
--0.666478 Phase    b'-1:postag:JJ'
--0.681434 O        b'lemma:od600'
--0.706506 Temp     b'-1:lemma:\xc2\xb0c'
--0.709880 O        b'+1:lemma:\xc2\xb0c'
--0.721412 O        b'-1:lemma:~'
--0.727136 Supp     b'+1:lemma:acetate'
--0.743650 O        b'lemma:of'
--0.759091 O        b'lemma:37'
--0.796823 OD       b'lemma:-lrb-'
--0.837874 O        b'-1:postag:VBG'
--0.842130 O        b'+1:lemma:supplement'
--0.871087 O        b'+1:postag:VBG'
--0.919085 O        b'-1:postag::'
--0.932643 O        b'lemma:0.1'
--0.946063 O        b'+1:lemma:cell'
--0.951793 O        b'lemma:mid-log'
--0.985731 OD       b'postag:-LRB-'
--1.000812 O        b'-1:lemma:dissolve'
--1.000812 O        b'+1:lemma:methanol'
--1.091362 Supp     b'-1:lemma:%'
--1.092178 O        b'lemma:rifampicin'
--1.111288 O        b'-1:lemma:IP'
--1.125339 O        b'lemma:fecl2'
--1.126515 O        b'-1:lemma:co2'
--1.133055 O        b'lemma:2h'
--1.133055 O        b'-1:lemma:additional'
--1.239727 O        b'+1:lemma:g/l'
--1.309169 Air      b'+1:postag:JJ'
--1.364763 O        b'+1:lemma:at'
--1.408904 Anti     b'postag:NNP'
--1.492174 O        b'lemma:wt'
--1.496119 O        b'-1:lemma:nsrr'
--1.510760 O        b'lemma:methanol'
--1.588382 O        b'+1:lemma:hour'
--1.669770 Air      b'postag:NN'
--1.787096 O        b'+1:lemma:in'
--1.897543 O        b'-1:lemma:ompr'
--1.915892 Supp     b'postag:JJ'
--2.106107 O        b'-1:lemma:2'
--2.456830 O        b'+1:lemma:2'
--2.489947 Phase    b'postag:JJ'
--2.935122 O        b'+1:lemma:1'
--4.717358 O        b'-1:lemma::'
--4.976926 O        b'-1:lemma:_'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.11486416926458794, 'c2': 0.02680674100354409}
+best CV score:0.8644252350498997
+model size: 0.12M
+
+Flat F1: 0.7889552451646998
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      0.955     0.913     0.933        23
+        Med      1.000     0.943     0.971        53
+       Temp      1.000     0.690     0.816        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.875     0.933     0.903        15
+        Air      0.556     0.362     0.439        69
+       Anti      0.579     1.000     0.733        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.877     0.753     0.810        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.848     0.791     0.819       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.845     0.749     0.789       451
+
+
+Top likely transitions:
+Temp   -> Temp    5.434090
+Agit   -> Agit    5.083855
+Anti   -> Anti    5.066839
+OD     -> OD      4.944534
+Supp   -> Supp    4.921053
+Med    -> Med     4.814443
+Gtype  -> Gtype   4.724645
+Gversion -> Gversion 4.371417
+O      -> O       4.134917
+Phase  -> Phase   4.076535
+Air    -> Air     4.013049
+Technique -> Technique 3.791769
+pH     -> pH      2.691203
+Substrain -> Gtype   1.373548
+Gtype  -> Supp    1.262860
+O      -> Gtype   1.231509
+O      -> Technique 1.057715
+O      -> Supp    0.927276
+Air    -> O       0.926745
+Gtype  -> pH      0.675182
+Gtype  -> Air     0.618804
+Technique -> Air     0.558242
+Supp   -> O       0.412087
+Temp   -> O       0.355896
+O      -> Temp    0.211297
+Med    -> O       0.203763
+O      -> Anti    0.188101
+Strain -> O       0.110948
+O      -> Phase   0.067802
+O      -> OD      0.026887
+Phase  -> O       -0.000033
+OD     -> O       -0.000624
+O      -> Agit    -0.005237
+Anti   -> O       -0.013260
+Technique -> OD      -0.015560
+Supp   -> Air     -0.017152
+Air    -> Supp    -0.041258
+Technique -> O       -0.086710
+Agit   -> O       -0.090919
+Air    -> Med     -0.201293
+O      -> Med     -0.213366
+Air    -> Phase   -0.347298
+Air    -> Temp    -0.357907
+Phase  -> Supp    -0.382883
+OD     -> Air     -0.397558
+Phase  -> OD      -0.415065
+Gtype  -> Anti    -0.434583
+Gtype  -> Med     -0.515634
+Technique -> pH      -0.532638
+Gtype  -> O       -0.589161
+
+
+Top unlikely transitions:
+Med    -> Med     4.814443
+Gtype  -> Gtype   4.724645
+Gversion -> Gversion 4.371417
+O      -> O       4.134917
+Phase  -> Phase   4.076535
+Air    -> Air     4.013049
+Technique -> Technique 3.791769
+pH     -> pH      2.691203
+Substrain -> Gtype   1.373548
+Gtype  -> Supp    1.262860
+O      -> Gtype   1.231509
+O      -> Technique 1.057715
+O      -> Supp    0.927276
+Air    -> O       0.926745
+Gtype  -> pH      0.675182
+Gtype  -> Air     0.618804
+Technique -> Air     0.558242
+Supp   -> O       0.412087
+Temp   -> O       0.355896
+O      -> Temp    0.211297
+Med    -> O       0.203763
+O      -> Anti    0.188101
+Strain -> O       0.110948
+O      -> Phase   0.067802
+O      -> OD      0.026887
+Phase  -> O       -0.000033
+OD     -> O       -0.000624
+O      -> Agit    -0.005237
+Anti   -> O       -0.013260
+Technique -> OD      -0.015560
+Supp   -> Air     -0.017152
+Air    -> Supp    -0.041258
+Technique -> O       -0.086710
+Agit   -> O       -0.090919
+Air    -> Med     -0.201293
+O      -> Med     -0.213366
+Air    -> Phase   -0.347298
+Air    -> Temp    -0.357907
+Phase  -> Supp    -0.382883
+OD     -> Air     -0.397558
+Phase  -> OD      -0.415065
+Gtype  -> Anti    -0.434583
+Gtype  -> Med     -0.515634
+Technique -> pH      -0.532638
+Gtype  -> O       -0.589161
+O      -> Air     -0.833200
+Supp   -> Med     -0.863491
+Technique -> Gtype   -0.999961
+Substrain -> O       -1.154679
+Med    -> Supp    -1.746454
+
+
+Top positive:
+5.242070 Air      b'word:Aerobic'
+4.810824 O        b'lemma:_'
+4.810824 O        b'word:_'
+4.702604 Air      b'lemma:anaerobic'
+4.379183 O        b'word:Cra'
+3.811896 Technique b'word:ChIP-Seq'
+3.692913 Gtype    b'lemma:wild-type'
+3.658772 Air      b'postag:RB'
+3.551778 O        b'postag:IN'
+3.496331 O        b'-1:lemma:ChIP-exo'
+3.382322 Gtype    b'lemma:wt'
+3.353140 O        b'postag::'
+3.300897 Air      b'word:Anaerobic'
+3.260825 Technique b'lemma:ChIP-exo'
+3.157424 Technique b'word:ChIP-exo'
+3.138715 Supp     b'lemma:Iron'
+3.138715 Supp     b'word:Iron'
+3.138715 Supp     b'+1:word:Deficient'
+3.135138 Gtype    b'word:WT'
+3.125987 Technique b'word:ChIPSeq'
+3.117161 Supp     b'lemma:nh4cl'
+3.113447 Supp     b'lemma:pq'
+3.113447 Supp     b'word:PQ'
+3.089898 O        b'lemma:2'
+3.089898 O        b'word:2'
+2.955558 Technique b'lemma:rna-seq'
+2.907748 Supp     b'-1:word:Cra'
+2.858859 O        b'lemma:-'
+2.858859 O        b'word:-'
+2.779905 O        b'lemma:1'
+2.779905 O        b'word:1'
+2.749191 O        b'postag:CC'
+2.719373 O        b'lemma:rpob'
+2.719373 O        b'word:RpoB'
+2.681464 O        b'lemma:3'
+2.681464 O        b'word:3'
+2.680679 Gversion b'lemma:asm584v2'
+2.680679 Gversion b'word:ASM584v2'
+2.675651 Phase    b'lemma:mid-log'
+2.675651 Phase    b'word:mid-log'
+2.644118 O        b'lemma:chip'
+2.643576 Strain   b'+1:lemma:substr'
+2.643576 Strain   b'+1:word:substr'
+2.573762 Gtype    b'lemma:\xce\xb4cra'
+2.570718 Gtype    b'word:\xce\x94cra'
+2.569025 Med      b'lemma:MOPS'
+2.569025 Med      b'word:MOPS'
+2.564545 Supp     b'+1:lemma:\xc2\xb5m'
+2.564545 Supp     b'+1:word:\xc2\xb5M'
+2.540412 O        b'lemma:.'
+2.540412 O        b'postag:.'
+2.540412 O        b'word:.'
+2.523030 O        b'-1:word:tag'
+2.521842 Gtype    b'lemma:type'
+2.521842 Gtype    b'word:type'
+2.501449 Technique b'lemma:chipseq'
+2.486934 O        b'lemma:Custom'
+2.486934 O        b'word:Custom'
+2.456959 Gtype    b'+1:lemma:type'
+2.456959 Gtype    b'+1:word:type'
+2.442001 O        b'lemma:a'
+2.306156 Phase    b'lemma:exponential'
+2.306156 Phase    b'word:exponential'
+2.306156 Phase    b'lemma:stationary'
+2.306156 Phase    b'word:stationary'
+2.278404 O        b'-1:lemma:tag'
+2.248178 O        b'lemma:b'
+2.248178 O        b'word:B'
+2.236935 Air      b'word:anaerobic'
+2.220325 Supp     b'lemma:arginine'
+2.200862 pH       b'+1:postag:CD'
+2.198724 Supp     b'lemma:glucose'
+2.198724 Supp     b'word:glucose'
+2.169027 O        b'+1:postag:RB'
+2.146306 Supp     b'lemma:nacl'
+2.146306 Supp     b'word:NaCl'
+2.141305 O        b'lemma:ompr'
+2.141305 O        b'word:OmpR'
+2.134893 Gtype    b'lemma:flag-tag'
+2.134893 Gtype    b'-1:lemma:c-terminal'
+2.134893 Gtype    b'word:Flag-tag'
+2.134893 Gtype    b'-1:word:C-terminal'
+2.115770 Gversion b'lemma:nc'
+2.115770 Gversion b'word:NC'
+2.102355 Substrain b'lemma:mg1655'
+2.102355 Substrain b'word:MG1655'
+2.096735 O        b'+1:lemma:pq'
+2.096735 O        b'+1:word:PQ'
+2.076016 Gtype    b'postag:-LRB-'
+2.067392 O        b'-1:word:Aerobic'
+2.067015 Gtype    b'lemma:delta-fnr'
+2.067015 Gtype    b'word:delta-fnr'
+2.020747 O        b'word:A'
+2.011558 Supp     b'lemma:rifampicin'
+2.011558 Supp     b'word:rifampicin'
+2.009828 Technique b'lemma:rnaseq'
+2.009828 Technique b'word:RNASeq'
+1.995883 O        b'+1:postag:NNP'
+1.979049 Gtype    b'-1:postag:VBG'
+1.964073 O        b'+1:word:were'
+1.938262 O        b'lemma:rep1'
+1.938262 O        b'word:rep1'
+1.933374 Supp     b'lemma:acetate'
+1.933374 Supp     b'word:acetate'
+1.929172 O        b'postag:VBN'
+1.923161 Strain   b'lemma:k-12'
+1.923161 Strain   b'word:K-12'
+1.913934 Technique b'-1:lemma:chip-exo'
+1.905918 O        b'lemma:rep3'
+1.905918 O        b'word:rep3'
+1.902460 Gtype    b'-1:lemma:\xe2\x88\x86'
+1.902460 Gtype    b'-1:word:\xe2\x88\x86'
+1.888089 Supp     b'lemma:nitrate'
+1.888089 Supp     b'word:nitrate'
+1.880361 Supp     b'-1:lemma:with'
+1.880361 Supp     b'-1:word:with'
+1.879119 O        b'+1:word:ChIP-Seq'
+1.873439 Gtype    b'lemma:\xe2\x88\x86'
+1.873439 Gtype    b'word:\xe2\x88\x86'
+1.869636 O        b'-1:lemma:lb'
+1.869636 O        b'-1:word:LB'
+1.865650 Gversion b'-1:lemma:nc'
+1.865650 Gversion b'-1:word:NC'
+1.865606 Gtype    b'lemma:arca8myc'
+1.865606 Gtype    b'word:ArcA8myc'
+1.864036 Agit     b'+1:lemma:rpm'
+1.864036 Agit     b'+1:word:rpm'
+1.856334 Agit     b'lemma:rpm'
+1.856334 Agit     b'word:rpm'
+1.839596 Anti     b'lemma:seqa'
+1.839596 Anti     b'word:SeqA'
+1.836163 Supp     b'-1:postag:CC'
+1.835200 O        b'lemma:with'
+1.835200 O        b'word:with'
+1.814125 O        b'lemma:culture'
+1.811651 Supp     b'-1:lemma:Cra'
+1.792538 Air      b'-1:lemma:ChIP-Seq'
+1.792538 Air      b'-1:word:ChIP-Seq'
+1.768358 Air      b'lemma:aerobic'
+1.762953 O        b'isLower'
+1.736496 Gtype    b'word:cra'
+1.714381 Gversion b'word:ChIP-Seq'
+1.710946 Air      b'-1:postag::'
+1.709986 Gtype    b'postag:NN'
+1.698044 O        b'lemma:at'
+1.695726 Gtype    b'lemma:\xce\xb4soxr'
+1.695726 Gtype    b'word:\xce\x94soxR'
+1.678182 Vess     b'lemma:flask'
+1.678182 Vess     b'-1:lemma:warm'
+1.678182 Vess     b'word:flask'
+1.678182 Vess     b'-1:word:warmed'
+1.674493 Gtype    b'lemma:pk4854'
+1.674493 Gtype    b'word:PK4854'
+1.651636 Anti     b'lemma:none'
+1.651636 Anti     b'word:none'
+1.644746 O        b'-1:lemma:0.3'
+1.644746 O        b'-1:word:0.3'
+1.636558 Supp     b'lemma:no3'
+1.636558 Supp     b'word:NO3'
+1.624682 Gtype    b'+1:postag::'
+1.623664 Phase    b'-1:lemma:mid-log'
+1.623664 Phase    b'-1:word:mid-log'
+1.618042 Supp     b'lemma:dpd'
+1.618042 Supp     b'word:DPD'
+1.614435 Gtype    b'lemma:\xce\xb4fur'
+1.614435 Gtype    b'word:\xce\x94fur'
+1.613699 Gtype    b'+1:lemma:ph5'
+1.613699 Gtype    b'+1:word:pH5'
+1.607121 Gversion b'lemma:chip-seq'
+1.597322 Anti     b'lemma:\xcf\x8332'
+1.597322 Anti     b'word:\xcf\x8332'
+1.592709 O        b'lemma:Cra'
+1.582551 Med      b'lemma:lb'
+1.582551 Med      b'word:LB'
+1.568363 Supp     b'-1:lemma:vol'
+1.568363 Supp     b'-1:word:vol'
+1.559468 Air      b'lemma:Aerobic'
+1.556342 Technique b'word:RNA-Seq'
+1.553167 Med      b'-1:lemma:ml'
+1.553167 Med      b'-1:word:ml'
+1.553041 Med      b'+1:lemma:0.4'
+1.553041 Med      b'+1:word:0.4'
+1.551077 Supp     b'lemma:Leu'
+1.551077 Supp     b'word:Leu'
+1.543969 Air      b'lemma:anaerobically'
+1.543969 Air      b'word:anaerobically'
+1.543172 O        b'lemma::'
+1.543172 O        b'word::'
+1.540510 Anti     b'+1:lemma:antibody'
+1.540510 Anti     b'+1:word:antibody'
+1.537669 Air      b'lemma:anaeroibc'
+1.537669 Air      b'word:Anaeroibc'
+1.525613 OD       b'-1:postag:IN'
+1.524837 Supp     b'lemma:Fe'
+1.524837 Supp     b'word:Fe'
+1.524330 Gtype    b'postag:-RRB-'
+1.516209 O        b'-1:lemma:glucose'
+1.516209 O        b'-1:word:glucose'
+1.504553 Gtype    b'+1:lemma:with'
+1.504553 Gtype    b'+1:word:with'
+
+
+Top negative:
+-0.149499 Anti     b'+1:word:anti-Fur'
+-0.152520 O        b'+1:lemma:95'
+-0.152520 O        b'+1:word:95'
+-0.156326 Supp     b'+1:lemma:dpd'
+-0.156326 Supp     b'+1:word:DPD'
+-0.162658 Supp     b'lemma:10'
+-0.162658 Supp     b'word:10'
+-0.163808 O        b'+1:lemma:for'
+-0.165890 Phase    b'+1:postag:NN'
+-0.166827 O        b'-1:lemma:dfnr'
+-0.166827 O        b'-1:word:dFNR'
+-0.171844 O        b'+1:word:was'
+-0.175747 O        b'-1:lemma:of'
+-0.175747 O        b'-1:word:of'
+-0.193766 O        b'-1:word:from'
+-0.208529 O        b'-1:lemma:1m'
+-0.208529 O        b'-1:word:1M'
+-0.210506 Air      b'isLower'
+-0.210844 Technique b'-1:postag::'
+-0.216830 O        b'+1:lemma:.'
+-0.216830 O        b'+1:postag:.'
+-0.216830 O        b'+1:word:.'
+-0.223522 O        b'-1:lemma:final'
+-0.223522 O        b'-1:word:final'
+-0.223753 Med      b'-1:postag:CD'
+-0.233131 O        b'-1:postag:JJ'
+-0.239249 OD       b'isNumber'
+-0.243733 O        b'lemma:20'
+-0.243733 O        b'word:20'
+-0.246275 Air      b'-1:postag:CC'
+-0.247467 O        b'lemma:k-12'
+-0.247467 O        b'word:K-12'
+-0.265976 O        b'lemma:glucose'
+-0.265976 O        b'word:glucose'
+-0.271369 O        b'+1:word:C'
+-0.274901 O        b'-1:lemma:the'
+-0.284581 O        b'-1:word:the'
+-0.284785 O        b'+1:lemma:supplement'
+-0.284785 O        b'+1:word:supplemented'
+-0.285764 pH       b'postag:NN'
+-0.293864 pH       b'isUpper'
+-0.308118 Air      b'-1:lemma:or'
+-0.308118 Air      b'-1:word:or'
+-0.310139 Gtype    b'-1:postag:CD'
+-0.322263 Supp     b'postag:CC'
+-0.324104 O        b'-1:lemma:cra'
+-0.328286 O        b'lemma:37'
+-0.328286 O        b'word:37'
+-0.330168 O        b'word:ChIP-exo'
+-0.334656 O        b'-1:lemma:37'
+-0.334656 O        b'-1:word:37'
+-0.340095 Anti     b'isUpper'
+-0.342430 O        b'-1:lemma:n2'
+-0.342430 O        b'-1:word:N2'
+-0.348188 O        b'-1:lemma:mm'
+-0.348188 O        b'-1:word:mM'
+-0.350821 Supp     b'+1:lemma:fructose'
+-0.350821 Supp     b'+1:word:fructose'
+-0.352833 O        b'+1:postag:IN'
+-0.355440 O        b'-1:postag:-LRB-'
+-0.358948 O        b'+1:postag:-LRB-'
+-0.368508 O        b'lemma:fructose'
+-0.368508 O        b'word:fructose'
+-0.369578 Gtype    b'+1:postag:CD'
+-0.370939 O        b'lemma:aerobically'
+-0.370939 O        b'word:aerobically'
+-0.372723 O        b'lemma:\xce\xb4fur'
+-0.372723 O        b'word:\xce\x94fur'
+-0.374885 Supp     b'+1:lemma:acetate'
+-0.374885 Supp     b'+1:word:acetate'
+-0.383718 O        b'-1:lemma:ph'
+-0.383718 O        b'-1:word:pH'
+-0.388799 O        b'-1:lemma:rpob'
+-0.388799 O        b'-1:word:RpoB'
+-0.388879 O        b'word:cells'
+-0.392268 Supp     b'-1:lemma:-lrb-'
+-0.392268 Supp     b'-1:word:-LRB-'
+-0.394884 O        b'+1:postag:-RRB-'
+-0.401778 O        b'lemma:minimal'
+-0.401778 O        b'word:minimal'
+-0.405443 O        b'+1:lemma:2.0'
+-0.405443 O        b'+1:word:2.0'
+-0.409365 O        b'lemma:medium'
+-0.409365 O        b'word:medium'
+-0.416217 O        b'-1:lemma:until'
+-0.416217 O        b'-1:word:until'
+-0.422801 O        b'+1:lemma:until'
+-0.422801 O        b'+1:word:until'
+-0.422973 O        b'lemma:nitrate'
+-0.422973 O        b'word:nitrate'
+-0.424570 O        b'-1:lemma:co2'
+-0.424570 O        b'-1:word:CO2'
+-0.426175 Supp     b'-1:postag:-LRB-'
+-0.430390 O        b'-1:lemma:dissolve'
+-0.430390 O        b'+1:lemma:methanol'
+-0.430390 O        b'-1:word:dissolved'
+-0.430390 O        b'+1:word:methanol'
+-0.431326 O        b'-1:lemma:chip-exo'
+-0.434536 Med      b'-1:postag:NN'
+-0.437879 Supp     b'+1:lemma:nacl'
+-0.437879 Supp     b'+1:word:NaCl'
+-0.438271 Gtype    b'+1:lemma:-lrb-'
+-0.438271 Gtype    b'+1:word:-LRB-'
+-0.517777 O        b'lemma:0.3'
+-0.517777 O        b'word:0.3'
+-0.554787 O        b'+1:lemma:+'
+-0.554787 O        b'+1:word:+'
+-0.556538 Med      b'+1:postag:IN'
+-0.560443 Med      b'-1:postag:IN'
+-0.564073 Phase    b'isUpper'
+-0.567749 O        b'lemma:mid-log'
+-0.567749 O        b'word:mid-log'
+-0.569865 O        b'+1:lemma:mm'
+-0.569865 O        b'+1:word:mM'
+-0.574929 O        b'+1:lemma:at'
+-0.574929 O        b'+1:word:at'
+-0.576720 O        b'lemma:methanol'
+-0.576720 O        b'word:methanol'
+-0.582128 O        b'-1:lemma:\xe2\x88\x86'
+-0.582128 O        b'-1:word:\xe2\x88\x86'
+-0.586115 O        b'lemma:anaerobically'
+-0.586115 O        b'word:anaerobically'
+-0.586317 pH       b'isLower'
+-0.602158 O        b'lemma:30'
+-0.602158 O        b'word:30'
+-0.604997 O        b'+1:lemma:g/l'
+-0.604997 O        b'+1:word:g/L'
+-0.607721 O        b'+1:lemma:1m'
+-0.607721 O        b'+1:word:1M'
+-0.633619 O        b'-1:postag:IN'
+-0.635683 O        b'-1:lemma:30'
+-0.635683 O        b'-1:word:30'
+-0.637769 O        b'-1:lemma:ml'
+-0.637769 O        b'-1:word:ml'
+-0.669793 Air      b'postag:NN'
+-0.682250 O        b'+1:word:ChIP-exo'
+-0.688742 O        b'lemma:of'
+-0.688742 O        b'word:of'
+-0.712089 Air      b'+1:postag:JJ'
+-0.712952 O        b'-1:lemma:1'
+-0.712952 O        b'-1:word:1'
+-0.726205 O        b'lemma:2h'
+-0.726205 O        b'-1:lemma:additional'
+-0.726205 O        b'word:2h'
+-0.726205 O        b'-1:word:additional'
+-0.727554 O        b'-1:postag::'
+-0.740726 O        b'-1:lemma:nsrr'
+-0.740726 O        b'-1:word:NsrR'
+-0.747068 Temp     b'postag:NN'
+-0.802318 O        b'lemma:nitrogen'
+-0.802318 O        b'word:nitrogen'
+-0.820825 Supp     b'+1:postag:VBN'
+-0.826345 O        b'lemma:media'
+-0.826345 O        b'word:media'
+-0.827286 O        b'-1:lemma:2'
+-0.827286 O        b'-1:word:2'
+-0.831918 O        b'-1:lemma:IP'
+-0.831918 O        b'-1:word:IP'
+-0.838607 O        b'-1:lemma:fresh'
+-0.838607 O        b'-1:word:fresh'
+-0.854504 O        b'lemma:wt'
+-0.854588 Supp     b'-1:postag:NNP'
+-0.874101 O        b'postag:RB'
+-0.937975 Agit     b'isUpper'
+-0.956352 O        b'+1:lemma:in'
+-0.956352 O        b'+1:word:in'
+-0.979766 O        b'+1:lemma:1'
+-0.979766 O        b'+1:word:1'
+-0.982287 Gtype    b'isLower'
+-0.999251 Technique b'isNumber'
+-1.074766 O        b'postag:VBP'
+-1.110753 Gtype    b'isUpper'
+-1.116498 O        b'+1:postag:VBG'
+-1.181571 Supp     b'+1:postag:-LRB-'
+-1.192346 O        b'-1:lemma:sample'
+-1.216569 Supp     b'+1:lemma:-lrb-'
+-1.216569 Supp     b'+1:word:-LRB-'
+-1.249356 Technique b'isLower'
+-1.267812 O        b'+1:lemma:2'
+-1.267812 O        b'+1:word:2'
+-1.275807 O        b'lemma:rifampicin'
+-1.275807 O        b'word:rifampicin'
+-1.320279 Gtype    b'isNumber'
+-1.328236 Gversion b'isLower'
+-1.369132 O        b'-1:lemma:vol'
+-1.369132 O        b'-1:word:vol'
+-1.376089 Supp     b'+1:lemma:,'
+-1.376089 Supp     b'+1:postag:,'
+-1.376089 Supp     b'+1:word:,'
+-1.376957 Phase    b'postag:JJ'
+-1.401753 OD       b'+1:postag:NN'
+-1.485274 Anti     b'postag:NNP'
+-1.787019 Supp     b'postag:JJ'
+-1.891720 Temp     b'+1:postag:IN'
+-2.179250 O        b'-1:lemma:_'
+-2.179250 O        b'-1:word:_'
+-2.181717 Phase    b'-1:postag:JJ'
+-2.190768 O        b'-1:postag:VBG'
+-2.226803 O        b'-1:lemma::'
+-2.226803 O        b'-1:word::'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.07999002423801141, 'c2': 0.000868661924339573}
-best CV score:0.8083684694714717
-model size: 0.12M
-
-Flat F1: 0.797188910586862
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.878     0.754     0.811        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      1.000     0.742     0.852        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.842     0.802     0.821       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.819     0.699     0.754       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.880     0.744     0.797       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.851914
-Temp   -> Temp    6.755805
-Anti   -> Anti    6.408411
-OD     -> OD      6.070648
-Med    -> Med     5.592163
-Gtype  -> Gtype   5.552172
-Gversion -> Gversion 5.270252
-Air    -> Air     4.673888
-Supp   -> Supp    4.485002
-Phase  -> Phase   4.276420
-O      -> O       4.272212
-Technique -> Technique 3.801130
-pH     -> pH      2.239489
-Gtype  -> Supp    1.797612
-O      -> Gtype   1.020757
-O      -> Technique 0.845864
-O      -> Supp    0.684262
-O      -> Anti    0.542673
-Substrain -> Gtype   0.423988
-Technique -> Air     0.409033
-O      -> Temp    0.245701
-Med    -> O       0.105696
-O      -> Gversion 0.000171
-Gtype  -> pH      0.000014
-Technique -> OD      -0.019259
-Vess   -> O       -0.025654
-pH     -> O       -0.063409
-Air    -> OD      -0.082675
-Air    -> Temp    -0.095090
-Air    -> O       -0.133376
-Supp   -> OD      -0.159102
-Anti   -> O       -0.247448
-OD     -> Air     -0.261699
-Gtype  -> Med     -0.274175
-OD     -> Gtype   -0.277593
-Strain -> O       -0.369145
-Phase  -> Air     -0.387062
-O      -> Phase   -0.394932
-Phase  -> O       -0.493736
-Supp   -> O       -0.534752
-Air    -> Phase   -0.600512
-Supp   -> Air     -0.640514
-OD     -> Med     -0.713090
-Technique -> O       -0.754114
-Technique -> Gtype   -0.754511
-O      -> OD      -0.776176
-O      -> Med     -0.780627
-Gtype  -> O       -0.801612
-Gtype  -> OD      -0.934362
-Air    -> Med     -1.257535
-
-
-Top unlikely transitions:
-Supp   -> Supp    4.485002
-Phase  -> Phase   4.276420
-O      -> O       4.272212
-Technique -> Technique 3.801130
-pH     -> pH      2.239489
-Gtype  -> Supp    1.797612
-O      -> Gtype   1.020757
-O      -> Technique 0.845864
-O      -> Supp    0.684262
-O      -> Anti    0.542673
-Substrain -> Gtype   0.423988
-Technique -> Air     0.409033
-O      -> Temp    0.245701
-Med    -> O       0.105696
-O      -> Gversion 0.000171
-Gtype  -> pH      0.000014
-Technique -> OD      -0.019259
-Vess   -> O       -0.025654
-pH     -> O       -0.063409
-Air    -> OD      -0.082675
-Air    -> Temp    -0.095090
-Air    -> O       -0.133376
-Supp   -> OD      -0.159102
-Anti   -> O       -0.247448
-OD     -> Air     -0.261699
-Gtype  -> Med     -0.274175
-OD     -> Gtype   -0.277593
-Strain -> O       -0.369145
-Phase  -> Air     -0.387062
-O      -> Phase   -0.394932
-Phase  -> O       -0.493736
-Supp   -> O       -0.534752
-Air    -> Phase   -0.600512
-Supp   -> Air     -0.640514
-OD     -> Med     -0.713090
-Technique -> O       -0.754114
-Technique -> Gtype   -0.754511
-O      -> OD      -0.776176
-O      -> Med     -0.780627
-Gtype  -> O       -0.801612
-Gtype  -> OD      -0.934362
-Air    -> Med     -1.257535
-Gtype  -> Anti    -1.262843
-OD     -> O       -1.377165
-Supp   -> Med     -1.741716
-Agit   -> O       -1.885756
-Substrain -> O       -1.895216
-Med    -> Supp    -2.409765
-O      -> Air     -2.508634
-Phase  -> OD      -2.584465
-
-
-Top positive:
-11.849885 Air      b'word:Aerobic'
-7.837435 Air      b'lemma:anaerobic'
-7.665723 O        b'word:Cra'
-7.042313 Air      b'word:Anaerobic'
-6.037970 O        b'lemma:_'
-6.037970 O        b'word:_'
-5.584218 O        b'postag::'
-5.431231 O        b'-1:lemma:ChIP-exo'
-5.349382 Med      b'lemma:MOPS'
-5.349382 Med      b'word:MOPS'
-5.289872 Technique b'word:ChIP-Seq'
-5.021757 Supp     b'lemma:nh4cl'
-4.898148 O        b'lemma:Custom'
-4.898148 O        b'word:Custom'
-4.861257 Phase    b'lemma:stationary'
-4.861257 Phase    b'word:stationary'
-4.814387 Technique b'lemma:rna-seq'
-4.799463 Technique b'word:ChIPSeq'
-4.773443 Supp     b'lemma:nitrate'
-4.773443 Supp     b'word:nitrate'
-4.681396 O        b'+1:postag:RB'
-4.678066 Supp     b'-1:word:Cra'
-4.674952 Technique b'word:ChIP-exo'
-4.673460 O        b'lemma:rpob'
-4.673460 O        b'word:RpoB'
-4.632286 Med      b'word:LB'
-4.272192 Supp     b'lemma:pq'
-4.272192 Supp     b'word:PQ'
-4.216477 Supp     b'lemma:arginine'
-4.158847 O        b'lemma:1'
-4.158847 O        b'word:1'
-4.061171 Gtype    b'lemma:wild-type'
-4.017592 O        b'lemma:chip'
-3.861964 OD       b'+1:lemma:stationary'
-3.861964 OD       b'+1:word:stationary'
-3.805796 O        b'-1:lemma:tag'
-3.744431 O        b'-1:word:Aerobic'
-3.714272 Supp     b'lemma:Iron'
-3.714272 Supp     b'word:Iron'
-3.714272 Supp     b'+1:word:Deficient'
-3.713062 Strain   b'lemma:k-12'
-3.713062 Strain   b'word:K-12'
-3.708676 Technique b'lemma:ChIP-exo'
-3.655103 O        b'lemma:at'
-3.537057 Air      b'postag:RB'
-3.506119 Gversion b'lemma:asm584v2'
-3.506119 Gversion b'word:ASM584v2'
-3.457008 O        b'-1:word:Anaerobic'
-3.440372 O        b'lemma:for'
-3.381566 Gversion b'lemma:chip-seq'
-3.373670 Gtype    b'lemma:delta-fnr'
-3.373670 Gtype    b'word:delta-fnr'
-3.345890 O        b'lemma:a'
-3.268014 Gversion b'-1:lemma:nc'
-3.268014 Gversion b'-1:word:NC'
-3.225995 Air      b'word:anaerobic'
-3.223526 Substrain b'lemma:mg1655'
-3.223526 Substrain b'word:MG1655'
-3.207086 O        b'word:Lrp'
-3.199909 Gversion b'lemma:nc'
-3.199909 Gversion b'word:NC'
-3.184836 O        b'lemma:2'
-3.184836 O        b'word:2'
-3.184258 O        b'-1:word:tag'
-3.161968 Gtype    b'lemma:type'
-3.161968 Gtype    b'word:type'
-3.129124 O        b'lemma:.'
-3.129124 O        b'postag:.'
-3.129124 O        b'word:.'
-3.035046 O        b'lemma:2-3'
-3.035046 O        b'word:2-3'
-3.031993 Gtype    b'lemma:\xce\xb4cra'
-3.023750 Gtype    b'word:\xce\x94cra'
-3.015053 O        b'-1:lemma:lb'
-2.985389 O        b'postag:IN'
-2.963040 O        b'+1:word:ChIP-Seq'
-2.954499 Gtype    b'-1:lemma:\xe2\x88\x86'
-2.954499 Gtype    b'-1:word:\xe2\x88\x86'
-2.921032 Gtype    b'lemma:flag-tag'
-2.921032 Gtype    b'-1:lemma:c-terminal'
-2.921032 Gtype    b'word:Flag-tag'
-2.921032 Gtype    b'-1:word:C-terminal'
-2.914388 O        b'lemma:3'
-2.914388 O        b'word:3'
-2.889633 Supp     b'+1:lemma:\xc2\xb5m'
-2.889633 Supp     b'+1:word:\xc2\xb5M'
-2.855964 Technique b'-1:lemma:chip-exo'
-2.841382 Temp     b'-1:word:sample'
-2.838133 Med      b'lemma:LB'
-2.837407 Gtype    b'lemma:wt'
-2.815709 Phase    b'lemma:mid-log'
-2.815709 Phase    b'word:mid-log'
-2.815078 O        b'word:OmpR'
-2.800233 Temp     b'-1:lemma:sample'
-2.743118 Anti     b'lemma:seqa'
-2.743118 Anti     b'word:SeqA'
-2.738947 Gtype    b'lemma:arca8myc'
-2.738947 Gtype    b'word:ArcA8myc'
-2.734940 Supp     b'lemma:rifampicin'
-2.734940 Supp     b'word:rifampicin'
-2.713912 Technique b'lemma:rnaseq'
-2.713912 Technique b'word:RNASeq'
-2.676140 O        b'+1:postag:NNP'
-2.668046 Gtype    b'postag:-RRB-'
-2.666708 O        b'lemma:rep1'
-2.666708 O        b'word:rep1'
-2.639615 O        b'word:for'
-2.628763 O        b'lemma:with'
-2.628763 O        b'word:with'
-2.602495 O        b'lemma:b'
-2.602495 O        b'word:B'
-2.600005 O        b'+1:postag:VBP'
-2.593478 Supp     b'+1:word:hours'
-2.586011 Technique b'lemma:chipseq'
-2.559150 Strain   b'+1:lemma:substr'
-2.559150 Strain   b'+1:word:substr'
-2.527855 Supp     b'lemma:no3'
-2.527855 Supp     b'word:NO3'
-2.521274 O        b'lemma:-'
-2.521274 O        b'word:-'
-2.481893 O        b'lemma:rep3'
-2.481893 O        b'word:rep3'
-2.477491 Gtype    b'word:WT'
-2.457514 Gtype    b'+1:lemma:type'
-2.457514 Gtype    b'+1:word:type'
-2.445177 Supp     b'lemma:Fe'
-2.445177 Supp     b'word:Fe'
-2.387444 O        b'lemma:rep2'
-2.387444 O        b'word:rep2'
-2.380978 OD       b'lemma:od600'
-2.380978 OD       b'word:OD600'
-2.377956 Anti     b'lemma:anti-rpos'
-2.377956 Anti     b'word:anti-RpoS'
-2.363736 O        b'lemma:oxyr'
-2.363736 O        b'word:OxyR'
-2.360999 Anti     b'lemma:none'
-2.360999 Anti     b'word:none'
-2.343495 Gtype    b'word:wt'
-2.342659 Supp     b'lemma:dpd'
-2.342659 Supp     b'word:DPD'
-2.334798 Gtype    b'lemma:\xce\xb4ompr'
-2.334798 Gtype    b'word:\xce\x94ompR'
-2.303303 O        b'-1:lemma:0.3'
-2.303303 O        b'-1:word:0.3'
-2.262158 O        b'lemma:\xcf\x8332'
-2.262158 O        b'word:\xcf\x8332'
-2.249986 O        b'word:A'
-2.245441 Vess     b'lemma:flask'
-2.245441 Vess     b'-1:lemma:warm'
-2.245441 Vess     b'word:flask'
-2.245441 Vess     b'-1:word:warmed'
-2.238883 O        b'+1:lemma:od600'
-2.238883 O        b'+1:word:OD600'
-2.225888 O        b'postag:DT'
-2.181011 O        b'-1:lemma:0.3-0.35'
-2.181011 O        b'-1:word:0.3-0.35'
-2.166240 O        b'lemma:or'
-2.166240 O        b'word:or'
-2.155012 Supp     b'lemma:acetate'
-2.155012 Supp     b'word:acetate'
-2.153135 OD       b'lemma:od450'
-2.153135 OD       b'word:OD450'
-2.153135 OD       b'-1:word:At'
-2.131868 Supp     b'lemma:glucose'
-2.131868 Supp     b'word:glucose'
-2.127183 Anti     b'+1:lemma:antibody'
-2.127183 Anti     b'+1:word:antibody'
-2.127102 O        b'lemma:culture'
-2.121306 Med      b'+1:lemma:0.4'
-2.121306 Med      b'+1:word:0.4'
-2.104976 Anti     b'lemma:anti-myc'
-2.104976 Anti     b'word:anti-myc'
-2.090073 Supp     b'lemma:iptg'
-2.090073 Supp     b'word:IPTG'
-2.088014 O        b'lemma:chip-fnr'
-2.088014 O        b'word:chip-Fnr'
-2.087065 Gtype    b'lemma:nsrr'
-2.087065 Gtype    b'word:NsrR'
-2.069607 O        b'+1:postag::'
-2.049162 Phase    b'-1:word:growing'
-2.041081 Gversion b'word:ChIP-Seq'
-2.034077 O        b'-1:word:fnr'
-2.027233 Gtype    b'+1:postag::'
-2.026441 Gtype    b'postag:JJ'
-2.012468 O        b'postag:VBN'
-2.003087 O        b'lemma:soxs'
-2.003087 O        b'word:SoxS'
-2.003087 O        b'lemma:soxr'
-2.003087 O        b'word:SoxR'
-1.984406 O        b'+1:lemma:o.d.'
-1.984406 O        b'+1:word:O.D.'
-1.975363 OD       b'+1:postag:JJ'
-1.968960 Air      b'-1:lemma:ChIP-Seq'
-1.968960 Air      b'-1:word:ChIP-Seq'
-1.963497 Gtype    b'lemma:pk4854'
-1.963497 Gtype    b'word:PK4854'
-1.957953 Gtype    b'word:cra'
-1.957254 Air      b'lemma:anerobically'
-1.957254 Air      b'word:anerobically'
-1.954863 O        b'+1:lemma:pq'
-
-
-Top negative:
--0.090059 O        b'-1:lemma:e.'
--0.092645 O        b'+1:postag:-RRB-'
--0.095582 O        b'-1:word:the'
--0.095914 O        b'+1:lemma:minimal'
--0.095914 O        b'+1:word:minimal'
--0.096813 Strain   b'postag:NN'
--0.100844 O        b'word:LB'
--0.102252 O        b'lemma:anaerobic'
--0.106574 OD       b'+1:postag:CC'
--0.107348 Air      b'+1:postag:NN'
--0.107934 O        b'-1:word:grown'
--0.108595 Supp     b'-1:postag:VBG'
--0.108740 pH       b'postag:NN'
--0.112315 O        b'-1:lemma:ml'
--0.112801 O        b'+1:lemma:rep1'
--0.112801 O        b'+1:word:rep1'
--0.112908 O        b'-1:lemma:od600'
--0.112908 O        b'-1:word:OD600'
--0.115106 Air      b'-1:postag:CC'
--0.115496 O        b'lemma:co2'
--0.115496 O        b'word:CO2'
--0.122244 O        b'-1:lemma:the'
--0.124640 O        b'-1:lemma:~'
--0.124640 O        b'-1:word:~'
--0.127544 OD       b'+1:lemma:and'
--0.127544 OD       b'+1:word:and'
--0.129259 O        b'-1:lemma:-lrb-'
--0.129259 O        b'-1:word:-LRB-'
--0.133618 O        b'+1:lemma:_'
--0.133618 O        b'+1:word:_'
--0.135372 O        b'+1:lemma:\xc2\xb0c'
--0.135372 O        b'+1:word:\xc2\xb0C'
--0.136841 Technique b'isNumber'
--0.139019 O        b'lemma:30'
--0.139019 O        b'word:30'
--0.139199 Phase    b'-1:postag:NN'
--0.149458 O        b'+1:lemma:5'
--0.149458 O        b'+1:word:5'
--0.151250 OD       b'postag:JJ'
--0.152851 Supp     b'+1:lemma:acetate'
--0.152851 Supp     b'+1:word:acetate'
--0.156762 O        b'+1:lemma:.'
--0.156762 O        b'+1:postag:.'
--0.156762 O        b'+1:word:.'
--0.158764 O        b'-1:postag:-LRB-'
--0.161868 Gversion b'-1:postag:NN'
--0.163014 pH       b'isLower'
--0.167779 O        b'-1:lemma:30'
--0.167779 O        b'-1:word:30'
--0.171168 O        b'lemma:150'
--0.171168 O        b'+1:lemma:mg/ml'
--0.171168 O        b'word:150'
--0.171168 O        b'+1:word:mg/mL'
--0.176143 O        b'lemma:0.3'
--0.176143 O        b'word:0.3'
--0.187819 O        b'lemma:aerobically'
--0.187819 O        b'word:aerobically'
--0.198962 O        b'word:hours'
--0.212759 Med      b'+1:postag:NNS'
--0.224619 Gtype    b'-1:postag:SYM'
--0.228665 O        b'lemma:fecl2'
--0.228665 O        b'word:FeCl2'
--0.233718 O        b'+1:lemma:or'
--0.233718 O        b'+1:word:or'
--0.234368 O        b'lemma:e.'
--0.236980 O        b'lemma:dissolve'
--0.236980 O        b'word:dissolved'
--0.241256 Supp     b'+1:lemma:rifampicin'
--0.241256 Supp     b'+1:word:rifampicin'
--0.241793 O        b'-1:word:ml'
--0.242844 O        b'-1:lemma:mid-log'
--0.242844 O        b'-1:word:mid-log'
--0.244892 O        b'-1:lemma:o2'
--0.244892 O        b'-1:word:O2'
--0.250659 O        b'-1:lemma:0.2'
--0.250659 O        b'-1:word:0.2'
--0.257587 Air      b'-1:postag:JJ'
--0.275537 O        b'+1:postag:IN'
--0.276339 Agit     b'isUpper'
--0.288029 O        b'lemma:minimal'
--0.288029 O        b'word:minimal'
--0.288682 O        b'lemma:0.2'
--0.288682 O        b'word:0.2'
--0.295170 O        b'+1:lemma:%'
--0.295170 O        b'+1:word:%'
--0.312769 Supp     b'+1:postag:IN'
--0.314136 O        b'lemma:of'
--0.314136 O        b'word:of'
--0.316019 O        b'lemma:phase'
--0.316019 O        b'word:phase'
--0.317543 O        b'-1:lemma:rpob'
--0.317543 O        b'-1:word:RpoB'
--0.352099 O        b'lemma:0.1'
--0.352099 O        b'word:0.1'
--0.354536 O        b'-1:lemma:grow'
--0.355121 O        b'+1:postag:NNS'
--0.360104 O        b'lemma:dpd'
--0.360104 O        b'word:DPD'
--0.361422 Med      b'postag:CD'
--0.374440 Air      b'+1:postag:JJ'
--0.374640 O        b'+1:lemma:c'
--0.386040 O        b'lemma:medium'
--0.386040 O        b'word:medium'
--0.425432 OD       b'+1:postag:NN'
--0.433655 Med      b'+1:postag:NN'
--0.442754 Supp     b'-1:postag:NNP'
--0.444075 O        b'-1:postag:IN'
--0.462977 O        b'-1:lemma:IP'
--0.462977 O        b'-1:word:IP'
--0.473099 O        b'lemma:od600'
--0.473099 O        b'word:OD600'
--0.475947 Supp     b'-1:lemma:%'
--0.475947 Supp     b'-1:word:%'
--0.478194 Supp     b'+1:postag:VBN'
--0.493813 O        b'-1:lemma:dissolve'
--0.493813 O        b'+1:lemma:methanol'
--0.493813 O        b'-1:word:dissolved'
--0.493813 O        b'+1:word:methanol'
--0.496860 Temp     b'+1:lemma:to'
--0.496860 Temp     b'+1:postag:TO'
--0.496860 Temp     b'+1:word:to'
--0.499631 O        b'word:WT'
--0.513610 Temp     b'postag:NN'
--0.514977 O        b'lemma:glucose'
--0.514977 O        b'word:glucose'
--0.536212 OD       b'lemma:-lrb-'
--0.536212 OD       b'word:-LRB-'
--0.551562 O        b'lemma:media'
--0.551562 O        b'word:media'
--0.560747 O        b'+1:lemma:fecl2'
--0.560747 O        b'+1:word:FeCl2'
--0.568774 O        b'-1:lemma:co2'
--0.568774 O        b'-1:word:CO2'
--0.570589 O        b'lemma:20'
--0.570589 O        b'word:20'
--0.601473 O        b'-1:lemma:37'
--0.601473 O        b'-1:word:37'
--0.606741 O        b'+1:word:ChIP-exo'
--0.613813 O        b'+1:lemma:g/l'
--0.613813 O        b'+1:word:g/L'
--0.619083 OD       b'postag:-LRB-'
--0.649236 O        b'+1:word:C'
--0.665832 O        b'+1:lemma:supplement'
--0.665832 O        b'+1:word:supplemented'
--0.674327 O        b'lemma:37'
--0.674327 O        b'word:37'
--0.686899 O        b'lemma:2h'
--0.686899 O        b'-1:lemma:additional'
--0.686899 O        b'word:2h'
--0.686899 O        b'-1:word:additional'
--0.702076 O        b'+1:lemma:in'
--0.702076 O        b'+1:word:in'
--0.720953 Med      b'-1:postag:NN'
--0.734913 Med      b'+1:postag:IN'
--0.738740 O        b'postag:RB'
--0.780009 Supp     b'-1:postag:NN'
--0.812687 Phase    b'-1:postag:JJ'
--0.862547 O        b'+1:lemma:at'
--0.862547 O        b'+1:word:at'
--0.884705 O        b'lemma:anaerobically'
--0.884705 O        b'word:anaerobically'
--0.954289 O        b'lemma:rifampicin'
--0.954289 O        b'word:rifampicin'
--0.975364 O        b'+1:lemma:hour'
--0.985559 O        b'-1:lemma:nsrr'
--0.985559 O        b'-1:word:NsrR'
--0.997260 O        b'-1:postag::'
--1.064484 O        b'+1:lemma:2'
--1.064484 O        b'+1:word:2'
--1.067361 O        b'+1:postag:VBG'
--1.084453 Temp     b'isLower'
--1.090676 Technique b'isLower'
--1.096556 Air      b'postag:NN'
--1.130890 O        b'-1:postag:VBG'
--1.137066 O        b'lemma:methanol'
--1.137066 O        b'word:methanol'
--1.146647 Med      b'-1:postag:IN'
--1.273126 Gtype    b'isUpper'
--1.333154 OD       b'isNumber'
--1.341950 Anti     b'postag:NNP'
--1.346674 O        b'lemma:wt'
--1.359316 O        b'-1:lemma:2'
--1.359316 O        b'-1:word:2'
--1.393623 O        b'lemma:mid-log'
--1.393623 O        b'word:mid-log'
--1.528613 Supp     b'postag:CC'
--1.536721 O        b'-1:lemma:ompr'
--1.544831 O        b'+1:lemma:1'
--1.544831 O        b'+1:word:1'
--1.748788 Gtype    b'isLower'
--2.010239 O        b'+1:word:hours'
--2.214812 Gversion b'isLower'
--2.235984 O        b'-1:lemma:_'
--2.235984 O        b'-1:word:_'
--2.367089 Supp     b'postag:JJ'
--2.519281 O        b'-1:lemma::'
--2.519281 O        b'-1:word::'
--2.594531 O        b'word:cells'
--3.006120 Gtype    b'isNumber'
--3.055847 Phase    b'postag:JJ'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.3568772328262357, 'c2': 0.03679897833962741}
-best CV score:0.7912405713814187
-model size: 0.06M
-
-Flat F1: 0.7675992381773036
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.789     0.882        19
-        Air      0.780     0.742     0.760        62
-       Anti      0.800     0.444     0.571         9
-     Strain      0.000     0.000     0.000         1
-      Gtype      0.845     0.774     0.808       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.806     0.640     0.713       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.842     0.723     0.768       480
-
-
-Top likely transitions:
-OD     -> OD      5.955565
-Agit   -> Agit    5.919199
-Temp   -> Temp    5.457223
-Med    -> Med     5.142852
-Anti   -> Anti    5.096560
-Air    -> Air     4.785647
-Gtype  -> Gtype   4.265020
-O      -> O       4.167033
-Gversion -> Gversion 4.096654
-Supp   -> Supp    4.095690
-Phase  -> Phase   4.087605
-Technique -> Technique 3.540826
-O      -> Supp    2.079503
-Gtype  -> Supp    1.995901
-Air    -> O       1.832886
-pH     -> pH      1.823851
-Substrain -> Gtype   1.407319
-O      -> Gtype   1.287017
-O      -> Technique 1.257508
-O      -> Anti    0.872529
-Technique -> Air     0.856385
-O      -> Temp    0.849337
-Med    -> O       0.823339
-OD     -> Phase   0.567936
-Supp   -> O       0.535077
-O      -> Gversion 0.454745
-Temp   -> O       0.378011
-O      -> Med     0.340773
-Phase  -> O       0.256163
-Gtype  -> Air     0.217223
-Gtype  -> pH      0.173493
-O      -> Phase   0.079173
-O      -> Strain  0.031985
-Supp   -> Air     -0.000004
-Gtype  -> Anti    -0.020854
-Gtype  -> Gversion -0.026214
-Technique -> Gtype   -0.122709
-OD     -> O       -0.164948
-Technique -> pH      -0.215348
-Supp   -> Med     -0.427866
-O      -> Air     -0.523868
-Agit   -> O       -0.572132
-Substrain -> O       -0.707348
-Gtype  -> OD      -0.819099
-Med    -> Supp    -0.863239
-Phase  -> OD      -0.994549
-
-
-Top unlikely transitions:
-OD     -> OD      5.955565
-Agit   -> Agit    5.919199
-Temp   -> Temp    5.457223
-Med    -> Med     5.142852
-Anti   -> Anti    5.096560
-Air    -> Air     4.785647
-Gtype  -> Gtype   4.265020
-O      -> O       4.167033
-Gversion -> Gversion 4.096654
-Supp   -> Supp    4.095690
-Phase  -> Phase   4.087605
-Technique -> Technique 3.540826
-O      -> Supp    2.079503
-Gtype  -> Supp    1.995901
-Air    -> O       1.832886
-pH     -> pH      1.823851
-Substrain -> Gtype   1.407319
-O      -> Gtype   1.287017
-O      -> Technique 1.257508
-O      -> Anti    0.872529
-Technique -> Air     0.856385
-O      -> Temp    0.849337
-Med    -> O       0.823339
-OD     -> Phase   0.567936
-Supp   -> O       0.535077
-O      -> Gversion 0.454745
-Temp   -> O       0.378011
-O      -> Med     0.340773
-Phase  -> O       0.256163
-Gtype  -> Air     0.217223
-Gtype  -> pH      0.173493
-O      -> Phase   0.079173
-O      -> Strain  0.031985
-Supp   -> Air     -0.000004
-Gtype  -> Anti    -0.020854
-Gtype  -> Gversion -0.026214
-Technique -> Gtype   -0.122709
-OD     -> O       -0.164948
-Technique -> pH      -0.215348
-Supp   -> Med     -0.427866
-O      -> Air     -0.523868
-Agit   -> O       -0.572132
-Substrain -> O       -0.707348
-Gtype  -> OD      -0.819099
-Med    -> Supp    -0.863239
-Phase  -> OD      -0.994549
-
-
-Top positive:
-7.311391 O        b'lemma:_'
-6.386213 O        b'lemma:1'
-5.942659 Air      b'lemma:anaerobic'
-5.902775 Supp     b'lemma:Iron'
-5.497006 Strain   b'lemma:k-12'
-5.443070 Air      b'lemma:aerobic'
-5.417956 Technique b'lemma:ChIP-exo'
-5.360099 O        b'lemma:2'
-4.972296 Phase    b'lemma:mid-log'
-4.783538 O        b'postag:IN'
-4.776370 Supp     b'lemma:nitrate'
-4.762645 O        b'lemma:rpob'
-4.691195 Air      b'-1:lemma:ChIP-Seq'
-4.618875 O        b'lemma:3'
-4.601053 Substrain b'lemma:mg1655'
-4.462226 Technique b'lemma:chipseq'
-4.387311 Phase    b'lemma:stationary'
-4.222036 OD       b'lemma:od600'
-4.073562 Gtype    b'+1:lemma:type'
-4.057916 Supp     b'lemma:pq'
-3.985864 Supp     b'lemma:nh4cl'
-3.972087 Gtype    b'lemma:\xce\xb4cra'
-3.961883 Air      b'lemma:Aerobic'
-3.882824 O        b'postag::'
-3.851044 Gtype    b'lemma:type'
-3.817888 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.749284 Gtype    b'lemma:flag-tag'
-3.749284 Gtype    b'-1:lemma:c-terminal'
-3.742652 Gtype    b'lemma:wt'
-3.740216 Med      b'lemma:lb'
-3.740189 Supp     b'lemma:glucose'
-3.732373 O        b'lemma:rep1'
-3.722079 O        b'lemma:b'
-3.685687 Gversion b'lemma:asm584v2'
-3.675629 Gversion b'lemma:nc'
-3.658421 Supp     b'+1:lemma:\xc2\xb5m'
-3.453987 O        b'lemma:a'
-3.428380 O        b'lemma:rep2'
-3.424503 Med      b'lemma:LB'
-3.414190 Gtype    b'lemma:arca8myc'
-3.403980 O        b'-1:lemma:ChIP-exo'
-3.303023 Med      b'lemma:MOPS'
-3.265948 Technique b'lemma:rna-seq'
-3.251521 Technique b'lemma:ChIP-Seq'
-3.210550 O        b'lemma:\xcf\x8332'
-3.209996 O        b'lemma:Cra'
-3.119550 O        b'postag:VBN'
-3.109382 Gtype    b'lemma:delta-arca'
-3.070896 O        b'lemma:.'
-3.070896 O        b'postag:.'
-3.047834 Technique b'lemma:chip-seq'
-3.046544 Gtype    b'lemma:\xe2\x88\x86'
-3.018451 Supp     b'lemma:Fe'
-3.007680 Supp     b'lemma:acetate'
-2.972749 Air      b'postag:RB'
-2.971413 O        b'-1:lemma:tag'
-2.959092 Med      b'+1:lemma:0.4'
-2.947878 O        b'lemma:rep3'
-2.936895 Gtype    b'lemma:fnr8myc'
-2.934222 Anti     b'+1:lemma:antibody'
-2.898737 Supp     b'lemma:no3'
-2.896406 O        b'lemma:Custom'
-2.856337 O        b'postag:CC'
-2.850328 Technique b'-1:lemma:IP'
-2.848169 Temp     b'lemma:\xc2\xb0c'
-2.841904 Supp     b'lemma:fructose'
-2.805619 Technique b'lemma:rnaseq'
-2.779984 Gtype    b'lemma:nsrr'
-2.746209 O        b'+1:lemma:od600'
-2.719832 Supp     b'lemma:rifampicin'
-2.673293 O        b'-1:lemma:Aerobic'
-2.634726 Vess     b'lemma:flask'
-2.634726 Vess     b'-1:lemma:warm'
-2.632998 Supp     b'+1:lemma:1'
-2.627950 pH       b'lemma:ph5'
-2.627950 pH       b'+1:lemma:.5'
-2.584412 Gtype    b'lemma:\xce\xb4fur'
-2.580319 OD       b'lemma:od450'
-2.506717 Gtype    b'+1:lemma:with'
-2.487258 Supp     b'lemma:dpd'
-2.454806 Supp     b'+1:lemma:2'
-2.450355 Gversion b'-1:lemma:nc'
-2.405914 O        b'lemma:-'
-2.403636 Supp     b'lemma:arginine'
-2.402149 O        b'-1:lemma:type'
-2.392360 Gtype    b'lemma:delta-fnr'
-2.374469 O        b'-1:lemma:0.3-0.35'
-2.367275 Gversion b'lemma:000913'
-2.362681 O        b'lemma:CEL'
-2.349730 Gversion b'lemma:u00096'
-2.349730 Gversion b'+1:lemma:.2'
-2.344881 Gtype    b'+1:lemma:ph5'
-2.330556 Temp     b'-1:lemma:sample'
-2.315441 Med      b'lemma:m63'
-2.315022 O        b'postag:DT'
-2.300074 Gtype    b'+1:lemma:pq'
-2.267250 Gtype    b'-1:lemma:rpob'
-2.265036 Anti     b'lemma:none'
-2.258989 O        b'-1:lemma:glucose'
-2.231273 Med      b'+1:lemma:minimal'
-2.224003 O        b'+1:postag:RB'
-2.220750 Med      b'lemma:media'
-2.206396 Gtype    b'lemma:wild-type'
-2.185276 Gtype    b'+1:lemma:flagtag'
-2.172170 Temp     b'-1:lemma:\xcf\x8332'
-2.170608 Gversion b'lemma:.2'
-2.170608 Gversion b'-1:lemma:u00096'
-2.168316 O        b'lemma:chip'
-2.140388 pH       b'lemma:.5'
-2.140388 pH       b'-1:lemma:ph5'
-2.092729 Technique b'-1:lemma:chip-exo'
-2.092406 O        b'postag:VBG'
-2.091643 Supp     b'+1:lemma:_'
-2.084452 Gtype    b'-1:lemma:ptac'
-2.084202 Strain   b'+1:lemma:substr'
-2.037782 O        b'+1:postag:NNP'
-2.036707 O        b'lemma:with'
-2.020481 Anti     b'lemma:seqa'
-2.017889 O        b'lemma:affyexp'
-2.016765 O        b'+1:lemma:pq'
-2.014069 Supp     b'-1:lemma:\xc2\xb5m'
-2.007497 OD       b'+1:lemma:stationary'
-2.005510 O        b'lemma:s'
-1.992269 O        b'-1:lemma:l1'
-1.979839 Supp     b'-1:lemma:with'
-1.950746 Med      b'+1:lemma:2.0'
-1.943075 Supp     b'lemma:nacl'
-1.939615 O        b'lemma:or'
-1.934384 O        b'-1:lemma:\xc2\xb0c'
-1.924238 Gversion b'lemma:chip-seq'
-1.912397 Air      b'-1:lemma:-'
-1.907041 O        b'-1:lemma:anaerobic'
-1.897746 Supp     b'lemma:20'
-1.889218 Gtype    b'+1:lemma:_'
-1.887958 Phase    b'-1:lemma:mid-log'
-1.881451 Technique b'+1:lemma:chip-exo'
-1.878291 Temp     b'-1:lemma:43'
-1.855251 pH       b'+1:postag:CD'
-1.845211 Gversion b'lemma:_'
-1.834481 Gtype    b'lemma:\xce\xb4ompr'
-1.833194 O        b'-1:lemma:0.3'
-1.819503 O        b'postag:VBD'
-1.794552 Supp     b'-1:lemma:Cra'
-1.789484 Temp     b'lemma:43'
-1.773482 Supp     b'lemma:iptg'
-1.756704 O        b'lemma:culture'
-1.754791 Temp     b'+1:lemma:\xc2\xb0c'
-1.743371 Technique b'-1:lemma:1'
-1.741538 Temp     b'lemma:37'
-1.722498 Air      b'lemma:anaerobically'
-1.719157 O        b'-1:lemma:lb'
-1.715507 Air      b'-1:lemma:co2'
-1.702741 Med      b'-1:lemma:glucose'
-1.692405 Med      b'lemma:L'
-1.692405 Med      b'+1:lemma:broth'
-1.691874 Med      b'+1:lemma:supplement'
-1.691307 OD       b'-1:lemma:~'
-1.683838 Supp     b'lemma:Leu'
-1.682972 O        b'lemma:genotype/variation'
-1.676442 Gtype    b'lemma:ptac'
-1.663265 O        b'lemma:oxyr'
-1.660953 Anti     b'lemma:anti-rpos'
-1.630672 OD       b'lemma:0.3'
-1.621148 O        b'lemma:-rrb-'
-1.617178 Anti     b'lemma:anti-myc'
-1.604063 O        b'-1:lemma:stpa'
-1.586655 Med      b'lemma:glucose'
-1.585743 Gversion b'+1:lemma:000913'
-1.579174 O        b'postag:SYM'
-1.578068 Gtype    b'-1:lemma:nsrr'
-1.574137 Supp     b'-1:lemma:+'
-1.567060 Gtype    b'+1:postag::'
-1.563299 Gversion b'postag:CD'
-1.544619 Temp     b'-1:lemma:37'
-1.538602 Med      b'+1:lemma:g/l'
-1.528286 O        b'lemma:to'
-1.528286 O        b'postag:TO'
-1.523324 Gtype    b'lemma:\xce\xb4soxs'
-1.518247 Technique b'postag:NNP'
-1.515066 O        b'lemma:Lrp'
-1.503810 Supp     b'+1:lemma:Deficient'
-1.474618 Med      b'postag:NNP'
-1.470896 O        b'lemma:condition'
-1.470694 O        b'postag:NNS'
-1.466882 Vess     b'-1:postag:VBN'
-1.460777 Substrain b'+1:lemma:phtpg'
-1.454367 O        b'lemma:Fur'
-1.445446 Gtype    b'lemma:pk4854'
-1.444799 O        b'lemma:chip-arca'
-1.433832 Air      b'-1:postag:CD'
-1.433106 Supp     b'lemma:of'
-1.427368 Supp     b'lemma:0.2'
-1.416476 Gtype    b'postag:-RRB-'
-1.416028 Med      b'+1:lemma:+'
-1.405123 Gtype    b'+1:lemma:aerobic'
-1.403649 O        b'+1:lemma:chip-seq'
-1.392465 Vess     b'+1:lemma:at'
-1.387929 Air      b'+1:lemma:%'
-1.386557 Air      b'lemma:Anaerobic'
-1.379418 Air      b'lemma:%'
-
-
-Top negative:
-0.046237 Technique b'-1:postag:-LRB-'
-0.044591 O        b'lemma:total'
-0.042487 OD       b'-1:postag:JJ'
-0.041254 Agit     b'+1:lemma:at'
-0.040829 Air      b'-1:lemma:o2'
-0.039691 O        b'+1:postag:SYM'
-0.037763 Air      b'-1:lemma:95'
-0.037597 Med      b'-1:lemma:g/l'
-0.034684 Med      b'-1:postag::'
-0.034326 OD       b'lemma:and'
-0.031598 Supp     b'-1:lemma:ompr'
-0.024936 Technique b'postag:NN'
-0.024683 O        b'lemma:co2'
-0.024521 O        b'-1:lemma:k-12'
-0.023660 O        b'lemma:express'
-0.023660 O        b'+1:lemma:nsrr'
-0.021537 OD       b'-1:postag:-LRB-'
-0.020167 O        b'-1:lemma:respiratory'
-0.019242 Technique b'-1:postag:NN'
-0.017406 O        b'+1:postag:-LRB-'
-0.015124 O        b'lemma:contain'
-0.013912 Agit     b'-1:postag:DT'
-0.013779 O        b'+1:lemma:with'
-0.011889 Supp     b'-1:postag:NN'
-0.010468 O        b'-1:lemma:no3'
-0.007499 O        b'postag:VBZ'
-0.006399 Temp     b'-1:postag:NNS'
-0.006118 O        b'lemma:%'
-0.004379 Med      b'-1:lemma:2'
-0.003940 OD       b'postag:CC'
-0.003905 Gtype    b'lemma::'
-0.003701 O        b'-1:lemma:with'
-0.003698 Air      b'postag:NNP'
-0.003581 O        b'+1:lemma:20'
-0.003278 O        b'+1:lemma:wt'
-0.003056 Gtype    b'-1:postag:NN'
-0.003014 O        b'-1:postag:VBD'
-0.002667 Supp     b'-1:lemma:contain'
-0.002596 O        b'lemma:respiratory'
-0.001697 Agit     b'postag:IN'
-0.001336 O        b'-1:lemma:genotype'
-0.001218 OD       b'+1:postag:-RRB-'
-0.001198 O        b'lemma:mm'
-0.001116 OD       b'postag:CD'
-0.000945 Med      b'lemma:g/l'
-0.000825 O        b'+1:lemma:total'
-0.000744 Air      b'+1:lemma:and'
-0.000698 Gtype    b'-1:lemma:lacz'
-0.000535 O        b'+1:lemma:anaerobically'
-0.000513 O        b'-1:lemma:and'
-0.000496 O        b'+1:lemma:mm'
-0.000435 O        b'-1:lemma:fructose'
-0.000393 O        b'lemma:acetate'
-0.000297 Gtype    b'lemma:wild'
-0.000283 Temp     b'+1:lemma:.'
-0.000283 Temp     b'+1:postag:.'
-0.000099 Phase    b'postag:RB'
-0.000088 Supp     b'lemma:1mm'
-0.000079 O        b'+1:lemma:use'
-0.000050 Supp     b'+1:postag:JJ'
-0.000036 Supp     b'-1:lemma:1g/l'
-0.000026 Supp     b'lemma:paraquat'
-0.000026 O        b'-1:lemma:l2'
-0.000025 OD       b'lemma:\xce\xb4soxr'
-0.000007 pH       b'postag:CD'
-0.000007 Supp     b'lemma:um'
-0.000006 Gtype    b'lemma:small'
--0.000000 O        b'-1:lemma:cra'
--0.000009 O        b'+1:lemma:dissolve'
--0.000017 O        b'-1:lemma:the'
--0.000043 Supp     b'lemma:and'
--0.000046 O        b'lemma:\xce\xb4fur'
--0.000085 O        b'-1:lemma:rifampicin'
--0.000146 O        b'-1:lemma:iptg'
--0.000260 OD       b'+1:postag:NNS'
--0.000627 O        b'-1:lemma:g/l'
--0.000742 OD       b'postag:JJ'
--0.001488 O        b'lemma:m63'
--0.003058 Air      b'postag:CD'
--0.003448 O        b'+1:lemma:phase'
--0.004608 Agit     b'postag:NN'
--0.004847 O        b'-1:lemma:,'
--0.004847 O        b'-1:postag:,'
--0.005037 O        b'-1:lemma:ml'
--0.007684 O        b'+1:lemma:5'
--0.008395 Air      b'+1:postag:-RRB-'
--0.008451 Air      b'+1:lemma:-lrb-'
--0.017107 Med      b'postag:CD'
--0.017612 Supp     b'postag:CD'
--0.018284 O        b'+1:lemma:c'
--0.018326 Air      b'+1:postag:NN'
--0.018494 O        b'+1:lemma:300'
--0.020172 O        b'+1:lemma:arginine'
--0.021074 O        b'+1:lemma:until'
--0.022065 O        b'-1:lemma:n2'
--0.022176 Air      b'+1:lemma:-rrb-'
--0.036363 Gtype    b'postag:CD'
--0.041102 O        b'+1:lemma:rep1'
--0.042847 O        b'-1:lemma:e.'
--0.044979 Air      b'-1:lemma:-lrb-'
--0.046714 Air      b'-1:postag:CC'
--0.058789 O        b'-1:lemma:1'
--0.063701 O        b'lemma:k-12'
--0.066551 Supp     b'+1:lemma:-rrb-'
--0.070646 Anti     b'+1:lemma:anti-fur'
--0.073806 OD       b'+1:postag:CD'
--0.084658 OD       b'+1:postag:-LRB-'
--0.084874 O        b'lemma:150'
--0.084874 O        b'+1:lemma:mg/ml'
--0.089700 O        b'-1:postag:VBN'
--0.098890 O        b'lemma:lb'
--0.104646 Technique b'-1:lemma::'
--0.109346 Gtype    b'-1:postag:CD'
--0.117060 Med      b'-1:postag:NN'
--0.137397 O        b'lemma:\xe2\x88\x86'
--0.139038 Med      b'+1:postag:IN'
--0.139665 Supp     b'postag:CC'
--0.145456 O        b'-1:lemma:0.2'
--0.166221 Anti     b'+1:postag:JJ'
--0.168662 O        b'-1:lemma:30'
--0.170969 Gtype    b'+1:lemma:-lrb-'
--0.185496 O        b'+1:postag:NNS'
--0.187775 O        b'+1:lemma:-rrb-'
--0.189256 O        b'lemma:phase'
--0.197532 O        b'-1:lemma:~'
--0.198007 Supp     b'+1:lemma:rifampicin'
--0.204204 O        b'+1:lemma:.'
--0.204204 O        b'+1:postag:.'
--0.216763 Supp     b'+1:postag:-RRB-'
--0.218250 O        b'+1:lemma:%'
--0.224866 O        b'lemma:dissolve'
--0.237242 O        b'-1:postag:IN'
--0.238328 O        b'-1:lemma:of'
--0.240558 O        b'+1:lemma:hour'
--0.240999 O        b'-1:lemma:-lrb-'
--0.256297 Temp     b'+1:lemma:to'
--0.256297 Temp     b'+1:postag:TO'
--0.256467 O        b'+1:lemma:0.3'
--0.259261 Temp     b'postag:JJ'
--0.264304 O        b'-1:lemma:from'
--0.278399 O        b'lemma:20'
--0.278740 Phase    b'-1:lemma:at'
--0.285638 O        b'lemma:media'
--0.332297 O        b'-1:postag:-LRB-'
--0.344037 O        b'-1:lemma:mid-log'
--0.360399 Med      b'+1:postag:NN'
--0.369081 O        b'+1:postag:IN'
--0.394929 pH       b'postag:NN'
--0.422222 O        b'lemma:anaerobically'
--0.424296 O        b'lemma:fecl2'
--0.437175 O        b'+1:postag:-RRB-'
--0.454022 O        b'lemma:0.3'
--0.489502 O        b'+1:lemma:fecl2'
--0.515212 O        b'-1:lemma:rpob'
--0.523695 O        b'-1:lemma:ompr'
--0.548908 O        b'-1:lemma:od600'
--0.555804 O        b'+1:postag:VBG'
--0.560571 O        b'-1:lemma:sample'
--0.564990 O        b'-1:lemma:37'
--0.571228 O        b'-1:lemma:grow'
--0.575388 OD       b'+1:postag:NN'
--0.582274 O        b'lemma:od600'
--0.590024 Technique b'-1:postag::'
--0.607317 OD       b'lemma:-lrb-'
--0.626089 Air      b'-1:postag:JJ'
--0.675603 O        b'lemma:2h'
--0.675603 O        b'-1:lemma:additional'
--0.678009 Supp     b'+1:lemma:acetate'
--0.680017 O        b'+1:lemma:cell'
--0.707984 O        b'lemma:0.1'
--0.736935 O        b'lemma:37'
--0.745442 O        b'+1:lemma:+'
--0.767826 O        b'lemma:0.2'
--0.773161 Temp     b'postag:NN'
--0.851338 O        b'lemma:wt'
--0.866767 O        b'-1:lemma:dissolve'
--0.866767 O        b'+1:lemma:methanol'
--0.888840 O        b'+1:lemma:g/l'
--0.912059 O        b'lemma:mid-log'
--0.950858 O        b'-1:postag::'
--0.973355 Anti     b'postag:NNP'
--0.986952 O        b'lemma:of'
--1.090926 O        b'lemma:methanol'
--1.112071 O        b'+1:lemma:supplement'
--1.135645 O        b'lemma:rifampicin'
--1.140338 O        b'-1:postag:VBG'
--1.194026 O        b'+1:lemma:at'
--1.228205 O        b'-1:lemma:co2'
--1.238990 O        b'-1:lemma:nsrr'
--1.291964 OD       b'postag:-LRB-'
--1.351756 O        b'-1:lemma:IP'
--1.411430 Air      b'+1:postag:JJ'
--1.429559 O        b'+1:lemma:in'
--1.505998 Supp     b'postag:JJ'
--1.647279 Air      b'postag:NN'
--1.998332 O        b'-1:lemma:2'
--2.129948 O        b'+1:lemma:2'
--2.202486 O        b'+1:lemma:1'
--3.512875 O        b'-1:lemma::'
--3.774844 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.18162961741547431, 'c2': 0.010173319055706773}
-best CV score:0.8000535163011767
-model size: 0.06M
-
-Flat F1: 0.7788313742200469
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.754     0.742     0.748        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.863     0.774     0.816       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.820     0.669     0.737       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.844     0.740     0.779       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.428280
-OD     -> OD      6.391198
-Temp   -> Temp    5.649607
-Med    -> Med     5.539114
-Anti   -> Anti    5.303445
-Air    -> Air     5.166643
-O      -> O       4.665819
-Gversion -> Gversion 4.506373
-Gtype  -> Gtype   4.407445
-Phase  -> Phase   4.396047
-Supp   -> Supp    4.016861
-Technique -> Technique 3.916964
-O      -> Supp    1.874908
-pH     -> pH      1.860916
-Air    -> O       1.770442
-Gtype  -> Supp    1.543348
-O      -> Technique 1.425814
-O      -> Gtype   1.309373
-Substrain -> Gtype   1.304530
-Technique -> Air     0.870147
-O      -> Temp    0.799278
-O      -> Anti    0.706193
-Med    -> O       0.658266
-Temp   -> O       0.368124
-O      -> Gversion 0.329037
-OD     -> Phase   0.304771
-O      -> Med     0.286180
-Gtype  -> pH      0.234567
-Phase  -> O       0.219735
-Supp   -> O       0.186801
-O      -> Strain  0.165838
-O      -> Phase   0.049593
-Gtype  -> Air     0.047789
-O      -> OD      0.017713
-Technique -> O       -0.003305
-OD     -> Med     -0.005961
-Supp   -> Air     -0.145259
-Gtype  -> Med     -0.329989
-OD     -> O       -0.341272
-Gtype  -> O       -0.347754
-Technique -> OD      -0.359361
-Agit   -> O       -0.510570
-Gtype  -> Anti    -0.695655
-Supp   -> Med     -0.748551
-Gtype  -> OD      -0.794417
-O      -> Air     -0.800635
-Substrain -> O       -1.117563
-Phase  -> OD      -1.392334
-Med    -> Supp    -1.659724
-
-
-Top unlikely transitions:
-Agit   -> Agit    6.428280
-OD     -> OD      6.391198
-Temp   -> Temp    5.649607
-Med    -> Med     5.539114
-Anti   -> Anti    5.303445
-Air    -> Air     5.166643
-O      -> O       4.665819
-Gversion -> Gversion 4.506373
-Gtype  -> Gtype   4.407445
-Phase  -> Phase   4.396047
-Supp   -> Supp    4.016861
-Technique -> Technique 3.916964
-O      -> Supp    1.874908
-pH     -> pH      1.860916
-Air    -> O       1.770442
-Gtype  -> Supp    1.543348
-O      -> Technique 1.425814
-O      -> Gtype   1.309373
-Substrain -> Gtype   1.304530
-Technique -> Air     0.870147
-O      -> Temp    0.799278
-O      -> Anti    0.706193
-Med    -> O       0.658266
-Temp   -> O       0.368124
-O      -> Gversion 0.329037
-OD     -> Phase   0.304771
-O      -> Med     0.286180
-Gtype  -> pH      0.234567
-Phase  -> O       0.219735
-Supp   -> O       0.186801
-O      -> Strain  0.165838
-O      -> Phase   0.049593
-Gtype  -> Air     0.047789
-O      -> OD      0.017713
-Technique -> O       -0.003305
-OD     -> Med     -0.005961
-Supp   -> Air     -0.145259
-Gtype  -> Med     -0.329989
-OD     -> O       -0.341272
-Gtype  -> O       -0.347754
-Technique -> OD      -0.359361
-Agit   -> O       -0.510570
-Gtype  -> Anti    -0.695655
-Supp   -> Med     -0.748551
-Gtype  -> OD      -0.794417
-O      -> Air     -0.800635
-Substrain -> O       -1.117563
-Phase  -> OD      -1.392334
-Med    -> Supp    -1.659724
-
-
-Top positive:
-8.779498 Supp     b'lemma:Iron'
-8.304502 O        b'lemma:_'
-7.618690 Phase    b'lemma:stationary'
-7.484170 Air      b'lemma:anaerobic'
-7.354518 O        b'lemma:1'
-7.067189 Air      b'lemma:aerobic'
-6.669483 Phase    b'lemma:mid-log'
-6.618228 Strain   b'lemma:k-12'
-6.546745 Technique b'lemma:ChIP-exo'
-6.382709 Supp     b'lemma:nitrate'
-6.166994 O        b'lemma:rpob'
-5.942129 Technique b'lemma:chipseq'
-5.857472 Med      b'lemma:MOPS'
-5.774642 Air      b'-1:lemma:ChIP-Seq'
-5.737667 Substrain b'lemma:mg1655'
-5.732281 O        b'lemma:2'
-5.455707 O        b'lemma:3'
-5.364542 Supp     b'lemma:pq'
-5.264936 Gtype    b'lemma:\xce\xb4cra'
-5.213694 Gversion b'lemma:asm584v2'
-5.194289 O        b'-1:lemma:tag'
-5.063868 O        b'lemma:\xcf\x8332'
-5.027668 O        b'lemma:Custom'
-4.891622 OD       b'lemma:od600'
-4.882911 O        b'lemma:rep1'
-4.854545 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.823744 Med      b'lemma:LB'
-4.814164 Gtype    b'+1:lemma:type'
-4.802778 Gtype    b'lemma:flag-tag'
-4.802778 Gtype    b'-1:lemma:c-terminal'
-4.765392 O        b'postag:IN'
-4.744766 O        b'lemma:b'
-4.740937 Gversion b'lemma:nc'
-4.733044 O        b'lemma:rep2'
-4.686977 Supp     b'+1:lemma:\xc2\xb5m'
-4.648287 Gtype    b'lemma:type'
-4.641760 O        b'-1:lemma:ChIP-exo'
-4.637432 Air      b'lemma:Aerobic'
-4.612308 Technique b'lemma:ChIP-Seq'
-4.552359 O        b'lemma:rep3'
-4.544430 Supp     b'lemma:nh4cl'
-4.492332 Med      b'lemma:lb'
-4.439803 O        b'lemma:Cra'
-4.427104 Gtype    b'lemma:arca8myc'
-4.360255 O        b'lemma:a'
-4.334331 Supp     b'lemma:glucose'
-4.324045 O        b'postag::'
-4.225895 Gtype    b'lemma:delta-arca'
-4.196049 OD       b'lemma:od450'
-4.164044 Gtype    b'lemma:wt'
-4.160035 OD       b'+1:lemma:stationary'
-4.107066 Supp     b'lemma:rifampicin'
-4.089185 Technique b'lemma:rna-seq'
-4.023125 Gtype    b'lemma:fnr8myc'
-3.987616 Supp     b'lemma:acetate'
-3.959560 Supp     b'lemma:Fe'
-3.767113 O        b'-1:lemma:Aerobic'
-3.742419 Technique b'lemma:chip-seq'
-3.719024 Supp     b'lemma:dpd'
-3.697799 Anti     b'lemma:none'
-3.628511 Gtype    b'lemma:\xce\xb4fur'
-3.610358 O        b'-1:lemma:0.3-0.35'
-3.589450 O        b'lemma:.'
-3.589450 O        b'postag:.'
-3.579795 Supp     b'lemma:fructose'
-3.551159 Gtype    b'lemma:delta-fnr'
-3.542698 O        b'+1:lemma:od600'
-3.524374 O        b'lemma:-'
-3.524138 Gversion b'-1:lemma:nc'
-3.508492 Technique b'lemma:rnaseq'
-3.507955 Supp     b'lemma:no3'
-3.411452 Temp     b'-1:lemma:sample'
-3.356731 Vess     b'lemma:flask'
-3.356731 Vess     b'-1:lemma:warm'
-3.344734 Gtype    b'lemma:\xe2\x88\x86'
-3.342213 Gtype    b'lemma:nsrr'
-3.307055 Med      b'+1:lemma:0.4'
-3.294711 Anti     b'lemma:seqa'
-3.198770 Anti     b'lemma:anti-myc'
-3.181726 Supp     b'+1:lemma:1'
-3.157564 O        b'-1:lemma:type'
-3.124717 Technique b'-1:lemma:IP'
-3.101009 pH       b'lemma:ph5'
-3.101009 pH       b'+1:lemma:.5'
-3.088003 O        b'lemma:CEL'
-3.079066 O        b'-1:lemma:glucose'
-3.060659 Temp     b'-1:lemma:\xcf\x8332'
-3.059431 O        b'-1:lemma:0.3'
-3.049487 O        b'-1:lemma:anaerobic'
-3.042109 O        b'lemma:chip'
-3.030894 Supp     b'lemma:arginine'
-3.023592 Gtype    b'-1:lemma:ptac'
-2.997640 Med      b'lemma:m63'
-2.992347 O        b'+1:postag:RB'
-2.983691 O        b'postag:VBN'
-2.926938 Strain   b'+1:lemma:substr'
-2.901956 Supp     b'+1:lemma:2'
-2.867119 Gtype    b'+1:lemma:with'
-2.866259 Gtype    b'lemma:wild-type'
-2.813978 O        b'+1:lemma:chip-seq'
-2.813217 O        b'-1:lemma:lb'
-2.811430 Gversion b'lemma:u00096'
-2.811430 Gversion b'+1:lemma:.2'
-2.805985 Gtype    b'lemma:\xce\xb4ompr'
-2.805379 Gversion b'lemma:chip-seq'
-2.791650 Med      b'lemma:media'
-2.783789 O        b'lemma:with'
-2.762838 O        b'lemma:or'
-2.761734 Supp     b'-1:lemma:Cra'
-2.735714 Supp     b'lemma:nacl'
-2.718227 Anti     b'+1:lemma:antibody'
-2.689667 O        b'lemma:at'
-2.681896 Technique b'+1:lemma:chip-exo'
-2.675618 Gversion b'lemma:.2'
-2.675618 Gversion b'-1:lemma:u00096'
-2.673476 Technique b'-1:lemma:chip-exo'
-2.663534 Anti     b'lemma:anti-rpos'
-2.642331 O        b'lemma:s'
-2.641502 Gtype    b'+1:lemma:pq'
-2.621220 Gtype    b'-1:lemma:rpob'
-2.612960 Air      b'lemma:anaerobically'
-2.582119 Supp     b'+1:lemma:_'
-2.546680 O        b'postag:DT'
-2.543407 Gversion b'lemma:000913'
-2.539879 O        b'lemma:oxyr'
-2.525639 O        b'+1:postag:NNP'
-2.495876 Air      b'postag:RB'
-2.493741 O        b'postag:CC'
-2.488520 Temp     b'lemma:\xc2\xb0c'
-2.472865 Temp     b'-1:lemma:43'
-2.468054 Gtype    b'+1:lemma:ph5'
-2.460194 O        b'+1:lemma:o.d.'
-2.457589 O        b'-1:lemma:\xc2\xb0c'
-2.446783 Supp     b'-1:lemma:\xc2\xb5m'
-2.446748 Med      b'-1:lemma:ml'
-2.432723 pH       b'lemma:.5'
-2.432723 pH       b'-1:lemma:ph5'
-2.429127 O        b'+1:lemma:pq'
-2.426199 Gtype    b'+1:lemma:flagtag'
-2.422501 Temp     b'-1:lemma:37'
-2.364062 Supp     b'-1:lemma:+'
-2.359818 O        b'lemma:affyexp'
-2.358214 Supp     b'lemma:iptg'
-2.345240 Gtype    b'lemma:\xce\xb4soxs'
-2.293242 O        b'-1:lemma:l1'
-2.283378 O        b'lemma:for'
-2.259276 Supp     b'lemma:Leu'
-2.257438 Air      b'-1:lemma:-'
-2.250572 Med      b'+1:lemma:minimal'
-2.245090 Supp     b'-1:lemma:with'
-2.236516 Med      b'lemma:L'
-2.236516 Med      b'+1:lemma:broth'
-2.194950 Gtype    b'lemma:ptac'
-2.191764 O        b'+1:lemma:acetate'
-2.145434 Med      b'+1:lemma:2.0'
-2.144916 O        b'-1:lemma:stpa'
-2.139794 Supp     b'lemma:20'
-2.138137 Technique b'-1:lemma:input'
-2.120690 Supp     b'lemma:0.2'
-2.115282 Air      b'lemma:anerobically'
-2.108802 O        b'lemma:ompr'
-2.102080 Air      b'-1:lemma:co2'
-2.101933 Gtype    b'lemma:deltaseqa'
-2.101933 Gtype    b'-1:lemma:old'
-2.098653 Gtype    b'-1:lemma:nsrr'
-2.094495 O        b'lemma:chip-arca'
-2.093152 O        b'lemma:Lrp'
-2.073057 O        b'lemma:soxs'
-2.073057 O        b'lemma:soxr'
-2.033842 pH       b'+1:postag:CD'
-2.030212 Temp     b'lemma:37'
-2.025024 Temp     b'lemma:43'
-2.005145 O        b'-1:lemma:dpd'
-1.996291 Supp     b'lemma:methanol'
-1.975959 OD       b'-1:lemma:~'
-1.961870 OD       b'lemma:0.3'
-1.953650 Supp     b'+1:lemma:hour'
-1.948299 Phase    b'-1:lemma:until'
-1.945342 Gtype    b'+1:lemma:_'
-1.941615 O        b'postag:VBG'
-1.938029 OD       b'-1:lemma:about'
-1.930492 O        b'lemma:Fur'
-1.926280 Gtype    b'lemma:pk4854'
-1.918352 Technique b'+1:lemma:rna-seq'
-1.910079 O        b'-1:lemma:media'
-1.909335 O        b'lemma:genotype/variation'
-1.897683 Med      b'lemma:glucose'
-1.894728 O        b'lemma:condition'
-1.886371 Supp     b'lemma:Adenine'
-1.881519 Med      b'lemma:broth'
-1.881519 Med      b'-1:lemma:L'
-1.881208 Gtype    b'+1:lemma:aerobic'
-1.872732 Supp     b'+1:lemma:Deficient'
-1.854369 O        b'lemma:culture'
-1.844760 O        b'+1:lemma:sparging'
-1.836586 Phase    b'-1:lemma:mid-log'
-1.835743 Gtype    b'lemma:WT'
-1.826348 Gversion b'+1:lemma:000913'
-1.810910 Gtype    b'-1:lemma:phtpg'
-1.809834 Gtype    b'-1:lemma:_'
-
-
-Top negative:
-0.001509 Air      b'+1:lemma:70'
-0.001485 O        b'-1:lemma:5'
-0.001306 O        b'-1:lemma:no3'
-0.001230 Air      b'-1:postag:RB'
-0.001224 Med      b'-1:lemma:in'
-0.001140 OD       b'-1:postag:VBN'
-0.001060 Technique b'+1:lemma:Anaerobic'
-0.001048 O        b'+1:postag:SYM'
-0.000988 O        b'-1:lemma:fnr'
-0.000917 O        b'lemma:fructose'
-0.000830 O        b'+1:lemma:use'
-0.000649 OD       b'+1:postag:VBD'
-0.000635 Gtype    b'lemma:input'
-0.000565 O        b'lemma:treatment'
-0.000544 Temp     b'+1:postag:VB'
-0.000534 O        b'lemma:EB'
-0.000477 OD       b'+1:postag:VBN'
-0.000465 Supp     b'-1:lemma:10'
-0.000457 O        b'lemma:~'
-0.000451 Gtype    b'lemma:wild'
-0.000403 Air      b'postag:NNP'
-0.000324 Temp     b'-1:postag:NN'
-0.000271 Supp     b'+1:lemma:of'
-0.000230 Supp     b'-1:lemma:contain'
-0.000161 Gtype    b'-1:lemma:small'
-0.000112 Supp     b'+1:lemma:feso4'
-0.000108 Air      b'-1:lemma:aerobically'
-0.000097 Supp     b'lemma:um'
-0.000092 Med      b'-1:lemma:m9'
-0.000070 Temp     b'postag:VB'
-0.000061 Supp     b'-1:lemma:250'
-0.000056 O        b'+1:lemma:_'
-0.000037 Gtype    b'postag::'
-0.000032 Phase    b'-1:postag:IN'
-0.000029 Temp     b'lemma:-lrb-'
-0.000024 Temp     b'postag:-LRB-'
-0.000018 OD       b'+1:lemma:0.15'
-0.000013 Gtype    b'lemma:small'
-0.000006 O        b'lemma:agitation'
--0.000006 Supp     b'+1:lemma:-rrb-'
--0.000007 Supp     b'+1:postag:-RRB-'
--0.000030 O        b'+1:lemma:95'
--0.000036 O        b'-1:lemma:mid-log'
--0.000163 Gversion b'-1:postag:NN'
--0.000207 OD       b'-1:postag:DT'
--0.000850 Supp     b'+1:lemma:dpd'
--0.001166 O        b'+1:lemma:o2'
--0.001921 Temp     b'-1:postag:JJ'
--0.002203 O        b'+1:lemma:rep1'
--0.002684 O        b'-1:lemma:g/l'
--0.003051 O        b'-1:lemma:,'
--0.003051 O        b'-1:postag:,'
--0.004416 O        b'-1:lemma:until'
--0.005028 O        b'lemma:lb'
--0.006746 O        b'-1:lemma:iptg'
--0.008099 O        b'lemma:minimal'
--0.009386 O        b'lemma:glucose'
--0.009971 Gtype    b'+1:lemma:2'
--0.011912 Med      b'-1:postag:CD'
--0.012108 OD       b'+1:postag:NNS'
--0.012515 Air      b'-1:lemma:and'
--0.014917 OD       b'+1:lemma:0.4'
--0.015462 O        b'lemma:co2'
--0.017434 O        b'lemma:medium'
--0.017596 O        b'+1:lemma:grow'
--0.018130 O        b'-1:lemma:1'
--0.019463 Air      b'+1:postag:-LRB-'
--0.020969 Air      b'-1:lemma:95'
--0.026012 Med      b'+1:postag:IN'
--0.029462 Air      b'+1:lemma:-rrb-'
--0.029964 Med      b'+1:postag:NNS'
--0.030676 Gtype    b'-1:postag:CD'
--0.030969 OD       b'+1:postag:CC'
--0.032789 Air      b'postag:CC'
--0.039308 O        b'lemma:m63'
--0.039681 O        b'-1:lemma:mm'
--0.043781 O        b'-1:lemma:sample'
--0.045727 O        b'+1:lemma:5'
--0.048720 Gversion b'+1:postag:NN'
--0.050456 O        b'lemma:e.'
--0.051510 Air      b'+1:lemma:-lrb-'
--0.052744 Phase    b'+1:postag:NN'
--0.060135 O        b'lemma:150'
--0.060135 O        b'+1:lemma:mg/ml'
--0.061483 OD       b'+1:postag:CD'
--0.061644 Gtype    b'postag:CD'
--0.062527 O        b'-1:lemma:o2'
--0.067638 Air      b'-1:lemma:or'
--0.070682 O        b'-1:lemma:0.1'
--0.072485 O        b'-1:postag:IN'
--0.072778 Gtype    b'-1:postag:NN'
--0.074033 Air      b'-1:postag:CC'
--0.074222 Temp     b'postag:JJ'
--0.085943 O        b'-1:lemma:e.'
--0.090975 OD       b'postag:JJ'
--0.094470 Supp     b'+1:postag:VBN'
--0.097464 O        b'+1:lemma:antibody'
--0.099584 O        b'+1:lemma:300'
--0.099687 O        b'-1:postag:VBN'
--0.107582 Air      b'+1:postag:-RRB-'
--0.110954 O        b'postag:RB'
--0.132121 Air      b'postag:CD'
--0.148947 O        b'-1:lemma:-lrb-'
--0.150683 Med      b'postag:CD'
--0.155098 Technique b'-1:lemma::'
--0.162800 Supp     b'lemma:and'
--0.171938 O        b'+1:lemma:minimal'
--0.173189 Supp     b'+1:lemma:rifampicin'
--0.173535 O        b'lemma:\xe2\x88\x86'
--0.181287 O        b'-1:lemma:ml'
--0.195801 O        b'+1:lemma:%'
--0.197661 O        b'-1:lemma:30'
--0.202314 O        b'lemma:\xce\xb4fur'
--0.220334 O        b'+1:lemma:or'
--0.221282 Supp     b'postag:CC'
--0.230040 O        b'lemma:30'
--0.234659 O        b'+1:lemma:arginine'
--0.241611 Anti     b'+1:postag:JJ'
--0.253103 O        b'-1:lemma:rifampicin'
--0.268147 O        b'+1:lemma:until'
--0.276798 O        b'-1:lemma:of'
--0.283028 pH       b'postag:NN'
--0.285848 O        b'lemma:aerobically'
--0.308992 O        b'+1:lemma:-rrb-'
--0.311262 O        b'-1:postag:-LRB-'
--0.314602 O        b'-1:lemma:from'
--0.326058 O        b'-1:lemma:cra'
--0.332056 O        b'+1:lemma:.'
--0.332056 O        b'+1:postag:.'
--0.335073 O        b'lemma:phase'
--0.341647 Med      b'-1:postag:NN'
--0.344072 Med      b'+1:postag:NN'
--0.355271 Temp     b'+1:lemma:to'
--0.355271 Temp     b'+1:postag:TO'
--0.379882 O        b'+1:postag:IN'
--0.399275 O        b'lemma:od600'
--0.406215 O        b'-1:lemma:od600'
--0.417969 O        b'+1:postag:NNS'
--0.429718 O        b'postag:VBP'
--0.438097 O        b'lemma:media'
--0.446126 O        b'lemma:anaerobically'
--0.460423 O        b'+1:lemma:c'
--0.472382 O        b'lemma:dissolve'
--0.479226 O        b'-1:lemma:~'
--0.487398 OD       b'+1:postag:NN'
--0.497942 O        b'+1:postag:-RRB-'
--0.513460 O        b'-1:lemma:0.2'
--0.534142 Phase    b'-1:lemma:at'
--0.535921 Temp     b'postag:NN'
--0.546444 O        b'lemma:20'
--0.554159 O        b'+1:lemma:\xc2\xb0c'
--0.568528 Supp     b'+1:lemma:acetate'
--0.579080 O        b'+1:lemma:fecl2'
--0.580237 O        b'+1:lemma:0.3'
--0.597189 Technique b'-1:postag::'
--0.633040 O        b'lemma:0.3'
--0.635311 Air      b'-1:postag:JJ'
--0.639958 O        b'+1:lemma:cell'
--0.642294 Supp     b'-1:lemma:%'
--0.674687 O        b'-1:lemma:grow'
--0.678680 O        b'+1:postag:VBG'
--0.725561 O        b'-1:lemma:37'
--0.767934 O        b'lemma:of'
--0.780908 O        b'-1:lemma:co2'
--0.783637 O        b'-1:postag::'
--0.801117 O        b'lemma:0.2'
--0.825901 O        b'lemma:37'
--0.836319 O        b'-1:lemma:rpob'
--0.911234 O        b'+1:lemma:hour'
--0.911954 O        b'lemma:fecl2'
--0.962999 O        b'lemma:rifampicin'
--0.978360 O        b'lemma:2h'
--0.978360 O        b'-1:lemma:additional'
--0.998803 O        b'-1:lemma:dissolve'
--0.998803 O        b'+1:lemma:methanol'
--1.013445 OD       b'lemma:-lrb-'
--1.072784 O        b'-1:postag:VBG'
--1.079188 O        b'+1:lemma:g/l'
--1.085657 O        b'lemma:0.1'
--1.090190 O        b'lemma:mid-log'
--1.191813 O        b'+1:lemma:supplement'
--1.257824 Anti     b'postag:NNP'
--1.260068 O        b'+1:lemma:+'
--1.276383 OD       b'postag:-LRB-'
--1.370527 O        b'lemma:wt'
--1.398724 Phase    b'postag:JJ'
--1.421300 O        b'+1:lemma:at'
--1.471212 O        b'-1:lemma:IP'
--1.494485 O        b'-1:lemma:ompr'
--1.577503 O        b'-1:lemma:nsrr'
--1.592880 Supp     b'postag:JJ'
--1.599977 Air      b'+1:postag:JJ'
--1.682029 Air      b'postag:NN'
--1.687804 O        b'lemma:methanol'
--1.731880 O        b'+1:lemma:in'
--2.271152 O        b'+1:lemma:2'
--2.300463 O        b'-1:lemma:2'
--2.728413 O        b'+1:lemma:1'
--3.852462 O        b'-1:lemma:_'
--4.219153 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.04937325798482469, 'c2': 0.021347060592283952}
+best CV score:0.8727912197138052
+model size: 0.16M
+
+Flat F1: 0.7834470810208732
+             precision    recall  f1-score   support
+
+         OD      0.857     0.818     0.837        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.943     0.971        53
+       Temp      1.000     0.621     0.766        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.556     0.362     0.439        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.885     0.812     0.847        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.735     0.806     0.769       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.818     0.763     0.783       451
+
+
+Top likely transitions:
+Temp   -> Temp    5.697885
+Med    -> Med     5.203676
+Supp   -> Supp    5.023623
+Anti   -> Anti    4.919423
+Agit   -> Agit    4.878209
+OD     -> OD      4.490452
+Gtype  -> Gtype   4.342655
+Phase  -> Phase   4.265502
+Gversion -> Gversion 4.228866
+O      -> O       3.927755
+Air    -> Air     3.904248
+Technique -> Technique 3.337823
+pH     -> pH      3.047130
+Substrain -> Gtype   0.928380
+O      -> Technique 0.767492
+O      -> Supp    0.345238
+O      -> Gtype   0.335711
+Technique -> Air     0.302367
+Air    -> O       0.238748
+Gtype  -> Supp    0.106918
+Temp   -> O       0.099174
+O      -> Anti    0.028918
+O      -> Temp    0.024359
+Gtype  -> Air     0.000872
+O      -> Strain  -0.006968
+OD     -> Med     -0.016869
+Vess   -> O       -0.025460
+Air    -> Agit    -0.030216
+Technique -> Supp    -0.054732
+Gtype  -> Temp    -0.066953
+Air    -> Technique -0.074730
+Phase  -> Gtype   -0.080334
+O      -> Phase   -0.082037
+Anti   -> Supp    -0.094817
+O      -> Agit    -0.122548
+Anti   -> Gtype   -0.136175
+Agit   -> Air     -0.139559
+Phase  -> Technique -0.151160
+Gtype  -> Gversion -0.170913
+Supp   -> Phase   -0.196758
+Supp   -> O       -0.208933
+Agit   -> O       -0.223185
+Supp   -> Technique -0.223482
+Phase  -> OD      -0.285779
+Supp   -> Gversion -0.304736
+Technique -> OD      -0.319741
+Supp   -> Anti    -0.336780
+Med    -> O       -0.359992
+Temp   -> Med     -0.365995
+Supp   -> Air     -0.395049
+
+
+Top unlikely transitions:
+Vess   -> O       -0.025460
+Air    -> Agit    -0.030216
+Technique -> Supp    -0.054732
+Gtype  -> Temp    -0.066953
+Air    -> Technique -0.074730
+Phase  -> Gtype   -0.080334
+O      -> Phase   -0.082037
+Anti   -> Supp    -0.094817
+O      -> Agit    -0.122548
+Anti   -> Gtype   -0.136175
+Agit   -> Air     -0.139559
+Phase  -> Technique -0.151160
+Gtype  -> Gversion -0.170913
+Supp   -> Phase   -0.196758
+Supp   -> O       -0.208933
+Agit   -> O       -0.223185
+Supp   -> Technique -0.223482
+Phase  -> OD      -0.285779
+Supp   -> Gversion -0.304736
+Technique -> OD      -0.319741
+Supp   -> Anti    -0.336780
+Med    -> O       -0.359992
+Temp   -> Med     -0.365995
+Supp   -> Air     -0.395049
+Anti   -> Temp    -0.433807
+Air    -> Med     -0.443745
+Technique -> Gtype   -0.461980
+Anti   -> O       -0.477920
+Phase  -> Med     -0.496773
+Phase  -> Supp    -0.504111
+Supp   -> Gtype   -0.542703
+Air    -> Supp    -0.549017
+OD     -> Air     -0.590463
+Gtype  -> Technique -0.617626
+OD     -> O       -0.633869
+Gversion -> O       -0.665626
+Technique -> pH      -0.667545
+Phase  -> O       -0.674680
+Air    -> Phase   -0.701860
+Air    -> Temp    -0.825208
+Gtype  -> Anti    -0.861670
+O      -> Med     -0.887587
+O      -> OD      -1.001120
+Technique -> O       -1.008992
+Gtype  -> Med     -1.115268
+Supp   -> Med     -1.155087
+Gtype  -> O       -1.446717
+O      -> Air     -1.553604
+Substrain -> O       -1.560176
+Med    -> Supp    -1.895924
+
+
+Top positive:
+4.079246 Gtype    b'lemma[:1]:\xce\xb4'
+3.875929 Technique b'lemma[:2]:Ch'
+3.769086 O        b'lemma[:2]:re'
+3.421852 Air      b'word:Aerobic'
+3.297057 O        b'word:Cra'
+3.280691 Air      b'lemma:anaerobic'
+3.279696 O        b'lemma:_'
+3.279696 O        b'lemma[:1]:_'
+3.279696 O        b'word:_'
+3.054016 O        b'-1:word:tag'
+2.950170 O        b'-1:lemma:tag'
+2.923311 Supp     b'-1:word:Cra'
+2.917103 O        b'lemma:-'
+2.917103 O        b'word:-'
+2.673438 O        b'lemma:2'
+2.673438 O        b'word:2'
+2.601916 Anti     b'lemma[:2]:an'
+2.548804 Air      b'word:Anaerobic'
+2.540901 O        b'lemma:with'
+2.540901 O        b'word:with'
+2.527977 Supp     b'+1:lemma:\xc2\xb5m'
+2.527977 Supp     b'+1:word:\xc2\xb5M'
+2.513465 Gtype    b'lemma[:2]:pk'
+2.467865 Air      b'lemma[:2]:ae'
+2.465142 Supp     b'-1:lemma:vol'
+2.465142 Supp     b'-1:word:vol'
+2.430821 O        b'word:A'
+2.414676 O        b'+1:lemma:pq'
+2.414676 O        b'+1:word:PQ'
+2.381594 Supp     b'lemma:arginine'
+2.365113 Strain   b'+1:lemma:substr'
+2.365113 Strain   b'+1:word:substr'
+2.358430 O        b'lemma:3'
+2.358430 O        b'word:3'
+2.281060 O        b'+1:postag:RB'
+2.274077 Gtype    b'lemma:wt'
+2.274077 Gtype    b'lemma[:2]:wt'
+2.271330 Gtype    b'lemma[:1]:w'
+2.262507 Gtype    b'lemma[:2]:de'
+2.230752 O        b'-1:word:Aerobic'
+2.223212 Gtype    b'lemma[:2]:ar'
+2.204027 Gtype    b'word:WT'
+2.203708 Supp     b'lemma:pq'
+2.203708 Supp     b'lemma[:2]:pq'
+2.203708 Supp     b'word:PQ'
+2.195032 Technique b'lemma[:2]:rn'
+2.177901 Air      b'lemma[:2]:an'
+2.152688 O        b'lemma[:2]:ge'
+2.152187 O        b'lemma:1'
+2.152187 O        b'word:1'
+2.147937 Phase    b'lemma:stationary'
+2.147937 Phase    b'word:stationary'
+2.139876 Phase    b'lemma:mid-log'
+2.139876 Phase    b'word:mid-log'
+2.082317 O        b'lemma:Custom'
+2.082317 O        b'lemma[:2]:Cu'
+2.082317 O        b'word:Custom'
+2.081417 Technique b'lemma[:1]:C'
+2.059825 O        b'lemma:b'
+2.059825 O        b'word:B'
+2.051640 Technique b'word:ChIPSeq'
+2.044050 Supp     b'lemma:Iron'
+2.044050 Supp     b'lemma[:2]:Ir'
+2.044050 Supp     b'word:Iron'
+2.044050 Supp     b'+1:word:Deficient'
+2.034480 O        b'-1:lemma:ChIP-exo'
+2.021616 Technique b'lemma[:2]:ch'
+2.004928 Substrain b'lemma[:2]:mg'
+1.992585 Gtype    b'lemma[:1]:f'
+1.988583 Gtype    b'lemma[:2]:cr'
+1.983400 O        b'+1:postag:NNP'
+1.976657 O        b'lemma[:1]:h'
+1.975191 O        b'-1:lemma:lb'
+1.975191 O        b'-1:word:LB'
+1.973175 Supp     b'lemma[:1]:I'
+1.969412 O        b'lemma:.'
+1.969412 O        b'postag:.'
+1.969412 O        b'postag[:1]:.'
+1.969412 O        b'word:.'
+1.954569 Phase    b'lemma[:2]:ex'
+1.946311 O        b'lemma:delta'
+1.946311 O        b'word:delta'
+1.942336 Supp     b'postag:VBP'
+1.917047 Technique b'word:ChIP-Seq'
+1.916217 Supp     b'-1:lemma:Cra'
+1.899702 Supp     b'lemma:rifampicin'
+1.899702 Supp     b'word:rifampicin'
+1.898554 Supp     b'-1:lemma:with'
+1.898554 Supp     b'-1:word:with'
+1.892222 Air      b'lemma[:1]:a'
+1.892185 Supp     b'lemma[:2]:ri'
+1.887353 Technique b'lemma:chipseq'
+1.852638 O        b'-1:lemma:0.3'
+1.852638 O        b'-1:word:0.3'
+1.839355 pH       b'lemma[:2]:ph'
+1.838181 Gtype    b'hGreek'
+1.837034 O        b'-1:lemma:glucose'
+1.837034 O        b'-1:word:glucose'
+1.821428 Gtype    b'lemma:arca8myc'
+1.821428 Gtype    b'word:ArcA8myc'
+1.821045 Med      b'lemma:MOPS'
+1.821045 Med      b'lemma[:1]:M'
+1.821045 Med      b'lemma[:2]:MO'
+1.821045 Med      b'word:MOPS'
+1.813601 Technique b'-1:lemma:chip-exo'
+1.811851 Gversion b'word:ChIP-Seq'
+1.810109 O        b'lemma:ompr'
+1.810109 O        b'word:OmpR'
+1.807989 Supp     b'-1:lemma:+'
+1.807989 Supp     b'-1:word:+'
+1.805457 OD       b'lemma[:1]:o'
+1.789186 Gtype    b'lemma[:1]:t'
+1.787157 Supp     b'lemma[:2]:gl'
+1.784556 Gtype    b'symb'
+1.769736 Gversion b'lemma:chip-seq'
+1.769144 O        b'lemma[:2]:om'
+1.756478 Temp     b'+1:lemma:in'
+1.756478 Temp     b'+1:word:in'
+1.750825 O        b'lemma:rpob'
+1.750825 O        b'word:RpoB'
+1.744454 Gversion b'-1:lemma:nc'
+1.744454 Gversion b'-1:word:NC'
+1.743983 Technique b'lemma:ChIP-exo'
+1.738988 Gtype    b'-1:lemma:\xe2\x88\x86'
+1.738988 Gtype    b'-1:word:\xe2\x88\x86'
+1.737321 Supp     b'lemma[:2]:30'
+1.719994 Gversion b'lemma[:2]:00'
+1.691622 Med      b'+1:lemma:0.4'
+1.691622 Med      b'+1:word:0.4'
+1.690183 Supp     b'lemma:acetate'
+1.690183 Supp     b'word:acetate'
+1.680098 Gtype    b'lemma[:1]:W'
+1.669697 Phase    b'lemma[:1]:e'
+1.654569 O        b'-1:lemma:into'
+1.654569 O        b'-1:word:into'
+1.646155 Agit     b'+1:lemma:rpm'
+1.646155 Agit     b'+1:word:rpm'
+1.639372 Supp     b'lemma[:2]:ni'
+1.637838 Supp     b'-1:postag:CC'
+1.633069 Med      b'-1:lemma:ml'
+1.633069 Med      b'-1:word:ml'
+1.626970 Gtype    b'-1:postag:VBG'
+1.625020 O        b'+1:word:ChIP-Seq'
+1.592935 Air      b'lemma[:1]:A'
+1.581837 Supp     b'lemma[:2]:ac'
+1.581166 Gversion b'lemma:asm584v2'
+1.581166 Gversion b'word:ASM584v2'
+1.576758 Gversion b'lemma[:2]:as'
+1.566133 Air      b'lemma:Aerobic'
+1.566133 Air      b'lemma[:2]:Ae'
+1.556942 Air      b'+1:postag:IN'
+1.540738 Air      b'postag:RB'
+1.540738 Air      b'postag[:1]:R'
+1.540738 Air      b'postag[:2]:RB'
+1.537191 O        b'-1:lemma:phase'
+1.537191 O        b'-1:word:phase'
+1.528090 Air      b'-1:lemma:-'
+1.528090 Air      b'-1:word:-'
+1.527198 Gtype    b'lemma:type'
+1.527198 Gtype    b'lemma[:2]:ty'
+1.527198 Gtype    b'word:type'
+1.520984 O        b'lemma[:1]:C'
+1.511967 Air      b'-1:postag::'
+1.501971 O        b'postag::'
+1.501971 O        b'postag[:1]::'
+1.500818 Gtype    b'lemma[:2]:wi'
+1.494237 O        b'+1:word:were'
+1.488912 O        b'postag:CC'
+1.488912 O        b'postag[:2]:CC'
+1.488215 Agit     b'lemma:rpm'
+1.488215 Agit     b'word:rpm'
+1.486647 Supp     b'+1:lemma:1'
+1.486647 Supp     b'+1:word:1'
+1.483688 Temp     b'-1:lemma:\xcf\x8332'
+1.483688 Temp     b'-1:word:\xcf\x8332'
+1.483025 Air      b'word:anaerobic'
+1.481168 O        b'lemma:a'
+1.480233 Gversion b'lemma:nc'
+1.480233 Gversion b'lemma[:2]:nc'
+1.480233 Gversion b'word:NC'
+1.465788 O        b'-1:lemma:anaerobic'
+1.464120 O        b'+1:lemma:od600'
+1.464120 O        b'+1:word:OD600'
+1.459126 O        b'+1:postag:VBN'
+1.449825 Phase    b'lemma:exponential'
+1.449825 Phase    b'word:exponential'
+1.443892 O        b'-1:lemma:0.3-0.35'
+1.443892 O        b'-1:word:0.3-0.35'
+1.429105 Technique b'symb'
+1.428375 O        b'lemma[:2]:ga'
+1.423820 Technique b'word:ChIP-exo'
+1.422037 O        b'lemma:chip'
+1.420614 O        b'isNumber'
+1.417035 pH       b'+1:postag:CD'
+1.414508 Phase    b'lemma[:2]:st'
+1.410028 O        b'isLower'
+1.399604 Med      b'+1:postag:CD'
+1.398736 Med      b'+1:lemma:2.0'
+1.398736 Med      b'+1:word:2.0'
+1.374106 O        b'-1:lemma:wt'
+
+
+Top negative:
+-0.314411 Supp     b'postag[:1]:N'
+-0.314411 Supp     b'postag[:2]:NN'
+-0.316666 OD       b'+1:lemma:0.4'
+-0.316666 OD       b'+1:word:0.4'
+-0.319400 O        b'+1:word:for'
+-0.319616 Substrain b'isLower'
+-0.329221 O        b'+1:lemma:supplement'
+-0.329221 O        b'+1:word:supplemented'
+-0.334710 Gtype    b'+1:lemma:-rrb-'
+-0.334710 Gtype    b'+1:word:-RRB-'
+-0.335324 Supp     b'+1:lemma:nacl'
+-0.335324 Supp     b'+1:word:NaCl'
+-0.338195 Phase    b'lemma[:2]:pa'
+-0.343360 Med      b'+1:postag:NNS'
+-0.343534 O        b'+1:postag:IN'
+-0.344316 Temp     b'postag:NN'
+-0.345297 O        b'lemma:wt'
+-0.345297 O        b'lemma[:2]:wt'
+-0.355887 Air      b'isLower'
+-0.356867 O        b'-1:lemma:from'
+-0.358831 O        b'lemma:c'
+-0.359856 O        b'lemma:37'
+-0.359856 O        b'lemma[:2]:37'
+-0.359856 O        b'word:37'
+-0.360624 O        b'-1:lemma:final'
+-0.360624 O        b'-1:word:final'
+-0.361530 Med      b'-1:postag:NN'
+-0.362367 Technique b'-1:postag::'
+-0.362612 O        b'lemma:of'
+-0.362612 O        b'lemma[:2]:of'
+-0.362612 O        b'word:of'
+-0.368278 O        b'-1:word:from'
+-0.374267 O        b'-1:lemma:30'
+-0.374267 O        b'-1:word:30'
+-0.376045 O        b'lemma:glucose'
+-0.376045 O        b'word:glucose'
+-0.379443 Gtype    b'lemma[:2]:rp'
+-0.382310 Gtype    b'lemma[:1]:s'
+-0.383855 Supp     b'-1:lemma:-lrb-'
+-0.383855 Supp     b'-1:word:-LRB-'
+-0.385029 O        b'-1:lemma:delta'
+-0.385029 O        b'-1:word:delta'
+-0.390702 O        b'-1:lemma:dissolve'
+-0.390702 O        b'+1:lemma:methanol'
+-0.390702 O        b'-1:word:dissolved'
+-0.390702 O        b'+1:word:methanol'
+-0.395103 O        b'-1:lemma:nsrr'
+-0.395103 O        b'-1:word:NsrR'
+-0.399202 Supp     b'lemma[:1]:a'
+-0.403898 O        b'-1:lemma:1'
+-0.403898 O        b'-1:word:1'
+-0.404014 Temp     b'hGreek'
+-0.406161 O        b'-1:lemma:\xe2\x88\x86'
+-0.406161 O        b'-1:word:\xe2\x88\x86'
+-0.417535 O        b'-1:postag:IN'
+-0.418404 Supp     b'-1:postag:-LRB-'
+-0.428053 O        b'-1:lemma:ph'
+-0.428053 O        b'-1:word:pH'
+-0.432185 Supp     b'postag:JJ'
+-0.432252 O        b'lemma[:1]:L'
+-0.435862 Air      b'-1:lemma:or'
+-0.435862 Air      b'-1:word:or'
+-0.437167 Supp     b'postag[:1]:J'
+-0.437167 Supp     b'postag[:2]:JJ'
+-0.439673 Vess     b'hUpper'
+-0.439673 Vess     b'hLower'
+-0.443285 O        b'lemma[:2]:gl'
+-0.444141 Temp     b'isLower'
+-0.449813 Supp     b'lemma[:2]:an'
+-0.455745 O        b'-1:lemma:37'
+-0.455745 O        b'-1:word:37'
+-0.465238 O        b'lemma[:2]:ni'
+-0.469627 Supp     b'lemma[:1]:s'
+-0.472157 Air      b'+1:postag:JJ'
+-0.477980 O        b'lemma:2h'
+-0.477980 O        b'-1:lemma:additional'
+-0.477980 O        b'lemma[:2]:2h'
+-0.477980 O        b'word:2h'
+-0.477980 O        b'-1:word:additional'
+-0.493105 Agit     b'symb'
+-0.493489 O        b'lemma:methanol'
+-0.493489 O        b'word:methanol'
+-0.495166 O        b'lemma:mid-log'
+-0.495166 O        b'word:mid-log'
+-0.497445 Air      b'-1:postag:JJ'
+-0.499724 O        b'+1:lemma:g/l'
+-0.499724 O        b'+1:word:g/L'
+-0.501348 O        b'+1:lemma:mm'
+-0.501348 O        b'+1:word:mM'
+-0.507557 O        b'lemma[:2]:me'
+-0.508454 Gtype    b'postag[:1]:V'
+-0.508454 Gtype    b'postag[:2]:VB'
+-0.508460 Gtype    b'postag::'
+-0.508460 Gtype    b'postag[:1]::'
+-0.529784 O        b'+1:lemma:at'
+-0.529784 O        b'+1:word:at'
+-0.537465 O        b'lemma[:1]:0'
+-0.542594 Supp     b'-1:lemma:.'
+-0.542594 Supp     b'-1:postag:.'
+-0.542594 Supp     b'-1:word:.'
+-0.546062 O        b'lemma[:1]:4'
+-0.548259 O        b'-1:lemma:rpob'
+-0.548259 O        b'-1:word:RpoB'
+-0.552281 O        b'-1:lemma:IP'
+-0.552281 O        b'-1:word:IP'
+-0.553960 Phase    b'postag:JJ'
+-0.562367 O        b'lemma:0.3'
+-0.562367 O        b'word:0.3'
+-0.573524 Med      b'-1:postag:CD'
+-0.574613 Technique b'postag:NN'
+-0.578197 O        b'-1:lemma:chip-exo'
+-0.579399 O        b'+1:lemma:1m'
+-0.579399 O        b'+1:word:1M'
+-0.584655 O        b'word:ChIP-exo'
+-0.585801 O        b'lemma:soxs-8myc'
+-0.585801 O        b'word:soxS-8myc'
+-0.599558 O        b'lemma[:2]:ar'
+-0.600604 O        b'word:cells'
+-0.606899 O        b'+1:lemma:until'
+-0.606899 O        b'+1:word:until'
+-0.607019 Air      b'symb'
+-0.640639 pH       b'isNumber'
+-0.656724 O        b'+1:word:ChIP-exo'
+-0.664247 O        b'+1:lemma:2.0'
+-0.664247 O        b'+1:word:2.0'
+-0.664520 Med      b'+1:postag:IN'
+-0.664576 O        b'-1:lemma:co2'
+-0.664576 O        b'-1:word:CO2'
+-0.665370 O        b'+1:lemma:rep2'
+-0.665370 O        b'+1:word:rep2'
+-0.671212 O        b'lemma[:2]:mg'
+-0.724471 Agit     b'hUpper'
+-0.724471 Agit     b'hLower'
+-0.739501 O        b'lemma[:1]:I'
+-0.755281 O        b'lemma[:2]:30'
+-0.762653 pH       b'isLower'
+-0.780673 Air      b'postag:NN'
+-0.793295 Supp     b'symb'
+-0.826875 O        b'-1:postag::'
+-0.853583 O        b'lemma[:2]:ri'
+-0.880894 O        b'-1:lemma:until'
+-0.880894 O        b'-1:word:until'
+-0.884934 Supp     b'+1:postag:VBN'
+-0.893108 O        b'lemma[:1]:k'
+-0.902922 O        b'lemma[:2]:ae'
+-0.926126 O        b'lemma:rifampicin'
+-0.926126 O        b'word:rifampicin'
+-0.929148 Med      b'-1:postag:IN'
+-0.936796 Anti     b'postag:NNP'
+-0.952559 Supp     b'-1:postag:NNP'
+-0.962974 Med      b'symb'
+-0.981592 Technique b'isNumber'
+-1.019994 O        b'-1:lemma:2'
+-1.019994 O        b'-1:word:2'
+-1.023240 O        b'+1:lemma:1'
+-1.023240 O        b'+1:word:1'
+-1.023642 O        b'-1:lemma:ml'
+-1.023642 O        b'-1:word:ml'
+-1.035572 Phase    b'hUpper'
+-1.035572 Phase    b'hLower'
+-1.036376 O        b'lemma[:1]:n'
+-1.044060 Gtype    b'lemma[:1]:c'
+-1.051632 Phase    b'postag[:1]:J'
+-1.051632 Phase    b'postag[:2]:JJ'
+-1.074102 Gtype    b'lemma[:1]:a'
+-1.077239 O        b'+1:lemma:+'
+-1.077239 O        b'+1:word:+'
+-1.084820 O        b'+1:lemma:in'
+-1.084820 O        b'+1:word:in'
+-1.107631 Gtype    b'isNumber'
+-1.117617 Supp     b'+1:postag:-LRB-'
+-1.129026 Technique b'isLower'
+-1.149735 Supp     b'hGreek'
+-1.156144 Supp     b'+1:lemma:-lrb-'
+-1.156144 Supp     b'+1:word:-LRB-'
+-1.229045 Gtype    b'lemma[:1]:r'
+-1.231933 O        b'+1:postag:VBG'
+-1.262559 Gversion b'isLower'
+-1.277633 O        b'-1:lemma:fresh'
+-1.277633 O        b'-1:word:fresh'
+-1.381763 OD       b'+1:postag:NN'
+-1.472372 O        b'+1:lemma:2'
+-1.472372 O        b'+1:word:2'
+-1.571807 Gtype    b'isUpper'
+-1.677845 Supp     b'lemma[:1]:c'
+-1.687951 O        b'-1:lemma:vol'
+-1.687951 O        b'-1:word:vol'
+-1.695736 Supp     b'+1:lemma:,'
+-1.695736 Supp     b'+1:postag:,'
+-1.695736 Supp     b'+1:word:,'
+-1.723752 O        b'-1:lemma:sample'
+-1.785262 Phase    b'-1:postag:JJ'
+-1.895238 O        b'postag:VBP'
+-1.908071 O        b'-1:postag:VBG'
+-2.171310 O        b'-1:lemma:_'
+-2.171310 O        b'-1:word:_'
+-2.491839 O        b'lemma[:2]:fl'
+-2.929187 O        b'-1:lemma::'
+-2.929187 O        b'-1:word::'
+-2.957042 Temp     b'+1:postag:IN'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.19555004078116134, 'c2': 0.013719557943369584}
-best CV score:0.8266077920368616
-model size: 0.11M
-
-Flat F1: 0.8150979684771513
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.893     0.877     0.885        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.810     0.758     0.783        62
-       Anti      1.000     0.667     0.800         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.937     0.840     0.886       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.853     0.684     0.759       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.882     0.767     0.815       480
-
-
-Top likely transitions:
-OD     -> OD      7.029011
-Agit   -> Agit    6.826413
-Temp   -> Temp    5.979472
-Med    -> Med     5.720420
-Anti   -> Anti    5.293877
-Gversion -> Gversion 4.696471
-Technique -> Technique 4.642372
-Air    -> Air     4.554023
-Supp   -> Supp    4.536382
-Phase  -> Phase   4.521590
-Gtype  -> Gtype   4.384473
-O      -> O       3.790788
-pH     -> pH      2.512302
-Gtype  -> Supp    1.227863
-O      -> Supp    1.192139
-O      -> Technique 0.934775
-O      -> Gtype   0.662404
-Substrain -> Gtype   0.296928
-Med    -> O       0.185994
-O      -> Anti    0.184766
-Air    -> O       0.174165
-Temp   -> O       0.096665
-O      -> Gversion 0.076653
-O      -> Temp    0.057678
-OD     -> Phase   0.022845
-Technique -> Air     0.001578
-O      -> Strain  0.000001
-O      -> Med     -0.054605
-Technique -> pH      -0.057365
-Supp   -> O       -0.119271
-Anti   -> O       -0.138393
-Supp   -> Technique -0.159198
-O      -> OD      -0.170727
-Supp   -> Med     -0.220567
-Phase  -> OD      -0.414455
-Air    -> Temp    -0.424565
-OD     -> Air     -0.495373
-Gtype  -> Anti    -0.639969
-Agit   -> O       -0.781636
-Technique -> O       -0.863862
-Gtype  -> O       -0.926865
-OD     -> O       -1.090238
-Substrain -> O       -1.190917
-Med    -> Supp    -1.321707
-O      -> Air     -1.398663
-
-
-Top unlikely transitions:
-OD     -> OD      7.029011
-Agit   -> Agit    6.826413
-Temp   -> Temp    5.979472
-Med    -> Med     5.720420
-Anti   -> Anti    5.293877
-Gversion -> Gversion 4.696471
-Technique -> Technique 4.642372
-Air    -> Air     4.554023
-Supp   -> Supp    4.536382
-Phase  -> Phase   4.521590
-Gtype  -> Gtype   4.384473
-O      -> O       3.790788
-pH     -> pH      2.512302
-Gtype  -> Supp    1.227863
-O      -> Supp    1.192139
-O      -> Technique 0.934775
-O      -> Gtype   0.662404
-Substrain -> Gtype   0.296928
-Med    -> O       0.185994
-O      -> Anti    0.184766
-Air    -> O       0.174165
-Temp   -> O       0.096665
-O      -> Gversion 0.076653
-O      -> Temp    0.057678
-OD     -> Phase   0.022845
-Technique -> Air     0.001578
-O      -> Strain  0.000001
-O      -> Med     -0.054605
-Technique -> pH      -0.057365
-Supp   -> O       -0.119271
-Anti   -> O       -0.138393
-Supp   -> Technique -0.159198
-O      -> OD      -0.170727
-Supp   -> Med     -0.220567
-Phase  -> OD      -0.414455
-Air    -> Temp    -0.424565
-OD     -> Air     -0.495373
-Gtype  -> Anti    -0.639969
-Agit   -> O       -0.781636
-Technique -> O       -0.863862
-Gtype  -> O       -0.926865
-OD     -> O       -1.090238
-Substrain -> O       -1.190917
-Med    -> Supp    -1.321707
-O      -> Air     -1.398663
-
-
-Top positive:
-5.312005 O        b'word[:2]:re'
-4.884582 Technique b'word[:2]:Ch'
-4.406858 Air      b'lemma:anaerobic'
-3.944633 O        b'postag::'
-3.862898 O        b'lemma:1'
-3.862898 O        b'word:1'
-3.693885 O        b'word[:1]:S'
-3.634278 O        b'postag:IN'
-3.455038 Air      b'word[:2]:Ae'
-3.455038 Air      b'word:Aerobic'
-3.425015 Technique b'word[:2]:RN'
-3.411467 O        b'word[:2]:Rp'
-3.351922 Gtype    b'word[:1]:\xce\x94'
-3.295787 Gtype    b'word[:2]:cr'
-3.209157 OD       b'word[:1]:O'
-3.145528 Gtype    b'word[:2]:Fl'
-3.124141 O        b'lemma:_'
-3.124141 O        b'word[:1]:_'
-3.124141 O        b'word:_'
-3.093107 Air      b'postag:RB'
-3.052912 O        b'+1:postag:RB'
-2.979721 O        b'word:A'
-2.971788 O        b'-1:lemma:tag'
-2.882253 O        b'lemma:3'
-2.882253 O        b'word:3'
-2.855255 O        b'word[:1]:G'
-2.826283 O        b'lemma:2'
-2.826283 O        b'word:2'
-2.801121 Phase    b'lemma:stationary'
-2.801121 Phase    b'word:stationary'
-2.742452 Gtype    b'word[:1]:d'
-2.729707 Air      b'word[:1]:A'
-2.725212 Supp     b'-1:word:Cra'
-2.626064 Supp     b'lemma:arginine'
-2.509102 O        b'-1:word:Aerobic'
-2.466965 O        b'word[:2]:ge'
-2.441206 Supp     b'+1:word:hours'
-2.439697 O        b'word[:2]:or'
-2.414611 O        b'lemma:a'
-2.383495 O        b'lemma:.'
-2.383495 O        b'postag:.'
-2.383495 O        b'word:.'
-2.376885 Supp     b'word[:1]:I'
-2.372488 O        b'+1:word:ChIP-Seq'
-2.332104 Air      b'word[:2]:an'
-2.319866 O        b'-1:word:tag'
-2.286706 O        b'word[:1]:B'
-2.264178 Temp     b'word[:1]:3'
-2.232768 Technique b'lemma:ChIP-exo'
-2.217911 Temp     b'-1:word:sample'
-2.211263 O        b'postag:CC'
-2.209541 O        b'word[:1]:C'
-2.191226 Supp     b'word[:2]:Fe'
-2.181901 Supp     b'lemma:nitrate'
-2.181901 Supp     b'word[:2]:ni'
-2.181901 Supp     b'word:nitrate'
-2.175597 O        b'-1:lemma:lb'
-2.161370 Air      b'word[:2]:An'
-2.161370 Air      b'word:Anaerobic'
-2.146764 Temp     b'-1:lemma:sample'
-2.122014 O        b'word[:2]:Cu'
-2.100150 OD       b'word[:2]:OD'
-2.097281 O        b'lemma:with'
-2.097281 O        b'word:with'
-2.096745 O        b'-1:lemma:anaerobic'
-2.095524 O        b'lemma:-'
-2.095524 O        b'word:-'
-2.085444 Gtype    b'lemma:wt'
-2.076545 Gtype    b'word[:1]:W'
-2.074067 O        b'postag:VBN'
-2.042662 Gversion b'lemma:chip-seq'
-2.032616 Gtype    b'lemma:arca8myc'
-2.032616 Gtype    b'word:ArcA8myc'
-2.019776 Gversion b'word[:2]:00'
-1.980973 O        b'postag:DT'
-1.968660 Gversion b'-1:lemma:nc'
-1.968660 Gversion b'-1:word:NC'
-1.961531 Med      b'word[:1]:M'
-1.921062 O        b'word[:2]:ch'
-1.893301 Gversion b'word:ChIP-Seq'
-1.885602 Med      b'word[:1]:L'
-1.878552 O        b'isLower'
-1.865095 Gtype    b'lemma:type'
-1.865095 Gtype    b'word[:2]:ty'
-1.865095 Gtype    b'word:type'
-1.850010 Supp     b'word[:2]:gl'
-1.837123 Phase    b'lemma:mid-log'
-1.837123 Phase    b'word:mid-log'
-1.811977 Supp     b'lemma:Iron'
-1.811977 Supp     b'word[:2]:Ir'
-1.811977 Supp     b'word:Iron'
-1.811977 Supp     b'+1:word:Deficient'
-1.797891 Anti     b'word[:2]:an'
-1.792147 O        b'+1:lemma:od600'
-1.792147 O        b'+1:word:OD600'
-1.788559 Med      b'lemma:MOPS'
-1.788559 Med      b'word[:2]:MO'
-1.788559 Med      b'word:MOPS'
-1.766167 Strain   b'+1:lemma:substr'
-1.766167 Strain   b'+1:word:substr'
-1.752330 O        b'word[:2]:Cr'
-1.752330 O        b'word:Cra'
-1.749824 O        b'+1:postag:NNP'
-1.679832 Gtype    b'-1:postag:VBG'
-1.660773 Air      b'-1:lemma:co2'
-1.660773 Air      b'-1:word:CO2'
-1.660308 Supp     b'+1:lemma:\xc2\xb5m'
-1.660308 Supp     b'+1:word:\xc2\xb5M'
-1.651105 Air      b'+1:postag:IN'
-1.650444 O        b'word[:1]:E'
-1.641207 O        b'lemma:at'
-1.630939 Supp     b'word[:1]:1'
-1.629832 Gtype    b'lemma:flag-tag'
-1.629832 Gtype    b'-1:lemma:c-terminal'
-1.629832 Gtype    b'word:Flag-tag'
-1.629832 Gtype    b'-1:word:C-terminal'
-1.622707 Gtype    b'-1:lemma:\xe2\x88\x86'
-1.622707 Gtype    b'-1:word:\xe2\x88\x86'
-1.612203 Gtype    b'word[:2]:de'
-1.564079 Supp     b'lemma:nh4cl'
-1.564079 Supp     b'word[:2]:NH'
-1.561438 OD       b'+1:lemma:stationary'
-1.561438 OD       b'+1:word:stationary'
-1.553871 Technique b'word[:1]:C'
-1.517787 Supp     b'+1:lemma:1'
-1.517787 Supp     b'+1:word:1'
-1.515416 Supp     b'lemma:pq'
-1.515416 Supp     b'word[:2]:PQ'
-1.515416 Supp     b'word:PQ'
-1.510927 O        b'word[:2]:Pu'
-1.483322 Vess     b'lemma:flask'
-1.483322 Vess     b'-1:lemma:warm'
-1.483322 Vess     b'word[:2]:fl'
-1.483322 Vess     b'word:flask'
-1.483322 Vess     b'-1:word:warmed'
-1.475753 Technique b'symb'
-1.469180 O        b'word[:1]:T'
-1.460811 Gversion b'lemma:asm584v2'
-1.460811 Gversion b'word[:2]:AS'
-1.460811 Gversion b'word:ASM584v2'
-1.446236 Anti     b'+1:lemma:antibody'
-1.446236 Anti     b'+1:word:antibody'
-1.444397 Air      b'word[:1]:a'
-1.443964 Gtype    b'word[:1]:w'
-1.416989 Gtype    b'hGreek'
-1.397052 Substrain b'lemma:mg1655'
-1.397052 Substrain b'word[:2]:MG'
-1.397052 Substrain b'word:MG1655'
-1.394402 O        b'lemma:\xcf\x8332'
-1.394402 O        b'word[:1]:\xcf\x83'
-1.394402 O        b'word[:2]:\xcf\x833'
-1.394402 O        b'word:\xcf\x8332'
-1.377208 O        b'word[:1]:R'
-1.375050 Med      b'+1:lemma:0.4'
-1.375050 Med      b'+1:word:0.4'
-1.364759 O        b'lemma:Custom'
-1.364759 O        b'word:Custom'
-1.360005 O        b'word[:2]:fo'
-1.350754 Supp     b'lemma:rifampicin'
-1.350754 Supp     b'word:rifampicin'
-1.344579 Strain   b'word[:1]:K'
-1.343710 Supp     b'word[:2]:ri'
-1.340304 pH       b'lemma:ph5'
-1.340304 pH       b'+1:lemma:.5'
-1.340304 pH       b'word:pH5'
-1.340304 pH       b'+1:word:.5'
-1.337816 Gtype    b'lemma:nsrr'
-1.337816 Gtype    b'word[:2]:Ns'
-1.337816 Gtype    b'word:NsrR'
-1.326904 Strain   b'lemma:k-12'
-1.326904 Strain   b'word[:2]:K-'
-1.326904 Strain   b'word:K-12'
-1.314361 Supp     b'+1:lemma:2'
-1.314361 Supp     b'+1:word:2'
-1.308459 Med      b'word[:2]:LB'
-1.308459 Med      b'word:LB'
-1.298260 Gtype    b'symb'
-1.294311 O        b'+1:lemma:pq'
-1.294311 O        b'+1:word:PQ'
-1.294271 Substrain b'word[:1]:M'
-1.290578 Gtype    b'-1:postag:VBP'
-1.283956 Gversion b'word[:2]:Ch'
-1.268071 Gtype    b'postag:JJ'
-1.261557 O        b'-1:lemma:0.3-0.35'
-1.261557 O        b'-1:word:0.3-0.35'
-1.259366 O        b'lemma:b'
-1.259366 O        b'word:B'
-1.257660 O        b'-1:lemma:glucose'
-1.257660 O        b'-1:word:glucose'
-1.256368 O        b'+1:lemma:nacl'
-1.256368 O        b'+1:word:NaCl'
-1.250169 O        b'lemma:rpob'
-1.250169 O        b'word:RpoB'
-1.248890 O        b'word:Lrp'
-1.243321 Med      b'+1:lemma:g/l'
-1.243321 Med      b'+1:word:g/L'
-1.239040 pH       b'+1:postag:CD'
-1.232026 O        b'lemma:delta'
-1.232026 O        b'word:delta'
-1.230236 O        b'word[:1]:H'
-
-
-Top negative:
--0.068713 Med      b'-1:postag:CD'
--0.070898 pH       b'isLower'
--0.071980 O        b'lemma:dpd'
--0.071980 O        b'word[:2]:DP'
--0.071980 O        b'word:DPD'
--0.072232 O        b'-1:lemma:of'
--0.072232 O        b'-1:word:of'
--0.075191 O        b'-1:lemma:o2'
--0.075191 O        b'-1:word:O2'
--0.078769 Phase    b'+1:postag:NN'
--0.079557 Supp     b'-1:postag:VBG'
--0.079633 Air      b'-1:postag:VBN'
--0.083786 Air      b'postag:CC'
--0.087096 O        b'word[:2]:OD'
--0.093025 Supp     b'postag:CD'
--0.093410 O        b'word[:2]:20'
--0.097736 O        b'+1:lemma:arginine'
--0.099182 O        b'word[:1]:l'
--0.103765 Temp     b'postag:NN'
--0.104490 O        b'-1:postag:-LRB-'
--0.105330 O        b'+1:lemma:fecl2'
--0.105330 O        b'+1:word:FeCl2'
--0.105938 Air      b'-1:postag:CC'
--0.107646 O        b'-1:word:OmpR'
--0.109102 O        b'+1:lemma:\xc2\xb0c'
--0.109102 O        b'+1:word:\xc2\xb0C'
--0.112420 Air      b'postag:-RRB-'
--0.112420 Air      b'word[:2]:-R'
--0.117390 Air      b'isLower'
--0.117817 O        b'-1:lemma:IP'
--0.117817 O        b'-1:word:IP'
--0.119059 Anti     b'+1:lemma:anti-fur'
--0.119059 Anti     b'+1:word:anti-Fur'
--0.120171 O        b'word[:1]:g'
--0.122244 Technique b'isNumber'
--0.123373 O        b'lemma:of'
--0.123373 O        b'word[:2]:of'
--0.123373 O        b'word:of'
--0.125903 O        b'+1:postag:IN'
--0.127562 O        b'+1:lemma:c'
--0.128049 OD       b'postag:CD'
--0.128910 Gtype    b'postag:NNP'
--0.131123 O        b'lemma:anaerobically'
--0.131123 O        b'word:anaerobically'
--0.133893 Supp     b'word[:2]:mi'
--0.136181 O        b'-1:word:the'
--0.136609 O        b'-1:lemma:od600'
--0.136609 O        b'-1:word:OD600'
--0.137723 O        b'+1:lemma:+'
--0.137723 O        b'+1:word:+'
--0.138435 O        b'word[:1]:F'
--0.140881 O        b'word[:2]:0.'
--0.141470 Air      b'symb'
--0.141558 O        b'word[:1]:p'
--0.142135 O        b'lemma:150'
--0.142135 O        b'+1:lemma:mg/ml'
--0.142135 O        b'word[:2]:15'
--0.142135 O        b'word:150'
--0.142135 O        b'+1:word:mg/mL'
--0.143733 Phase    b'-1:word:at'
--0.143958 O        b'-1:lemma:iptg'
--0.143958 O        b'-1:word:IPTG'
--0.145720 Phase    b'-1:lemma:at'
--0.148058 OD       b'+1:lemma:~'
--0.148058 OD       b'+1:word:~'
--0.154564 Anti     b'symb'
--0.168424 O        b'+1:lemma:-rrb-'
--0.168424 O        b'+1:word:-RRB-'
--0.171070 OD       b'+1:postag:CD'
--0.178172 Air      b'-1:lemma:or'
--0.178172 Air      b'-1:word:or'
--0.183332 O        b'-1:postag:VBN'
--0.185846 O        b'lemma:20'
--0.185846 O        b'word:20'
--0.187116 O        b'-1:postag:IN'
--0.187838 Gtype    b'-1:lemma:,'
--0.187838 Gtype    b'-1:postag:,'
--0.187838 Gtype    b'-1:word:,'
--0.197654 OD       b'lemma:~'
--0.197654 OD       b'word[:1]:~'
--0.197654 OD       b'word:~'
--0.209004 O        b'lemma:phase'
--0.209004 O        b'word:phase'
--0.232938 O        b'word[:2]:mg'
--0.241910 O        b'lemma:37'
--0.241910 O        b'word[:2]:37'
--0.241910 O        b'word:37'
--0.256827 O        b'+1:lemma:.'
--0.256827 O        b'+1:postag:.'
--0.256827 O        b'+1:word:.'
--0.258887 O        b'+1:postag:-RRB-'
--0.260688 O        b'word[:1]:K'
--0.271025 Temp     b'hGreek'
--0.272963 O        b'+1:lemma:cell'
--0.279619 O        b'-1:lemma:rpob'
--0.279619 O        b'-1:word:RpoB'
--0.282042 O        b'lemma:2h'
--0.282042 O        b'-1:lemma:additional'
--0.282042 O        b'word[:2]:2h'
--0.282042 O        b'word:2h'
--0.282042 O        b'-1:word:additional'
--0.307901 O        b'word[:1]:m'
--0.310789 O        b'+1:word:cells'
--0.312898 Technique b'isLower'
--0.323122 Supp     b'+1:postag:VBN'
--0.336111 Gtype    b'lemma:delta'
--0.336111 Gtype    b'word:delta'
--0.338083 O        b'-1:lemma:37'
--0.338083 O        b'-1:word:37'
--0.363134 O        b'word[:1]:N'
--0.365622 Supp     b'isUpper'
--0.371038 Temp     b'+1:lemma:to'
--0.371038 Temp     b'+1:postag:TO'
--0.371038 Temp     b'+1:word:to'
--0.375663 O        b'lemma:methanol'
--0.375663 O        b'word:methanol'
--0.386821 O        b'+1:word:C'
--0.390549 O        b'word[:2]:Fe'
--0.398822 O        b'+1:postag:NNS'
--0.400605 O        b'+1:lemma:hour'
--0.402617 OD       b'postag:IN'
--0.405062 Med      b'+1:postag:NN'
--0.406038 O        b'-1:lemma:nsrr'
--0.406038 O        b'-1:word:NsrR'
--0.414701 O        b'-1:lemma:ompr'
--0.416003 Gtype    b'isNumber'
--0.429137 O        b'word[:2]:gl'
--0.433599 O        b'-1:lemma:grow'
--0.446189 Supp     b'word[:2]:an'
--0.449818 Temp     b'isLower'
--0.453449 Supp     b'-1:lemma:%'
--0.453449 Supp     b'-1:word:%'
--0.479179 Med      b'-1:postag:IN'
--0.488851 O        b'word[:2]:ri'
--0.490659 O        b'word[:2]:me'
--0.500177 Med      b'-1:postag:NN'
--0.509290 O        b'word[:2]:ce'
--0.522634 O        b'postag:VBP'
--0.532399 Med      b'+1:postag:IN'
--0.539071 O        b'+1:lemma:supplement'
--0.539071 O        b'+1:word:supplemented'
--0.539739 O        b'lemma:rifampicin'
--0.539739 O        b'word:rifampicin'
--0.552871 O        b'+1:lemma:g/l'
--0.552871 O        b'+1:word:g/L'
--0.560634 Agit     b'hUpper'
--0.560634 Agit     b'hLower'
--0.562608 O        b'-1:lemma:dissolve'
--0.562608 O        b'+1:lemma:methanol'
--0.562608 O        b'-1:word:dissolved'
--0.562608 O        b'+1:word:methanol'
--0.619514 Air      b'-1:postag:JJ'
--0.625491 Phase    b'postag:JJ'
--0.625812 O        b'word[:1]:d'
--0.649550 Supp     b'word[:1]:C'
--0.703665 Phase    b'hUpper'
--0.703665 Phase    b'hLower'
--0.716840 O        b'+1:lemma:at'
--0.716840 O        b'+1:word:at'
--0.763556 Phase    b'-1:postag:JJ'
--0.787727 O        b'lemma:mid-log'
--0.787727 O        b'word:mid-log'
--0.797424 Anti     b'postag:NNP'
--0.811067 O        b'lemma:wt'
--0.815501 O        b'-1:postag:VBG'
--0.817040 O        b'word[:1]:0'
--0.819358 O        b'postag:RB'
--0.827170 O        b'-1:lemma:co2'
--0.827170 O        b'-1:word:CO2'
--0.854780 OD       b'isNumber'
--0.880817 O        b'+1:postag:VBG'
--0.904661 OD       b'+1:postag:NN'
--0.945300 O        b'+1:lemma:in'
--0.945300 O        b'+1:word:in'
--0.951737 O        b'+1:lemma:2'
--0.951737 O        b'+1:word:2'
--0.992231 Air      b'postag:NN'
--1.005360 O        b'word:cells'
--1.012629 O        b'word[:1]:\xce\x94'
--1.013888 Med      b'symb'
--1.045981 O        b'+1:lemma:1'
--1.045981 O        b'+1:word:1'
--1.053560 O        b'-1:lemma:2'
--1.053560 O        b'-1:word:2'
--1.102339 Gtype    b'word[:1]:C'
--1.167989 Gversion b'isLower'
--1.221456 Gtype    b'isUpper'
--1.317978 O        b'-1:postag::'
--1.332231 Supp     b'symb'
--1.384191 Supp     b'postag:JJ'
--1.468390 O        b'word[:1]:P'
--1.498430 O        b'word[:2]:Ch'
--1.650068 Technique b'postag:NN'
--1.692161 O        b'+1:word:hours'
--2.120503 O        b'-1:lemma::'
--2.120503 O        b'-1:word::'
--2.146800 Supp     b'hGreek'
--2.229078 O        b'-1:lemma:_'
--2.229078 O        b'-1:word:_'
--3.855247 OD       b'word[:1]:-'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.08401658210095098, 'c2': 0.01884625069711085}
-best CV score:0.7971532567919597
-model size: 0.08M
-
-Flat F1: 0.7859098898539817
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.803     0.860     0.831        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.863     0.774     0.816       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.865     0.662     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.865     0.740     0.786       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.618083
-OD     -> OD      5.963729
-Anti   -> Anti    5.607797
-Temp   -> Temp    5.545821
-Med    -> Med     5.260331
-Air    -> Air     4.806253
-Gversion -> Gversion 4.687833
-O      -> O       4.630219
-Phase  -> Phase   4.602318
-Gtype  -> Gtype   4.461602
-Supp   -> Supp    4.065962
-Technique -> Technique 3.763491
-pH     -> pH      2.471906
-O      -> Supp    1.921146
-Substrain -> Gtype   1.817014
-Gtype  -> Supp    1.706501
-O      -> Gtype   1.385338
-O      -> Technique 1.373124
-Air    -> O       1.263736
-Technique -> Air     0.981438
-O      -> Temp    0.947656
-O      -> Anti    0.881240
-O      -> Gversion 0.510967
-Gtype  -> pH      0.475746
-Med    -> O       0.383498
-Gtype  -> Air     0.370305
-Phase  -> O       0.334011
-O      -> Strain  0.302672
-OD     -> Phase   0.207286
-Temp   -> O       0.148085
-O      -> Med     0.134972
-O      -> pH      0.068234
-O      -> Phase   0.059435
-Supp   -> O       0.022057
-O      -> Vess    0.017629
-Phase  -> Air     0.013801
-Supp   -> Phase   -0.000010
-Phase  -> Technique -0.000094
-O      -> OD      -0.000142
-Gversion -> Air     -0.000827
-Air    -> Phase   -0.032287
-Anti   -> Gtype   -0.056186
-Supp   -> Temp    -0.140218
-Technique -> O       -0.163065
-Med    -> Air     -0.167050
-Supp   -> Anti    -0.172664
-Anti   -> OD      -0.203224
-Gtype  -> O       -0.264978
-Supp   -> Gversion -0.273317
-Temp   -> Med     -0.300017
-
-
-Top unlikely transitions:
-Med    -> O       0.383498
-Gtype  -> Air     0.370305
-Phase  -> O       0.334011
-O      -> Strain  0.302672
-OD     -> Phase   0.207286
-Temp   -> O       0.148085
-O      -> Med     0.134972
-O      -> pH      0.068234
-O      -> Phase   0.059435
-Supp   -> O       0.022057
-O      -> Vess    0.017629
-Phase  -> Air     0.013801
-Supp   -> Phase   -0.000010
-Phase  -> Technique -0.000094
-O      -> OD      -0.000142
-Gversion -> Air     -0.000827
-Air    -> Phase   -0.032287
-Anti   -> Gtype   -0.056186
-Supp   -> Temp    -0.140218
-Technique -> O       -0.163065
-Med    -> Air     -0.167050
-Supp   -> Anti    -0.172664
-Anti   -> OD      -0.203224
-Gtype  -> O       -0.264978
-Supp   -> Gversion -0.273317
-Temp   -> Med     -0.300017
-Gtype  -> Gversion -0.322045
-Supp   -> Technique -0.339816
-Air    -> Med     -0.378155
-Supp   -> OD      -0.429402
-Supp   -> Air     -0.446692
-OD     -> Gtype   -0.457057
-Supp   -> Gtype   -0.465532
-Air    -> Supp    -0.485627
-OD     -> Med     -0.597226
-Gtype  -> Anti    -0.605601
-OD     -> Air     -0.642908
-Agit   -> O       -0.654857
-Air    -> OD      -0.667036
-Gtype  -> Med     -0.685203
-OD     -> O       -0.817999
-Technique -> OD      -0.835801
-O      -> Air     -0.855078
-Technique -> pH      -0.981502
-Technique -> Gtype   -0.984976
-Supp   -> Med     -1.097285
-Substrain -> O       -1.099208
-Gtype  -> OD      -1.114446
-Med    -> Supp    -1.496574
-Phase  -> OD      -1.695254
-
-
-Top positive:
-8.123739 O        b'lemma:_'
-6.810504 Phase    b'lemma:stationary'
-6.641654 O        b'lemma:1'
-6.403325 Supp     b'lemma:Iron'
-6.186494 Air      b'lemma:anaerobic'
-6.121179 Technique b'lemma:ChIP-exo'
-6.115918 Strain   b'lemma:k-12'
-6.089855 Air      b'lemma:aerobic'
-5.817542 Phase    b'lemma:mid-log'
-5.738043 O        b'lemma:rpob'
-5.580039 O        b'lemma:2'
-5.561019 Technique b'lemma:chipseq'
-5.375911 Air      b'-1:lemma:ChIP-Seq'
-5.253286 Supp     b'lemma:pq'
-5.023770 O        b'lemma:3'
-4.993878 Substrain b'lemma:mg1655'
-4.982089 O        b'-1:lemma:tag'
-4.964173 O        b'postag:IN'
-4.938595 Gversion b'lemma:asm584v2'
-4.926165 Supp     b'lemma:nitrate'
-4.785605 Gtype    b'lemma:\xce\xb4cra'
-4.768006 Supp     b'lemma:nh4cl'
-4.718684 O        b'lemma:rep1'
-4.670907 Gtype    b'lemma:flag-tag'
-4.670907 Gtype    b'-1:lemma:c-terminal'
-4.606839 Supp     b'lemma:glucose'
-4.553992 O        b'lemma:Cra'
-4.544271 Supp     b'+1:lemma:\xc2\xb5m'
-4.491246 Gtype    b'lemma:arca8myc'
-4.483151 O        b'lemma:rep2'
-4.433079 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.339017 Med      b'lemma:MOPS'
-4.311202 Air      b'lemma:Aerobic'
-4.296372 O        b'lemma:rep3'
-4.261737 O        b'lemma:\xcf\x8332'
-4.226976 O        b'lemma:Custom'
-4.195337 O        b'lemma:b'
-4.188524 Med      b'lemma:LB'
-4.172139 Supp     b'lemma:dpd'
-4.089549 Med      b'lemma:lb'
-4.079376 O        b'-1:lemma:ChIP-exo'
-4.036897 Supp     b'lemma:acetate'
-4.018214 Gtype    b'lemma:wt'
-4.015668 Technique b'lemma:rna-seq'
-3.920242 Gtype    b'lemma:delta-arca'
-3.910529 Gversion b'lemma:nc'
-3.899136 O        b'lemma:a'
-3.895888 Gtype    b'+1:lemma:type'
-3.885009 O        b'postag::'
-3.855692 Gtype    b'lemma:type'
-3.834701 Supp     b'lemma:no3'
-3.819349 OD       b'lemma:od600'
-3.817994 Supp     b'lemma:Fe'
-3.765429 Anti     b'lemma:none'
-3.748597 Gtype    b'lemma:fnr8myc'
-3.746700 Technique b'lemma:chip-seq'
-3.731504 O        b'-1:lemma:Aerobic'
-3.682782 O        b'lemma:.'
-3.682782 O        b'postag:.'
-3.604002 OD       b'lemma:od450'
-3.566627 Technique b'lemma:ChIP-Seq'
-3.529137 O        b'lemma:CEL'
-3.522238 Supp     b'lemma:fructose'
-3.519152 Anti     b'lemma:seqa'
-3.519022 O        b'lemma:-'
-3.511099 Technique b'lemma:rnaseq'
-3.493325 Supp     b'+1:lemma:Deficient'
-3.455879 Gtype    b'lemma:\xe2\x88\x86'
-3.419995 Air      b'postag:RB'
-3.414096 Med      b'+1:lemma:0.4'
-3.352804 O        b'+1:lemma:od600'
-3.347175 Gtype    b'lemma:delta-fnr'
-3.308709 Gversion b'lemma:chip-seq'
-3.285099 Supp     b'+1:lemma:1'
-3.229589 Gtype    b'lemma:\xce\xb4fur'
-3.161898 Supp     b'lemma:arginine'
-3.139896 Gtype    b'lemma:nsrr'
-3.136958 Vess     b'lemma:flask'
-3.136958 Vess     b'-1:lemma:warm'
-3.129325 Med      b'lemma:m63'
-3.128400 Gtype    b'+1:lemma:with'
-3.125627 pH       b'lemma:ph5'
-3.125627 pH       b'+1:lemma:.5'
-3.125247 Supp     b'lemma:rifampicin'
-3.103906 O        b'+1:postag:RB'
-3.094719 Gversion b'lemma:000913'
-3.087516 O        b'-1:lemma:anaerobic'
-3.071486 Gtype    b'lemma:wild-type'
-3.045037 O        b'-1:lemma:0.3-0.35'
-3.040572 Supp     b'+1:lemma:2'
-3.014672 O        b'postag:VBN'
-3.012836 Supp     b'-1:lemma:Cra'
-3.011017 Gversion b'-1:lemma:nc'
-2.965942 O        b'-1:lemma:glucose'
-2.965565 Supp     b'+1:lemma:hour'
-2.961946 Anti     b'lemma:anti-myc'
-2.924402 O        b'-1:lemma:lb'
-2.922240 Strain   b'+1:lemma:substr'
-2.919534 O        b'lemma:affyexp'
-2.903005 O        b'lemma:for'
-2.879508 Technique b'-1:lemma:IP'
-2.872556 O        b'lemma:with'
-2.842720 O        b'-1:lemma:type'
-2.828833 Gversion b'lemma:u00096'
-2.828833 Gversion b'+1:lemma:.2'
-2.821257 Anti     b'+1:lemma:antibody'
-2.802148 Gversion b'lemma:.2'
-2.802148 Gversion b'-1:lemma:u00096'
-2.791973 Gtype    b'-1:lemma:ptac'
-2.785654 O        b'lemma:chip'
-2.777328 O        b'lemma:oxyr'
-2.767449 O        b'lemma:s'
-2.762984 Med      b'+1:lemma:2.0'
-2.701150 Temp     b'lemma:\xc2\xb0c'
-2.700498 Temp     b'-1:lemma:43'
-2.698132 Gtype    b'lemma:\xce\xb4soxs'
-2.696529 OD       b'+1:lemma:stationary'
-2.695658 O        b'lemma:or'
-2.694898 O        b'postag:CC'
-2.692159 O        b'-1:lemma:stpa'
-2.668311 O        b'lemma:ompr'
-2.643579 Supp     b'lemma:nacl'
-2.630322 O        b'lemma:chip-arca'
-2.625439 Supp     b'+1:lemma:_'
-2.617277 Med      b'-1:lemma:ml'
-2.616109 Gtype    b'lemma:\xce\xb4ompr'
-2.581776 Temp     b'lemma:43'
-2.528601 Temp     b'-1:lemma:sample'
-2.520928 O        b'lemma:Lrp'
-2.506536 Gtype    b'lemma:WT'
-2.496575 Gtype    b'lemma:ptac'
-2.489191 O        b'+1:lemma:chip-seq'
-2.488069 O        b'+1:lemma:o.d.'
-2.478372 Technique b'-1:lemma:chip-exo'
-2.471197 Gtype    b'lemma:pk4854'
-2.470284 Gtype    b'+1:lemma:ph5'
-2.425178 Temp     b'-1:lemma:\xcf\x8332'
-2.394241 Gtype    b'+1:lemma:pq'
-2.390337 Supp     b'-1:lemma:+'
-2.379949 O        b'-1:lemma:l1'
-2.373863 Gtype    b'lemma:deltaseqa'
-2.373863 Gtype    b'-1:lemma:old'
-2.362861 O        b'+1:lemma:pq'
-2.344951 pH       b'lemma:.5'
-2.344951 pH       b'-1:lemma:ph5'
-2.343944 O        b'lemma:purr'
-2.340182 O        b'postag:DT'
-2.330847 Med      b'+1:lemma:minimal'
-2.321541 Supp     b'lemma:Leu'
-2.318395 O        b'lemma:argr'
-2.311924 Technique b'+1:lemma:chip-exo'
-2.309581 Gtype    b'+1:lemma:flagtag'
-2.296616 Technique b'-1:lemma:input'
-2.290860 Temp     b'-1:lemma:37'
-2.268695 pH       b'+1:postag:CD'
-2.260677 Air      b'-1:lemma:-'
-2.258589 O        b'lemma:Fur'
-2.242051 Gtype    b'-1:lemma:rpob'
-2.232930 Substrain b'+1:lemma:phtpg'
-2.209727 O        b'+1:lemma:mid-log'
-2.203454 O        b'+1:lemma:sparging'
-2.197358 Anti     b'lemma:anti-rpos'
-2.189715 Temp     b'lemma:37'
-2.177841 Med      b'lemma:glucose'
-2.177663 Supp     b'lemma:iptg'
-2.156759 Phase    b'+1:lemma:for'
-2.146515 Gtype    b'-1:lemma:nsrr'
-2.145729 O        b'lemma:soxs'
-2.145729 O        b'lemma:soxr'
-2.116627 Med      b'lemma:L'
-2.116627 Med      b'+1:lemma:broth'
-2.108116 Gtype    b'+1:lemma:_'
-2.105252 O        b'+1:lemma:anti-fur'
-2.101969 O        b'-1:lemma:dpd'
-2.101790 O        b'postag:SYM'
-2.101328 O        b'postag:VBG'
-2.099930 O        b'-1:lemma:\xc2\xb0c'
-2.098829 Air      b'lemma:anaerobically'
-2.098434 Supp     b'-1:lemma:\xc2\xb5m'
-2.096819 Gtype    b'+1:lemma:aerobic'
-2.094813 Supp     b'lemma:Adenine'
-2.088323 O        b'lemma:2-3'
-2.075369 O        b'lemma:at'
-2.068102 Vess     b'-1:postag:VBN'
-2.054291 O        b'-1:lemma:0.3'
-2.053277 Supp     b'lemma:20'
-2.013209 Air      b'lemma:Anaerobic'
-2.012548 Air      b'lemma:anerobically'
-1.999409 Gtype    b'lemma:\xce\xb4soxr'
-1.981344 O        b'+1:postag:NNP'
-1.973476 Med      b'postag:NNP'
-1.946249 Gtype    b'lemma:\xce\xb4oxyr'
-1.946126 Phase    b'-1:lemma:until'
-1.942530 Supp     b'-1:lemma:with'
-1.936299 O        b'lemma:genotype/variation'
-1.930729 Temp     b'-1:lemma:30'
-1.927186 O        b'lemma:chip-fnr'
-1.924213 Gtype    b'-1:postag:VBG'
-1.924060 Temp     b'+1:lemma:\xc2\xb0c'
-1.915381 Technique b'-1:lemma:_'
-
-
-Top negative:
-0.000026 O        b'-1:postag:-RRB-'
-0.000013 Anti     b'lemma:polyclonal'
-0.000013 Gtype    b'+1:lemma:lacx74/ptg2'
-0.000013 O        b'lemma:ga'
-0.000000 O        b'lemma:Deficient'
--0.000007 O        b'+1:lemma:pahse'
--0.000008 O        b'-1:lemma:chip-exo'
--0.000010 Supp     b'+1:lemma:-rrb-'
--0.000010 Supp     b'+1:postag:-RRB-'
--0.000013 O        b'+1:lemma:delta'
--0.000025 O        b'lemma:pahse'
--0.000026 Gversion b'-1:postag:NN'
--0.000058 O        b'+1:lemma:phase'
--0.000081 OD       b'postag:NNS'
--0.000302 O        b'-1:lemma:delta'
--0.000325 O        b'+1:lemma:dissolve'
--0.000441 O        b'-1:postag:DT'
--0.001613 O        b'lemma:10'
--0.002653 Med      b'-1:postag:CD'
--0.007301 OD       b'+1:postag:NNS'
--0.011796 O        b'lemma:minimal'
--0.012879 Air      b'postag:CC'
--0.015192 Supp     b'+1:lemma:glucose'
--0.015373 O        b'lemma:mg1655'
--0.015533 Med      b'postag:JJ'
--0.015705 OD       b'+1:postag:CD'
--0.016291 O        b'+1:lemma:0.4'
--0.019297 O        b'+1:lemma:-lcb-'
--0.019455 OD       b'+1:lemma:-lrb-'
--0.022330 O        b'+1:lemma:antibody'
--0.024436 O        b'+1:lemma:grow'
--0.025452 O        b'+1:lemma:~'
--0.025572 OD       b'+1:lemma:0.4'
--0.026441 Gtype    b'+1:postag:NNS'
--0.030832 O        b'-1:lemma:the'
--0.033857 O        b'lemma:aerobically'
--0.036355 O        b'+1:lemma:mm'
--0.037359 Gtype    b'+1:lemma:2'
--0.037661 O        b'-1:postag:IN'
--0.040653 O        b'lemma:medium'
--0.041962 O        b'lemma:glucose'
--0.042266 O        b'+1:lemma:Aerobic'
--0.043089 Phase    b'+1:postag:NN'
--0.044930 O        b'+1:lemma:95'
--0.055017 Gtype    b'-1:postag:CD'
--0.055240 O        b'lemma:o2'
--0.060245 Gtype    b'+1:lemma:cra'
--0.060637 O        b'lemma:nacl'
--0.061555 Phase    b'-1:postag:NN'
--0.071216 O        b'-1:postag:VBN'
--0.073581 O        b'-1:lemma:mm'
--0.078544 Med      b'postag:CD'
--0.090713 Supp     b'-1:postag:NNP'
--0.098591 O        b'lemma:\xc2\xb0c'
--0.102077 Air      b'-1:postag:CC'
--0.102114 O        b'lemma:m63'
--0.105468 Temp     b'-1:lemma:\xc2\xb0c'
--0.105895 Supp     b'lemma:and'
--0.111348 Air      b'-1:lemma:or'
--0.115338 O        b'+1:lemma:_'
--0.128807 Med      b'-1:postag:NN'
--0.128969 Gtype    b'lemma:delta'
--0.131150 O        b'+1:lemma:or'
--0.132570 O        b'+1:lemma:minimal'
--0.135127 O        b'-1:lemma:30'
--0.135964 O        b'-1:lemma:e.'
--0.140354 Med      b'+1:postag:NN'
--0.145665 O        b'-1:lemma:-lrb-'
--0.155987 O        b'lemma:n2'
--0.156942 O        b'-1:lemma:of'
--0.159639 Gversion b'+1:postag:NN'
--0.161027 O        b'-1:lemma:\xe2\x88\x86'
--0.166686 O        b'lemma:e.'
--0.169994 OD       b'postag:JJ'
--0.176847 Med      b'+1:postag:NNS'
--0.176866 Supp     b'-1:postag:VBG'
--0.183758 O        b'lemma:grow'
--0.188546 O        b'-1:lemma:n2'
--0.188833 O        b'-1:lemma:g/l'
--0.190322 OD       b'+1:lemma:and'
--0.195342 OD       b'+1:postag:CC'
--0.202144 O        b'-1:postag:-LRB-'
--0.205644 O        b'lemma:co2'
--0.210227 Supp     b'+1:postag:IN'
--0.213468 O        b'-1:lemma:0.1'
--0.214864 O        b'lemma:phase'
--0.215815 Supp     b'+1:postag:VBN'
--0.219355 Gtype    b'postag:CD'
--0.239606 Gtype    b'-1:postag:SYM'
--0.243275 O        b'-1:lemma:from'
--0.244995 Supp     b'postag:CC'
--0.246314 Temp     b'postag:JJ'
--0.247956 O        b'+1:lemma:.'
--0.247956 O        b'+1:postag:.'
--0.249604 O        b'+1:lemma:5'
--0.250831 Gtype    b'-1:postag:DT'
--0.253469 O        b'+1:lemma:-rrb-'
--0.254981 O        b'+1:lemma:until'
--0.256496 O        b'+1:lemma:shake'
--0.257679 O        b'+1:lemma:%'
--0.258132 O        b'lemma:lb'
--0.269974 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.281159 O        b'-1:lemma:iptg'
--0.288450 Technique b'-1:lemma::'
--0.293073 O        b'+1:postag:IN'
--0.295868 Phase    b'-1:lemma:at'
--0.299182 O        b'-1:lemma:um'
--0.299182 O        b'+1:lemma:paraquat'
--0.314439 O        b'lemma:k-12'
--0.325000 O        b'+1:lemma:rep1'
--0.330417 Med      b'-1:postag:IN'
--0.341066 O        b'+1:lemma:c'
--0.359756 O        b'lemma:purify'
--0.360517 pH       b'postag:NN'
--0.360830 O        b'-1:lemma:1'
--0.366396 O        b'lemma:30'
--0.368824 Med      b'+1:postag:IN'
--0.371177 O        b'-1:lemma:rifampicin'
--0.372454 O        b'-1:lemma:o2'
--0.379912 Supp     b'+1:lemma:rifampicin'
--0.385450 O        b'-1:lemma:until'
--0.400292 Anti     b'+1:lemma:anti-fur'
--0.408694 Phase    b'-1:postag:JJ'
--0.409475 O        b'+1:postag:-RRB-'
--0.425033 Anti     b'+1:postag:JJ'
--0.431972 O        b'-1:lemma:mid-log'
--0.454284 O        b'+1:lemma:\xc2\xb0c'
--0.456154 O        b'-1:lemma:cra'
--0.468923 O        b'+1:lemma:300'
--0.476521 OD       b'+1:postag:NN'
--0.486601 O        b'+1:lemma:arginine'
--0.497598 O        b'-1:lemma:od600'
--0.500312 Temp     b'postag:NN'
--0.501307 O        b'lemma:\xe2\x88\x86'
--0.527078 O        b'-1:lemma:grow'
--0.535232 O        b'lemma:media'
--0.560336 Temp     b'+1:lemma:to'
--0.560336 Temp     b'+1:postag:TO'
--0.580574 Technique b'-1:postag::'
--0.586372 O        b'lemma:150'
--0.586372 O        b'+1:lemma:mg/ml'
--0.599232 O        b'-1:lemma:ml'
--0.631824 O        b'lemma:od600'
--0.642215 O        b'+1:lemma:cell'
--0.656656 O        b'-1:lemma:0.2'
--0.667528 O        b'lemma:dissolve'
--0.696155 O        b'+1:lemma:0.3'
--0.704278 O        b'+1:postag:NNS'
--0.722852 O        b'lemma:of'
--0.794409 OD       b'lemma:-lrb-'
--0.798043 O        b'lemma:mid-log'
--0.800225 Air      b'-1:postag:JJ'
--0.807147 O        b'+1:lemma:fecl2'
--0.846837 O        b'lemma:anaerobically'
--0.848073 O        b'-1:postag:VBG'
--0.863647 O        b'lemma:\xce\xb4fur'
--0.869227 O        b'lemma:anaerobic'
--0.880191 O        b'lemma:20'
--0.903243 Supp     b'-1:lemma:%'
--0.911617 OD       b'postag:-LRB-'
--0.920995 O        b'lemma:0.3'
--0.922420 Supp     b'+1:lemma:acetate'
--0.960047 O        b'-1:lemma:~'
--0.971637 O        b'-1:lemma:sample'
--0.997239 O        b'-1:lemma:dissolve'
--0.997239 O        b'+1:lemma:methanol'
--1.021077 O        b'-1:lemma:co2'
--1.029818 O        b'-1:postag::'
--1.037126 O        b'+1:lemma:g/l'
--1.055847 O        b'+1:postag:VBG'
--1.065175 O        b'postag:VBP'
--1.100145 O        b'lemma:fecl2'
--1.138423 O        b'lemma:2h'
--1.138423 O        b'-1:lemma:additional'
--1.148498 Air      b'postag:NN'
--1.149326 O        b'lemma:0.1'
--1.209987 O        b'lemma:0.2'
--1.234531 O        b'+1:lemma:supplement'
--1.275261 O        b'lemma:37'
--1.368318 O        b'+1:lemma:at'
--1.399811 O        b'-1:lemma:37'
--1.426313 O        b'+1:lemma:in'
--1.457935 O        b'-1:lemma:rpob'
--1.491896 O        b'-1:lemma:ompr'
--1.501624 Air      b'+1:postag:JJ'
--1.548871 O        b'lemma:wt'
--1.574564 Phase    b'postag:JJ'
--1.596170 O        b'+1:lemma:hour'
--1.660391 O        b'-1:lemma:IP'
--1.699119 Supp     b'postag:JJ'
--1.736144 O        b'lemma:methanol'
--1.794070 O        b'-1:lemma:nsrr'
--1.798927 O        b'+1:lemma:+'
--1.799190 Anti     b'postag:NNP'
--2.092441 O        b'-1:lemma:2'
--2.113784 O        b'+1:lemma:2'
--2.209993 O        b'lemma:rifampicin'
--2.612840 O        b'+1:lemma:1'
--3.674746 O        b'-1:lemma:_'
--3.979126 O        b'-1:lemma::'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.06175888892030738, 'c2': 0.007297468450426697}
-best CV score:0.8063684219603322
-model size: 0.08M
-
-Flat F1: 0.8038632313016971
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.807     0.742     0.773        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.867     0.802     0.833       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.877     0.684     0.769       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.871     0.758     0.804       480
-
-
-Top likely transitions:
-Agit   -> Agit    7.039997
-OD     -> OD      6.131524
-Anti   -> Anti    6.088253
-Temp   -> Temp    5.782167
-Med    -> Med     5.473727
-Phase  -> Phase   5.118964
-Gversion -> Gversion 5.069590
-Air    -> Air     5.035955
-O      -> O       4.832708
-Gtype  -> Gtype   4.669937
-Supp   -> Supp    4.378479
-Technique -> Technique 3.990893
-pH     -> pH      2.569701
-Substrain -> Gtype   1.830007
-O      -> Supp    1.626801
-O      -> Gtype   1.297672
-Gtype  -> Supp    1.190661
-O      -> Technique 1.135884
-Air    -> O       0.818807
-Technique -> Air     0.814259
-O      -> Anti    0.771130
-O      -> Temp    0.647711
-O      -> Gversion 0.213529
-Med    -> O       0.130864
-Gtype  -> pH      0.110856
-Temp   -> O       0.071206
-O      -> Med     0.068395
-OD     -> Phase   0.032935
-O      -> Phase   0.005045
-O      -> Strain  0.004127
-Gtype  -> Air     0.001026
-O      -> pH      0.000010
-Med    -> Air     -0.000266
-Air    -> Phase   -0.002144
-Supp   -> Gtype   -0.028407
-Gtype  -> Phase   -0.055051
-pH     -> O       -0.067213
-Phase  -> O       -0.083281
-Supp   -> Temp    -0.086247
-O      -> Agit    -0.105739
-Anti   -> OD      -0.120656
-Supp   -> Gversion -0.132405
-Phase  -> Air     -0.135463
-Air    -> Temp    -0.140622
-OD     -> Gtype   -0.176085
-Gtype  -> Gversion -0.192477
-O      -> OD      -0.271290
-Technique -> O       -0.302420
-Supp   -> OD      -0.335241
-Temp   -> Med     -0.384357
-
-
-Top unlikely transitions:
-O      -> Gversion 0.213529
-Med    -> O       0.130864
-Gtype  -> pH      0.110856
-Temp   -> O       0.071206
-O      -> Med     0.068395
-OD     -> Phase   0.032935
-O      -> Phase   0.005045
-O      -> Strain  0.004127
-Gtype  -> Air     0.001026
-O      -> pH      0.000010
-Med    -> Air     -0.000266
-Air    -> Phase   -0.002144
-Supp   -> Gtype   -0.028407
-Gtype  -> Phase   -0.055051
-pH     -> O       -0.067213
-Phase  -> O       -0.083281
-Supp   -> Temp    -0.086247
-O      -> Agit    -0.105739
-Anti   -> OD      -0.120656
-Supp   -> Gversion -0.132405
-Phase  -> Air     -0.135463
-Air    -> Temp    -0.140622
-OD     -> Gtype   -0.176085
-Gtype  -> Gversion -0.192477
-O      -> OD      -0.271290
-Technique -> O       -0.302420
-Supp   -> OD      -0.335241
-Temp   -> Med     -0.384357
-Supp   -> Technique -0.385060
-Supp   -> O       -0.403868
-Gtype  -> Med     -0.554149
-Air    -> Med     -0.637433
-OD     -> Med     -0.669447
-Gtype  -> O       -0.714185
-Technique -> OD      -0.717082
-Technique -> Gtype   -0.718169
-Technique -> pH      -0.760896
-Air    -> OD      -0.787076
-Gtype  -> Anti    -0.790622
-OD     -> Air     -0.869139
-Agit   -> O       -0.936533
-Supp   -> Air     -0.944719
-Air    -> Supp    -0.951816
-OD     -> O       -0.966392
-Gtype  -> OD      -1.245349
-Supp   -> Med     -1.310718
-Substrain -> O       -1.335115
-O      -> Air     -1.686756
-Phase  -> OD      -2.096304
-Med    -> Supp    -2.167551
-
-
-Top positive:
-9.429627 O        b'lemma:_'
-8.878639 Phase    b'lemma:stationary'
-8.718938 Supp     b'lemma:Iron'
-7.681723 O        b'lemma:1'
-7.568503 Air      b'lemma:aerobic'
-7.528752 Technique b'lemma:ChIP-exo'
-7.490123 Air      b'lemma:anaerobic'
-6.800664 O        b'lemma:rpob'
-6.784655 Supp     b'lemma:nitrate'
-6.781496 Med      b'lemma:MOPS'
-6.698412 Strain   b'lemma:k-12'
-6.360995 Technique b'lemma:chipseq'
-6.332061 O        b'-1:lemma:tag'
-6.294441 O        b'lemma:2'
-6.134867 Supp     b'lemma:pq'
-6.056497 Gversion b'lemma:asm584v2'
-5.974776 Gtype    b'lemma:\xce\xb4cra'
-5.968446 O        b'lemma:3'
-5.959950 Air      b'-1:lemma:ChIP-Seq'
-5.787437 Gtype    b'lemma:flag-tag'
-5.787437 Gtype    b'-1:lemma:c-terminal'
-5.767411 O        b'lemma:Custom'
-5.622312 Air      b'lemma:Aerobic'
-5.534195 O        b'lemma:rep1'
-5.503124 Gtype    b'lemma:arca8myc'
-5.451254 O        b'-1:lemma:ChIP-exo'
-5.433030 Substrain b'lemma:mg1655'
-5.426412 O        b'lemma:rep2'
-5.419246 O        b'lemma:b'
-5.392492 O        b'lemma:Cra'
-5.313073 Supp     b'+1:lemma:\xc2\xb5m'
-5.205081 Med      b'lemma:LB'
-5.079806 Technique b'lemma:ChIP-Seq'
-5.049305 Supp     b'lemma:glucose'
-5.044483 OD       b'lemma:od450'
-5.039131 O        b'lemma:rep3'
-5.012495 Gtype    b'lemma:delta-arca'
-4.965809 Supp     b'lemma:nh4cl'
-4.923813 Gtype    b'lemma:type'
-4.896333 O        b'lemma:a'
-4.860082 Supp     b'lemma:Fe'
-4.840158 O        b'+1:postag:RB'
-4.836640 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.816606 Phase    b'lemma:mid-log'
-4.811283 Gtype    b'lemma:fnr8myc'
-4.790845 OD       b'+1:lemma:stationary'
-4.780811 O        b'lemma:\xcf\x8332'
-4.762091 Gtype    b'lemma:wt'
-4.756489 O        b'+1:lemma:od600'
-4.716971 Technique b'lemma:rna-seq'
-4.704242 O        b'postag:IN'
-4.655483 OD       b'lemma:od600'
-4.653380 Gversion b'lemma:nc'
-4.577875 Anti     b'lemma:none'
-4.558396 Supp     b'lemma:acetate'
-4.516720 Supp     b'lemma:rifampicin'
-4.507138 O        b'postag::'
-4.433020 Gtype    b'+1:lemma:type'
-4.356436 Gversion b'-1:lemma:nc'
-4.338051 Supp     b'-1:lemma:Cra'
-4.313945 Technique b'lemma:rnaseq'
-4.282860 Med      b'lemma:lb'
-4.266947 Anti     b'lemma:seqa'
-4.245888 Supp     b'lemma:no3'
-4.245555 O        b'-1:lemma:0.3-0.35'
-4.242062 O        b'lemma:.'
-4.242062 O        b'postag:.'
-4.224468 Gtype    b'lemma:delta-fnr'
-4.214205 Gtype    b'lemma:\xce\xb4fur'
-4.192928 O        b'-1:lemma:Aerobic'
-4.142672 Technique b'lemma:chip-seq'
-4.113542 Supp     b'lemma:dpd'
-4.085146 O        b'lemma:-'
-3.963197 Med      b'+1:lemma:0.4'
-3.958952 O        b'+1:lemma:o.d.'
-3.887023 Supp     b'lemma:fructose'
-3.878469 Supp     b'+1:lemma:hour'
-3.849287 Strain   b'+1:lemma:substr'
-3.805978 O        b'lemma:with'
-3.794001 Vess     b'lemma:flask'
-3.794001 Vess     b'-1:lemma:warm'
-3.787347 Gtype    b'lemma:nsrr'
-3.742649 O        b'-1:lemma:glucose'
-3.720278 O        b'+1:lemma:chip-seq'
-3.702007 Gtype    b'-1:lemma:ptac'
-3.662982 Supp     b'+1:lemma:1'
-3.654612 Anti     b'lemma:anti-myc'
-3.649389 Supp     b'+1:lemma:Deficient'
-3.646552 Supp     b'lemma:arginine'
-3.618594 O        b'lemma:CEL'
-3.606640 O        b'-1:lemma:0.3'
-3.599357 O        b'postag:VBN'
-3.586637 Temp     b'lemma:\xc2\xb0c'
-3.576770 Air      b'lemma:Anaerobic'
-3.574484 O        b'-1:lemma:anaerobic'
-3.573047 O        b'lemma:ompr'
-3.556429 Gtype    b'lemma:wild-type'
-3.554917 Gtype    b'-1:lemma:rpob'
-3.554502 O        b'lemma:2-3'
-3.523026 Supp     b'-1:lemma:+'
-3.503145 O        b'lemma:s'
-3.499526 Gtype    b'+1:lemma:with'
-3.489586 Gtype    b'lemma:\xe2\x88\x86'
-3.467032 O        b'-1:lemma:type'
-3.452564 Gversion b'lemma:chip-seq'
-3.446983 O        b'lemma:oxyr'
-3.437767 pH       b'lemma:ph5'
-3.437767 pH       b'+1:lemma:.5'
-3.432615 Anti     b'lemma:anti-rpos'
-3.418713 O        b'lemma:or'
-3.407689 Med      b'lemma:m63'
-3.401201 O        b'lemma:for'
-3.394419 Med      b'+1:lemma:minimal'
-3.357624 Air      b'lemma:anerobically'
-3.345050 Temp     b'-1:lemma:37'
-3.316153 Gtype    b'+1:lemma:ph5'
-3.308024 O        b'lemma:chip'
-3.305474 Gtype    b'+1:lemma:pq'
-3.303537 Temp     b'-1:lemma:sample'
-3.262181 Gtype    b'lemma:\xce\xb4ompr'
-3.232854 Gversion b'lemma:.2'
-3.232854 Gversion b'-1:lemma:u00096'
-3.227066 Gversion b'lemma:000913'
-3.204195 Phase    b'-1:lemma:until'
-3.194368 Temp     b'-1:lemma:\xcf\x8332'
-3.192675 O        b'lemma:affyexp'
-3.185554 Air      b'lemma:anaerobically'
-3.157577 Supp     b'+1:lemma:2'
-3.152351 O        b'-1:lemma:dpd'
-3.147823 Anti     b'+1:lemma:antibody'
-3.147197 Gversion b'lemma:u00096'
-3.147197 Gversion b'+1:lemma:.2'
-3.145534 Med      b'+1:lemma:2.0'
-3.144986 O        b'lemma:chip-arca'
-3.128621 O        b'-1:lemma:\xc2\xb0c'
-3.123647 Gtype    b'lemma:\xce\xb4soxs'
-3.096543 O        b'+1:lemma:mid-log'
-3.081866 Technique b'-1:lemma:IP'
-3.074036 O        b'+1:lemma:pq'
-3.055089 Gtype    b'lemma:pk4854'
-3.047512 Gtype    b'+1:lemma:flagtag'
-3.033127 Technique b'-1:lemma:chip-exo'
-3.002892 Supp     b'lemma:Leu'
-2.999013 Supp     b'lemma:Adenine'
-2.974704 O        b'-1:lemma:lb'
-2.958351 Med      b'-1:lemma:ml'
-2.936300 Air      b'+1:lemma:at'
-2.921131 Gtype    b'lemma:WT'
-2.907355 O        b'lemma:argr'
-2.906382 Technique b'+1:lemma:chip-exo'
-2.887412 OD       b'-1:lemma:~'
-2.886486 O        b'lemma:at'
-2.880821 Technique b'-1:lemma:input'
-2.874454 Temp     b'-1:lemma:43'
-2.847136 O        b'-1:lemma:stpa'
-2.828648 Gtype    b'lemma:ptac'
-2.821605 Gtype    b'lemma:deltaseqa'
-2.821605 Gtype    b'-1:lemma:old'
-2.819393 Supp     b'+1:lemma:_'
-2.815914 O        b'lemma:purr'
-2.782076 Supp     b'lemma:nacl'
-2.766819 Air      b'postag:RB'
-2.765932 O        b'lemma:soxs'
-2.765932 O        b'lemma:soxr'
-2.755196 pH       b'lemma:.5'
-2.755196 pH       b'-1:lemma:ph5'
-2.722030 O        b'-1:lemma:l1'
-2.718971 Air      b'-1:postag::'
-2.658925 O        b'lemma:culture'
-2.648763 Med      b'lemma:L'
-2.648763 Med      b'+1:lemma:broth'
-2.627139 Technique b'+1:lemma:rna-seq'
-2.619872 Med      b'lemma:glucose'
-2.619781 Supp     b'lemma:methanol'
-2.591668 O        b'lemma:Lrp'
-2.561051 O        b'lemma:one'
-2.550533 O        b'+1:lemma:43'
-2.549438 Supp     b'lemma:iptg'
-2.527814 Med      b'-1:lemma:LB'
-2.524624 Temp     b'lemma:37'
-2.515848 OD       b'-1:lemma:about'
-2.506523 Temp     b'lemma:43'
-2.504102 O        b'+1:postag:VBP'
-2.486048 Gtype    b'lemma:dfnr'
-2.463884 O        b'postag:DT'
-2.460887 O        b'postag:VBG'
-2.404015 Gtype    b'lemma:\xce\xb4soxr'
-2.395072 O        b'lemma:pt7'
-2.386555 Gtype    b'lemma:\xce\xb4oxyr'
-2.384720 O        b'+1:postag:NNP'
-2.384009 Phase    b'+1:lemma:for'
-2.375984 Gtype    b'-1:lemma:phtpg'
-2.357924 Supp     b'lemma:leucine'
-2.346880 Gtype    b'+1:lemma:aerobic'
-2.331271 pH       b'+1:postag:CD'
-2.296129 Gtype    b'-1:lemma:nsrr'
-2.286249 O        b'lemma:Fur'
-2.281780 OD       b'lemma:0.3'
-2.279276 O        b'lemma:delta'
-2.265327 Med      b'postag:NNP'
-
-
-Top negative:
--0.000825 O        b'+1:lemma:95'
--0.001451 O        b'lemma:5'
--0.001572 O        b'-1:lemma:-lrb-'
--0.002926 O        b'+1:lemma:25'
--0.003089 OD       b'-1:postag:DT'
--0.003331 OD       b'+1:postag:-LRB-'
--0.003846 O        b'+1:lemma:a'
--0.004476 O        b'+1:lemma:0.4'
--0.004597 Air      b'-1:lemma:aerobically'
--0.005115 Gtype    b'+1:lemma:2'
--0.005380 Temp     b'-1:lemma:\xc2\xb0c'
--0.006805 O        b'-1:lemma:,'
--0.006805 O        b'-1:postag:,'
--0.007118 Air      b'-1:postag:CC'
--0.010580 O        b'+1:lemma:dissolve'
--0.012150 OD       b'+1:postag:CD'
--0.017346 O        b'-1:postag:IN'
--0.019089 O        b'-1:lemma:1'
--0.021090 O        b'+1:lemma:grow'
--0.021180 O        b'lemma:30'
--0.021446 O        b'lemma:cell'
--0.021525 OD       b'lemma:~'
--0.021651 Gtype    b'-1:lemma:mg1655'
--0.022113 Air      b'-1:lemma:anaerobically'
--0.023965 O        b'lemma:nacl'
--0.025824 Med      b'-1:postag:CD'
--0.026049 OD       b'postag:IN'
--0.028482 OD       b'+1:postag:DT'
--0.029411 OD       b'+1:lemma:0.4'
--0.031488 O        b'lemma:mg1655'
--0.032375 OD       b'-1:lemma:a'
--0.038129 O        b'+1:lemma:co2'
--0.041455 O        b'-1:lemma:with'
--0.046377 O        b'+1:lemma:mm'
--0.046769 O        b'+1:lemma:o2'
--0.047221 O        b'lemma:medium'
--0.047788 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.051338 O        b'lemma:k-12'
--0.058113 O        b'+1:lemma:shake'
--0.067222 O        b'+1:lemma:phase'
--0.067235 Strain   b'+1:postag:NN'
--0.068404 Gtype    b'-1:postag:SYM'
--0.070459 Phase    b'+1:postag:NN'
--0.071893 O        b'lemma:m63'
--0.074961 O        b'-1:lemma:fresh'
--0.076182 O        b'-1:lemma:mm'
--0.081344 Technique b'-1:lemma::'
--0.089803 O        b'lemma:o2'
--0.090417 O        b'-1:lemma:e.'
--0.090764 O        b'lemma:grow'
--0.099382 Supp     b'-1:postag:NN'
--0.101790 Gtype    b'-1:postag:CD'
--0.106440 O        b'+1:lemma:300'
--0.107647 Gtype    b'-1:postag:NN'
--0.110265 O        b'-1:lemma:\xe2\x88\x86'
--0.113592 O        b'lemma:\xc2\xb0c'
--0.113759 O        b'+1:lemma:5'
--0.126723 O        b'-1:lemma:until'
--0.127511 Supp     b'+1:lemma:glucose'
--0.130049 O        b'-1:lemma:minimal'
--0.138770 O        b'lemma:e.'
--0.140462 O        b'lemma:aerobically'
--0.140632 O        b'lemma:minimal'
--0.140732 O        b'-1:lemma:of'
--0.151688 Phase    b'-1:lemma:at'
--0.153011 Supp     b'+1:postag:IN'
--0.155728 Air      b'-1:lemma:or'
--0.155927 O        b'lemma:n2'
--0.158122 O        b'lemma:purify'
--0.159148 O        b'-1:postag:-LRB-'
--0.162204 O        b'-1:lemma:n2'
--0.163370 Gtype    b'postag:CD'
--0.165311 O        b'+1:lemma:-rrb-'
--0.181332 O        b'+1:lemma:antibody'
--0.183547 Med      b'postag:CD'
--0.187622 O        b'+1:lemma:minimal'
--0.190046 Gversion b'-1:postag:NN'
--0.193027 O        b'-1:lemma:o2'
--0.199971 O        b'+1:lemma:.'
--0.199971 O        b'+1:postag:.'
--0.203385 Med      b'-1:postag:NN'
--0.221160 O        b'-1:postag:VBN'
--0.230480 Supp     b'lemma:and'
--0.232278 Med      b'+1:lemma:media'
--0.234457 Med      b'+1:postag:CC'
--0.235346 Gtype    b'-1:postag:DT'
--0.239623 O        b'-1:lemma:um'
--0.239623 O        b'+1:lemma:paraquat'
--0.242354 O        b'lemma:co2'
--0.264358 O        b'-1:lemma:mid-log'
--0.265962 Supp     b'-1:postag:NNP'
--0.267624 Supp     b'-1:lemma:-'
--0.283009 O        b'lemma:phase'
--0.307486 O        b'-1:lemma:from'
--0.311456 O        b'-1:lemma:rifampicin'
--0.336644 O        b'-1:lemma:od600'
--0.348696 O        b'-1:lemma:cra'
--0.349206 O        b'-1:lemma:30'
--0.349519 O        b'+1:lemma:\xc2\xb0c'
--0.376657 O        b'+1:lemma:until'
--0.376734 O        b'+1:lemma:or'
--0.380376 O        b'lemma:lb'
--0.391631 Anti     b'+1:postag:JJ'
--0.391764 O        b'postag:RB'
--0.393925 Med      b'-1:postag:IN'
--0.404484 O        b'-1:lemma:0.1'
--0.405885 O        b'+1:postag:-RRB-'
--0.410930 OD       b'+1:lemma:and'
--0.440153 Agit     b'postag:NN'
--0.449451 O        b'+1:lemma:rep1'
--0.458859 O        b'lemma:od600'
--0.466920 O        b'-1:lemma:grow'
--0.485539 O        b'lemma:dissolve'
--0.485571 O        b'+1:lemma:arginine'
--0.500536 OD       b'+1:postag:CC'
--0.501505 Anti     b'+1:lemma:anti-fur'
--0.508110 O        b'+1:lemma:_'
--0.509492 O        b'lemma:media'
--0.520104 O        b'+1:postag:IN'
--0.520122 Med      b'+1:postag:NN'
--0.536661 O        b'lemma:anaerobic'
--0.537297 OD       b'+1:postag:NN'
--0.552346 O        b'+1:lemma:%'
--0.557522 Supp     b'postag:CC'
--0.561985 O        b'lemma:\xe2\x88\x86'
--0.562073 O        b'-1:lemma:~'
--0.563392 Temp     b'postag:JJ'
--0.565743 O        b'-1:lemma:co2'
--0.569796 Technique b'-1:postag::'
--0.575269 O        b'lemma:150'
--0.575269 O        b'+1:lemma:mg/ml'
--0.583809 O        b'+1:lemma:0.3'
--0.589903 Phase    b'-1:postag:NN'
--0.589906 Supp     b'-1:postag:VBG'
--0.624638 Med      b'+1:postag:IN'
--0.647563 OD       b'lemma:-lrb-'
--0.651123 O        b'lemma:0.3'
--0.672987 O        b'+1:postag:NNS'
--0.675261 O        b'lemma:fecl2'
--0.712388 Med      b'+1:postag:NNS'
--0.714926 O        b'+1:lemma:c'
--0.727882 O        b'-1:lemma:0.2'
--0.741220 OD       b'postag:-LRB-'
--0.746499 Gversion b'+1:postag:NN'
--0.753494 Supp     b'+1:postag:VBN'
--0.755447 O        b'lemma:\xce\xb4fur'
--0.756879 O        b'+1:lemma:fecl2'
--0.756986 pH       b'postag:NN'
--0.757378 OD       b'postag:JJ'
--0.788163 O        b'-1:postag:VBG'
--0.834275 O        b'-1:lemma:ml'
--0.897819 Temp     b'+1:lemma:to'
--0.897819 Temp     b'+1:postag:TO'
--0.904753 O        b'lemma:20'
--0.944733 O        b'lemma:anaerobically'
--0.963571 O        b'+1:lemma:in'
--0.967298 Air      b'-1:postag:JJ'
--0.978670 Supp     b'+1:lemma:rifampicin'
--0.980602 Phase    b'-1:postag:JJ'
--0.986834 O        b'lemma:of'
--0.987936 Temp     b'postag:NN'
--1.002995 O        b'postag:VBP'
--1.014836 O        b'lemma:dpd'
--1.041168 Supp     b'+1:lemma:acetate'
--1.041187 O        b'-1:lemma:sample'
--1.042720 O        b'lemma:0.2'
--1.050897 O        b'+1:lemma:supplement'
--1.079011 O        b'+1:lemma:at'
--1.093829 O        b'+1:lemma:cell'
--1.096333 O        b'-1:lemma:dissolve'
--1.096333 O        b'+1:lemma:methanol'
--1.136240 O        b'+1:lemma:g/l'
--1.201055 O        b'-1:lemma:rpob'
--1.208075 O        b'lemma:2h'
--1.208075 O        b'-1:lemma:additional'
--1.245138 O        b'-1:lemma:37'
--1.284488 O        b'lemma:0.1'
--1.307838 O        b'-1:lemma:IP'
--1.367289 O        b'+1:postag:VBG'
--1.389589 O        b'+1:lemma:+'
--1.436423 Air      b'+1:postag:JJ'
--1.446071 O        b'lemma:wt'
--1.450739 Supp     b'-1:lemma:%'
--1.499193 O        b'lemma:37'
--1.538565 O        b'-1:postag::'
--1.553221 Air      b'postag:NN'
--1.648157 Anti     b'postag:NNP'
--1.853282 O        b'+1:lemma:hour'
--1.858904 O        b'-1:lemma:nsrr'
--1.884215 O        b'-1:lemma:ompr'
--2.067974 O        b'-1:lemma:2'
--2.131263 O        b'lemma:rifampicin'
--2.175822 O        b'+1:lemma:2'
--2.308282 O        b'lemma:methanol'
--2.446120 Supp     b'postag:JJ'
--2.454149 O        b'lemma:mid-log'
--2.638968 Phase    b'postag:JJ'
--2.760556 O        b'+1:lemma:1'
--3.707810 O        b'-1:lemma:_'
--3.997262 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.14521637026904505, 'c2': 0.02160263268998293}
+best CV score:0.8705560896194018
+model size: 0.08M
+
+Flat F1: 0.7637642434421422
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      0.952     0.870     0.909        23
+        Med      1.000     0.925     0.961        53
+       Temp      0.923     0.828     0.873        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.875     0.933     0.903        15
+        Air      0.545     0.348     0.425        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.857     0.847     0.852        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.609     0.791     0.688       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.774     0.769     0.764       451
+
+
+Top likely transitions:
+Temp   -> Temp    5.770024
+Agit   -> Agit    5.591940
+Med    -> Med     5.238745
+OD     -> OD      5.208128
+Supp   -> Supp    5.009566
+Anti   -> Anti    4.435661
+Phase  -> Phase   4.266553
+Air    -> Air     4.183832
+Gversion -> Gversion 4.181832
+Gtype  -> Gtype   4.159817
+O      -> O       4.029919
+Technique -> Technique 3.397241
+pH     -> pH      2.835139
+Substrain -> Gtype   1.746378
+Gtype  -> Supp    1.354961
+Air    -> O       1.123193
+O      -> Technique 0.956245
+O      -> Supp    0.860304
+Technique -> Air     0.720188
+Gtype  -> Air     0.705752
+Supp   -> O       0.675087
+Med    -> O       0.607714
+O      -> Gtype   0.602507
+Temp   -> O       0.586988
+Gtype  -> pH      0.132889
+O      -> Phase   0.103874
+O      -> Anti    0.059111
+O      -> Med     0.043976
+O      -> Temp    0.037475
+Phase  -> O       0.007325
+OD     -> O       0.001147
+Temp   -> Med     -0.004820
+O      -> OD      -0.007911
+Air    -> Agit    -0.018394
+Technique -> O       -0.037749
+Air    -> Supp    -0.052877
+Supp   -> Gtype   -0.118891
+Gtype  -> Technique -0.146943
+Air    -> Gtype   -0.162470
+OD     -> Air     -0.407752
+Supp   -> Med     -0.519051
+Gtype  -> Med     -0.520149
+Gtype  -> O       -0.569447
+O      -> Air     -0.679735
+Phase  -> OD      -0.846881
+Substrain -> O       -1.190575
+Technique -> Gtype   -1.334054
+Med    -> Supp    -1.751616
+
+
+Top unlikely transitions:
+Temp   -> Temp    5.770024
+Agit   -> Agit    5.591940
+Med    -> Med     5.238745
+OD     -> OD      5.208128
+Supp   -> Supp    5.009566
+Anti   -> Anti    4.435661
+Phase  -> Phase   4.266553
+Air    -> Air     4.183832
+Gversion -> Gversion 4.181832
+Gtype  -> Gtype   4.159817
+O      -> O       4.029919
+Technique -> Technique 3.397241
+pH     -> pH      2.835139
+Substrain -> Gtype   1.746378
+Gtype  -> Supp    1.354961
+Air    -> O       1.123193
+O      -> Technique 0.956245
+O      -> Supp    0.860304
+Technique -> Air     0.720188
+Gtype  -> Air     0.705752
+Supp   -> O       0.675087
+Med    -> O       0.607714
+O      -> Gtype   0.602507
+Temp   -> O       0.586988
+Gtype  -> pH      0.132889
+O      -> Phase   0.103874
+O      -> Anti    0.059111
+O      -> Med     0.043976
+O      -> Temp    0.037475
+Phase  -> O       0.007325
+OD     -> O       0.001147
+Temp   -> Med     -0.004820
+O      -> OD      -0.007911
+Air    -> Agit    -0.018394
+Technique -> O       -0.037749
+Air    -> Supp    -0.052877
+Supp   -> Gtype   -0.118891
+Gtype  -> Technique -0.146943
+Air    -> Gtype   -0.162470
+OD     -> Air     -0.407752
+Supp   -> Med     -0.519051
+Gtype  -> Med     -0.520149
+Gtype  -> O       -0.569447
+O      -> Air     -0.679735
+Phase  -> OD      -0.846881
+Substrain -> O       -1.190575
+Technique -> Gtype   -1.334054
+Med    -> Supp    -1.751616
+
+
+Top positive:
+6.295982 O        b'lemma:2'
+6.088107 O        b'lemma:1'
+5.499374 Phase    b'lemma:mid-log'
+5.468207 Anti     b'-2:lemma:antibody'
+5.389740 O        b'-2:lemma:_'
+5.310900 O        b'lemma:_'
+5.124562 Air      b'lemma:anaerobic'
+5.038711 Gtype    b'lemma:wt'
+4.975908 Supp     b'lemma:pq'
+4.858798 O        b'lemma:3'
+4.706721 Technique b'lemma:chipseq'
+4.694852 Air      b'lemma:Aerobic'
+4.682998 Gtype    b'lemma:type'
+4.617298 O        b'postag:IN'
+4.544190 O        b'-2:lemma:flagtag'
+4.540916 Technique b'lemma:ChIP-exo'
+4.378201 Gtype    b'lemma:\xce\xb4cra'
+4.141678 Air      b'lemma:aerobic'
+4.102798 Gtype    b'lemma:\xe2\x88\x86'
+4.083658 Gtype    b'+1:lemma:type'
+4.039276 Med      b'lemma:MOPS'
+3.938693 Technique b'lemma:rna-seq'
+3.794686 O        b'lemma:rpob'
+3.792227 O        b'-1:lemma:ChIP-exo'
+3.784855 O        b'lemma:-'
+3.774100 O        b'lemma:b'
+3.764975 Supp     b'lemma:acetate'
+3.691796 Gtype    b'-2:lemma:genotype/variation'
+3.672526 Supp     b'lemma:Iron'
+3.672526 Supp     b'-2:lemma:Anaerobic'
+3.617838 Technique b'lemma:chip-seq'
+3.604759 Supp     b'lemma:no3'
+3.568114 Supp     b'lemma:nacl'
+3.558608 Phase    b'-2:lemma:phase'
+3.526017 O        b'lemma:.'
+3.526017 O        b'postag:.'
+3.449878 Gtype    b'-1:lemma:\xe2\x88\x86'
+3.446438 Supp     b'lemma:glucose'
+3.403359 Med      b'lemma:lb'
+3.365642 Gtype    b'lemma:wild-type'
+3.350130 Air      b'postag:RB'
+3.342253 O        b'+2:lemma:\xc2\xb0c'
+3.335770 Supp     b'lemma:nh4cl'
+3.326472 O        b'lemma:Cra'
+3.318880 Gtype    b'lemma:\xce\xb4fur'
+3.295001 O        b'postag:CC'
+3.262632 O        b'postag:VBN'
+3.206029 O        b'lemma:a'
+3.195357 Gtype    b'-2:lemma:genotype'
+3.193335 Technique b'+2:lemma:ph5'
+3.187683 O        b'postag::'
+3.127353 Gtype    b'lemma:flag-tag'
+3.127353 Gtype    b'-1:lemma:c-terminal'
+3.121057 Supp     b'lemma:nitrate'
+3.112065 Gtype    b'lemma:\xce\xb4soxr'
+3.087827 Substrain b'lemma:mg1655'
+3.047270 Supp     b'+2:lemma:iptg'
+3.025373 Supp     b'-1:lemma:Cra'
+2.966835 Air      b'-1:lemma:ChIP-Seq'
+2.963423 Supp     b'-1:lemma:with'
+2.920292 Gtype    b'lemma:dfnr'
+2.878192 O        b'lemma:with'
+2.811966 O        b'+1:lemma:arca-8myc'
+2.806521 O        b'-2:lemma:medium'
+2.792197 Gtype    b'-2:lemma:affyexp'
+2.777524 Gversion b'lemma:chip-seq'
+2.764298 Technique b'lemma:rnaseq'
+2.751592 O        b'-1:lemma:tag'
+2.744091 Air      b'-2:lemma:IP'
+2.741300 Supp     b'+1:lemma:1'
+2.735516 O        b'lemma:CEL'
+2.729762 O        b'lemma:rep2'
+2.702452 Med      b'lemma:m63'
+2.699796 O        b'lemma:harbor'
+2.669950 Supp     b'lemma:arginine'
+2.661545 O        b'-1:lemma:0.3'
+2.602799 Gtype    b'+1:lemma:with'
+2.599935 O        b'-1:lemma:\xc2\xb0c'
+2.587031 Technique b'lemma:ChIP-Seq'
+2.568848 Gtype    b'-2:lemma:delta'
+2.543114 Gtype    b'lemma:nsrr'
+2.539452 Substrain b'-2:lemma:substr'
+2.534370 O        b'postag:DT'
+2.513411 Gtype    b'lemma:pk4854'
+2.512728 O        b'lemma:chip'
+2.505650 O        b'+1:postag:RB'
+2.493029 Temp     b'-2:lemma:\xcf\x8332'
+2.454541 Anti     b'+1:lemma:antibody'
+2.447213 Anti     b'+2:lemma:antibody'
+2.436325 Gtype    b'-1:lemma:rpob'
+2.430821 pH       b'lemma:ph5'
+2.430821 pH       b'+1:lemma:.5'
+2.411045 O        b'postag:VBG'
+2.347885 Supp     b'-2:lemma:media'
+2.345716 pH       b'+1:postag:CD'
+2.342949 Technique b'-2:lemma:Fur'
+2.340323 O        b'-1:lemma:glucose'
+2.326562 O        b'-1:lemma:lb'
+2.318033 Gtype    b'+1:lemma:ph5'
+2.318033 Gtype    b'+2:lemma:.5'
+2.312502 Temp     b'lemma:43'
+2.307908 Supp     b'lemma:Leu'
+2.307908 Supp     b'-2:lemma:Lrp'
+2.283291 O        b'-1:lemma:media'
+2.278223 Gtype    b'lemma:\xce\xb4oxyr'
+2.277778 Air      b'-1:lemma:-'
+2.269087 Substrain b'+1:lemma:phtpg'
+2.262780 Supp     b'-2:lemma:agent'
+2.259842 Temp     b'-1:lemma:43'
+2.259677 O        b'lemma:ompr'
+2.241905 Supp     b'lemma:Adenine'
+2.238893 Gtype    b'lemma:\xce\xb4ompr'
+2.238698 Supp     b'+1:lemma:\xc2\xb5m'
+2.212658 Med      b'+2:lemma:b2'
+2.198189 O        b'-2:lemma:myc'
+2.163443 Phase    b'lemma:exponential'
+2.163443 Phase    b'lemma:stationary'
+2.159726 O        b'+1:postag:NNP'
+2.156490 Phase    b'-1:lemma:mid-log'
+2.151371 Gversion b'lemma:.2'
+2.151371 Gversion b'-1:lemma:u00096'
+2.140308 O        b'-1:lemma:type'
+2.138372 O        b'lemma:ml'
+2.128755 Med      b'+2:postag:CC'
+2.123732 Technique b'-1:lemma:chip-exo'
+2.118518 Technique b'-1:lemma:IP'
+2.117337 Strain   b'+1:lemma:substr'
+2.117337 Strain   b'-2:lemma:str'
+2.099392 Agit     b'lemma:rpm'
+2.096807 Supp     b'+1:lemma:2'
+2.096794 Strain   b'lemma:k-12'
+2.091407 O        b'+2:lemma:cra'
+2.063564 O        b'lemma:\xcf\x8332'
+2.050789 Supp     b'lemma:rifampicin'
+2.049024 Gversion b'lemma:nc'
+2.033164 O        b'+1:lemma:pq'
+2.013358 Temp     b'-1:lemma:\xcf\x8332'
+1.966874 Temp     b'+1:lemma:\xc2\xb0c'
+1.966521 O        b'-1:lemma:anaerobic'
+1.957027 O        b'lemma:culture'
+1.952247 O        b'-2:lemma:min'
+1.929194 O        b'+1:lemma:condition'
+1.923035 Supp     b'-1:postag:CC'
+1.911344 Temp     b'lemma:\xc2\xb0c'
+1.902035 Gversion b'+2:lemma:000913'
+1.892926 Technique b'-1:lemma:input'
+1.877608 Supp     b'lemma:fructose'
+1.876135 O        b'+1:lemma:250'
+1.868225 O        b'lemma:Custom'
+1.867543 Air      b'lemma:anaeroibc'
+1.865515 O        b'+2:postag:JJ'
+1.861583 Supp     b'-1:lemma:+'
+1.856696 O        b'lemma:s'
+1.856578 Supp     b'+1:lemma:_'
+1.851722 Gversion b'lemma:u00096'
+1.851722 Gversion b'+1:lemma:.2'
+1.838273 Phase    b'lemma:phase'
+1.825249 Med      b'lemma:broth'
+1.825249 Med      b'-1:lemma:L'
+1.817848 O        b'+1:lemma:coli'
+1.805545 Med      b'+1:lemma:0.4'
+1.803317 O        b'-1:lemma:into'
+1.801603 Agit     b'+1:lemma:rpm'
+1.799565 Gtype    b'-1:postag:VBG'
+1.796090 Supp     b'+2:lemma:rifampicin'
+1.784603 O        b'+1:lemma:chip-seq'
+1.777806 Med      b'lemma:media'
+1.769076 O        b'lemma:trpr'
+1.768678 Gtype    b'lemma:ptac'
+1.760760 Gtype    b'+1:lemma:flagtag'
+1.757550 Gversion b'-2:lemma:nc'
+1.745784 O        b'lemma:soxs'
+1.745784 O        b'lemma:soxr'
+1.739107 O        b'-2:lemma:~'
+1.736949 Med      b'+2:lemma:b1'
+1.736832 OD       b'+1:lemma:of'
+1.735882 O        b'postag:NNS'
+1.709175 O        b'+2:lemma:70'
+1.708616 O        b'postag:VBD'
+1.705680 O        b'-1:lemma:aerobically'
+1.700488 O        b'lemma:argr'
+1.696537 Temp     b'-1:lemma:sample'
+1.694740 O        b'+1:lemma:acetate'
+1.690209 O        b'lemma:affyexp'
+1.689269 Med      b'lemma:minimal'
+1.687607 Agit     b'+2:lemma:at'
+1.683096 O        b'lemma:purr'
+1.680453 Gversion b'-2:lemma:build'
+1.674723 O        b'+2:lemma:fructose'
+1.673798 Vess     b'lemma:flask'
+1.673798 Vess     b'-1:lemma:warm'
+1.673798 Vess     b'-2:lemma:pre'
+1.673798 Vess     b'+2:lemma:43'
+1.671743 O        b'-1:lemma:Aerobic'
+1.670303 O        b'+2:lemma:polyclonal'
+1.644434 O        b'+1:lemma:wt'
+1.641217 Gtype    b'+2:lemma:glucose'
+1.620167 O        b'lemma:genotype/variation'
+1.613899 Air      b'lemma:aerobically'
+1.603327 Temp     b'-1:lemma:37'
+
+
+Top negative:
+-0.098715 O        b'-1:lemma:g/l'
+-0.098977 O        b'+2:lemma:0.2'
+-0.099326 O        b'lemma:m63'
+-0.099882 O        b'-1:lemma:rifampicin'
+-0.106371 O        b'-1:lemma:37'
+-0.107922 Med      b'-1:postag:CD'
+-0.110064 O        b'-2:lemma:-lrb-'
+-0.117142 O        b'+1:lemma:of'
+-0.123918 Supp     b'+2:lemma:.'
+-0.123918 Supp     b'+2:postag:.'
+-0.131710 O        b'+1:lemma:culture'
+-0.132661 O        b'+1:postag:-LRB-'
+-0.136103 O        b'+1:lemma:95'
+-0.137008 Technique b'-1:postag::'
+-0.138812 O        b'-1:lemma:final'
+-0.138847 O        b'lemma:7.6'
+-0.138847 O        b'+1:lemma:;'
+-0.139546 Supp     b'+1:lemma:-rrb-'
+-0.140317 Supp     b'+2:lemma:dpd'
+-0.142690 O        b'postag:RB'
+-0.143532 O        b'lemma:;'
+-0.143532 O        b'-1:lemma:7.6'
+-0.144217 O        b'+2:lemma:reference'
+-0.145656 Temp     b'-2:postag:NN'
+-0.146454 O        b'lemma:anaerobic'
+-0.147525 Air      b'-1:postag:JJ'
+-0.149095 O        b'-1:lemma:0.2'
+-0.151176 O        b'-1:lemma:contain'
+-0.151476 Air      b'+2:postag:IN'
+-0.152942 O        b'+1:lemma:fecl2'
+-0.154443 Med      b'postag:CD'
+-0.158960 Supp     b'-1:lemma:-lrb-'
+-0.169851 Med      b'-1:postag:NN'
+-0.176135 OD       b'postag:NN'
+-0.178701 Supp     b'-1:postag:-LRB-'
+-0.180805 O        b'lemma:methanol'
+-0.180805 O        b'-2:lemma:dissolve'
+-0.182601 Supp     b'+2:lemma:glucose'
+-0.185072 Supp     b'postag:CC'
+-0.189120 O        b'+2:lemma:-rrb-'
+-0.192885 O        b'+1:lemma:dissolve'
+-0.199989 O        b'-1:lemma:1m'
+-0.199989 O        b'+2:lemma:7.6'
+-0.201669 O        b'-2:lemma:nh4cl'
+-0.201904 O        b'-2:lemma:the'
+-0.202079 O        b'-1:lemma:of'
+-0.202589 Supp     b'+1:lemma:acetate'
+-0.204371 Supp     b'+1:lemma:rifampicin'
+-0.207950 Gtype    b'-2:postag:CD'
+-0.215109 O        b'-1:lemma:iptg'
+-0.217533 O        b'lemma:nitrogen'
+-0.221912 O        b'lemma:37'
+-0.229060 O        b'-1:lemma:n2'
+-0.236563 Air      b'-2:postag:CC'
+-0.241693 O        b'-2:lemma:IP'
+-0.248054 O        b'-2:lemma:aerobically'
+-0.248583 Med      b'+1:postag:NN'
+-0.249693 Phase    b'+1:postag:NN'
+-0.251280 O        b'+2:lemma:tag'
+-0.260336 O        b'+1:lemma:10'
+-0.266374 O        b'-1:lemma:until'
+-0.269589 O        b'lemma:ph'
+-0.275513 O        b'-1:lemma:dfnr'
+-0.277525 Supp     b'+1:postag:VBN'
+-0.277770 O        b'-1:lemma:fresh'
+-0.287656 O        b'+2:lemma:250'
+-0.295216 O        b'lemma:nh4cl'
+-0.296463 O        b'-2:lemma:mm'
+-0.296923 O        b'lemma:\xe2\x88\x86'
+-0.301390 O        b'-1:postag:IN'
+-0.303644 O        b'+1:postag:IN'
+-0.305259 O        b'lemma:fecl2'
+-0.310628 Gtype    b'-1:postag:NN'
+-0.311296 O        b'lemma:k-12'
+-0.316958 O        b'+1:lemma:%'
+-0.317571 O        b'+2:lemma:.'
+-0.317571 O        b'+2:postag:.'
+-0.317988 Phase    b'-2:postag:NN'
+-0.321822 O        b'lemma:minimal'
+-0.322289 O        b'-1:lemma:minimal'
+-0.322560 O        b'-2:lemma:genome'
+-0.332944 O        b'-2:postag::'
+-0.333295 O        b'lemma:dissolve'
+-0.333295 O        b'+2:lemma:methanol'
+-0.338620 O        b'-2:lemma:anaerobically'
+-0.345174 O        b'-1:postag::'
+-0.363808 Gtype    b'-2:lemma:\xe2\x88\x86'
+-0.382684 O        b'-2:lemma:rpob'
+-0.387944 Supp     b'+1:postag:-RRB-'
+-0.394192 O        b'-2:lemma:fresh'
+-0.395680 O        b'+1:lemma:minimal'
+-0.396198 O        b'-2:lemma:phase'
+-0.398092 O        b'-2:lemma:dpd'
+-0.402236 Supp     b'+2:lemma:-rrb-'
+-0.410787 O        b'+1:lemma:1m'
+-0.410787 O        b'-2:lemma:vol'
+-0.419351 O        b'-1:lemma:cra'
+-0.439916 Med      b'+1:postag:IN'
+-0.447763 Supp     b'+2:postag:-RRB-'
+-0.451257 O        b'-2:lemma:until'
+-0.454676 Supp     b'-2:lemma:treat'
+-0.461514 Supp     b'+1:postag:NNS'
+-0.473439 O        b'+2:lemma:at'
+-0.489525 Supp     b'-2:postag:NNS'
+-0.490480 O        b'-2:lemma:a'
+-0.491484 Supp     b'+1:lemma:,'
+-0.491484 Supp     b'+1:postag:,'
+-0.497187 O        b'lemma:aerobically'
+-0.503626 Supp     b'-1:postag:NNP'
+-0.509023 Supp     b'lemma:10'
+-0.516721 O        b'+1:lemma:+'
+-0.521588 O        b'lemma:nitrate'
+-0.522828 O        b'-2:lemma::'
+-0.525160 O        b'+1:lemma:g/l'
+-0.528490 O        b'+1:lemma:supplement'
+-0.536875 Anti     b'+2:postag:JJ'
+-0.541770 O        b'-1:lemma:ml'
+-0.549347 O        b'+1:lemma:mm'
+-0.554922 O        b'-1:lemma:rpob'
+-0.555832 O        b'-1:lemma:dissolve'
+-0.555832 O        b'+1:lemma:methanol'
+-0.556682 O        b'+1:postag:VBG'
+-0.560238 O        b'-1:lemma:co2'
+-0.588187 O        b'+2:lemma:a'
+-0.589107 Anti     b'+1:lemma:anti-fur'
+-0.592147 Med      b'-2:postag:VBN'
+-0.594320 O        b'-2:lemma:2'
+-0.596090 O        b'+2:lemma:add'
+-0.599346 O        b'-2:lemma:supplement'
+-0.602638 pH       b'postag:NN'
+-0.603217 O        b'-2:lemma:glucose'
+-0.605916 O        b'lemma:mid-log'
+-0.609002 O        b'+2:lemma:10'
+-0.610140 O        b'-1:lemma:mm'
+-0.614692 Supp     b'+1:lemma:-lrb-'
+-0.622267 Med      b'+2:postag:VBN'
+-0.631151 O        b'-1:lemma:vol'
+-0.631151 O        b'-2:lemma:1/100'
+-0.631151 O        b'+2:lemma:1m'
+-0.635308 O        b'-2:lemma:media'
+-0.643298 Supp     b'+1:postag:-LRB-'
+-0.667302 O        b'-1:lemma:grow'
+-0.675604 O        b'lemma:anaerobically'
+-0.678285 O        b'postag:VBP'
+-0.712921 O        b'-2:postag:DT'
+-0.743302 O        b'-2:postag:RB'
+-0.797815 O        b'-1:lemma:2'
+-0.803294 Supp     b'-2:postag:JJ'
+-0.804094 O        b'lemma:wt'
+-0.827192 O        b'+2:lemma:+'
+-0.827898 O        b'+1:lemma:until'
+-0.831996 O        b'+2:lemma:mid-log'
+-0.837044 O        b'lemma:2h'
+-0.837044 O        b'-1:lemma:additional'
+-0.853094 O        b'lemma:of'
+-0.881861 O        b'lemma:aerobic'
+-0.919135 O        b'-1:lemma:30'
+-0.952995 Air      b'postag:NN'
+-0.973697 O        b'+2:postag:-RRB-'
+-0.983024 Air      b'+1:postag:JJ'
+-1.013906 O        b'+2:lemma:fnr'
+-1.021974 O        b'-2:postag:SYM'
+-1.037571 O        b'+2:lemma:then'
+-1.048639 Med      b'-2:lemma:grow'
+-1.054249 O        b'lemma:media'
+-1.064365 Temp     b'postag:NN'
+-1.088097 O        b'-1:lemma:nsrr'
+-1.141026 Phase    b'-1:postag:JJ'
+-1.155260 O        b'+2:lemma:b'
+-1.165858 O        b'-2:lemma:0.3'
+-1.175657 O        b'-1:lemma:ph'
+-1.186408 O        b'lemma:\xce\xb4fur'
+-1.229030 O        b'+1:lemma:in'
+-1.249314 O        b'+1:lemma:at'
+-1.257039 O        b'lemma:rifampicin'
+-1.261781 Gtype    b'+2:lemma:cra'
+-1.267291 O        b'+1:lemma:2.0'
+-1.293131 O        b'-2:lemma:rifampicin'
+-1.297426 O        b'-1:lemma:sample'
+-1.317920 Phase    b'postag:JJ'
+-1.321832 O        b'-1:lemma:1'
+-1.346398 OD       b'+2:lemma:aerobically'
+-1.353123 Supp     b'+2:lemma:2'
+-1.353839 OD       b'+1:postag:NN'
+-1.379126 Anti     b'+2:lemma:polyclonal'
+-1.433804 O        b'+2:lemma:rifampicin'
+-1.437034 Supp     b'+2:postag:CD'
+-1.439161 Supp     b'+2:lemma:1'
+-1.489609 Supp     b'+2:lemma:fructose'
+-1.512780 O        b'lemma:30'
+-1.553364 Supp     b'postag:JJ'
+-1.601724 O        b'-1:postag:VBG'
+-1.789724 O        b'-1:lemma:IP'
+-1.863826 Gtype    b'postag:VBG'
+-2.000634 Anti     b'postag:NNP'
+-2.029905 O        b'lemma:0.3'
+-2.144948 O        b'+1:lemma:1'
+-2.735063 O        b'+1:lemma:2'
+-3.945319 O        b'-1:lemma::'
+-4.420879 O        b'-1:lemma:_'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.10611954839898095, 'c2': 0.006346156532999689}
-best CV score:0.8029791834815372
-model size: 0.09M
-
-Flat F1: 0.811550814808516
-             precision    recall  f1-score   support
-
-         OD      0.652     0.405     0.500        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.875     0.955     0.913        22
-        Med      1.000     0.842     0.914        57
-       Temp      0.800     0.889     0.842        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.842     0.914        19
-        Air      0.804     0.726     0.763        62
-       Anti      1.000     1.000     1.000         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.935     0.811     0.869       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.831     0.721     0.772       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.870     0.765     0.812       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.951338
-OD     -> OD      6.384899
-Temp   -> Temp    6.191832
-Med    -> Med     5.660137
-Anti   -> Anti    5.222338
-Supp   -> Supp    4.948395
-Gversion -> Gversion 4.779316
-Air    -> Air     4.661973
-Phase  -> Phase   4.585606
-O      -> O       4.523040
-Gtype  -> Gtype   4.374544
-Technique -> Technique 3.916776
-pH     -> pH      2.762443
-Gtype  -> Supp    1.647453
-Substrain -> Gtype   1.438721
-O      -> Supp    1.197603
-O      -> Technique 1.047286
-Technique -> Air     0.678619
-Air    -> O       0.635169
-O      -> Gtype   0.582793
-O      -> Anti    0.576502
-Gtype  -> Air     0.400088
-Med    -> O       0.380660
-O      -> Temp    0.322992
-Temp   -> O       0.199442
-Phase  -> O       0.150624
-O      -> Gversion 0.126987
-Supp   -> O       0.120279
-O      -> Med     0.081702
-OD     -> Phase   0.004611
-Gtype  -> pH      0.003342
-O      -> Phase   -0.018492
-Supp   -> Gtype   -0.099455
-Technique -> O       -0.160718
-O      -> OD      -0.177350
-Gtype  -> O       -0.254968
-OD     -> Air     -0.399166
-Technique -> Gtype   -0.518986
-Gtype  -> OD      -0.674743
-O      -> Air     -0.909565
-OD     -> O       -1.026695
-Agit   -> O       -1.193723
-Substrain -> O       -1.417707
-Phase  -> OD      -1.598916
-Med    -> Supp    -2.026822
-
-
-Top unlikely transitions:
-Agit   -> Agit    6.951338
-OD     -> OD      6.384899
-Temp   -> Temp    6.191832
-Med    -> Med     5.660137
-Anti   -> Anti    5.222338
-Supp   -> Supp    4.948395
-Gversion -> Gversion 4.779316
-Air    -> Air     4.661973
-Phase  -> Phase   4.585606
-O      -> O       4.523040
-Gtype  -> Gtype   4.374544
-Technique -> Technique 3.916776
-pH     -> pH      2.762443
-Gtype  -> Supp    1.647453
-Substrain -> Gtype   1.438721
-O      -> Supp    1.197603
-O      -> Technique 1.047286
-Technique -> Air     0.678619
-Air    -> O       0.635169
-O      -> Gtype   0.582793
-O      -> Anti    0.576502
-Gtype  -> Air     0.400088
-Med    -> O       0.380660
-O      -> Temp    0.322992
-Temp   -> O       0.199442
-Phase  -> O       0.150624
-O      -> Gversion 0.126987
-Supp   -> O       0.120279
-O      -> Med     0.081702
-OD     -> Phase   0.004611
-Gtype  -> pH      0.003342
-O      -> Phase   -0.018492
-Supp   -> Gtype   -0.099455
-Technique -> O       -0.160718
-O      -> OD      -0.177350
-Gtype  -> O       -0.254968
-OD     -> Air     -0.399166
-Technique -> Gtype   -0.518986
-Gtype  -> OD      -0.674743
-O      -> Air     -0.909565
-OD     -> O       -1.026695
-Agit   -> O       -1.193723
-Substrain -> O       -1.417707
-Phase  -> OD      -1.598916
-Med    -> Supp    -2.026822
-
-
-Top positive:
-8.202551 O        b'lemma:1'
-8.081205 Supp     b'lemma:nitrate'
-7.724034 Phase    b'lemma:stationary'
-7.139079 O        b'-2:lemma:_'
-7.113779 O        b'lemma:rpob'
-7.039754 Air      b'lemma:aerobic'
-6.838389 Air      b'lemma:anaerobic'
-6.715520 O        b'lemma:2'
-6.343991 O        b'lemma:3'
-6.130545 Technique b'lemma:ChIP-exo'
-5.730880 Gtype    b'lemma:type'
-5.677171 Supp     b'lemma:no3'
-5.464025 Supp     b'lemma:pq'
-5.438992 Strain   b'lemma:k-12'
-5.409079 Med      b'lemma:MOPS'
-5.383170 Gtype    b'-2:lemma:genotype/variation'
-5.364773 Technique b'lemma:chipseq'
-5.303901 Phase    b'lemma:mid-log'
-5.273251 Substrain b'lemma:mg1655'
-5.262924 Anti     b'-2:lemma:antibody'
-5.234508 O        b'-1:lemma:ChIP-exo'
-5.167882 O        b'lemma:_'
-5.116022 O        b'+2:lemma:\xc2\xb0c'
-5.083422 Air      b'lemma:Aerobic'
-4.942311 Gtype    b'lemma:\xce\xb4cra'
-4.924649 Supp     b'lemma:nh4cl'
-4.774563 O        b'lemma:b'
-4.709841 O        b'postag:IN'
-4.702565 Supp     b'+1:lemma:\xc2\xb5m'
-4.687035 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.643920 Technique b'lemma:rna-seq'
-4.637975 Technique b'lemma:chip-seq'
-4.607255 Gtype    b'+1:lemma:type'
-4.457411 OD       b'lemma:od450'
-4.452366 O        b'-2:lemma:flagtag'
-4.351257 O        b'+2:lemma:fructose'
-4.305727 Supp     b'lemma:Iron'
-4.305727 Supp     b'-2:lemma:Anaerobic'
-4.270637 Med      b'lemma:LB'
-4.264041 Gtype    b'lemma:wt'
-4.196120 OD       b'lemma:od600'
-4.164218 Supp     b'lemma:acetate'
-4.136757 O        b'lemma:-'
-4.109668 Med      b'lemma:lb'
-4.038024 O        b'lemma:.'
-4.038024 O        b'postag:.'
-4.011633 O        b'lemma:a'
-4.001990 Gversion b'lemma:chip-seq'
-3.980816 O        b'lemma:Cra'
-3.888163 O        b'+1:postag:RB'
-3.882391 Gtype    b'-2:lemma:genotype'
-3.870554 O        b'lemma:rep1'
-3.786732 O        b'-1:lemma:tag'
-3.784821 Gtype    b'lemma:flag-tag'
-3.784821 Gtype    b'-1:lemma:c-terminal'
-3.784385 Gtype    b'-2:lemma:affyexp'
-3.777053 Gtype    b'lemma:\xe2\x88\x86'
-3.728794 O        b'+2:lemma:cra'
-3.679265 Gtype    b'lemma:\xce\xb4fur'
-3.669557 Gtype    b'-2:lemma:delta'
-3.559327 Supp     b'lemma:glucose'
-3.549105 Gtype    b'lemma:nsrr'
-3.543860 Supp     b'lemma:iptg'
-3.508675 Supp     b'lemma:arginine'
-3.463556 O        b'lemma:Custom'
-3.436560 O        b'-1:lemma:media'
-3.426544 O        b'-2:lemma:myc'
-3.416590 O        b'lemma:oxyr'
-3.416144 O        b'postag:VBN'
-3.379211 Air      b'-1:lemma:ChIP-Seq'
-3.361106 O        b'postag::'
-3.327937 O        b'lemma:culture'
-3.281566 Air      b'-2:lemma:IP'
-3.243630 Gtype    b'+1:lemma:with'
-3.233953 Supp     b'-2:lemma:purr'
-3.177625 Supp     b'-1:lemma:Cra'
-3.154838 Supp     b'lemma:Fe'
-3.106755 Gtype    b'lemma:\xce\xb4ompr'
-3.091806 Technique b'+2:lemma:ph5'
-3.085874 Supp     b'+1:lemma:1'
-3.076198 Technique b'lemma:rnaseq'
-3.067570 O        b'lemma:purr'
-3.056379 O        b'+1:postag:VBP'
-2.992692 Med      b'+2:lemma:b2'
-2.989554 Supp     b'lemma:nacl'
-2.977780 O        b'lemma:rep2'
-2.962704 O        b'-1:lemma:0.3'
-2.933202 Supp     b'lemma:fructose'
-2.929584 Temp     b'-1:lemma:sample'
-2.914017 pH       b'lemma:ph5'
-2.914017 pH       b'+1:lemma:.5'
-2.909617 O        b'lemma:CEL'
-2.897129 Supp     b'+1:lemma:_'
-2.888676 O        b'-2:lemma:~'
-2.886570 Supp     b'+1:lemma:2'
-2.868631 Technique b'lemma:ChIP-Seq'
-2.863602 Supp     b'lemma:rifampicin'
-2.844607 O        b'-1:lemma:type'
-2.822375 O        b'lemma:argr'
-2.738012 O        b'lemma:Lrp'
-2.736527 Supp     b'-2:lemma:shake'
-2.722390 O        b'-1:lemma:anaerobic'
-2.722131 Technique b'-2:lemma:Fur'
-2.717816 Gtype    b'-1:lemma:rpob'
-2.702398 O        b'-1:lemma:\xc2\xb0c'
-2.697548 Gtype    b'-1:lemma:ptac'
-2.686027 Gtype    b'lemma:\xce\xb4soxs'
-2.672826 O        b'-2:lemma:ChIP-Seq'
-2.652232 O        b'lemma:s'
-2.640574 Temp     b'lemma:43'
-2.616265 O        b'-1:lemma:glucose'
-2.604674 O        b'-2:lemma:fructose'
-2.596037 Gversion b'lemma:.2'
-2.596037 Gversion b'-1:lemma:u00096'
-2.593526 Supp     b'+2:lemma:rifampicin'
-2.593425 O        b'+2:lemma:chipseq'
-2.574956 O        b'lemma:soxs'
-2.574956 O        b'lemma:soxr'
-2.572085 O        b'lemma:\xcf\x8332'
-2.560311 pH       b'lemma:.5'
-2.560311 pH       b'-1:lemma:ph5'
-2.558026 Anti     b'+1:lemma:antibody'
-2.548716 O        b'+1:lemma:chip-seq'
-2.547807 O        b'+2:lemma:polyclonal'
-2.547779 O        b'postag:DT'
-2.547476 Gtype    b'lemma:wild-type'
-2.542568 Gtype    b'lemma:ptac'
-2.496299 Temp     b'-1:lemma:\xcf\x8332'
-2.482714 O        b'lemma:condition'
-2.450763 Supp     b'lemma:dpd'
-2.436790 OD       b'lemma:0.3'
-2.432687 Gtype    b'lemma:dfnr'
-2.425186 O        b'lemma:affyexp'
-2.402512 OD       b'+1:lemma:stationary'
-2.396707 O        b'+1:postag:NNP'
-2.395525 O        b'-1:lemma:Aerobic'
-2.390930 O        b'lemma:chip'
-2.365269 Med      b'+2:lemma:with'
-2.349317 O        b'+1:lemma:condition'
-2.347569 Med      b'+2:lemma:b1'
-2.323852 Gtype    b'+1:lemma:flagtag'
-2.285051 Air      b'-2:postag:SYM'
-2.270519 Med      b'+1:lemma:0.4'
-2.267409 Air      b'postag:RB'
-2.227138 Med      b'lemma:m63'
-2.221466 Supp     b'-2:lemma:Lrp'
-2.211681 Gtype    b'lemma:\xce\xb4soxr'
-2.198402 Technique b'-1:lemma:IP'
-2.191991 Temp     b'-1:lemma:43'
-2.190945 Technique b'-1:lemma:chip-exo'
-2.177040 Technique b'-1:lemma:input'
-2.164912 O        b'lemma:ompr'
-2.159564 Supp     b'+2:lemma:for'
-2.147969 Gversion b'-2:lemma:build'
-2.138399 Supp     b'-1:lemma:with'
-2.130975 Gversion b'lemma:u00096'
-2.130975 Gversion b'+1:lemma:.2'
-2.116889 Air      b'+2:lemma:L'
-2.109271 O        b'+1:lemma:anti-fur'
-2.094403 Phase    b'-2:lemma:phase'
-2.088072 Anti     b'+2:lemma:antibody'
-2.069606 Temp     b'-1:lemma:37'
-2.062716 OD       b'+2:lemma:stationary'
-2.062298 Supp     b'-2:lemma:supplement'
-2.054041 Temp     b'lemma:\xc2\xb0c'
-2.051199 Supp     b'lemma:20'
-2.046096 Med      b'+1:lemma:g/l'
-2.033023 Temp     b'lemma:37'
-2.031219 Gversion b'lemma:nc'
-2.026359 Phase    b'-1:lemma:mid-log'
-2.022551 Temp     b'-2:lemma:\xcf\x8332'
-2.021988 O        b'postag:CC'
-2.012689 Med      b'-2:lemma:50'
-1.995640 O        b'lemma:with'
-1.988961 Supp     b'-2:postag:VBG'
-1.987668 Temp     b'+1:lemma:\xc2\xb0c'
-1.983838 Med      b'lemma:media'
-1.966093 Gtype    b'+1:lemma:ph5'
-1.966093 Gtype    b'+2:lemma:.5'
-1.929947 O        b'+1:lemma:od600'
-1.925489 Gtype    b'+2:lemma:glucose'
-1.923491 Gversion b'-2:lemma:nc'
-1.919933 O        b'-2:lemma:medium'
-1.916487 Technique b'+1:lemma:chip-exo'
-1.915937 O        b'lemma:at'
-1.903350 pH       b'+1:postag:CD'
-1.881335 O        b'-2:lemma:co2'
-1.880331 Air      b'+2:lemma:37'
-1.842022 O        b'-1:lemma:l1'
-1.835960 Gtype    b'lemma:arca8myc'
-1.835960 Gtype    b'-2:lemma:chip-arca'
-1.825949 O        b'+1:lemma:sparging'
-1.820188 O        b'lemma:Fur'
-1.816501 Med      b'postag:NNP'
-1.816366 Temp     b'-2:lemma:keep'
-1.812523 Substrain b'+1:lemma:phtpg'
-1.806914 Med      b'lemma:glucose'
-1.798594 O        b'lemma:for'
-1.790149 Supp     b'-1:lemma:+'
-1.786505 O        b'-1:lemma:lb'
-
-
-Top negative:
--0.056377 O        b'+2:lemma:follow'
--0.057834 O        b'-2:postag:RB'
--0.062691 O        b'lemma:lb'
--0.062694 O        b'+2:lemma:co2'
--0.063082 Agit     b'postag:NN'
--0.063895 O        b'-2:lemma:stir'
--0.066451 O        b'+1:lemma:or'
--0.069881 Air      b'-2:lemma:or'
--0.071179 Supp     b'+1:postag:-RRB-'
--0.073541 O        b'+1:lemma:300'
--0.076445 OD       b'+2:lemma:~'
--0.078449 O        b'-2:lemma:paraquat'
--0.079932 OD       b'+1:postag:CC'
--0.080336 OD       b'lemma:~'
--0.082164 O        b'-1:lemma:until'
--0.087626 O        b'+2:lemma:supplement'
--0.089622 O        b'lemma:e.'
--0.092349 O        b'-1:lemma:1'
--0.093669 O        b'lemma:grow'
--0.094841 Med      b'+1:postag:IN'
--0.097229 Supp     b'-2:postag:IN'
--0.101825 Air      b'postag:CD'
--0.103517 Anti     b'+1:postag:JJ'
--0.105803 O        b'+2:lemma:od600'
--0.108906 O        b'lemma:co2'
--0.111524 Supp     b'-2:postag:VBN'
--0.118531 Agit     b'-1:postag:NN'
--0.120507 O        b'-2:lemma:cell'
--0.121204 Air      b'lemma:70'
--0.124675 O        b'-1:lemma:0.1'
--0.124675 O        b'+2:lemma:fecl2'
--0.126624 O        b'+2:lemma:for'
--0.128419 Air      b'+1:lemma:70'
--0.128789 O        b'lemma:150'
--0.128789 O        b'+1:lemma:mg/ml'
--0.128789 O        b'-2:lemma:concentration'
--0.130352 O        b'-2:lemma:nh4cl'
--0.132047 O        b'+2:lemma:37'
--0.135046 O        b'-1:postag:VBN'
--0.138694 Med      b'+2:postag:VBN'
--0.138737 O        b'lemma:\xc2\xb0c'
--0.140991 Gtype    b'lemma:_'
--0.145854 O        b'-1:postag:IN'
--0.145950 O        b'-2:lemma:genome'
--0.147428 O        b'+2:lemma:iptg'
--0.147810 O        b'-1:lemma:cra'
--0.155455 Air      b'+2:lemma:70'
--0.156201 Supp     b'lemma:and'
--0.158149 O        b'+1:postag:JJ'
--0.164480 O        b'+1:postag:CD'
--0.172333 OD       b'+1:postag:CD'
--0.174063 O        b'+2:lemma:.'
--0.174063 O        b'+2:postag:.'
--0.178683 Supp     b'+2:lemma:-rrb-'
--0.181783 O        b'-1:lemma:ml'
--0.184867 O        b'-2:postag:VBG'
--0.187294 O        b'+2:lemma:anaerobically'
--0.187906 Supp     b'-1:postag:NN'
--0.188626 Gtype    b'-2:postag:IN'
--0.197726 O        b'-1:postag:-LRB-'
--0.198187 O        b'-2:lemma:dna'
--0.204690 Air      b'+2:postag:IN'
--0.204920 O        b'+2:lemma:cell'
--0.225831 O        b'lemma:\xce\xb4fur'
--0.230974 O        b'-1:lemma:um'
--0.230974 O        b'+1:lemma:paraquat'
--0.236573 O        b'lemma:of'
--0.240385 O        b'-1:lemma:iptg'
--0.244742 Supp     b'+2:postag:-RRB-'
--0.251781 O        b'-1:lemma:rifampicin'
--0.263047 O        b'+1:postag:IN'
--0.263702 O        b'+1:postag:VBG'
--0.268568 O        b'lemma:20'
--0.274794 O        b'+2:lemma:add'
--0.280223 O        b'+2:postag:RB'
--0.291400 Supp     b'+2:lemma:1'
--0.296141 Phase    b'-1:postag:NN'
--0.297378 O        b'-2:lemma:dpd'
--0.301496 Phase    b'-2:postag:NN'
--0.307882 Supp     b'-2:lemma:grow'
--0.308671 O        b'-2:lemma:anaerobically'
--0.316370 O        b'+1:lemma:mg1655'
--0.317713 O        b'-2:lemma:until'
--0.327378 O        b'-1:lemma:from'
--0.329280 Med      b'-2:lemma:in'
--0.331478 O        b'+1:lemma:until'
--0.343943 O        b'lemma:k-12'
--0.346692 OD       b'+1:postag:NN'
--0.347195 Supp     b'-1:postag:VBG'
--0.348433 O        b'+1:lemma:fecl2'
--0.348433 O        b'-2:lemma:0.1'
--0.358964 O        b'-2:lemma::'
--0.362392 pH       b'postag:NN'
--0.364550 OD       b'lemma:-lrb-'
--0.366840 Anti     b'+1:lemma:anti-fur'
--0.372342 O        b'-1:lemma:grow'
--0.376200 O        b'+2:postag:-RRB-'
--0.383946 O        b'lemma:od600'
--0.387364 Supp     b'-2:postag:NN'
--0.394053 Anti     b'+2:lemma:polyclonal'
--0.398869 Supp     b'-1:postag:NNP'
--0.402792 O        b'-1:lemma:od600'
--0.405894 O        b'postag:RB'
--0.407413 O        b'-1:lemma:mid-log'
--0.417577 O        b'+2:lemma:fnr'
--0.419538 O        b'lemma:dissolve'
--0.419538 O        b'+2:lemma:methanol'
--0.420729 O        b'-2:postag:DT'
--0.427686 Gtype    b'-1:postag:NN'
--0.433305 O        b'+1:lemma:_'
--0.440572 O        b'+1:lemma:\xc2\xb0c'
--0.441074 Supp     b'+1:lemma:rifampicin'
--0.446067 Med      b'+1:postag:NN'
--0.453325 Phase    b'+1:postag:NN'
--0.453738 O        b'-1:lemma:co2'
--0.454368 O        b'lemma:0.3'
--0.465224 OD       b'-2:postag:IN'
--0.467206 O        b'-2:postag:SYM'
--0.469619 Supp     b'postag:CC'
--0.480615 O        b'lemma:anaerobically'
--0.482560 O        b'+2:lemma:reference'
--0.492293 O        b'-2:lemma:rpob'
--0.507584 O        b'+1:lemma:hour'
--0.517359 O        b'lemma:glucose'
--0.518184 O        b'-2:lemma:a'
--0.523810 O        b'+1:lemma:supplement'
--0.529465 O        b'lemma:dpd'
--0.535094 O        b'lemma:anaerobic'
--0.535327 Supp     b'+1:lemma:acetate'
--0.543209 Supp     b'+2:postag:NN'
--0.549417 O        b'lemma:aerobically'
--0.550622 O        b'+1:lemma:+'
--0.571540 O        b'lemma:media'
--0.573484 O        b'+2:lemma:antibody'
--0.582564 O        b'-1:lemma:dissolve'
--0.582564 O        b'+1:lemma:methanol'
--0.591022 O        b'lemma:0.1'
--0.601166 Air      b'+1:postag:JJ'
--0.618396 O        b'-2:lemma:aerobically'
--0.620494 O        b'lemma:methanol'
--0.620494 O        b'-2:lemma:dissolve'
--0.625501 O        b'lemma:0.2'
--0.627314 O        b'-1:lemma:ompr'
--0.627416 Temp     b'-1:lemma:\xc2\xb0c'
--0.631755 Air      b'-1:postag:JJ'
--0.641710 O        b'+1:lemma:minimal'
--0.642246 O        b'lemma:fecl2'
--0.651512 O        b'lemma:rifampicin'
--0.655237 O        b'lemma:\xe2\x88\x86'
--0.663186 O        b'-1:lemma:sample'
--0.665432 O        b'+2:lemma:+'
--0.669192 O        b'lemma:phase'
--0.678711 O        b'lemma:37'
--0.681855 O        b'+1:lemma:g/l'
--0.682703 O        b'-1:lemma:37'
--0.698027 O        b'+1:postag:NNS'
--0.702726 Supp     b'+2:lemma:2'
--0.715445 O        b'-1:lemma:0.2'
--0.734463 Med      b'-1:postag:NN'
--0.741932 O        b'lemma:2h'
--0.741932 O        b'-1:lemma:additional'
--0.743025 Supp     b'-2:postag:JJ'
--0.769586 O        b'+1:lemma:phase'
--0.772776 OD       b'-2:postag:JJ'
--0.774462 O        b'+2:lemma:medium'
--0.795476 O        b'-2:lemma:IP'
--0.799045 O        b'-1:lemma:~'
--0.821552 O        b'+2:lemma:mid-log'
--0.839684 OD       b'postag:-LRB-'
--0.858529 O        b'-2:lemma:rifampicin'
--0.862954 O        b'-1:postag::'
--0.882732 Supp     b'+2:postag:NNS'
--0.895274 Temp     b'postag:NN'
--0.947318 Anti     b'+2:postag:JJ'
--0.959235 Phase    b'-1:postag:JJ'
--0.977788 O        b'-1:lemma:rpob'
--0.978443 O        b'lemma:mid-log'
--0.988760 O        b'-1:postag:VBG'
--1.006314 O        b'-2:lemma:50'
--1.041256 O        b'-1:lemma:nsrr'
--1.065402 O        b'+2:lemma:b'
--1.086805 O        b'-2:lemma:supplement'
--1.093802 O        b'+1:lemma:cell'
--1.098577 O        b'+2:lemma:rifampicin'
--1.120238 O        b'-1:lemma:IP'
--1.200121 Med      b'-2:postag:VBN'
--1.376159 Air      b'postag:NN'
--1.479670 O        b'+1:lemma:in'
--1.485332 Phase    b'postag:JJ'
--1.570263 O        b'lemma:wt'
--1.570821 Supp     b'postag:JJ'
--1.809959 Anti     b'postag:NNP'
--1.929723 O        b'-1:lemma:2'
--2.027837 O        b'+1:lemma:at'
--2.145834 O        b'-2:lemma:phase'
--2.516491 O        b'+1:lemma:2'
--2.632073 Supp     b'+2:postag:CD'
--3.112250 O        b'+1:lemma:1'
--4.352391 O        b'-1:lemma::'
--4.597643 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.06596113672627639, 'c2': 0.005613954965247502}
-best CV score:0.8018183916317536
-model size: 0.08M
-
-Flat F1: 0.7935906805413363
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.803     0.860     0.831        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.902     0.742     0.814        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.865     0.783     0.822       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.830     0.684     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.867     0.748     0.794       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.810185
-OD     -> OD      6.187635
-Temp   -> Temp    5.829357
-Med    -> Med     5.699279
-Anti   -> Anti    5.664227
-Air    -> Air     5.035921
-Phase  -> Phase   4.898803
-Gversion -> Gversion 4.861231
-O      -> O       4.770492
-Gtype  -> Gtype   4.725413
-Supp   -> Supp    4.444377
-Technique -> Technique 4.039464
-pH     -> pH      2.490113
-O      -> Supp    1.657684
-Substrain -> Gtype   1.602926
-O      -> Technique 1.346731
-Gtype  -> Supp    1.341693
-O      -> Gtype   1.213701
-O      -> Temp    0.759700
-Technique -> Air     0.709582
-Air    -> O       0.679733
-O      -> Anti    0.628958
-Gtype  -> pH      0.381737
-OD     -> Phase   0.217695
-Gtype  -> Air     0.206619
-O      -> Gversion 0.164188
-O      -> Med     0.158358
-Med    -> O       0.068822
-O      -> Strain  0.037849
-O      -> Phase   0.019143
-Temp   -> O       0.000267
-Supp   -> Anti    -0.000426
-Gversion -> O       -0.017952
-Anti   -> OD      -0.023479
-Air    -> Temp    -0.064389
-Strain -> O       -0.068951
-Phase  -> Air     -0.097477
-Temp   -> Med     -0.130697
-Supp   -> Gversion -0.132660
-Gtype  -> Gversion -0.152489
-Supp   -> Temp    -0.180122
-O      -> OD      -0.195607
-Anti   -> O       -0.203415
-Supp   -> Technique -0.213129
-Supp   -> OD      -0.295829
-Technique -> pH      -0.297966
-Air    -> Phase   -0.309467
-Gtype  -> Med     -0.371622
-Phase  -> O       -0.401213
-Technique -> O       -0.444318
-
-
-Top unlikely transitions:
-Air    -> O       0.679733
-O      -> Anti    0.628958
-Gtype  -> pH      0.381737
-OD     -> Phase   0.217695
-Gtype  -> Air     0.206619
-O      -> Gversion 0.164188
-O      -> Med     0.158358
-Med    -> O       0.068822
-O      -> Strain  0.037849
-O      -> Phase   0.019143
-Temp   -> O       0.000267
-Supp   -> Anti    -0.000426
-Gversion -> O       -0.017952
-Anti   -> OD      -0.023479
-Air    -> Temp    -0.064389
-Strain -> O       -0.068951
-Phase  -> Air     -0.097477
-Temp   -> Med     -0.130697
-Supp   -> Gversion -0.132660
-Gtype  -> Gversion -0.152489
-Supp   -> Temp    -0.180122
-O      -> OD      -0.195607
-Anti   -> O       -0.203415
-Supp   -> Technique -0.213129
-Supp   -> OD      -0.295829
-Technique -> pH      -0.297966
-Air    -> Phase   -0.309467
-Gtype  -> Med     -0.371622
-Phase  -> O       -0.401213
-Technique -> O       -0.444318
-OD     -> Gtype   -0.458964
-Air    -> Med     -0.484691
-Supp   -> O       -0.486623
-OD     -> Air     -0.565502
-Technique -> OD      -0.598899
-Technique -> Gtype   -0.612194
-Air    -> OD      -0.617091
-Supp   -> Air     -0.672649
-Gtype  -> O       -0.732894
-OD     -> Med     -0.783942
-O      -> Air     -0.841156
-Gtype  -> Anti    -0.881159
-Air    -> Supp    -0.895933
-Agit   -> O       -0.971277
-Gtype  -> OD      -1.088787
-OD     -> O       -1.113905
-Supp   -> Med     -1.253584
-Substrain -> O       -1.723672
-Phase  -> OD      -2.084990
-Med    -> Supp    -2.134929
-
-
-Top positive:
-9.803739 Supp     b'lemma:Iron'
-9.580173 O        b'lemma:_'
-8.154870 O        b'lemma:1'
-7.967307 Phase    b'lemma:stationary'
-7.817188 Technique b'lemma:ChIP-exo'
-7.499968 Air      b'lemma:anaerobic'
-7.345897 Supp     b'lemma:nitrate'
-7.255329 Med      b'lemma:MOPS'
-7.049720 Strain   b'lemma:k-12'
-6.904427 Air      b'lemma:aerobic'
-6.841300 O        b'lemma:rpob'
-6.768590 O        b'lemma:2'
-6.737063 Technique b'lemma:chipseq'
-6.360291 O        b'-1:lemma:tag'
-6.349470 Supp     b'lemma:pq'
-6.300045 Gtype    b'lemma:\xce\xb4cra'
-6.186808 O        b'lemma:3'
-6.179446 O        b'-1:lemma:ChIP-exo'
-6.005364 Air      b'-1:lemma:ChIP-Seq'
-5.920885 Gversion b'lemma:asm584v2'
-5.896974 Air      b'lemma:Aerobic'
-5.722661 Gtype    b'lemma:flag-tag'
-5.722661 Gtype    b'-1:lemma:c-terminal'
-5.531927 OD       b'lemma:od600'
-5.514469 Med      b'lemma:LB'
-5.500899 O        b'lemma:Cra'
-5.490395 O        b'lemma:rep1'
-5.429405 Gtype    b'lemma:arca8myc'
-5.319893 Substrain b'lemma:mg1655'
-5.281725 O        b'lemma:rep2'
-5.261435 O        b'lemma:Custom'
-5.225717 Supp     b'+1:lemma:\xc2\xb5m'
-5.209658 Gtype    b'lemma:delta-arca'
-5.179292 Gtype    b'lemma:type'
-5.158663 O        b'lemma:b'
-5.112757 Supp     b'lemma:nh4cl'
-5.101092 O        b'lemma:rep3'
-5.039392 OD       b'lemma:od450'
-5.020295 Med      b'lemma:lb'
-5.002221 O        b'-1:lemma:0.3-0.35'
-4.965187 Supp     b'lemma:glucose'
-4.956435 Gtype    b'lemma:fnr8myc'
-4.954144 O        b'postag::'
-4.945827 Technique b'lemma:rna-seq'
-4.916169 OD       b'+1:lemma:stationary'
-4.892519 Gtype    b'lemma:wt'
-4.870877 Supp     b'lemma:Fe'
-4.839544 Gtype    b'+1:lemma:type'
-4.839112 O        b'lemma:a'
-4.816421 Supp     b'lemma:acetate'
-4.800826 O        b'lemma:for'
-4.795011 O        b'-1:lemma:Aerobic'
-4.749012 O        b'lemma:\xcf\x8332'
-4.703876 Anti     b'lemma:none'
-4.687916 Gversion b'lemma:nc'
-4.679745 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.658460 O        b'postag:IN'
-4.499779 Gtype    b'lemma:delta-fnr'
-4.488425 Supp     b'lemma:rifampicin'
-4.420970 Technique b'lemma:ChIP-Seq'
-4.383863 O        b'lemma:.'
-4.383863 O        b'postag:.'
-4.370053 O        b'+1:lemma:od600'
-4.356499 O        b'-1:lemma:glucose'
-4.332569 Anti     b'lemma:seqa'
-4.328668 Supp     b'lemma:no3'
-4.297407 Med      b'+1:lemma:0.4'
-4.276695 Supp     b'-1:lemma:Cra'
-4.206385 Strain   b'+1:lemma:substr'
-4.200724 Gtype    b'lemma:\xe2\x88\x86'
-4.199179 Phase    b'lemma:mid-log'
-4.192968 Gtype    b'lemma:\xce\xb4fur'
-4.176687 Technique b'lemma:rnaseq'
-4.174399 Technique b'lemma:chip-seq'
-4.163064 O        b'-1:lemma:anaerobic'
-4.079966 Supp     b'lemma:dpd'
-4.071291 O        b'lemma:-'
-4.042539 Gtype    b'lemma:nsrr'
-4.040900 O        b'+1:postag:RB'
-3.961200 Anti     b'lemma:anti-rpos'
-3.949739 Supp     b'lemma:fructose'
-3.943560 Supp     b'lemma:arginine'
-3.920546 O        b'lemma:with'
-3.906842 O        b'lemma:or'
-3.867183 Gversion b'lemma:000913'
-3.852346 Supp     b'+1:lemma:1'
-3.844501 Vess     b'lemma:flask'
-3.844501 Vess     b'-1:lemma:warm'
-3.833652 O        b'lemma:CEL'
-3.821792 Anti     b'lemma:anti-myc'
-3.754133 Gversion b'-1:lemma:nc'
-3.739933 pH       b'lemma:ph5'
-3.739933 pH       b'+1:lemma:.5'
-3.707305 Temp     b'-1:lemma:\xcf\x8332'
-3.705406 O        b'lemma:chip'
-3.697004 O        b'-1:lemma:type'
-3.688398 Med      b'lemma:m63'
-3.683435 Supp     b'+1:lemma:hour'
-3.597164 O        b'postag:VBN'
-3.578566 Gversion b'lemma:chip-seq'
-3.568740 O        b'lemma:s'
-3.558200 Temp     b'-1:lemma:sample'
-3.545060 O        b'+1:lemma:o.d.'
-3.516070 Supp     b'-1:lemma:+'
-3.483554 Gtype    b'lemma:\xce\xb4ompr'
-3.483503 Gtype    b'+1:lemma:with'
-3.459746 Supp     b'lemma:nacl'
-3.441734 O        b'-1:lemma:lb'
-3.409536 Air      b'lemma:Anaerobic'
-3.404389 Gtype    b'+1:lemma:ph5'
-3.361396 Technique b'+1:lemma:chip-exo'
-3.328422 Gtype    b'lemma:\xce\xb4soxs'
-3.317686 Med      b'+1:lemma:2.0'
-3.301476 Gversion b'lemma:u00096'
-3.301476 Gversion b'+1:lemma:.2'
-3.286668 O        b'lemma:affyexp'
-3.280195 Air      b'lemma:anaerobically'
-3.258177 Gtype    b'-1:lemma:ptac'
-3.257208 O        b'lemma:ompr'
-3.255510 Gtype    b'+1:lemma:pq'
-3.246680 Anti     b'+1:lemma:antibody'
-3.236124 O        b'lemma:oxyr'
-3.209122 Supp     b'+1:lemma:2'
-3.197656 Med      b'+1:lemma:minimal'
-3.196597 Phase    b'-1:lemma:until'
-3.189945 Gtype    b'lemma:wild-type'
-3.181288 O        b'-1:lemma:0.3'
-3.170002 Temp     b'lemma:\xc2\xb0c'
-3.161695 O        b'+1:lemma:pq'
-3.159682 Supp     b'lemma:Leu'
-3.133292 Gversion b'lemma:.2'
-3.133292 Gversion b'-1:lemma:u00096'
-3.126040 O        b'lemma:2-3'
-3.125880 Technique b'-1:lemma:IP'
-3.112267 O        b'-1:lemma:stpa'
-3.103375 Gtype    b'lemma:ptac'
-3.101224 Gtype    b'+1:lemma:flagtag'
-3.060100 Temp     b'-1:lemma:37'
-3.057323 Supp     b'+1:lemma:_'
-3.050729 O        b'lemma:Lrp'
-3.035951 Gtype    b'lemma:pk4854'
-3.030223 O        b'lemma:chip-arca'
-3.008946 OD       b'-1:lemma:~'
-2.947889 O        b'lemma:argr'
-2.944505 Technique b'-1:lemma:chip-exo'
-2.933771 O        b'+1:lemma:chip-seq'
-2.918186 Gtype    b'-1:lemma:rpob'
-2.896628 Phase    b'+1:lemma:for'
-2.896158 O        b'lemma:purr'
-2.893920 Gtype    b'lemma:WT'
-2.885542 Med      b'-1:lemma:ml'
-2.868396 O        b'-1:lemma:l1'
-2.864588 O        b'lemma:at'
-2.861849 Gtype    b'lemma:deltaseqa'
-2.861849 Gtype    b'-1:lemma:old'
-2.861515 Air      b'postag:RB'
-2.860863 Technique b'-1:lemma:input'
-2.852420 Air      b'lemma:anerobically'
-2.847369 O        b'-1:lemma:\xc2\xb0c'
-2.838846 Substrain b'+1:lemma:phtpg'
-2.838740 Temp     b'-1:lemma:43'
-2.808074 OD       b'lemma:phase'
-2.787238 Med      b'lemma:L'
-2.787238 Med      b'+1:lemma:broth'
-2.770533 Gtype    b'+1:lemma:aerobic'
-2.754834 O        b'-1:lemma:dpd'
-2.711280 Gtype    b'lemma:\xce\xb4soxr'
-2.708114 Med      b'lemma:glucose'
-2.683398 O        b'-1:lemma:media'
-2.661239 O        b'+1:postag:NNP'
-2.646068 Gtype    b'lemma:\xce\xb4oxyr'
-2.622418 O        b'lemma:soxs'
-2.622418 O        b'lemma:soxr'
-2.602038 Supp     b'+1:lemma:Deficient'
-2.600846 Temp     b'lemma:43'
-2.597103 O        b'postag:DT'
-2.594739 Supp     b'lemma:iptg'
-2.565098 OD       b'lemma:0.3'
-2.562324 Supp     b'lemma:Adenine'
-2.524716 pH       b'lemma:.5'
-2.524716 pH       b'-1:lemma:ph5'
-2.490454 Air      b'+1:lemma:at'
-2.468286 O        b'lemma:Fur'
-2.464129 Supp     b'lemma:methanol'
-2.445015 Air      b'-1:lemma:-'
-2.439688 Med      b'+1:lemma:contain'
-2.436952 Med      b'-1:lemma:LB'
-2.431687 Supp     b'-1:lemma:\xc2\xb5m'
-2.424727 O        b'lemma:culture'
-2.410632 O        b'lemma:chip-fnr'
-2.399552 O        b'+1:lemma:mid-log'
-2.380228 O        b'lemma:condition'
-2.369416 Supp     b'lemma:20'
-2.332730 Technique b'+1:lemma:rna-seq'
-2.331984 Gtype    b'lemma:dfnr'
-2.298119 O        b'-1:lemma:min'
-2.251434 Gtype    b'lemma:soxs-8myc'
-2.251434 Gtype    b'lemma:soxr-8myc'
-2.236660 O        b'+1:lemma:sparging'
-2.235760 Gtype    b'-1:lemma:_'
-
-
-Top negative:
-0.000004 Gtype    b'+1:lemma:carrying'
--0.000024 Gtype    b'+1:lemma:-'
--0.000044 Med      b'+1:lemma:media'
--0.000057 O        b'-1:lemma:g/l'
--0.000062 Gtype    b'+1:postag:IN'
--0.000133 Gtype    b'+1:lemma:cra'
--0.000220 OD       b'+1:postag:NNS'
--0.000334 O        b'lemma:pahse'
--0.000367 O        b'+1:lemma:pahse'
--0.000370 O        b'+1:lemma:antibody'
--0.000463 Gtype    b'+1:lemma:2'
--0.000888 O        b'+1:lemma:95'
--0.001725 O        b'+1:lemma:grow'
--0.001924 O        b'-1:lemma:70'
--0.002590 O        b'-1:lemma:at'
--0.002609 Supp     b'+1:lemma:glucose'
--0.002737 Temp     b'-1:lemma:\xc2\xb0c'
--0.003250 O        b'+1:lemma:0.4'
--0.003835 O        b'-1:lemma:the'
--0.004365 Supp     b'lemma:min'
--0.004404 Air      b'+1:postag:NN'
--0.004876 Gtype    b'-1:postag:SYM'
--0.007478 Air      b'-1:lemma:anaerobically'
--0.008825 O        b'lemma:25'
--0.010133 O        b'-1:lemma:\xe2\x88\x86'
--0.010800 O        b'+1:lemma:~'
--0.011018 O        b'-1:lemma:25'
--0.012738 OD       b'+1:lemma:0.4'
--0.013297 O        b'-1:lemma:mm'
--0.013330 O        b'+1:lemma:25'
--0.017236 O        b'lemma:medium'
--0.017258 O        b'+1:lemma:co2'
--0.021642 O        b'-1:lemma:minimal'
--0.022529 O        b'lemma:\xe2\x88\x86'
--0.023207 OD       b'+1:postag:CD'
--0.024275 O        b'+1:lemma:culture'
--0.027000 Med      b'+1:postag:NNS'
--0.028443 O        b'-1:postag:IN'
--0.028871 OD       b'lemma:~'
--0.029400 O        b'-1:lemma:-lrb-'
--0.029957 O        b'-1:postag:VBN'
--0.031814 OD       b'+1:lemma:-lrb-'
--0.036730 O        b'lemma:\xc2\xb0c'
--0.040489 O        b'+1:lemma:shake'
--0.049352 O        b'lemma:grow'
--0.049870 Gtype    b'-1:postag:CD'
--0.051592 O        b'+1:lemma:\xc2\xb0c'
--0.058064 O        b'+1:lemma:5'
--0.060533 Supp     b'-1:postag:NNP'
--0.066506 O        b'lemma:m63'
--0.067322 O        b'lemma:purify'
--0.073479 O        b'-1:lemma:1'
--0.078629 OD       b'+1:postag:-LRB-'
--0.088409 OD       b'-1:postag:DT'
--0.089657 O        b'+1:lemma:300'
--0.090027 O        b'lemma:lb'
--0.092005 Air      b'-1:postag:CC'
--0.094016 O        b'-1:lemma:e.'
--0.094979 O        b'-1:postag:-LRB-'
--0.095499 O        b'+1:lemma:-rrb-'
--0.096558 Gversion b'-1:postag:NN'
--0.102714 O        b'-1:lemma:fresh'
--0.102983 Phase    b'+1:postag:NN'
--0.104669 Supp     b'lemma:and'
--0.106096 Phase    b'-1:lemma:at'
--0.110455 O        b'+1:lemma:minimal'
--0.110526 Supp     b'+1:postag:IN'
--0.113970 Technique b'-1:lemma::'
--0.119878 O        b'-1:lemma:iptg'
--0.125836 O        b'+1:lemma:mm'
--0.127210 O        b'+1:lemma:rep1'
--0.132494 Gtype    b'-1:postag:NN'
--0.133598 Vess     b'postag:NN'
--0.137884 O        b'lemma:o2'
--0.140906 O        b'+1:lemma:o2'
--0.143319 O        b'-1:lemma:n2'
--0.147451 O        b'-1:lemma:o2'
--0.153465 Anti     b'+1:postag:JJ'
--0.160555 O        b'lemma:mg1655'
--0.160730 O        b'-1:lemma:um'
--0.160730 O        b'+1:lemma:paraquat'
--0.168104 O        b'lemma:minimal'
--0.171270 O        b'-1:lemma:of'
--0.172228 O        b'-1:lemma:from'
--0.175329 O        b'lemma:e.'
--0.178475 O        b'-1:lemma:30'
--0.179463 O        b'-1:lemma:0.1'
--0.182901 OD       b'postag:JJ'
--0.185549 Med      b'postag:CD'
--0.192111 Air      b'postag:CD'
--0.211750 Supp     b'-1:postag:NN'
--0.223595 O        b'lemma:co2'
--0.226618 Gtype    b'postag:CD'
--0.231536 Med      b'-1:postag:NN'
--0.234723 O        b'lemma:30'
--0.248832 O        b'lemma:aerobically'
--0.249281 Agit     b'postag:NN'
--0.250953 O        b'lemma:n2'
--0.270863 O        b'+1:lemma:phase'
--0.306219 Strain   b'+1:postag:NN'
--0.308359 O        b'-1:lemma:od600'
--0.323236 O        b'+1:postag:IN'
--0.329990 O        b'lemma:anaerobic'
--0.339291 O        b'lemma:od600'
--0.345297 O        b'+1:lemma:.'
--0.345297 O        b'+1:postag:.'
--0.345455 Med      b'+1:postag:IN'
--0.346323 O        b'-1:lemma:rifampicin'
--0.350930 Air      b'-1:lemma:or'
--0.351942 O        b'-1:lemma:cra'
--0.357748 Gtype    b'lemma:delta'
--0.359268 O        b'lemma:phase'
--0.360855 O        b'-1:lemma:~'
--0.363783 O        b'postag:RB'
--0.363829 OD       b'+1:lemma:and'
--0.388025 Supp     b'+1:postag:VBN'
--0.399712 O        b'+1:lemma:until'
--0.413829 O        b'+1:postag:NNS'
--0.416759 OD       b'+1:postag:CC'
--0.419943 O        b'-1:lemma:ml'
--0.423733 O        b'+1:postag:-RRB-'
--0.431094 O        b'-1:lemma:grow'
--0.438662 O        b'lemma:150'
--0.438662 O        b'+1:lemma:mg/ml'
--0.438787 O        b'+1:lemma:0.3'
--0.450796 Temp     b'postag:JJ'
--0.452037 O        b'lemma:\xce\xb4fur'
--0.453882 Air      b'-1:postag:JJ'
--0.460132 O        b'+1:lemma:arginine'
--0.520629 O        b'postag:VBP'
--0.525807 O        b'-1:lemma:0.2'
--0.531833 O        b'lemma:dissolve'
--0.544854 Phase    b'-1:postag:NN'
--0.548102 Anti     b'+1:lemma:anti-fur'
--0.553501 O        b'lemma:0.3'
--0.554123 Technique b'-1:postag::'
--0.564730 O        b'+1:lemma:%'
--0.566274 O        b'-1:lemma:mid-log'
--0.595934 O        b'+1:lemma:cell'
--0.624651 O        b'+1:lemma:c'
--0.627312 Temp     b'+1:lemma:to'
--0.627312 Temp     b'+1:postag:TO'
--0.629337 Med      b'+1:postag:NN'
--0.634742 O        b'+1:lemma:_'
--0.635820 O        b'lemma:dpd'
--0.688829 OD       b'lemma:-lrb-'
--0.690594 OD       b'+1:postag:NN'
--0.702445 O        b'lemma:20'
--0.763984 OD       b'postag:-LRB-'
--0.768100 O        b'lemma:media'
--0.778612 Gversion b'+1:postag:NN'
--0.780471 O        b'lemma:anaerobically'
--0.786127 O        b'-1:postag:VBG'
--0.824784 Med      b'-1:postag:IN'
--0.845775 Supp     b'+1:lemma:acetate'
--0.846041 O        b'-1:lemma:co2'
--0.852351 pH       b'postag:NN'
--0.867978 O        b'+1:lemma:fecl2'
--0.888618 Supp     b'+1:lemma:rifampicin'
--0.923659 Supp     b'postag:CC'
--0.924869 O        b'lemma:of'
--0.956241 Temp     b'postag:NN'
--0.991767 O        b'-1:lemma:sample'
--1.051712 O        b'-1:lemma:dissolve'
--1.051712 O        b'+1:lemma:methanol'
--1.119586 O        b'+1:lemma:+'
--1.132902 O        b'-1:lemma:37'
--1.140977 Phase    b'-1:postag:JJ'
--1.157470 O        b'lemma:fecl2'
--1.187930 O        b'lemma:0.2'
--1.196177 O        b'+1:lemma:supplement'
--1.198543 O        b'lemma:2h'
--1.198543 O        b'-1:lemma:additional'
--1.211522 O        b'+1:lemma:g/l'
--1.224455 O        b'+1:lemma:at'
--1.233557 O        b'-1:lemma:rpob'
--1.246376 O        b'lemma:0.1'
--1.265258 O        b'-1:postag::'
--1.266857 O        b'lemma:37'
--1.276968 Air      b'+1:postag:JJ'
--1.367143 O        b'+1:postag:VBG'
--1.372161 O        b'lemma:rifampicin'
--1.380156 O        b'lemma:mid-log'
--1.408891 O        b'+1:lemma:hour'
--1.503066 O        b'lemma:wt'
--1.654992 Anti     b'postag:NNP'
--1.656418 Supp     b'-1:lemma:%'
--1.743144 Phase    b'postag:JJ'
--1.805708 O        b'-1:lemma:ompr'
--1.821985 O        b'+1:lemma:in'
--1.835729 O        b'-1:lemma:nsrr'
--1.914064 O        b'lemma:methanol'
--1.942273 O        b'-1:lemma:IP'
--2.145235 Air      b'postag:NN'
--2.312190 O        b'-1:lemma:2'
--2.393207 Supp     b'postag:JJ'
--2.809437 O        b'+1:lemma:2'
--3.166822 O        b'+1:lemma:1'
--3.568530 O        b'-1:lemma:_'
--3.975976 O        b'-1:lemma::'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.3584617458365783, 'c2': 0.005702731733010388}
-best CV score:0.7892724734479645
-model size: 0.05M
-
-Flat F1: 0.7770000497122165
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.780     0.742     0.760        62
-       Anti      0.500     0.444     0.471         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.828     0.774     0.800       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.803     0.691     0.743       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.834     0.744     0.777       480
-
-
-Top likely transitions:
-OD     -> OD      6.207517
-Agit   -> Agit    6.144930
-Med    -> Med     5.284052
-Anti   -> Anti    5.278606
-Temp   -> Temp    5.208476
-Air    -> Air     4.805077
-O      -> O       4.440768
-Gtype  -> Gtype   4.358978
-Gversion -> Gversion 4.158001
-Phase  -> Phase   4.098995
-Technique -> Technique 4.090708
-Supp   -> Supp    4.012852
-O      -> Supp    2.068480
-Gtype  -> Supp    1.861974
-pH     -> pH      1.651755
-O      -> Technique 1.423652
-Air    -> O       1.413050
-O      -> Gtype   1.235571
-O      -> Anti    1.042265
-Substrain -> Gtype   0.832252
-Med    -> O       0.806110
-O      -> Temp    0.755910
-Temp   -> O       0.540542
-Technique -> Air     0.454746
-O      -> Gversion 0.402020
-Supp   -> O       0.347334
-O      -> Med     0.334881
-OD     -> Phase   0.330860
-Phase  -> O       0.243437
-Gtype  -> pH      0.053400
-O      -> OD      0.004380
-O      -> Phase   0.002932
-Technique -> O       -0.000992
-Gtype  -> Med     -0.027797
-Supp   -> Air     -0.028399
-Gtype  -> O       -0.156530
-OD     -> O       -0.230762
-O      -> Air     -0.339608
-Gtype  -> OD      -0.384678
-Agit   -> O       -0.523470
-Supp   -> Med     -0.770936
-Med    -> Supp    -0.862383
-Phase  -> OD      -0.954560
-Substrain -> O       -1.080979
-
-
-Top unlikely transitions:
-OD     -> OD      6.207517
-Agit   -> Agit    6.144930
-Med    -> Med     5.284052
-Anti   -> Anti    5.278606
-Temp   -> Temp    5.208476
-Air    -> Air     4.805077
-O      -> O       4.440768
-Gtype  -> Gtype   4.358978
-Gversion -> Gversion 4.158001
-Phase  -> Phase   4.098995
-Technique -> Technique 4.090708
-Supp   -> Supp    4.012852
-O      -> Supp    2.068480
-Gtype  -> Supp    1.861974
-pH     -> pH      1.651755
-O      -> Technique 1.423652
-Air    -> O       1.413050
-O      -> Gtype   1.235571
-O      -> Anti    1.042265
-Substrain -> Gtype   0.832252
-Med    -> O       0.806110
-O      -> Temp    0.755910
-Temp   -> O       0.540542
-Technique -> Air     0.454746
-O      -> Gversion 0.402020
-Supp   -> O       0.347334
-O      -> Med     0.334881
-OD     -> Phase   0.330860
-Phase  -> O       0.243437
-Gtype  -> pH      0.053400
-O      -> OD      0.004380
-O      -> Phase   0.002932
-Technique -> O       -0.000992
-Gtype  -> Med     -0.027797
-Supp   -> Air     -0.028399
-Gtype  -> O       -0.156530
-OD     -> O       -0.230762
-O      -> Air     -0.339608
-Gtype  -> OD      -0.384678
-Agit   -> O       -0.523470
-Supp   -> Med     -0.770936
-Med    -> Supp    -0.862383
-Phase  -> OD      -0.954560
-Substrain -> O       -1.080979
-
-
-Top positive:
-8.207743 Supp     b'lemma:Iron'
-8.126913 O        b'lemma:_'
-7.668488 Air      b'lemma:anaerobic'
-7.430711 Air      b'lemma:aerobic'
-7.087261 O        b'lemma:1'
-6.741673 Technique b'lemma:ChIP-exo'
-6.330636 Supp     b'lemma:nitrate'
-6.316340 Strain   b'lemma:k-12'
-6.184951 Air      b'-1:lemma:ChIP-Seq'
-6.044256 Substrain b'lemma:mg1655'
-6.022814 O        b'lemma:2'
-5.884584 O        b'lemma:rpob'
-5.829789 Phase    b'lemma:stationary'
-5.778215 O        b'lemma:3'
-5.775900 Med      b'lemma:MOPS'
-5.472627 Technique b'lemma:chipseq'
-5.452821 Gtype    b'lemma:type'
-5.385754 Gversion b'lemma:nc'
-5.283474 Technique b'lemma:ChIP-Seq'
-5.207906 Gversion b'lemma:asm584v2'
-5.127213 Phase    b'lemma:mid-log'
-5.064325 O        b'postag:IN'
-5.025536 O        b'-1:lemma:ChIP-exo'
-5.020720 O        b'lemma:Custom'
-4.808679 Supp     b'lemma:pq'
-4.770459 O        b'lemma:\xcf\x8332'
-4.677547 O        b'lemma:b'
-4.677327 Air      b'lemma:Aerobic'
-4.623206 Gtype    b'lemma:\xce\xb4cra'
-4.570334 OD       b'lemma:od600'
-4.480021 O        b'lemma:rep1'
-4.422817 Supp     b'lemma:nh4cl'
-4.411192 Supp     b'+1:lemma:\xc2\xb5m'
-4.371069 Med      b'lemma:LB'
-4.342307 O        b'lemma:a'
-4.339830 Gtype    b'lemma:flag-tag'
-4.339830 Gtype    b'-1:lemma:c-terminal'
-4.307469 O        b'-1:lemma:tag'
-4.290727 Gtype    b'+1:lemma:type'
-4.284775 Med      b'lemma:lb'
-4.262695 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.262594 Temp     b'-1:lemma:sample'
-4.220453 O        b'lemma:rep2'
-4.087831 O        b'postag::'
-4.058385 Gversion b'-1:lemma:nc'
-4.009221 O        b'lemma:rep3'
-3.965243 Gtype    b'lemma:arca8myc'
-3.958883 Supp     b'lemma:glucose'
-3.925260 Technique b'lemma:rna-seq'
-3.899283 O        b'lemma:Cra'
-3.849955 OD       b'lemma:od450'
-3.714897 Gtype    b'lemma:delta-arca'
-3.673709 Gtype    b'lemma:wt'
-3.659796 Technique b'lemma:chip-seq'
-3.528015 Gtype    b'lemma:fnr8myc'
-3.489859 O        b'+1:lemma:od600'
-3.484744 Supp     b'lemma:Fe'
-3.480788 Gtype    b'lemma:nsrr'
-3.465328 O        b'lemma:.'
-3.465328 O        b'postag:.'
-3.447372 O        b'-1:lemma:type'
-3.439488 Supp     b'lemma:acetate'
-3.385749 Anti     b'+1:lemma:antibody'
-3.365979 Gtype    b'lemma:\xe2\x88\x86'
-3.364067 Vess     b'lemma:flask'
-3.364067 Vess     b'-1:lemma:warm'
-3.286848 Supp     b'lemma:no3'
-3.283119 O        b'-1:lemma:Aerobic'
-3.269163 Supp     b'lemma:arginine'
-3.232797 Technique b'lemma:rnaseq'
-3.230473 O        b'postag:VBN'
-3.182859 Supp     b'lemma:fructose'
-3.165112 Med      b'+1:lemma:0.4'
-3.163288 O        b'lemma:-'
-3.124487 Supp     b'lemma:dpd'
-3.038568 Air      b'postag:RB'
-3.018509 Gtype    b'lemma:\xce\xb4fur'
-3.008077 Supp     b'lemma:rifampicin'
-3.002475 Gtype    b'-1:lemma:rpob'
-3.000763 Gtype    b'lemma:delta-fnr'
-2.976036 pH       b'lemma:ph5'
-2.976036 pH       b'+1:lemma:.5'
-2.958886 Anti     b'lemma:none'
-2.909966 Temp     b'-1:lemma:\xcf\x8332'
-2.844862 Gtype    b'+1:lemma:flagtag'
-2.832159 O        b'postag:CC'
-2.773852 Supp     b'+1:lemma:1'
-2.760087 O        b'-1:lemma:glucose'
-2.714759 Gversion b'lemma:u00096'
-2.714759 Gversion b'+1:lemma:.2'
-2.713598 O        b'lemma:chip'
-2.709955 Temp     b'lemma:\xc2\xb0c'
-2.688829 Gversion b'lemma:000913'
-2.679944 Anti     b'lemma:seqa'
-2.679837 Gtype    b'+1:lemma:ph5'
-2.659927 O        b'-1:lemma:anaerobic'
-2.645999 Gtype    b'+1:lemma:with'
-2.632697 O        b'-1:lemma:0.3-0.35'
-2.615260 OD       b'+1:lemma:stationary'
-2.610232 Gtype    b'+1:lemma:pq'
-2.600969 O        b'lemma:CEL'
-2.583139 Supp     b'+1:lemma:2'
-2.577577 Med      b'+1:lemma:minimal'
-2.529370 Med      b'lemma:m63'
-2.523009 Strain   b'+1:lemma:substr'
-2.501031 Gtype    b'-1:lemma:ptac'
-2.491778 Technique b'-1:lemma:IP'
-2.481774 Gversion b'lemma:chip-seq'
-2.430079 Gtype    b'lemma:wild-type'
-2.409612 Supp     b'-1:lemma:\xc2\xb5m'
-2.407221 Temp     b'-1:lemma:37'
-2.376179 Supp     b'-1:lemma:+'
-2.370422 O        b'postag:DT'
-2.364816 O        b'lemma:s'
-2.361663 pH       b'lemma:.5'
-2.361663 pH       b'-1:lemma:ph5'
-2.337980 Gversion b'lemma:.2'
-2.337980 Gversion b'-1:lemma:u00096'
-2.298988 Anti     b'lemma:anti-rpos'
-2.276207 O        b'+1:postag:NNP'
-2.273430 Temp     b'-1:lemma:43'
-2.257383 Supp     b'-1:lemma:Cra'
-2.255470 O        b'+1:lemma:pq'
-2.250731 Anti     b'lemma:anti-myc'
-2.208950 Technique b'-1:lemma:chip-exo'
-2.195872 O        b'lemma:or'
-2.186698 Supp     b'lemma:of'
-2.185972 Temp     b'-1:lemma:30'
-2.185682 O        b'+1:lemma:chip-seq'
-2.166108 Technique b'+1:lemma:chip-exo'
-2.160343 Supp     b'lemma:iptg'
-2.149961 O        b'lemma:with'
-2.149623 O        b'-1:lemma:lb'
-2.147543 Supp     b'lemma:nacl'
-2.136781 O        b'postag:VBG'
-2.134337 O        b'+1:postag:RB'
-2.118014 O        b'-1:lemma:l1'
-2.103907 Med      b'+1:lemma:2.0'
-2.053399 Med      b'lemma:L'
-2.053399 Med      b'+1:lemma:broth'
-2.047116 Air      b'-1:lemma:-'
-2.037292 OD       b'lemma:0.3'
-2.025848 Supp     b'lemma:20'
-2.016272 O        b'lemma:culture'
-2.002299 O        b'lemma:affyexp'
-1.995623 Med      b'lemma:media'
-1.991975 Med      b'+1:lemma:g/l'
-1.991131 Supp     b'-1:lemma:with'
-1.944808 Gtype    b'lemma:\xce\xb4ompr'
-1.919423 O        b'+1:lemma:sparging'
-1.902878 Phase    b'-1:lemma:mid-log'
-1.879469 O        b'-1:lemma:0.3'
-1.876614 Med      b'-1:lemma:glucose'
-1.873867 Phase    b'lemma:exponentially'
-1.862283 Supp     b'+1:lemma:_'
-1.850019 O        b'lemma:genotype/variation'
-1.840505 Air      b'lemma:anaerobically'
-1.834219 Supp     b'lemma:Leu'
-1.824637 Gversion b'postag:CD'
-1.808661 Technique b'-1:lemma:1'
-1.807281 Med      b'+1:lemma:supplement'
-1.791313 Gtype    b'lemma:\xce\xb4soxs'
-1.787667 O        b'lemma:oxyr'
-1.777332 Temp     b'lemma:43'
-1.758917 OD       b'+1:lemma:phase'
-1.745787 Gtype    b'lemma:pk4854'
-1.741695 pH       b'+1:postag:CD'
-1.718033 O        b'lemma:at'
-1.697274 Gtype    b'lemma:ptac'
-1.696614 Temp     b'+1:lemma:\xc2\xb0c'
-1.693293 Gtype    b'-1:lemma:_'
-1.690544 O        b'lemma:Fur'
-1.683055 Phase    b'+1:postag:NNS'
-1.671604 Technique b'-1:lemma:_'
-1.638397 O        b'+1:lemma:coli'
-1.637347 O        b'-1:lemma:\xc2\xb0c'
-1.637198 Gtype    b'+1:lemma:_'
-1.626675 O        b'lemma:condition'
-1.625147 O        b'lemma:ompr'
-1.620349 O        b'-1:lemma:dpd'
-1.606845 Gtype    b'postag:-RRB-'
-1.599013 O        b'+1:lemma:condition'
-1.593871 O        b'-1:lemma:media'
-1.586989 Gtype    b'lemma:deltaseqa'
-1.586989 Gtype    b'-1:lemma:old'
-1.581118 Gtype    b'+1:postag::'
-1.574655 Supp     b'lemma:2h'
-1.574655 Supp     b'-1:lemma:additional'
-1.572066 Supp     b'lemma:Adenine'
-1.555644 Supp     b'lemma:0.2'
-1.553939 Med      b'lemma:glucose'
-1.551370 Air      b'-1:lemma:co2'
-1.550089 O        b'-1:lemma:stpa'
-1.547031 Phase    b'-1:lemma:until'
-1.545602 O        b'lemma:escherichia'
-1.534407 Phase    b'+1:lemma:for'
-1.534111 O        b'lemma:to'
-1.534111 O        b'postag:TO'
-1.506351 Air      b'-1:postag:CD'
-1.505075 OD       b'-1:lemma:~'
-
-
-Top negative:
-0.092498 O        b'+1:postag:CD'
-0.092371 Anti     b'lemma:9e10'
-0.092371 Anti     b'+1:lemma:myc'
-0.092365 Agit     b'-1:lemma:at'
-0.088750 OD       b'postag:CD'
-0.084799 Agit     b'lemma:at'
-0.079600 Gtype    b'lemma:knock-out'
-0.079374 O        b'+1:lemma:rnase'
-0.077611 OD       b'-1:postag:CC'
-0.072829 Supp     b'+1:postag:IN'
-0.069820 Gtype    b'lemma:-rcb-'
-0.069801 Air      b'-1:lemma:5'
-0.066910 Supp     b'lemma:\xc2\xb5m'
-0.066375 O        b'-1:lemma:k-12'
-0.064827 O        b'+1:postag:FW'
-0.064097 O        b'+1:lemma:ml'
-0.062110 Gtype    b'-1:lemma:-lcb-'
-0.062110 Gtype    b'+1:lemma:-rcb-'
-0.058601 OD       b'postag:VBD'
-0.056775 O        b'-1:lemma:or'
-0.054708 Anti     b'-1:lemma:myc'
-0.054377 O        b'lemma:4'
-0.053900 Supp     b'+1:postag:RB'
-0.051178 O        b'+1:lemma:genbank'
-0.049268 OD       b'+1:postag:VBD'
-0.049094 Temp     b'+1:lemma:rep1'
-0.045714 Temp     b'-1:postag:VB'
-0.036759 O        b'-1:lemma:and'
-0.035785 Gtype    b'lemma:vector'
-0.034778 Gtype    b'+1:postag:JJ'
-0.032455 Air      b'lemma:n2'
-0.031453 O        b'+1:lemma:anaerobically'
-0.031113 Supp     b'lemma:1g/l'
-0.028939 Anti     b'-1:postag:JJ'
-0.025208 O        b'+1:postag:-LRB-'
-0.022522 Supp     b'lemma:feso4'
-0.019983 Anti     b'-1:postag:NNP'
-0.019451 O        b'lemma:short'
-0.017590 O        b'-1:postag:VBD'
-0.016416 OD       b'-1:postag:JJ'
-0.016240 Gtype    b'lemma:soxs-8myc'
-0.016240 Gtype    b'lemma:soxr-8myc'
-0.015907 Med      b'-1:lemma:in'
-0.010217 O        b'lemma:build'
-0.009692 Gtype    b'+1:lemma:strain'
-0.007708 O        b'-1:lemma:wp009'
-0.006568 Supp     b'+1:postag:CD'
-0.005939 Phase    b'postag:RB'
-0.005863 OD       b'-1:lemma:at'
-0.005806 O        b'+1:postag:JJ'
-0.005343 O        b'+1:lemma:_'
-0.005004 O        b'-1:lemma:genbank'
-0.004892 O        b'-1:lemma:for'
-0.004437 O        b'-1:postag:JJ'
-0.003005 O        b'-1:lemma:0.4'
-0.002748 Phase    b'+1:postag:RB'
-0.002320 O        b'+1:lemma:wt'
-0.002265 Temp     b'-1:postag:CD'
-0.001918 Gtype    b'-1:postag:-LRB-'
-0.001584 OD       b'+1:lemma:aerobically'
-0.001566 Gtype    b'lemma:cra'
-0.001535 O        b'lemma:and'
-0.001302 Anti     b'+1:lemma:tag'
-0.001258 Air      b'+1:lemma:-'
-0.000559 O        b'+1:lemma:for'
-0.000503 OD       b'-1:postag:VBN'
-0.000466 Temp     b'-1:postag:NNS'
-0.000335 O        b'-1:lemma:one'
-0.000284 O        b'lemma:acetate'
-0.000236 OD       b'+1:lemma:\xce\xb4soxr'
-0.000229 Anti     b'lemma:tag'
-0.000227 OD       b'-1:lemma:\xce\xb4oxyr'
-0.000204 OD       b'lemma:\xce\xb4soxr'
-0.000192 Phase    b'-1:lemma:to'
-0.000192 Phase    b'-1:postag:TO'
-0.000121 OD       b'postag:IN'
-0.000100 O        b'-1:lemma:genotype/variation'
-0.000080 Air      b'+1:postag::'
-0.000059 O        b'+1:lemma:to'
-0.000059 O        b'+1:postag:TO'
--0.000037 Gtype    b'postag:CD'
--0.000039 O        b'+1:lemma:rep1'
--0.000061 O        b'-1:lemma:0.1'
--0.000130 O        b'+1:lemma:phase'
--0.000176 Agit     b'postag:NN'
--0.000245 OD       b'postag:JJ'
--0.000457 O        b'-1:lemma:1'
--0.000503 Air      b'postag:CC'
--0.000998 O        b'+1:lemma:aerobically'
--0.001059 Air      b'-1:postag:-LRB-'
--0.001093 Air      b'-1:lemma:-lrb-'
--0.001565 Supp     b'+1:postag:VBN'
--0.002159 O        b'+1:lemma:95'
--0.002175 O        b'-1:lemma:,'
--0.002175 O        b'-1:postag:,'
--0.003091 Phase    b'-1:postag:NN'
--0.003612 O        b'+1:lemma:300'
--0.004687 O        b'lemma:grow'
--0.005564 Phase    b'+1:postag:NN'
--0.005730 O        b'-1:lemma:rpob'
--0.005960 O        b'-1:lemma:0.2'
--0.008901 OD       b'+1:postag:CD'
--0.013960 Gtype    b'-1:postag:NN'
--0.019448 Supp     b'-1:postag:NN'
--0.021094 Supp     b'postag:CC'
--0.021674 Air      b'+1:lemma:n2'
--0.023055 Air      b'-1:postag:VBN'
--0.029602 O        b'+1:lemma:c'
--0.029927 Gtype    b'+1:lemma:-lrb-'
--0.031078 Gtype    b'-1:postag:CD'
--0.032455 Supp     b'+1:lemma:-rrb-'
--0.043025 Med      b'postag:CD'
--0.044063 Air      b'-1:lemma:n2'
--0.051827 O        b'+1:lemma:5'
--0.052288 Air      b'postag:CD'
--0.053147 O        b'lemma:e.'
--0.054046 O        b'-1:lemma:sample'
--0.055910 Supp     b'+1:lemma:rifampicin'
--0.073647 Anti     b'+1:postag:JJ'
--0.076109 Phase    b'-1:lemma:at'
--0.081733 OD       b'+1:postag:-LRB-'
--0.092924 O        b'-1:postag:VBN'
--0.093020 Supp     b'+1:postag:-RRB-'
--0.100297 Med      b'+1:postag:IN'
--0.133555 O        b'lemma:20'
--0.147319 O        b'-1:lemma:of'
--0.160013 O        b'+1:lemma:0.3'
--0.162627 Gversion b'+1:postag:NN'
--0.171877 Temp     b'postag:JJ'
--0.175078 Supp     b'-1:lemma:%'
--0.185069 Med      b'-1:postag:NN'
--0.188392 pH       b'postag:NN'
--0.188459 O        b'-1:lemma:-lrb-'
--0.202621 O        b'+1:lemma:%'
--0.230099 O        b'lemma:phase'
--0.232998 O        b'+1:postag:NNS'
--0.236077 O        b'+1:lemma:+'
--0.253923 O        b'-1:lemma:from'
--0.255483 Phase    b'postag:JJ'
--0.274761 O        b'+1:lemma:.'
--0.274761 O        b'+1:postag:.'
--0.290238 O        b'+1:lemma:-rrb-'
--0.300427 O        b'-1:postag:IN'
--0.308229 O        b'-1:postag:-LRB-'
--0.318766 O        b'lemma:anaerobically'
--0.351102 Temp     b'postag:NN'
--0.388853 O        b'lemma:0.3'
--0.414731 O        b'+1:postag:VBG'
--0.420993 O        b'-1:lemma:~'
--0.452810 Med      b'+1:postag:NN'
--0.476044 O        b'lemma:dissolve'
--0.483565 O        b'+1:lemma:fecl2'
--0.484516 O        b'-1:lemma:od600'
--0.490291 O        b'+1:postag:IN'
--0.498743 O        b'lemma:od600'
--0.515814 Air      b'-1:postag:JJ'
--0.522065 O        b'+1:postag:-RRB-'
--0.532128 Temp     b'+1:lemma:to'
--0.532128 Temp     b'+1:postag:TO'
--0.532162 Technique b'-1:postag::'
--0.533136 Supp     b'+1:lemma:acetate'
--0.537346 O        b'-1:lemma:37'
--0.567786 O        b'lemma:fecl2'
--0.603831 O        b'lemma:media'
--0.607413 O        b'lemma:of'
--0.627428 O        b'lemma:2h'
--0.627428 O        b'-1:lemma:additional'
--0.674938 O        b'lemma:37'
--0.691254 O        b'lemma:0.2'
--0.693796 OD       b'lemma:-lrb-'
--0.703078 O        b'lemma:0.1'
--0.748625 OD       b'+1:postag:NN'
--0.774790 O        b'-1:lemma:grow'
--0.776043 O        b'+1:lemma:g/l'
--0.814594 O        b'+1:lemma:cell'
--0.834196 Anti     b'postag:NNP'
--0.858627 O        b'-1:lemma:ompr'
--0.928203 O        b'-1:postag::'
--0.939567 O        b'lemma:mid-log'
--0.989255 O        b'-1:lemma:dissolve'
--0.989255 O        b'+1:lemma:methanol'
--1.014879 O        b'+1:lemma:supplement'
--1.026773 O        b'-1:lemma:nsrr'
--1.030867 O        b'lemma:wt'
--1.084034 O        b'lemma:methanol'
--1.094856 O        b'-1:lemma:co2'
--1.182260 O        b'-1:lemma:IP'
--1.208078 O        b'-1:postag:VBG'
--1.228784 Air      b'postag:NN'
--1.321954 Air      b'+1:postag:JJ'
--1.408887 Supp     b'postag:JJ'
--1.451813 O        b'lemma:rifampicin'
--1.529403 O        b'+1:lemma:at'
--1.607126 O        b'+1:lemma:in'
--1.625216 OD       b'postag:-LRB-'
--2.150760 O        b'+1:lemma:2'
--2.335073 O        b'+1:lemma:1'
--2.385540 O        b'-1:lemma:2'
--4.052103 O        b'-1:lemma::'
--4.159550 O        b'-1:lemma:_'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.16617627893415826, 'c2': 0.016246283722594547}
+best CV score:0.8677299702871124
+model size: 0.09M
+
+Flat F1: 0.8100263815531699
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.943     0.971        53
+       Temp      0.923     0.828     0.873        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.565     0.377     0.452        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.889     0.847     0.867        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.811     0.799     0.805       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.845     0.783     0.810       451
+
+
+Top likely transitions:
+Agit   -> Agit    6.716949
+Temp   -> Temp    6.219197
+OD     -> OD      5.656758
+Med    -> Med     5.510885
+Supp   -> Supp    5.091598
+Anti   -> Anti    4.770668
+Gversion -> Gversion 4.530576
+Phase  -> Phase   4.343162
+Air    -> Air     4.176421
+Gtype  -> Gtype   3.872949
+O      -> O       3.576273
+Technique -> Technique 3.464421
+pH     -> pH      3.115258
+O      -> Technique 0.821082
+Substrain -> Gtype   0.704368
+O      -> Supp    0.589038
+Air    -> O       0.511427
+Gtype  -> Supp    0.510592
+Gtype  -> Air     0.474170
+Temp   -> O       0.189513
+O      -> Gtype   0.176860
+Supp   -> O       0.145242
+Technique -> Air     0.118103
+Med    -> O       0.093609
+O      -> Anti    0.090099
+Phase  -> O       0.002296
+O      -> Temp    0.002073
+O      -> Phase   0.000043
+O      -> Med     -0.015745
+Gtype  -> Med     -0.042610
+Supp   -> Med     -0.045443
+O      -> OD      -0.113818
+Air    -> Supp    -0.115743
+Technique -> pH      -0.124518
+OD     -> Air     -0.194892
+Gversion -> O       -0.196158
+Gtype  -> Technique -0.579025
+Technique -> O       -0.829124
+O      -> Air     -0.902346
+Gtype  -> O       -0.925779
+Med    -> Supp    -1.463243
+Substrain -> O       -1.475265
+
+
+Top unlikely transitions:
+Agit   -> Agit    6.716949
+Temp   -> Temp    6.219197
+OD     -> OD      5.656758
+Med    -> Med     5.510885
+Supp   -> Supp    5.091598
+Anti   -> Anti    4.770668
+Gversion -> Gversion 4.530576
+Phase  -> Phase   4.343162
+Air    -> Air     4.176421
+Gtype  -> Gtype   3.872949
+O      -> O       3.576273
+Technique -> Technique 3.464421
+pH     -> pH      3.115258
+O      -> Technique 0.821082
+Substrain -> Gtype   0.704368
+O      -> Supp    0.589038
+Air    -> O       0.511427
+Gtype  -> Supp    0.510592
+Gtype  -> Air     0.474170
+Temp   -> O       0.189513
+O      -> Gtype   0.176860
+Supp   -> O       0.145242
+Technique -> Air     0.118103
+Med    -> O       0.093609
+O      -> Anti    0.090099
+Phase  -> O       0.002296
+O      -> Temp    0.002073
+O      -> Phase   0.000043
+O      -> Med     -0.015745
+Gtype  -> Med     -0.042610
+Supp   -> Med     -0.045443
+O      -> OD      -0.113818
+Air    -> Supp    -0.115743
+Technique -> pH      -0.124518
+OD     -> Air     -0.194892
+Gversion -> O       -0.196158
+Gtype  -> Technique -0.579025
+Technique -> O       -0.829124
+O      -> Air     -0.902346
+Gtype  -> O       -0.925779
+Med    -> Supp    -1.463243
+Substrain -> O       -1.475265
+
+
+Top positive:
+6.433973 Technique b'lemma[:2]:Ch'
+6.360815 O        b'lemma:2'
+5.662452 Anti     b'-2:lemma:antibody'
+5.635583 O        b'lemma:1'
+5.375548 O        b'-2:lemma:_'
+5.334062 O        b'lemma:3'
+4.328011 Gtype    b'lemma[:1]:\xce\xb4'
+4.274267 O        b'lemma[:2]:re'
+4.227305 Phase    b'lemma:mid-log'
+4.196090 Air      b'lemma[:2]:ae'
+3.698810 Gtype    b'-1:lemma:\xe2\x88\x86'
+3.689545 Substrain b'lemma[:2]:mg'
+3.405547 Air      b'lemma:anaerobic'
+3.375450 Technique b'lemma:chipseq'
+3.355381 O        b'-2:lemma:medium'
+3.263554 O        b'lemma:with'
+3.228684 O        b'lemma:b'
+3.212301 Technique b'lemma[:2]:rn'
+3.141015 Supp     b'lemma:acetate'
+3.091356 Phase    b'-2:lemma:phase'
+3.034572 Gtype    b'lemma:type'
+3.034572 Gtype    b'lemma[:2]:ty'
+3.019205 O        b'-1:lemma:tag'
+2.976419 Air      b'lemma[:2]:an'
+2.958977 O        b'+2:lemma:\xc2\xb0c'
+2.937672 O        b'lemma[:2]:ge'
+2.921253 O        b'lemma[:1]:h'
+2.903272 Gtype    b'-2:lemma:genotype/variation'
+2.893999 Supp     b'lemma:arginine'
+2.891850 O        b'lemma:-'
+2.870735 Supp     b'-1:lemma:with'
+2.863673 Gtype    b'+1:lemma:type'
+2.803093 Supp     b'lemma:pq'
+2.803093 Supp     b'lemma[:2]:pq'
+2.800209 O        b'lemma:a'
+2.752078 Med      b'+2:postag:CC'
+2.708393 Gtype    b'lemma[:2]:pk'
+2.703014 Supp     b'-1:lemma:Cra'
+2.629891 O        b'lemma:_'
+2.629891 O        b'lemma[:1]:_'
+2.596183 Supp     b'lemma:Iron'
+2.596183 Supp     b'lemma[:2]:Ir'
+2.596183 Supp     b'-2:lemma:Anaerobic'
+2.569027 O        b'+2:lemma:70'
+2.544018 Supp     b'+2:lemma:iptg'
+2.496912 OD       b'lemma[:1]:o'
+2.467329 Supp     b'+1:lemma:\xc2\xb5m'
+2.456900 O        b'lemma:.'
+2.456900 O        b'postag:.'
+2.456900 O        b'postag[:1]:.'
+2.453094 O        b'+1:lemma:pq'
+2.442390 O        b'-1:lemma:ChIP-exo'
+2.433484 Technique b'lemma[:2]:ch'
+2.399879 Anti     b'+2:lemma:antibody'
+2.363621 Air      b'lemma:Aerobic'
+2.363621 Air      b'lemma[:2]:Ae'
+2.358981 Gtype    b'-2:lemma:delta'
+2.342573 O        b'-2:lemma:myc'
+2.331321 Supp     b'lemma:no3'
+2.313202 Supp     b'lemma:rifampicin'
+2.312753 Anti     b'+1:lemma:antibody'
+2.297741 Supp     b'lemma[:2]:ri'
+2.281621 Air      b'-2:lemma:IP'
+2.278366 Med      b'lemma:MOPS'
+2.278366 Med      b'lemma[:1]:M'
+2.278366 Med      b'lemma[:2]:MO'
+2.270655 OD       b'lemma[:2]:od'
+2.263438 Gversion b'lemma:chip-seq'
+2.231180 O        b'-1:lemma:glucose'
+2.206950 Gtype    b'lemma:wt'
+2.206950 Gtype    b'lemma[:2]:wt'
+2.187730 Supp     b'lemma[:2]:gl'
+2.186178 pH       b'+1:postag:CD'
+2.183027 Technique b'-1:lemma:input'
+2.179683 O        b'lemma[:1]:-'
+2.172484 Air      b'-1:lemma:ChIP-Seq'
+2.160518 Phase    b'lemma:stationary'
+2.150044 Phase    b'lemma[:2]:ex'
+2.145423 O        b'postag:IN'
+2.145423 O        b'postag[:1]:I'
+2.145423 O        b'postag[:2]:IN'
+2.135783 O        b'-1:lemma:lb'
+2.115167 O        b'-1:lemma:anaerobic'
+2.106797 O        b'lemma:rpob'
+2.094643 O        b'+2:lemma:cra'
+2.046836 Gtype    b'-2:postag:DT'
+2.035645 Gtype    b'lemma:nsrr'
+2.035645 Gtype    b'lemma[:2]:ns'
+2.034890 Technique b'lemma[:1]:C'
+2.033641 O        b'+1:postag:RB'
+2.013660 Supp     b'+1:lemma:1'
+2.011345 Supp     b'lemma:fructose'
+2.002182 Supp     b'-2:lemma:media'
+1.998148 Gtype    b'hGreek'
+1.992371 Temp     b'-1:lemma:\xcf\x8332'
+1.980657 O        b'postag::'
+1.980657 O        b'postag[:1]::'
+1.979866 Supp     b'-1:lemma:final'
+1.974647 Med      b'+2:lemma:b2'
+1.964961 Temp     b'-1:lemma:sample'
+1.959365 Strain   b'+1:lemma:substr'
+1.959365 Strain   b'-2:lemma:str'
+1.931532 Temp     b'-2:lemma:\xcf\x8332'
+1.926204 pH       b'lemma[:2]:ph'
+1.924918 Supp     b'-2:lemma:agent'
+1.911949 Supp     b'lemma[:1]:n'
+1.895649 Supp     b'+2:lemma:rifampicin'
+1.895108 Temp     b'+2:postag:DT'
+1.894074 Air      b'-1:lemma:-'
+1.892359 Gtype    b'lemma:\xe2\x88\x86'
+1.892359 Gtype    b'lemma[:1]:\xe2\x88\x86'
+1.886561 O        b'-1:lemma:media'
+1.878120 Gtype    b'lemma[:1]:w'
+1.849654 Air      b'-1:lemma:co2'
+1.819415 Supp     b'-1:lemma:+'
+1.819234 Med      b'lemma:L'
+1.819234 Med      b'+1:lemma:broth'
+1.811008 Anti     b'lemma[:2]:an'
+1.807476 O        b'-1:lemma:0.3'
+1.795731 O        b'-1:postag:NNS'
+1.794762 O        b'postag:CC'
+1.794762 O        b'postag[:2]:CC'
+1.793009 Gtype    b'-1:postag:VBG'
+1.774172 O        b'lemma[:1]:C'
+1.769427 Temp     b'lemma[:1]:3'
+1.750065 Med      b'lemma:broth'
+1.750065 Med      b'-1:lemma:L'
+1.750065 Med      b'lemma[:2]:br'
+1.731860 Air      b'lemma[:1]:A'
+1.729863 Supp     b'-1:postag:CC'
+1.711219 Gtype    b'+1:lemma:with'
+1.710940 O        b'+1:postag:NNP'
+1.706914 O        b'+1:lemma:coli'
+1.705143 Phase    b'lemma[:1]:e'
+1.701557 O        b'lemma:chip'
+1.688302 Gtype    b'lemma[:2]:ar'
+1.687398 Gtype    b'-1:lemma:_'
+1.679707 Supp     b'-2:lemma:induce'
+1.674594 O        b'+1:lemma:250'
+1.667872 O        b'-2:lemma:ChIP-Seq'
+1.653279 Gtype    b'+1:lemma::'
+1.627724 O        b'lemma:A'
+1.622722 Supp     b'lemma[:2]:ac'
+1.617166 O        b'postag:VBN'
+1.614130 Substrain b'lemma[:1]:m'
+1.610355 Gtype    b'-2:lemma:genotype'
+1.606189 O        b'+2:postag:JJ'
+1.605995 O        b'lemma:0.4'
+1.600992 Substrain b'+1:lemma:phtpg'
+1.591094 O        b'-1:lemma:Aerobic'
+1.589843 Supp     b'-1:lemma:_'
+1.579672 Air      b'+1:postag:IN'
+1.566124 Temp     b'lemma:43'
+1.566124 Temp     b'lemma[:2]:43'
+1.563526 O        b'-1:lemma:type'
+1.558846 Supp     b'lemma[:2]:30'
+1.552158 O        b'-1:lemma:aerobically'
+1.551882 Gversion b'lemma:nc'
+1.551882 Gversion b'lemma[:2]:nc'
+1.536623 Supp     b'+1:lemma:_'
+1.536256 O        b'-1:lemma:\xc2\xb0c'
+1.524621 Air      b'lemma[:1]:a'
+1.511586 Temp     b'-1:lemma:43'
+1.506306 O        b'lemma[:1]:b'
+1.506103 Gtype    b'lemma[:2]:wi'
+1.498210 Supp     b'+1:lemma:2'
+1.491309 Gtype    b'+1:lemma:flagtag'
+1.490390 Med      b'+1:lemma:0.4'
+1.485550 O        b'+2:lemma:fructose'
+1.479904 Supp     b'lemma:Leu'
+1.479904 Supp     b'lemma[:2]:Le'
+1.479904 Supp     b'-2:lemma:Lrp'
+1.475818 Supp     b'lemma:glucose'
+1.472393 Gtype    b'lemma[:2]:fl'
+1.471237 Gtype    b'-1:lemma:rpob'
+1.464668 Med      b'lemma:lb'
+1.464668 Med      b'lemma[:2]:lb'
+1.462458 O        b'+1:lemma:mid-log'
+1.460719 Med      b'+2:lemma:b1'
+1.459376 O        b'lemma[:2]:ha'
+1.450388 Supp     b'lemma[:1]:I'
+1.442333 Gtype    b'-1:lemma:vector'
+1.442007 Med      b'+1:lemma:g/l'
+1.435558 Supp     b'lemma[:2]:ni'
+1.434864 O        b'lemma:ml'
+1.434864 O        b'lemma[:2]:ml'
+1.431207 Technique b'symb'
+1.424801 O        b'lemma[:1]:r'
+1.421918 Supp     b'+2:lemma:mid-log'
+1.413708 O        b'lemma[:1]:s'
+1.383477 O        b'-2:postag:FW'
+1.383257 O        b'-1:lemma:into'
+1.382919 O        b'lemma[:2]:ga'
+1.354991 O        b'lemma[:1]:c'
+1.346926 Med      b'+1:lemma:minimal'
+1.336028 Gtype    b'lemma[:1]:f'
+1.335008 O        b'+1:postag:VBN'
+1.329569 pH       b'lemma:ph5'
+1.329569 pH       b'+1:lemma:.5'
+1.326705 Gtype    b'-2:lemma:affyexp'
+
+
+Top negative:
+-0.155596 Supp     b'-1:lemma:10'
+-0.157470 O        b'+2:lemma:ph'
+-0.158631 Supp     b'lemma[:1]:s'
+-0.159053 O        b'-1:lemma:from'
+-0.160270 Supp     b'-1:lemma:-lrb-'
+-0.160524 Gtype    b'+2:postag:CD'
+-0.161112 Air      b'postag[:1]:N'
+-0.161112 Air      b'postag[:2]:NN'
+-0.161768 pH       b'postag:NN'
+-0.161818 OD       b'symb'
+-0.167771 Supp     b'-2:lemma:treat'
+-0.176292 O        b'lemma:co2'
+-0.177197 O        b'-1:lemma:g/l'
+-0.181198 O        b'-1:lemma:1m'
+-0.181198 O        b'+2:lemma:7.6'
+-0.186508 O        b'-2:lemma:genome'
+-0.193058 Supp     b'+2:lemma:-rrb-'
+-0.194306 Gtype    b'lemma[:1]:h'
+-0.194450 Supp     b'-1:postag:-LRB-'
+-0.195692 Anti     b'symb'
+-0.197135 O        b'-2:lemma:of'
+-0.201423 O        b'-2:lemma:-lrb-'
+-0.201718 O        b'-1:lemma:0.2'
+-0.207096 Temp     b'postag[:1]:N'
+-0.207096 Temp     b'postag[:2]:NN'
+-0.208637 Temp     b'-2:postag:NN'
+-0.210816 Technique b'-2:postag:NN'
+-0.212139 O        b'lemma:in'
+-0.215720 Supp     b'+2:postag:-RRB-'
+-0.227268 O        b'+2:lemma:-rrb-'
+-0.229192 O        b'lemma:anaerobic'
+-0.229556 O        b'+1:lemma:.'
+-0.229556 O        b'+1:postag:.'
+-0.229949 Vess     b'hUpper'
+-0.229949 Vess     b'hLower'
+-0.232026 O        b'lemma[:1]:n'
+-0.239837 O        b'lemma:30'
+-0.244559 O        b'lemma:anaerobically'
+-0.245601 Phase    b'+1:postag:NN'
+-0.249673 O        b'-2:lemma:aerobically'
+-0.251037 O        b'-2:lemma:a'
+-0.251989 O        b'lemma[:1]:d'
+-0.252202 Supp     b'lemma[:1]:a'
+-0.253068 O        b'-2:postag:-LRB-'
+-0.258564 O        b'+1:lemma:mm'
+-0.260363 O        b'-1:lemma:fresh'
+-0.261060 O        b'-2:lemma:anaerobically'
+-0.262340 Air      b'-1:lemma:or'
+-0.263528 pH       b'postag[:1]:N'
+-0.263528 pH       b'postag[:2]:NN'
+-0.265074 O        b'-2:postag::'
+-0.265217 O        b'-2:lemma:IP'
+-0.269304 Med      b'+1:postag:NN'
+-0.285401 O        b'-2:lemma:rpob'
+-0.295781 Supp     b'lemma[:2]:an'
+-0.296045 O        b'lemma[:2]:ar'
+-0.296575 O        b'-2:lemma:fresh'
+-0.301913 O        b'lemma:media'
+-0.307515 O        b'lemma[:2]:gl'
+-0.308163 O        b'-1:postag:IN'
+-0.311903 O        b'-1:lemma:mm'
+-0.312159 O        b'-2:lemma:nh4cl'
+-0.322974 Anti     b'+2:postag:JJ'
+-0.325164 Supp     b'-2:postag:JJ'
+-0.328654 Supp     b'-1:postag:NNP'
+-0.332535 O        b'-1:lemma:of'
+-0.341258 O        b'lemma:methanol'
+-0.341258 O        b'-2:lemma:dissolve'
+-0.346421 Supp     b'+2:lemma:glucose'
+-0.353210 Technique b'-1:postag::'
+-0.357081 O        b'+1:lemma:supplement'
+-0.362827 O        b'lemma:2h'
+-0.362827 O        b'-1:lemma:additional'
+-0.362827 O        b'lemma[:2]:2h'
+-0.373258 O        b'-1:lemma:final'
+-0.373355 O        b'+2:lemma:at'
+-0.376466 Supp     b'+1:postag:NNS'
+-0.379434 O        b'-1:lemma:IP'
+-0.379949 O        b'lemma[:1]:0'
+-0.380927 O        b'-2:lemma:phase'
+-0.384075 O        b'lemma:glucose'
+-0.384929 Med      b'-1:postag:NN'
+-0.387171 O        b'lemma[:1]:k'
+-0.388425 O        b'lemma:\xe2\x88\x86'
+-0.388425 O        b'lemma[:1]:\xe2\x88\x86'
+-0.390156 Temp     b'postag:NN'
+-0.390965 O        b'+1:lemma:g/l'
+-0.410576 Med      b'-1:postag:CD'
+-0.411791 O        b'+1:lemma:1m'
+-0.411791 O        b'-2:lemma:vol'
+-0.418447 Gtype    b'+1:lemma:-rrb-'
+-0.418498 O        b'-1:lemma:rpob'
+-0.422355 O        b'-2:lemma:until'
+-0.434852 Technique b'postag:NN'
+-0.435566 Supp     b'postag:JJ'
+-0.439076 Supp     b'postag[:1]:J'
+-0.439076 Supp     b'postag[:2]:JJ'
+-0.442452 O        b'-1:lemma:30'
+-0.455337 Med      b'+2:postag:VBN'
+-0.455366 Air      b'postag:NN'
+-0.461874 O        b'+2:lemma:fnr'
+-0.467110 O        b'-2:lemma:supplement'
+-0.468087 O        b'-1:lemma:dissolve'
+-0.468087 O        b'+1:lemma:methanol'
+-0.486893 Gtype    b'-2:lemma:\xe2\x88\x86'
+-0.493653 O        b'lemma[:1]:L'
+-0.497715 O        b'+2:lemma:10'
+-0.498822 O        b'lemma:of'
+-0.498822 O        b'lemma[:2]:of'
+-0.507436 O        b'lemma[:2]:0.'
+-0.510139 Med      b'+1:postag:IN'
+-0.513295 O        b'+2:lemma:tag'
+-0.514818 O        b'+1:lemma:+'
+-0.532828 O        b'-1:lemma:\xe2\x88\x86'
+-0.536622 O        b'+2:lemma:mid-log'
+-0.538561 Supp     b'+1:lemma:-lrb-'
+-0.543996 O        b'+2:lemma:.'
+-0.543996 O        b'+2:postag:.'
+-0.557797 Supp     b'+1:postag:-LRB-'
+-0.568152 O        b'+2:lemma:a'
+-0.585265 O        b'-2:lemma:pahse'
+-0.590510 O        b'-2:lemma:glucose'
+-0.590875 O        b'+1:lemma:until'
+-0.605869 O        b'-1:lemma:nsrr'
+-0.609882 O        b'-2:lemma:dpd'
+-0.616188 Phase    b'-1:postag:JJ'
+-0.618132 Air      b'-1:postag:JJ'
+-0.624517 O        b'-2:postag:SYM'
+-0.626955 Gtype    b'lemma[:1]:c'
+-0.627961 Anti     b'+2:lemma:polyclonal'
+-0.635434 Med      b'symb'
+-0.635949 Phase    b'postag[:1]:J'
+-0.635949 Phase    b'postag[:2]:JJ'
+-0.636258 OD       b'hUpper'
+-0.636258 OD       b'hLower'
+-0.636750 O        b'lemma[:2]:ri'
+-0.647062 O        b'+1:postag:IN'
+-0.654730 O        b'-2:lemma:2'
+-0.655657 Phase    b'postag:JJ'
+-0.655964 Supp     b'symb'
+-0.660356 O        b'+2:lemma:+'
+-0.661231 O        b'+1:lemma:2.0'
+-0.662145 O        b'-2:lemma:media'
+-0.666872 O        b'+2:lemma:b'
+-0.675694 Anti     b'+1:lemma:anti-fur'
+-0.688911 O        b'-1:lemma:co2'
+-0.690102 Gtype    b'postag[:1]:V'
+-0.690102 Gtype    b'postag[:2]:VB'
+-0.694375 Gtype    b'lemma[:1]:r'
+-0.706144 O        b'lemma[:2]:me'
+-0.718038 O        b'lemma:mid-log'
+-0.724228 O        b'lemma:rifampicin'
+-0.735529 O        b'-2:lemma::'
+-0.743194 Med      b'-2:postag:VBN'
+-0.786989 Supp     b'+1:lemma:,'
+-0.786989 Supp     b'+1:postag:,'
+-0.789461 O        b'-2:postag:RB'
+-0.815790 Agit     b'hUpper'
+-0.815790 Agit     b'hLower'
+-0.824637 O        b'+2:postag:-RRB-'
+-0.828411 O        b'-1:lemma:cra'
+-0.834312 O        b'+1:lemma:at'
+-0.864833 O        b'-1:lemma:vol'
+-0.864833 O        b'-2:lemma:1/100'
+-0.864833 O        b'+2:lemma:1m'
+-0.896137 O        b'-2:postag:DT'
+-0.903408 Phase    b'hUpper'
+-0.903408 Phase    b'hLower'
+-0.954592 Gtype    b'lemma[:1]:a'
+-0.958219 Gtype    b'+2:lemma:cra'
+-0.959188 O        b'-1:lemma:ph'
+-1.006021 O        b'-2:lemma:0.3'
+-1.010964 O        b'lemma[:2]:ae'
+-1.026041 Med      b'-2:lemma:grow'
+-1.037767 O        b'-1:postag::'
+-1.062839 O        b'-1:lemma:sample'
+-1.105188 Supp     b'lemma[:1]:c'
+-1.107601 OD       b'+1:postag:NN'
+-1.109127 Agit     b'symb'
+-1.130040 Supp     b'+2:postag:CD'
+-1.149221 O        b'lemma:0.3'
+-1.151210 O        b'-1:lemma:1'
+-1.172944 O        b'lemma[:2]:30'
+-1.211332 O        b'+2:lemma:then'
+-1.263528 Supp     b'+2:lemma:fructose'
+-1.346921 O        b'+2:lemma:rifampicin'
+-1.394447 O        b'postag:VBP'
+-1.459260 Supp     b'+2:lemma:1'
+-1.504864 Anti     b'postag:NNP'
+-1.616873 O        b'-1:lemma:2'
+-1.627873 Supp     b'+2:lemma:2'
+-1.790611 O        b'-1:postag:VBG'
+-1.925758 O        b'-2:lemma:rifampicin'
+-2.014829 O        b'+1:lemma:in'
+-2.028945 OD       b'+2:lemma:aerobically'
+-2.287808 O        b'+1:lemma:1'
+-2.798978 O        b'+1:lemma:2'
+-2.902688 O        b'lemma[:2]:fl'
+-3.487913 O        b'-1:lemma::'
+-4.880856 O        b'-1:lemma:_'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.2615074589465166, 'c2': 0.00276705652339924}
-best CV score:0.816301419715609
-model size: 0.07M
-
-Flat F1: 0.8270102352867752
-             precision    recall  f1-score   support
-
-         OD      0.652     0.405     0.500        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.957     1.000     0.978        22
-        Med      1.000     0.912     0.954        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.810     0.758     0.783        62
-       Anti      1.000     1.000     1.000         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.845     0.877     0.861       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.881     0.706     0.784       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.870     0.796     0.827       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.901670
-OD     -> OD      6.662115
-Temp   -> Temp    5.932826
-Med    -> Med     5.616057
-Supp   -> Supp    4.930556
-Air    -> Air     4.771871
-Anti   -> Anti    4.504604
-Gversion -> Gversion 4.501000
-Phase  -> Phase   4.124266
-Technique -> Technique 4.076096
-Gtype  -> Gtype   3.973576
-O      -> O       3.951466
-pH     -> pH      2.018763
-O      -> Supp    1.197390
-O      -> Technique 1.079203
-Gtype  -> Supp    1.043942
-Air    -> O       0.963896
-Supp   -> O       0.612092
-Substrain -> Gtype   0.476807
-O      -> Gtype   0.437647
-Med    -> O       0.335890
-Phase  -> O       0.267800
-OD     -> Phase   0.245045
-Temp   -> O       0.202449
-O      -> Anti    0.134070
-Technique -> Air     0.008370
-O      -> Temp    0.000020
-OD     -> Air     -0.031556
-Gtype  -> OD      -0.047613
-Phase  -> OD      -0.296269
-Gtype  -> O       -0.463165
-OD     -> O       -0.559048
-Technique -> O       -0.753141
-O      -> Air     -0.928594
-Agit   -> O       -1.028076
-Med    -> Supp    -1.262808
-Substrain -> O       -1.295585
-
-
-Top unlikely transitions:
-Agit   -> Agit    6.901670
-OD     -> OD      6.662115
-Temp   -> Temp    5.932826
-Med    -> Med     5.616057
-Supp   -> Supp    4.930556
-Air    -> Air     4.771871
-Anti   -> Anti    4.504604
-Gversion -> Gversion 4.501000
-Phase  -> Phase   4.124266
-Technique -> Technique 4.076096
-Gtype  -> Gtype   3.973576
-O      -> O       3.951466
-pH     -> pH      2.018763
-O      -> Supp    1.197390
-O      -> Technique 1.079203
-Gtype  -> Supp    1.043942
-Air    -> O       0.963896
-Supp   -> O       0.612092
-Substrain -> Gtype   0.476807
-O      -> Gtype   0.437647
-Med    -> O       0.335890
-Phase  -> O       0.267800
-OD     -> Phase   0.245045
-Temp   -> O       0.202449
-O      -> Anti    0.134070
-Technique -> Air     0.008370
-O      -> Temp    0.000020
-OD     -> Air     -0.031556
-Gtype  -> OD      -0.047613
-Phase  -> OD      -0.296269
-Gtype  -> O       -0.463165
-OD     -> O       -0.559048
-Technique -> O       -0.753141
-O      -> Air     -0.928594
-Agit   -> O       -1.028076
-Med    -> Supp    -1.262808
-Substrain -> O       -1.295585
-
-
-Top positive:
-7.812637 O        b'lemma:1'
-6.504281 O        b'lemma:3'
-6.400430 O        b'word[:2]:re'
-6.304930 Technique b'word[:2]:Ch'
-6.279826 Air      b'word[:2]:Ae'
-5.852043 O        b'lemma:2'
-5.816867 O        b'-2:lemma:_'
-5.295700 Anti     b'-2:lemma:antibody'
-5.063616 Phase    b'lemma:stationary'
-4.995551 Air      b'lemma:anaerobic'
-4.918388 O        b'lemma:a'
-4.801031 O        b'+2:lemma:\xc2\xb0c'
-4.623525 O        b'postag:IN'
-4.395080 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.294827 Phase    b'lemma:mid-log'
-4.288438 Gtype    b'-2:lemma:genotype/variation'
-4.244795 Technique b'word[:2]:RN'
-4.131863 O        b'postag::'
-4.115454 Temp     b'-1:lemma:sample'
-3.937161 O        b'+2:lemma:cra'
-3.620368 O        b'lemma:.'
-3.620368 O        b'postag:.'
-3.598727 Gtype    b'lemma:type'
-3.598727 Gtype    b'word[:2]:ty'
-3.574166 Gtype    b'word[:1]:\xce\x94'
-3.565566 Gtype    b'word[:2]:Fl'
-3.545115 O        b'word[:1]:S'
-3.473665 O        b'word[:1]:G'
-3.465522 Med      b'word[:2]:LB'
-3.406689 O        b'-1:lemma:tag'
-3.343307 O        b'word[:2]:ge'
-3.313070 O        b'postag:VBN'
-3.293280 Supp     b'lemma:nitrate'
-3.293280 Supp     b'word[:2]:ni'
-3.264010 O        b'+2:lemma:fructose'
-3.240524 O        b'+1:postag:RB'
-3.140733 Supp     b'lemma:arginine'
-3.120877 O        b'word[:1]:B'
-3.061754 Air      b'word[:2]:An'
-3.016856 Supp     b'+1:lemma:1'
-2.979008 OD       b'word[:2]:OD'
-2.975113 O        b'word[:2]:Rp'
-2.916749 Supp     b'+1:lemma:\xc2\xb5m'
-2.856866 Supp     b'word[:1]:I'
-2.771072 Temp     b'word[:1]:3'
-2.740905 Anti     b'+1:lemma:antibody'
-2.679770 O        b'lemma:_'
-2.679770 O        b'word[:1]:_'
-2.661062 Med      b'word[:1]:M'
-2.651438 Supp     b'-2:lemma:shake'
-2.637158 Supp     b'+1:lemma:2'
-2.593344 Med      b'lemma:MOPS'
-2.593344 Med      b'word[:2]:MO'
-2.551429 O        b'postag:DT'
-2.548355 O        b'+1:postag:VBP'
-2.546726 Gtype    b'-2:lemma:delta'
-2.530641 Anti     b'+2:lemma:antibody'
-2.523357 Supp     b'lemma:Iron'
-2.523357 Supp     b'word[:2]:Ir'
-2.523357 Supp     b'-2:lemma:Anaerobic'
-2.503256 Gtype    b'word[:1]:d'
-2.469925 OD       b'word[:1]:O'
-2.458839 O        b'word[:2]:Cr'
-2.448696 O        b'-1:lemma:Aerobic'
-2.435690 Med      b'+2:lemma:with'
-2.412032 Supp     b'word[:2]:Fe'
-2.383646 O        b'+2:lemma:chipseq'
-2.330968 O        b'postag:CC'
-2.321337 O        b'lemma:purr'
-2.315130 Phase    b'-2:lemma:phase'
-2.313990 Air      b'word[:1]:A'
-2.307788 Air      b'-1:lemma:co2'
-2.270559 Gtype    b'lemma:nsrr'
-2.270559 Gtype    b'word[:2]:Ns'
-2.230916 O        b'-2:lemma:medium'
-2.219186 O        b'lemma:b'
-2.212270 O        b'lemma:rpob'
-2.211847 Supp     b'lemma:acetate'
-2.208823 Gtype    b'-1:lemma:rpob'
-2.193351 Gtype    b'+2:lemma:glucose'
-2.188714 Supp     b'-2:lemma:purr'
-2.167125 Substrain b'lemma:mg1655'
-2.167125 Substrain b'word[:2]:MG'
-2.162173 Supp     b'-2:lemma:Lrp'
-2.153258 pH       b'lemma:ph5'
-2.153258 pH       b'+1:lemma:.5'
-2.127429 Gversion b'lemma:chip-seq'
-2.119617 O        b'-1:lemma:anaerobic'
-2.097711 Gtype    b'+1:lemma:type'
-2.093597 Gtype    b'lemma:\xe2\x88\x86'
-2.093597 Gtype    b'word[:1]:\xe2\x88\x86'
-2.073634 Med      b'word[:1]:L'
-2.067738 Substrain b'word[:1]:M'
-2.066496 Temp     b'+1:lemma:\xc2\xb0c'
-2.028277 O        b'word[:2]:Lr'
-1.996518 O        b'word[:1]:-'
-1.987484 O        b'-1:lemma:media'
-1.972620 pH       b'+1:postag:CD'
-1.963565 Supp     b'+1:lemma:_'
-1.929849 O        b'word[:2]:Cu'
-1.926238 Gtype    b'word[:1]:W'
-1.923997 O        b'-1:lemma:glucose'
-1.920206 Supp     b'-1:lemma:Cra'
-1.885222 Supp     b'+2:lemma:rifampicin'
-1.838859 Temp     b'-1:lemma:\xcf\x8332'
-1.835835 O        b'-1:lemma:lb'
-1.834634 O        b'word[:2]:ch'
-1.831989 O        b'-2:lemma:myc'
-1.820007 Supp     b'-1:lemma:with'
-1.819919 Supp     b'word[:2]:gl'
-1.813003 Strain   b'lemma:k-12'
-1.813003 Strain   b'word[:2]:K-'
-1.800422 O        b'+1:lemma:od600'
-1.786685 Supp     b'lemma:pq'
-1.786685 Supp     b'word[:2]:PQ'
-1.786098 Supp     b'-2:lemma:supplement'
-1.773090 O        b'lemma:argr'
-1.754463 Supp     b'-1:postag:CC'
-1.752010 Temp     b'lemma:43'
-1.752010 Temp     b'word[:2]:43'
-1.748609 Gtype    b'-2:lemma:genotype'
-1.713554 Supp     b'word[:1]:N'
-1.705522 Med      b'+1:lemma:0.4'
-1.705477 Gtype    b'-2:postag:DT'
-1.699311 O        b'lemma:with'
-1.697768 Temp     b'-2:lemma:\xcf\x8332'
-1.696162 Supp     b'word[:1]:\xc2\xb5'
-1.684853 Supp     b'+2:lemma:for'
-1.669736 Med      b'+2:lemma:b2'
-1.659149 Strain   b'word[:1]:K'
-1.656653 O        b'lemma:A'
-1.642261 Gtype    b'+1:lemma:with'
-1.639045 O        b'-1:lemma:0.3'
-1.637590 O        b'-1:lemma:type'
-1.629911 Agit     b'-2:postag:IN'
-1.626799 Supp     b'lemma:fructose'
-1.598539 Gtype    b'word[:2]:cr'
-1.562458 Air      b'+2:lemma:37'
-1.560840 O        b'+1:postag:NNP'
-1.545322 O        b'+1:lemma:nacl'
-1.535808 Air      b'postag:RB'
-1.534546 pH       b'word[:2]:pH'
-1.526850 Air      b'word[:2]:an'
-1.494453 Supp     b'+1:lemma:hour'
-1.493417 Gtype    b'hGreek'
-1.485107 Gtype    b'lemma:wt'
-1.475865 O        b'lemma:Nac'
-1.465086 O        b'-2:lemma:~'
-1.460815 O        b'postag:VBD'
-1.455969 OD       b'+1:lemma:stationary'
-1.446469 Air      b'-2:postag:CD'
-1.436964 O        b'word[:1]:c'
-1.435630 Technique b'word[:1]:R'
-1.424956 Temp     b'-1:lemma:43'
-1.424148 Gtype    b'+1:lemma:flagtag'
-1.422205 OD       b'word[:2]:0.'
-1.409582 Gtype    b'postag:JJ'
-1.404450 O        b'word[:1]:R'
-1.388050 Gversion b'lemma:nc'
-1.388050 Gversion b'word[:2]:NC'
-1.382998 O        b'-2:lemma:co2'
-1.376458 O        b'+1:lemma:chip-seq'
-1.376458 O        b'word[:2]:In'
-1.373329 Anti     b'word[:2]:an'
-1.361226 Gtype    b'lemma:arca8myc'
-1.361226 Gtype    b'-2:lemma:chip-arca'
-1.348605 O        b'word[:1]:E'
-1.340934 Supp     b'lemma:dpd'
-1.340934 Supp     b'word[:2]:DP'
-1.336435 O        b'+1:postag::'
-1.336267 O        b'+1:postag:VBZ'
-1.332234 O        b'word[:2]:fo'
-1.326668 Gversion b'word[:2]:Ch'
-1.308053 Gtype    b'-1:lemma:_'
-1.306772 Supp     b'-1:lemma:+'
-1.299920 O        b'+2:postag:JJ'
-1.288650 Supp     b'lemma:rifampicin'
-1.282895 OD       b'word[:1]:0'
-1.279050 Air      b'word[:1]:a'
-1.278342 Supp     b'word[:2]:ri'
-1.276274 Air      b'-1:lemma:ChIP-Seq'
-1.270749 Air      b'-2:lemma:IP'
-1.268696 Gtype    b'word[:1]:F'
-1.267720 Air      b'-2:lemma:%'
-1.250226 Vess     b'lemma:flask'
-1.250226 Vess     b'-1:lemma:warm'
-1.250226 Vess     b'word[:2]:fl'
-1.250226 Vess     b'-2:lemma:pre'
-1.250226 Vess     b'+2:lemma:43'
-1.248294 Technique b'-1:postag:CD'
-1.241744 Med      b'+1:lemma:minimal'
-1.240037 Supp     b'-2:lemma:for'
-1.238645 O        b'word[:2]:or'
-1.231304 Gversion b'-2:postag:VB'
-1.230809 O        b'lemma:Custom'
-1.221416 Supp     b'lemma:no3'
-1.221416 Supp     b'word[:2]:NO'
-1.208975 O        b'lemma:-'
-1.208565 Supp     b'-1:postag:CD'
-1.196345 Gtype    b'-2:postag:NNS'
-
-
-Top negative:
--0.020651 Vess     b'hLower'
--0.021405 Gtype    b'word[:1]:g'
--0.022102 Temp     b'hGreek'
--0.023747 Air      b'-1:lemma:or'
--0.024998 O        b'+1:lemma:phase'
--0.026006 O        b'-1:lemma:of'
--0.026445 Technique b'lemma:chip-seq'
--0.027849 O        b'-1:lemma:the'
--0.028545 O        b'-1:lemma:-lrb-'
--0.028751 O        b'+1:postag:CD'
--0.029296 O        b'+1:lemma:-rrb-'
--0.033680 O        b'lemma:150'
--0.033680 O        b'+1:lemma:mg/ml'
--0.033680 O        b'word[:2]:15'
--0.033680 O        b'-2:lemma:concentration'
--0.033737 Supp     b'hGreek'
--0.037022 OD       b'+1:postag:CD'
--0.037317 O        b'-1:lemma:g/l'
--0.040115 Supp     b'+2:postag:NNS'
--0.040221 O        b'+1:lemma:supplement'
--0.040832 O        b'-2:lemma:of'
--0.040980 OD       b'postag:JJ'
--0.042683 O        b'-1:lemma:rifampicin'
--0.044489 Phase    b'+1:postag:NN'
--0.045601 O        b'+1:lemma:-lrb-'
--0.046663 O        b'word[:1]:p'
--0.050360 Supp     b'-2:postag:NN'
--0.052075 Air      b'postag:-RRB-'
--0.052075 Air      b'word[:2]:-R'
--0.055278 O        b'+1:lemma:95'
--0.056644 O        b'word[:2]:an'
--0.056812 O        b'word[:2]:WT'
--0.058247 Air      b'lemma:-rrb-'
--0.058272 Temp     b'postag:NN'
--0.060275 Supp     b'-1:postag:NN'
--0.068834 O        b'word[:1]:g'
--0.075194 O        b'lemma:0.1'
--0.075978 O        b'+1:lemma:300'
--0.078371 Med      b'-2:postag:NNP'
--0.085484 O        b'-1:lemma:mm'
--0.090665 Med      b'postag:NN'
--0.095552 Anti     b'symb'
--0.097859 O        b'-1:lemma:IP'
--0.098451 Gtype    b'postag:NNP'
--0.098891 O        b'+2:lemma:iptg'
--0.099213 O        b'+2:lemma:anaerobically'
--0.100378 O        b'-1:postag:-LRB-'
--0.100648 Air      b'-1:postag:CC'
--0.102134 Phase    b'-2:postag:NN'
--0.104356 O        b'-2:lemma:30'
--0.104398 O        b'-2:lemma:aerobically'
--0.104525 O        b'-2:postag:-LRB-'
--0.112855 O        b'-1:postag:VBN'
--0.129315 pH       b'postag:NN'
--0.130801 O        b'lemma:dissolve'
--0.130801 O        b'+2:lemma:methanol'
--0.132204 Gversion b'-1:postag:NN'
--0.135249 O        b'+2:lemma:-rrb-'
--0.136494 Temp     b'-2:postag:NN'
--0.140087 Air      b'postag:CC'
--0.143197 Anti     b'+1:postag:JJ'
--0.145931 O        b'lemma:dpd'
--0.145931 O        b'word[:2]:DP'
--0.146304 O        b'+1:lemma:minimal'
--0.149480 O        b'+2:lemma:mg1655'
--0.153199 O        b'lemma:glucose'
--0.156279 O        b'word[:2]:OD'
--0.167599 O        b'-2:lemma:anaerobically'
--0.169441 O        b'+2:lemma:.'
--0.169441 O        b'+2:postag:.'
--0.176081 O        b'-2:lemma:and'
--0.176601 O        b'word[:2]:gl'
--0.178983 O        b'word[:2]:30'
--0.182343 Supp     b'-2:lemma:-lrb-'
--0.182989 Gtype    b'+2:lemma:,'
--0.182989 Gtype    b'+2:postag:,'
--0.187940 O        b'-2:postag:RB'
--0.188522 Gtype    b'-1:postag:NN'
--0.193161 Supp     b'-2:postag:-LRB-'
--0.195209 O        b'+1:postag:VBG'
--0.195524 Gtype    b'-1:lemma:,'
--0.195524 Gtype    b'-1:postag:,'
--0.196160 O        b'-2:postag:-RRB-'
--0.205382 O        b'lemma:media'
--0.205997 O        b'+1:lemma:+'
--0.207188 O        b'-2:postag:VBG'
--0.214958 O        b'-1:postag:IN'
--0.216865 O        b'+2:lemma:fnr'
--0.220433 O        b'-1:lemma:iptg'
--0.225687 OD       b'+2:postag:CD'
--0.226895 Anti     b'+1:lemma:anti-fur'
--0.227678 O        b'+1:lemma:hour'
--0.227891 O        b'+1:lemma:\xc2\xb0c'
--0.233240 O        b'+1:postag:-RRB-'
--0.234954 O        b'+1:lemma:until'
--0.238139 O        b'lemma:2h'
--0.238139 O        b'-1:lemma:additional'
--0.238139 O        b'word[:2]:2h'
--0.240394 Med      b'-2:lemma:grow'
--0.240644 O        b'+1:lemma:cell'
--0.240717 O        b'lemma:20'
--0.241598 Air      b'+1:postag:JJ'
--0.243020 Air      b'+2:postag:IN'
--0.249072 O        b'+1:lemma:.'
--0.249072 O        b'+1:postag:.'
--0.270838 O        b'lemma:aerobically'
--0.270838 O        b'word[:2]:ae'
--0.272076 O        b'-2:lemma:IP'
--0.276552 Anti     b'+2:postag:JJ'
--0.282858 O        b'word[:2]:mg'
--0.291041 O        b'+1:lemma:_'
--0.299542 O        b'-2:postag:DT'
--0.314381 O        b'word[:1]:F'
--0.315135 O        b'+2:lemma:medium'
--0.316365 O        b'lemma:k-12'
--0.316365 O        b'word[:2]:K-'
--0.323941 O        b'-1:lemma:rpob'
--0.324142 O        b'+1:lemma:g/l'
--0.324651 OD       b'-2:postag:JJ'
--0.330410 Med      b'+1:postag:NN'
--0.337573 O        b'lemma:anaerobically'
--0.342544 O        b'word[:2]:ri'
--0.349990 Supp     b'+2:lemma:-rrb-'
--0.361823 O        b'-1:lemma:mid-log'
--0.376409 O        b'-1:lemma:nsrr'
--0.377222 Anti     b'+2:lemma:polyclonal'
--0.377621 O        b'-1:lemma:grow'
--0.387403 O        b'-2:lemma:rpob'
--0.393536 O        b'-1:lemma:37'
--0.397261 Supp     b'+2:postag:-RRB-'
--0.408344 O        b'word[:1]:K'
--0.411343 O        b'-1:lemma:0.2'
--0.413533 O        b'lemma:phase'
--0.415095 O        b'word[:2]:Fe'
--0.418603 Supp     b'-2:postag:JJ'
--0.422914 O        b'lemma:rifampicin'
--0.425448 O        b'-2:lemma:a'
--0.436504 O        b'-2:lemma::'
--0.440069 Med      b'-1:postag:NN'
--0.450178 Supp     b'+2:lemma:2'
--0.452858 O        b'lemma:of'
--0.452858 O        b'word[:2]:of'
--0.456778 Supp     b'lemma:2'
--0.464475 Agit     b'symb'
--0.477506 Supp     b'+2:postag:NN'
--0.480481 O        b'word[:2]:0.'
--0.484144 O        b'+2:lemma:rifampicin'
--0.495023 OD       b'+1:postag:NN'
--0.495729 O        b'lemma:methanol'
--0.495729 O        b'-2:lemma:dissolve'
--0.498568 O        b'-1:lemma:dissolve'
--0.498568 O        b'+1:lemma:methanol'
--0.501386 O        b'postag:RB'
--0.501736 O        b'-2:lemma:50'
--0.505561 Agit     b'hUpper'
--0.505561 Agit     b'hLower'
--0.507205 O        b'+1:postag:NNS'
--0.510498 O        b'+2:postag:-RRB-'
--0.539348 O        b'+2:postag:RB'
--0.550860 O        b'word[:1]:0'
--0.576925 Med      b'+1:postag:IN'
--0.579947 O        b'lemma:mid-log'
--0.589847 O        b'word[:1]:d'
--0.639331 Phase    b'hUpper'
--0.639331 Phase    b'hLower'
--0.644727 O        b'+1:postag:IN'
--0.678795 Med      b'symb'
--0.717017 Med      b'-2:postag:VBN'
--0.751995 Supp     b'word[:2]:an'
--0.759518 O        b'-1:lemma:co2'
--0.776028 O        b'-1:postag:VBG'
--0.792743 O        b'-2:lemma:supplement'
--0.794523 O        b'word[:2]:me'
--0.883371 O        b'word[:2]:ce'
--0.883506 O        b'lemma:wt'
--0.888247 O        b'+2:lemma:mid-log'
--0.920374 O        b'word[:2]:Ch'
--0.968528 O        b'word[:1]:N'
--1.043344 O        b'-2:lemma:rifampicin'
--1.053670 Gtype    b'word[:1]:C'
--1.081691 Supp     b'symb'
--1.097239 O        b'word[:1]:\xce\x94'
--1.146299 Air      b'-1:postag:JJ'
--1.205559 O        b'-2:lemma:phase'
--1.226939 Phase    b'postag:JJ'
--1.279089 O        b'-1:postag::'
--1.306934 O        b'word[:1]:P'
--1.435763 Air      b'postag:NN'
--1.552893 Supp     b'postag:JJ'
--1.656010 O        b'+1:lemma:in'
--1.838496 O        b'-1:lemma:2'
--1.866172 Technique b'postag:NN'
--2.005093 O        b'+1:lemma:at'
--2.021343 Anti     b'postag:NNP'
--2.209344 Supp     b'+2:postag:CD'
--2.425446 O        b'+1:lemma:2'
--2.700819 O        b'+1:lemma:1'
--2.961178 OD       b'word[:1]:-'
--3.613008 O        b'-1:lemma::'
--5.053367 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.09511707500453928, 'c2': 0.0519939941697524}
-best CV score:0.7998412075268018
-model size: 0.08M
-
-Flat F1: 0.7932328849300371
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.889     0.842     0.865        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.863     0.774     0.816       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.869     0.684     0.765       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.877     0.742     0.793       480
-
-
-Top likely transitions:
-OD     -> OD      5.749772
-Agit   -> Agit    5.688189
-Temp   -> Temp    5.111918
-Anti   -> Anti    4.939494
-Med    -> Med     4.868494
-Air    -> Air     4.689503
-O      -> O       4.416867
-Gversion -> Gversion 4.266419
-Gtype  -> Gtype   4.185164
-Phase  -> Phase   3.973215
-Supp   -> Supp    3.799309
-Technique -> Technique 3.093180
-pH     -> pH      2.189243
-O      -> Supp    1.935389
-Gtype  -> Supp    1.770914
-Substrain -> Gtype   1.755994
-Air    -> O       1.607275
-O      -> Gtype   1.391276
-O      -> Technique 1.205509
-Technique -> Air     0.988264
-Gtype  -> pH      0.880145
-O      -> Temp    0.803834
-O      -> Anti    0.795385
-Med    -> O       0.789203
-OD     -> Phase   0.519647
-Temp   -> O       0.509435
-Gtype  -> Air     0.467309
-Phase  -> O       0.450923
-O      -> Gversion 0.422170
-Supp   -> O       0.376214
-O      -> pH      0.285778
-O      -> Strain  0.277519
-O      -> Med     0.183463
-O      -> Vess    0.108208
-Anti   -> O       0.032635
-Gtype  -> O       0.000074
-O      -> Agit    -0.011460
-Anti   -> Supp    -0.011497
-Air    -> Temp    -0.016955
-O      -> Phase   -0.028542
-Gversion -> Technique -0.030101
-OD     -> Supp    -0.066876
-Technique -> O       -0.067595
-Gversion -> Supp    -0.135604
-Anti   -> Gtype   -0.143013
-Air    -> Supp    -0.157667
-Air    -> Med     -0.174826
-Gtype  -> Phase   -0.197920
-Med    -> Air     -0.205361
-OD     -> Gtype   -0.211062
-
-
-Top unlikely transitions:
-O      -> Med     0.183463
-O      -> Vess    0.108208
-Anti   -> O       0.032635
-Gtype  -> O       0.000074
-O      -> Agit    -0.011460
-Anti   -> Supp    -0.011497
-Air    -> Temp    -0.016955
-O      -> Phase   -0.028542
-Gversion -> Technique -0.030101
-OD     -> Supp    -0.066876
-Technique -> O       -0.067595
-Gversion -> Supp    -0.135604
-Anti   -> Gtype   -0.143013
-Air    -> Supp    -0.157667
-Air    -> Med     -0.174826
-Gtype  -> Phase   -0.197920
-Med    -> Air     -0.205361
-OD     -> Gtype   -0.211062
-Supp   -> Temp    -0.212874
-Supp   -> pH      -0.213431
-Supp   -> Phase   -0.219962
-Gversion -> Air     -0.225808
-Temp   -> Med     -0.253881
-Supp   -> Anti    -0.265528
-Gtype  -> Technique -0.268918
-Technique -> Supp    -0.284128
-Phase  -> Technique -0.303684
-Anti   -> OD      -0.378454
-Air    -> OD      -0.388802
-Gtype  -> Gversion -0.434612
-Supp   -> Gversion -0.461142
-Supp   -> Gtype   -0.480734
-Supp   -> Technique -0.490490
-Supp   -> OD      -0.493041
-Gtype  -> Med     -0.540343
-OD     -> Med     -0.546645
-OD     -> O       -0.581637
-Supp   -> Air     -0.585456
-OD     -> Air     -0.600309
-O      -> Air     -0.604701
-Gtype  -> Anti    -0.624686
-Agit   -> O       -0.663403
-Substrain -> O       -0.867732
-Gtype  -> OD      -0.893986
-Technique -> OD      -0.928156
-Technique -> pH      -0.950458
-Technique -> Gtype   -0.973255
-Supp   -> Med     -1.074321
-Med    -> Supp    -1.297374
-Phase  -> OD      -1.457940
-
-
-Top positive:
-6.617235 O        b'lemma:_'
-5.661937 O        b'lemma:1'
-5.054136 Air      b'lemma:anaerobic'
-4.862395 O        b'lemma:2'
-4.817668 Strain   b'lemma:k-12'
-4.770160 Technique b'lemma:ChIP-exo'
-4.675717 Supp     b'lemma:Iron'
-4.608643 Air      b'lemma:aerobic'
-4.570021 Technique b'lemma:chipseq'
-4.467942 Phase    b'lemma:stationary'
-4.467649 O        b'postag:IN'
-4.445501 O        b'lemma:rpob'
-4.351529 Supp     b'lemma:pq'
-4.293076 Phase    b'lemma:mid-log'
-4.284291 O        b'lemma:3'
-4.120140 Supp     b'lemma:nh4cl'
-4.041253 Supp     b'lemma:glucose'
-4.028882 Substrain b'lemma:mg1655'
-3.913121 Gtype    b'lemma:\xce\xb4cra'
-3.860061 Air      b'-1:lemma:ChIP-Seq'
-3.841678 O        b'lemma:rep1'
-3.777629 Gtype    b'lemma:wt'
-3.746035 Gtype    b'lemma:arca8myc'
-3.726494 Gtype    b'lemma:flag-tag'
-3.726494 Gtype    b'-1:lemma:c-terminal'
-3.686798 Supp     b'+1:lemma:\xc2\xb5m'
-3.646788 O        b'postag::'
-3.631452 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.621528 Gversion b'lemma:asm584v2'
-3.593824 O        b'lemma:rep2'
-3.590555 Air      b'lemma:Aerobic'
-3.573506 Supp     b'lemma:nitrate'
-3.508451 Med      b'lemma:lb'
-3.458882 O        b'-1:lemma:tag'
-3.422575 O        b'lemma:b'
-3.405411 O        b'lemma:Cra'
-3.384112 O        b'lemma:a'
-3.334968 Med      b'lemma:LB'
-3.334210 Supp     b'lemma:acetate'
-3.282677 O        b'lemma:rep3'
-3.251111 Supp     b'lemma:no3'
-3.227141 O        b'-1:lemma:ChIP-exo'
-3.219816 Supp     b'lemma:dpd'
-3.209926 OD       b'lemma:od600'
-3.208899 Technique b'lemma:rna-seq'
-3.204074 Gtype    b'lemma:delta-arca'
-3.194919 O        b'lemma:.'
-3.194919 O        b'postag:.'
-3.124102 Gtype    b'lemma:fnr8myc'
-3.110051 O        b'lemma:\xcf\x8332'
-3.081376 Supp     b'lemma:Fe'
-3.079283 Gtype    b'lemma:\xe2\x88\x86'
-3.065167 O        b'lemma:Custom'
-3.058600 Gtype    b'lemma:type'
-3.022678 Technique b'lemma:chip-seq'
-3.000186 Med      b'lemma:MOPS'
-2.991397 O        b'lemma:CEL'
-2.914578 Gversion b'lemma:nc'
-2.867833 Technique b'lemma:rnaseq'
-2.848233 Supp     b'+1:lemma:1'
-2.835201 Anti     b'lemma:none'
-2.827074 Gtype    b'+1:lemma:type'
-2.826416 O        b'-1:lemma:Aerobic'
-2.786406 O        b'+1:postag:RB'
-2.776930 pH       b'lemma:ph5'
-2.776930 pH       b'+1:lemma:.5'
-2.774438 O        b'+1:lemma:od600'
-2.765842 Gtype    b'+1:lemma:with'
-2.764772 Technique b'lemma:ChIP-Seq'
-2.754976 Supp     b'lemma:fructose'
-2.736514 O        b'postag:VBN'
-2.708858 Med      b'+1:lemma:0.4'
-2.677396 Anti     b'lemma:seqa'
-2.673247 Vess     b'lemma:flask'
-2.673247 Vess     b'-1:lemma:warm'
-2.663413 Air      b'postag:RB'
-2.650175 OD       b'lemma:od450'
-2.624313 Supp     b'lemma:rifampicin'
-2.613050 Gtype    b'lemma:delta-fnr'
-2.611370 O        b'lemma:-'
-2.593952 Gtype    b'lemma:\xce\xb4fur'
-2.563276 Supp     b'-1:lemma:Cra'
-2.543682 O        b'-1:lemma:0.3-0.35'
-2.528111 Gtype    b'lemma:nsrr'
-2.524519 Supp     b'+1:lemma:2'
-2.523387 Gtype    b'lemma:wild-type'
-2.492162 Gversion b'lemma:chip-seq'
-2.476148 Temp     b'lemma:\xc2\xb0c'
-2.467250 Supp     b'+1:lemma:Deficient'
-2.437288 Anti     b'+1:lemma:antibody'
-2.432769 Technique b'-1:lemma:IP'
-2.424289 Supp     b'lemma:arginine'
-2.423238 O        b'lemma:affyexp'
-2.417028 Med      b'lemma:m63'
-2.413930 Gversion b'lemma:u00096'
-2.413930 Gversion b'+1:lemma:.2'
-2.398644 Gversion b'lemma:.2'
-2.398644 Gversion b'-1:lemma:u00096'
-2.392020 Gversion b'-1:lemma:nc'
-2.383653 Gversion b'lemma:000913'
-2.375231 O        b'lemma:s'
-2.367385 Med      b'+1:lemma:minimal'
-2.347384 Strain   b'+1:lemma:substr'
-2.340890 O        b'-1:lemma:anaerobic'
-2.334292 O        b'-1:lemma:glucose'
-2.302375 O        b'lemma:or'
-2.301832 Supp     b'+1:lemma:_'
-2.293105 O        b'lemma:with'
-2.236084 pH       b'+1:postag:CD'
-2.207764 Gtype    b'-1:lemma:ptac'
-2.195074 Gtype    b'lemma:\xce\xb4soxs'
-2.178906 Gtype    b'+1:lemma:flagtag'
-2.176058 Temp     b'+1:lemma:\xc2\xb0c'
-2.168855 O        b'lemma:oxyr'
-2.168601 O        b'-1:lemma:type'
-2.157843 O        b'-1:lemma:stpa'
-2.149393 Gtype    b'+1:lemma:pq'
-2.146677 Phase    b'-1:lemma:mid-log'
-2.131005 O        b'lemma:chip-arca'
-2.119123 O        b'-1:lemma:lb'
-2.094710 O        b'postag:CC'
-2.091261 pH       b'lemma:.5'
-2.091261 pH       b'-1:lemma:ph5'
-2.082804 Med      b'+1:lemma:2.0'
-2.061762 Anti     b'lemma:anti-myc'
-2.057834 Gtype    b'lemma:WT'
-2.055720 O        b'lemma:argr'
-2.042900 O        b'lemma:chip'
-2.041455 Gtype    b'-1:lemma:rpob'
-2.037173 Temp     b'-1:lemma:43'
-2.035435 Supp     b'lemma:nacl'
-2.034038 O        b'postag:SYM'
-2.032965 Temp     b'lemma:43'
-2.008638 Med      b'+1:lemma:+'
-1.996466 Gtype    b'lemma:\xce\xb4ompr'
-1.985063 Supp     b'lemma:iptg'
-1.984597 Technique b'-1:lemma:chip-exo'
-1.979684 O        b'+1:lemma:pq'
-1.976317 O        b'postag:DT'
-1.966888 Temp     b'-1:lemma:sample'
-1.963356 O        b'lemma:ompr'
-1.961470 Phase    b'lemma:phase'
-1.956222 Gtype    b'lemma:ptac'
-1.954916 Supp     b'lemma:Leu'
-1.930644 O        b'lemma:chip-fnr'
-1.929006 Air      b'-1:lemma:-'
-1.928521 Air      b'-1:postag:CD'
-1.924588 Supp     b'-1:lemma:\xc2\xb5m'
-1.923822 Temp     b'-1:lemma:37'
-1.914522 Air      b'lemma:anaerobically'
-1.914101 O        b'lemma:purr'
-1.913285 Anti     b'lemma:anti-rpos'
-1.908434 O        b'+1:lemma:mid-log'
-1.907365 Gtype    b'+1:lemma:_'
-1.901978 Supp     b'+1:lemma:hour'
-1.884890 Technique b'postag:NNP'
-1.883342 Technique b'+1:lemma:chip-exo'
-1.879749 O        b'lemma:Fur'
-1.875921 Supp     b'-1:lemma:+'
-1.873441 Technique b'-1:lemma:input'
-1.872859 Substrain b'+1:lemma:phtpg'
-1.868639 Air      b'lemma:Anaerobic'
-1.868217 Supp     b'-1:lemma:with'
-1.854650 O        b'-1:lemma:l1'
-1.843125 O        b'+1:lemma:anti-fur'
-1.840890 Gtype    b'lemma:pk4854'
-1.835897 Gtype    b'lemma:deltaseqa'
-1.835897 Gtype    b'-1:lemma:old'
-1.834676 O        b'lemma:Lrp'
-1.815094 Gtype    b'+1:lemma:ph5'
-1.812550 Temp     b'-1:lemma:\xcf\x8332'
-1.812482 O        b'postag:VBG'
-1.802963 Gversion b'+1:lemma:000913'
-1.799635 Gtype    b'-1:lemma:nsrr'
-1.789000 Med      b'postag:NNP'
-1.788228 Air      b'-1:lemma:co2'
-1.780588 Gtype    b'+1:lemma:aerobic'
-1.779977 O        b'lemma:culture'
-1.779785 Gtype    b'-1:lemma::'
-1.774675 O        b'lemma:genotype/variation'
-1.769006 Air      b'-1:postag::'
-1.759945 Supp     b'-1:lemma:mm'
-1.755681 Temp     b'lemma:37'
-1.748053 Phase    b'+1:lemma:for'
-1.747688 Supp     b'lemma:Adenine'
-1.745141 OD       b'+1:lemma:stationary'
-1.744193 O        b'lemma:at'
-1.744117 Med      b'-1:lemma:ml'
-1.735692 O        b'+1:lemma:43'
-1.733011 Supp     b'+1:lemma:and'
-1.727139 O        b'+1:lemma:chip-seq'
-1.724866 Med      b'lemma:glucose'
-1.721249 Supp     b'lemma:20'
-1.704065 Gtype    b'-1:lemma:_'
-1.687377 Supp     b'+1:lemma:respiratory'
-1.681655 Med      b'lemma:L'
-1.681655 Med      b'+1:lemma:broth'
-1.672214 Gversion b'lemma:_'
-1.650800 Med      b'lemma:broth'
-1.650800 Med      b'-1:lemma:L'
-
-
-Top negative:
--0.005569 OD       b'+1:lemma:0.4'
--0.005746 Gtype    b'-1:lemma:,'
--0.005746 Gtype    b'-1:postag:,'
--0.005870 Gtype    b'+1:postag:NNS'
--0.006749 Supp     b'lemma:mm'
--0.007678 Air      b'lemma:70'
--0.007875 O        b'+1:lemma:25'
--0.007908 O        b'+1:lemma:pahse'
--0.013446 Gtype    b'-1:postag:NNP'
--0.017395 O        b'-1:lemma:,'
--0.017395 O        b'-1:postag:,'
--0.018516 Supp     b'-1:postag:NN'
--0.022449 Phase    b'+1:postag:NN'
--0.024166 Air      b'-1:postag:CC'
--0.027647 Air      b'-1:lemma:or'
--0.028887 O        b'lemma:o2'
--0.030271 Supp     b'postag:CD'
--0.031072 Air      b'postag:CC'
--0.032381 Supp     b'-1:postag:NNP'
--0.032995 Air      b'+1:lemma:-lrb-'
--0.033529 O        b'lemma:pahse'
--0.034814 O        b'+1:lemma:-lcb-'
--0.035317 O        b'+1:lemma:~'
--0.037498 O        b'lemma:dpd'
--0.038911 O        b'-1:lemma:mm'
--0.039919 O        b'-1:postag:VBP'
--0.044315 OD       b'postag:IN'
--0.051484 O        b'-1:lemma:n2'
--0.055584 OD       b'+1:postag:CD'
--0.055696 O        b'+1:lemma:95'
--0.055992 Air      b'-1:lemma:anaerobically'
--0.056642 O        b'-1:lemma:with'
--0.061370 Gtype    b'+1:lemma:-lrb-'
--0.068768 O        b'+1:lemma:minimal'
--0.069489 Supp     b'lemma:and'
--0.082415 O        b'lemma:aerobically'
--0.086345 Air      b'+1:postag:-LRB-'
--0.088098 O        b'lemma:mg/ml'
--0.088098 O        b'-1:lemma:150'
--0.094403 Supp     b'+1:postag:-RRB-'
--0.096341 O        b'lemma:medium'
--0.108911 OD       b'+1:lemma:and'
--0.114634 OD       b'postag:JJ'
--0.117058 O        b'-1:lemma:20'
--0.118245 O        b'lemma:grow'
--0.125516 O        b'+1:lemma:_'
--0.127227 O        b'+1:lemma:antibody'
--0.129539 O        b'+1:lemma:b'
--0.129952 O        b'-1:lemma:the'
--0.131173 Gversion b'+1:postag:NN'
--0.134503 O        b'+1:lemma:phase'
--0.137711 Med      b'postag:CD'
--0.142578 O        b'+1:lemma:5'
--0.148353 O        b'+1:lemma:mg1655'
--0.150243 O        b'lemma:\xc2\xb0c'
--0.158759 O        b'lemma:glucose'
--0.159456 Supp     b'+1:lemma:glucose'
--0.162765 Technique b'-1:lemma::'
--0.163159 O        b'postag:RB'
--0.165065 Med      b'+1:postag:NN'
--0.165350 Gtype    b'+1:lemma:cra'
--0.166969 OD       b'+1:postag:CC'
--0.170125 O        b'-1:lemma:o2'
--0.173691 O        b'-1:lemma:e.'
--0.178574 Gtype    b'-1:postag:CD'
--0.178685 O        b'+1:lemma:-rrb-'
--0.181033 O        b'lemma:co2'
--0.184801 Anti     b'+1:postag:JJ'
--0.192236 O        b'lemma:e.'
--0.196425 O        b'lemma:mg1655'
--0.198559 Gtype    b'postag:CD'
--0.208272 O        b'-1:postag:IN'
--0.209806 O        b'+1:lemma:.'
--0.209806 O        b'+1:postag:.'
--0.218423 Med      b'-1:postag:IN'
--0.219166 O        b'lemma:30'
--0.219834 Supp     b'+1:postag:IN'
--0.227296 O        b'-1:lemma:um'
--0.227296 O        b'+1:lemma:paraquat'
--0.229687 O        b'-1:postag:VBN'
--0.236380 Med      b'-1:postag:NN'
--0.239831 O        b'-1:lemma:chip-exo'
--0.242289 O        b'-1:lemma:of'
--0.246361 O        b'+1:lemma:%'
--0.247802 O        b'-1:lemma:-lrb-'
--0.249050 O        b'-1:lemma:iptg'
--0.249812 O        b'+1:lemma:dissolve'
--0.255335 O        b'-1:lemma:mid-log'
--0.259151 O        b'-1:lemma:0.1'
--0.264441 O        b'+1:lemma:0.4'
--0.269854 Gtype    b'lemma:delta'
--0.270560 O        b'+1:lemma:rep1'
--0.279580 Supp     b'+1:postag:VBN'
--0.287048 Air      b'postag:CD'
--0.290077 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.292771 O        b'lemma:m63'
--0.294023 O        b'-1:lemma:from'
--0.312557 Gtype    b'-1:postag:DT'
--0.318799 O        b'+1:lemma:until'
--0.329610 Supp     b'-1:lemma:%'
--0.342219 Temp     b'postag:JJ'
--0.343713 Phase    b'-1:lemma:at'
--0.349210 O        b'+1:lemma:shake'
--0.355247 O        b'-1:postag:-LRB-'
--0.370779 O        b'-1:lemma:rifampicin'
--0.403678 O        b'+1:lemma:Aerobic'
--0.404389 Temp     b'-1:lemma:\xc2\xb0c'
--0.409312 O        b'+1:postag:-RRB-'
--0.410591 O        b'-1:lemma:g/l'
--0.411118 O        b'+1:postag:IN'
--0.411360 Gtype    b'lemma:_'
--0.413583 Supp     b'postag:CC'
--0.421267 O        b'lemma:lb'
--0.426132 O        b'+1:lemma:cell'
--0.436831 pH       b'postag:NN'
--0.446628 Gtype    b'-1:postag:SYM'
--0.450017 O        b'-1:lemma:grow'
--0.451231 Supp     b'+1:lemma:rifampicin'
--0.454808 O        b'+1:lemma:c'
--0.459381 O        b'lemma:phase'
--0.461745 O        b'-1:lemma:30'
--0.462999 O        b'-1:lemma:cra'
--0.486521 Temp     b'+1:lemma:to'
--0.486521 Temp     b'+1:postag:TO'
--0.490929 O        b'lemma:150'
--0.490929 O        b'+1:lemma:mg/ml'
--0.500528 O        b'-1:lemma:until'
--0.504446 Technique b'-1:postag::'
--0.510873 O        b'lemma:purify'
--0.517449 Phase    b'postag:JJ'
--0.518655 O        b'+1:lemma:\xc2\xb0c'
--0.519475 O        b'+1:postag:NNS'
--0.532580 Med      b'+1:postag:IN'
--0.557262 O        b'-1:lemma:od600'
--0.567606 O        b'-1:lemma:~'
--0.586909 O        b'+1:lemma:arginine'
--0.591624 Anti     b'+1:lemma:anti-fur'
--0.595260 O        b'-1:lemma:\xe2\x88\x86'
--0.619039 O        b'+1:lemma:300'
--0.633916 OD       b'lemma:-lrb-'
--0.639826 O        b'-1:lemma:1'
--0.645911 Temp     b'postag:NN'
--0.655433 O        b'lemma:dissolve'
--0.668333 O        b'+1:lemma:0.3'
--0.706553 Phase    b'-1:postag:JJ'
--0.715634 O        b'lemma:anaerobic'
--0.728858 O        b'lemma:media'
--0.729613 OD       b'postag:-LRB-'
--0.740187 O        b'lemma:fecl2'
--0.754262 O        b'-1:lemma:0.2'
--0.784045 O        b'lemma:anaerobically'
--0.786214 O        b'lemma:20'
--0.787962 Supp     b'+1:lemma:acetate'
--0.788691 Air      b'-1:postag:JJ'
--0.793632 O        b'lemma:od600'
--0.801628 O        b'lemma:0.3'
--0.804157 O        b'+1:lemma:fecl2'
--0.826218 O        b'lemma:\xe2\x88\x86'
--0.840032 O        b'-1:lemma:ml'
--0.841125 O        b'lemma:mid-log'
--0.845143 O        b'lemma:of'
--0.852270 O        b'-1:postag:VBG'
--0.883031 O        b'lemma:0.1'
--0.909031 O        b'postag:VBP'
--0.912966 O        b'lemma:\xce\xb4fur'
--0.938631 O        b'lemma:2h'
--0.938631 O        b'-1:lemma:additional'
--0.944242 O        b'+1:postag:VBG'
--0.987279 O        b'lemma:0.2'
--0.990573 O        b'+1:lemma:at'
--1.010504 O        b'+1:lemma:in'
--1.029267 O        b'lemma:k-12'
--1.051923 O        b'lemma:37'
--1.077459 O        b'-1:lemma:co2'
--1.077853 OD       b'+1:postag:NN'
--1.086493 O        b'-1:lemma:sample'
--1.089368 O        b'-1:lemma:ompr'
--1.092223 O        b'+1:lemma:g/l'
--1.092574 O        b'+1:lemma:supplement'
--1.150032 O        b'+1:lemma:hour'
--1.170208 O        b'-1:lemma:dissolve'
--1.170208 O        b'+1:lemma:methanol'
--1.203200 O        b'-1:lemma:rpob'
--1.305820 O        b'lemma:wt'
--1.316586 O        b'lemma:methanol'
--1.391650 O        b'+1:lemma:+'
--1.397786 O        b'-1:lemma:37'
--1.435566 Air      b'+1:postag:JJ'
--1.436410 Supp     b'postag:JJ'
--1.476904 Anti     b'postag:NNP'
--1.478116 O        b'lemma:rifampicin'
--1.558593 O        b'-1:postag::'
--1.634246 O        b'-1:lemma:nsrr'
--1.646012 Air      b'postag:NN'
--1.659601 O        b'-1:lemma:IP'
--1.726878 O        b'-1:lemma:2'
--1.877977 O        b'+1:lemma:2'
--2.024414 O        b'+1:lemma:1'
--2.949869 O        b'-1:lemma::'
--3.377496 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.05263895498644954, 'c2': 0.02804820165832339}
-best CV score:0.7981312956863408
-model size: 0.09M
-
-Flat F1: 0.7933473757323906
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.891     0.860     0.875        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.667     0.800         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.862     0.764     0.810       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.865     0.662     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.876     0.742     0.793       480
-
-
-Top likely transitions:
-OD     -> OD      5.994059
-Agit   -> Agit    5.826737
-Anti   -> Anti    5.330943
-Temp   -> Temp    5.278651
-Med    -> Med     5.155905
-Air    -> Air     5.151014
-O      -> O       4.730130
-Gversion -> Gversion 4.652874
-Gtype  -> Gtype   4.444237
-Phase  -> Phase   4.365358
-Supp   -> Supp    3.958563
-Technique -> Technique 3.244440
-pH     -> pH      2.428819
-Substrain -> Gtype   1.967210
-O      -> Supp    1.913743
-Gtype  -> Supp    1.740880
-Air    -> O       1.659369
-O      -> Gtype   1.420322
-O      -> Technique 1.309639
-Technique -> Air     1.158163
-O      -> Temp    0.988819
-O      -> Anti    0.871063
-Gtype  -> pH      0.641717
-Gtype  -> Air     0.619648
-Med    -> O       0.556187
-O      -> Strain  0.535992
-O      -> Gversion 0.475143
-OD     -> Phase   0.435748
-O      -> Vess    0.303971
-O      -> pH      0.293252
-Temp   -> O       0.145912
-Phase  -> O       0.144558
-O      -> Med     0.109253
-O      -> Phase   0.077950
-Supp   -> O       0.021525
-Technique -> Gversion -0.000001
-Gversion -> O       -0.000068
-Phase  -> Air     -0.004607
-OD     -> Temp    -0.005059
-Gversion -> Supp    -0.027403
-O      -> OD      -0.027425
-Gversion -> Technique -0.034949
-Gtype  -> Temp    -0.040921
-OD     -> Anti    -0.049114
-Phase  -> Med     -0.090487
-Air    -> Gtype   -0.096190
-Anti   -> Gtype   -0.108763
-Phase  -> Supp    -0.111803
-Gversion -> Air     -0.130125
-OD     -> Technique -0.144622
-
-
-Top unlikely transitions:
-O      -> OD      -0.027425
-Gversion -> Technique -0.034949
-Gtype  -> Temp    -0.040921
-OD     -> Anti    -0.049114
-Phase  -> Med     -0.090487
-Air    -> Gtype   -0.096190
-Anti   -> Gtype   -0.108763
-Phase  -> Supp    -0.111803
-Gversion -> Air     -0.130125
-OD     -> Technique -0.144622
-Gtype  -> O       -0.160542
-Anti   -> Supp    -0.167912
-Technique -> O       -0.178664
-Med    -> Air     -0.260175
-Air    -> Supp    -0.311671
-Technique -> Supp    -0.328788
-Supp   -> pH      -0.334244
-Gtype  -> Phase   -0.336838
-OD     -> Supp    -0.350765
-Supp   -> Temp    -0.356972
-Supp   -> Anti    -0.385974
-Gtype  -> Technique -0.399293
-Phase  -> Technique -0.412086
-Air    -> Med     -0.416009
-Anti   -> OD      -0.424355
-Supp   -> Phase   -0.431186
-Supp   -> Gversion -0.522870
-Gtype  -> Gversion -0.540870
-OD     -> Gtype   -0.561901
-Air    -> OD      -0.573132
-Gtype  -> Med     -0.615085
-OD     -> Med     -0.650842
-Agit   -> O       -0.652718
-Temp   -> Med     -0.665555
-Supp   -> OD      -0.692627
-Supp   -> Air     -0.710531
-OD     -> Air     -0.714126
-Gtype  -> Anti    -0.719364
-O      -> Air     -0.739232
-Supp   -> Technique -0.742109
-OD     -> O       -0.790102
-Supp   -> Gtype   -0.840885
-Gtype  -> OD      -0.945945
-Substrain -> O       -1.070813
-Technique -> OD      -1.137041
-Technique -> pH      -1.137389
-Technique -> Gtype   -1.148877
-Supp   -> Med     -1.256562
-Med    -> Supp    -1.723937
-Phase  -> OD      -1.987759
-
-
-Top positive:
-7.644011 O        b'lemma:_'
-6.383258 O        b'lemma:1'
-5.640911 Supp     b'lemma:Iron'
-5.580127 Air      b'lemma:anaerobic'
-5.538092 O        b'lemma:2'
-5.534391 Phase    b'lemma:stationary'
-5.531429 Strain   b'lemma:k-12'
-5.334010 Air      b'lemma:aerobic'
-5.315871 Technique b'lemma:ChIP-exo'
-5.203179 O        b'lemma:rpob'
-5.145510 Technique b'lemma:chipseq'
-5.013569 O        b'lemma:3'
-4.948545 Supp     b'lemma:pq'
-4.940685 Phase    b'lemma:mid-log'
-4.780713 O        b'postag:IN'
-4.581631 Supp     b'lemma:glucose'
-4.547719 O        b'lemma:rep1'
-4.536211 Supp     b'lemma:nh4cl'
-4.513208 Gtype    b'lemma:\xce\xb4cra'
-4.467672 Gversion b'lemma:asm584v2'
-4.425282 Substrain b'lemma:mg1655'
-4.379515 Supp     b'lemma:nitrate'
-4.372720 Air      b'-1:lemma:ChIP-Seq'
-4.334136 O        b'lemma:rep2'
-4.323892 Gtype    b'lemma:flag-tag'
-4.323892 Gtype    b'-1:lemma:c-terminal'
-4.316408 Gtype    b'lemma:wt'
-4.285662 O        b'-1:lemma:tag'
-4.263890 Gtype    b'lemma:arca8myc'
-4.176799 Supp     b'+1:lemma:\xc2\xb5m'
-4.127621 O        b'lemma:Cra'
-4.095187 Air      b'lemma:Aerobic'
-4.064385 O        b'lemma:rep3'
-4.064266 Med      b'lemma:LB'
-4.025844 Med      b'lemma:MOPS'
-4.002900 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.910979 Supp     b'lemma:acetate'
-3.828208 O        b'lemma:b'
-3.803370 Med      b'lemma:lb'
-3.794793 Technique b'lemma:rna-seq'
-3.753341 O        b'lemma:Custom'
-3.719844 O        b'lemma:a'
-3.708016 Gtype    b'lemma:delta-arca'
-3.699048 O        b'postag::'
-3.664175 Supp     b'lemma:no3'
-3.664047 O        b'lemma:\xcf\x8332'
-3.607483 Supp     b'lemma:Fe'
-3.591964 O        b'lemma:.'
-3.591964 O        b'postag:.'
-3.579521 Anti     b'lemma:none'
-3.563841 Gtype    b'lemma:fnr8myc'
-3.562162 O        b'-1:lemma:ChIP-exo'
-3.561181 Technique b'lemma:chip-seq'
-3.510825 OD       b'lemma:od600'
-3.412358 O        b'+1:postag:RB'
-3.407419 Anti     b'lemma:seqa'
-3.382318 Gtype    b'lemma:\xe2\x88\x86'
-3.361106 O        b'-1:lemma:Aerobic'
-3.358125 Supp     b'lemma:rifampicin'
-3.350656 O        b'+1:lemma:od600'
-3.328644 O        b'lemma:CEL'
-3.323042 Technique b'lemma:rnaseq'
-3.290496 Supp     b'lemma:dpd'
-3.262134 OD       b'lemma:od450'
-3.253879 Supp     b'-1:lemma:Cra'
-3.220056 Gtype    b'lemma:type'
-3.206772 O        b'lemma:-'
-3.203626 Gversion b'lemma:nc'
-3.187192 Gtype    b'lemma:delta-fnr'
-3.177788 Gtype    b'+1:lemma:type'
-3.162794 O        b'lemma:with'
-3.147705 Gversion b'lemma:chip-seq'
-3.138667 Gtype    b'+1:lemma:with'
-3.108383 O        b'postag:VBN'
-3.087768 Supp     b'+1:lemma:1'
-3.068972 Med      b'+1:lemma:0.4'
-3.017094 Supp     b'+1:lemma:Deficient'
-3.016316 O        b'-1:lemma:0.3-0.35'
-2.982857 pH       b'lemma:ph5'
-2.982857 pH       b'+1:lemma:.5'
-2.980416 Gtype    b'lemma:nsrr'
-2.966737 Gtype    b'lemma:\xce\xb4fur'
-2.958372 Supp     b'lemma:fructose'
-2.936801 Technique b'lemma:ChIP-Seq'
-2.931957 Vess     b'lemma:flask'
-2.931957 Vess     b'-1:lemma:warm'
-2.915047 Supp     b'+1:lemma:2'
-2.894349 O        b'-1:lemma:anaerobic'
-2.885376 O        b'lemma:for'
-2.880024 Supp     b'lemma:arginine'
-2.839562 Gtype    b'lemma:wild-type'
-2.812453 Med      b'lemma:m63'
-2.747567 Technique b'-1:lemma:IP'
-2.716324 O        b'lemma:s'
-2.710552 O        b'lemma:or'
-2.702444 Anti     b'lemma:anti-myc'
-2.699635 Temp     b'lemma:\xc2\xb0c'
-2.695860 Anti     b'+1:lemma:antibody'
-2.689645 Supp     b'+1:lemma:_'
-2.688117 Gversion b'lemma:u00096'
-2.688117 Gversion b'+1:lemma:.2'
-2.683722 Air      b'postag:RB'
-2.679633 O        b'-1:lemma:glucose'
-2.678210 Gversion b'lemma:.2'
-2.678210 Gversion b'-1:lemma:u00096'
-2.667116 O        b'lemma:affyexp'
-2.664622 Gversion b'-1:lemma:nc'
-2.661661 O        b'-1:lemma:type'
-2.656183 O        b'lemma:oxyr'
-2.655810 O        b'-1:lemma:lb'
-2.647789 O        b'lemma:ompr'
-2.637892 O        b'lemma:chip-arca'
-2.603431 Med      b'+1:lemma:minimal'
-2.589326 Gtype    b'-1:lemma:ptac'
-2.588251 Gtype    b'lemma:WT'
-2.566964 Strain   b'+1:lemma:substr'
-2.543192 O        b'-1:lemma:stpa'
-2.539508 Gtype    b'+1:lemma:flagtag'
-2.514377 O        b'+1:lemma:pq'
-2.486626 Gtype    b'+1:lemma:pq'
-2.461810 OD       b'+1:lemma:stationary'
-2.450698 Gtype    b'lemma:\xce\xb4soxs'
-2.426559 Gtype    b'lemma:\xce\xb4ompr'
-2.397900 Gversion b'lemma:000913'
-2.394523 Supp     b'lemma:nacl'
-2.361674 O        b'lemma:argr'
-2.356992 Air      b'lemma:Anaerobic'
-2.355669 Temp     b'-1:lemma:43'
-2.353172 Med      b'+1:lemma:2.0'
-2.352039 O        b'+1:lemma:anti-fur'
-2.331818 O        b'+1:lemma:o.d.'
-2.323083 Temp     b'lemma:43'
-2.321749 Phase    b'+1:lemma:for'
-2.320521 O        b'lemma:purr'
-2.319735 pH       b'+1:postag:CD'
-2.319685 Temp     b'-1:lemma:37'
-2.310705 Supp     b'lemma:Leu'
-2.304466 Gtype    b'+1:lemma:ph5'
-2.301687 Gtype    b'lemma:pk4854'
-2.298021 Temp     b'-1:lemma:sample'
-2.282513 O        b'lemma:Lrp'
-2.279986 Gtype    b'lemma:deltaseqa'
-2.279986 Gtype    b'-1:lemma:old'
-2.277445 O        b'lemma:chip'
-2.262228 Supp     b'lemma:iptg'
-2.240490 Supp     b'+1:lemma:hour'
-2.233231 O        b'postag:SYM'
-2.231698 Technique b'-1:lemma:input'
-2.231669 O        b'lemma:Fur'
-2.229136 O        b'postag:CC'
-2.217992 Temp     b'lemma:37'
-2.213326 Gtype    b'lemma:ptac'
-2.205755 Temp     b'+1:lemma:\xc2\xb0c'
-2.205719 O        b'+1:lemma:chip-seq'
-2.201154 Technique b'-1:lemma:chip-exo'
-2.196645 Air      b'lemma:anaerobically'
-2.188408 Supp     b'-1:lemma:+'
-2.180623 Supp     b'lemma:methanol'
-2.171324 Supp     b'lemma:Adenine'
-2.152039 O        b'+1:lemma:mid-log'
-2.130944 Technique b'+1:lemma:chip-exo'
-2.125495 Substrain b'+1:lemma:phtpg'
-2.122905 Anti     b'lemma:anti-rpos'
-2.120769 Gtype    b'+1:lemma:aerobic'
-2.119993 O        b'postag:DT'
-2.097185 Air      b'-1:lemma:-'
-2.073983 Temp     b'-1:lemma:\xcf\x8332'
-2.068525 Gversion b'+1:lemma:000913'
-2.068199 OD       b'-1:lemma:~'
-2.065247 Med      b'+1:lemma:+'
-2.062691 Technique b'postag:NNP'
-2.062117 O        b'lemma:soxs'
-2.062117 O        b'lemma:soxr'
-2.060943 O        b'lemma:genotype/variation'
-2.059647 Gtype    b'-1:lemma:rpob'
-2.054988 Phase    b'-1:lemma:until'
-2.053193 pH       b'lemma:.5'
-2.053193 pH       b'-1:lemma:ph5'
-2.050691 Supp     b'-1:lemma:\xc2\xb5m'
-2.046419 Med      b'lemma:glucose'
-2.038553 O        b'-1:lemma:\xc2\xb0c'
-2.035969 Med      b'postag:NNP'
-2.034678 Phase    b'lemma:phase'
-2.030470 Phase    b'-1:lemma:mid-log'
-2.021890 Air      b'-1:postag::'
-2.005361 Air      b'-1:lemma:co2'
-1.997853 Supp     b'-1:lemma:with'
-1.995559 O        b'-1:lemma:0.3'
-1.991909 Gversion b'lemma:_'
-1.982945 Gtype    b'-1:lemma:_'
-1.980389 Med      b'lemma:L'
-1.980389 Med      b'+1:lemma:broth'
-1.966184 O        b'lemma:chip-fnr'
-1.958899 O        b'-1:lemma:l1'
-1.952668 Gtype    b'-1:lemma::'
-1.932594 O        b'postag:VBG'
-1.930427 Med      b'-1:lemma:ml'
-1.925115 O        b'lemma:culture'
-1.919503 Vess     b'-1:postag:VBN'
-1.917264 Supp     b'+1:lemma:and'
-
-
-Top negative:
--0.017822 O        b'+1:lemma:or'
--0.020587 OD       b'+1:lemma:-lrb-'
--0.021122 Supp     b'-1:lemma:-'
--0.021949 Air      b'-1:postag:CC'
--0.024119 Gtype    b'+1:lemma:2'
--0.033734 O        b'lemma:25'
--0.035304 OD       b'+1:postag:CD'
--0.036590 O        b'+1:lemma:25'
--0.037058 Gtype    b'-1:postag:NNP'
--0.039077 O        b'-1:postag:IN'
--0.044840 OD       b'+1:postag:-LRB-'
--0.045413 O        b'+1:lemma:mm'
--0.045740 O        b'+1:lemma:-lcb-'
--0.046719 O        b'-1:lemma:the'
--0.047082 O        b'+1:lemma:grow'
--0.048829 O        b'lemma:mg/ml'
--0.048829 O        b'-1:lemma:150'
--0.049033 Air      b'postag:CC'
--0.054246 Gtype    b'+1:lemma:b'
--0.057570 O        b'+1:lemma:from'
--0.060387 O        b'+1:lemma:phase'
--0.065418 O        b'+1:lemma:strain'
--0.068947 O        b'-1:lemma:delta'
--0.070877 O        b'+1:lemma:mg1655'
--0.071913 O        b'lemma:medium'
--0.073052 OD       b'+1:lemma:0.4'
--0.083440 O        b'+1:lemma:o2'
--0.083866 Supp     b'-1:postag:NNP'
--0.086428 O        b'lemma:cell'
--0.091253 O        b'-1:lemma:with'
--0.092801 O        b'-1:lemma:of'
--0.096980 O        b'+1:lemma:5'
--0.102374 O        b'-1:postag:DT'
--0.109084 Med      b'-1:postag:NN'
--0.110663 O        b'+1:lemma:-rrb-'
--0.111886 O        b'-1:lemma:iptg'
--0.115712 O        b'+1:lemma:shake'
--0.116030 OD       b'lemma:~'
--0.118522 O        b'+1:lemma:antibody'
--0.128341 Phase    b'+1:postag:NN'
--0.134706 Gversion b'+1:postag:NN'
--0.136331 Gtype    b'+1:lemma:cra'
--0.136540 Gtype    b'+1:postag:NNS'
--0.140781 Med      b'+1:postag:NN'
--0.141957 O        b'-1:lemma:fresh'
--0.142025 Technique b'-1:lemma::'
--0.149157 O        b'lemma:o2'
--0.156748 O        b'-1:lemma:25'
--0.157167 O        b'-1:lemma:mm'
--0.158228 O        b'-1:lemma:chip-exo'
--0.160848 O        b'+1:lemma:b'
--0.164065 Phase    b'-1:lemma:at'
--0.166899 O        b'+1:lemma:until'
--0.170597 Supp     b'+1:lemma:glucose'
--0.179542 Med      b'+1:postag:NNS'
--0.182950 O        b'-1:lemma:n2'
--0.183589 O        b'lemma:nacl'
--0.187748 Supp     b'lemma:and'
--0.194897 Air      b'-1:lemma:or'
--0.195731 O        b'-1:lemma:e.'
--0.198544 O        b'-1:lemma:grow'
--0.202051 O        b'-1:postag:VBN'
--0.206509 Anti     b'+1:postag:JJ'
--0.209400 Supp     b'-1:lemma:and'
--0.216443 O        b'-1:lemma:-lrb-'
--0.219626 Supp     b'+1:postag:IN'
--0.222298 O        b'+1:lemma:0.4'
--0.224028 Supp     b'-1:postag:VBG'
--0.227080 Gtype    b'postag:CD'
--0.240844 O        b'+1:lemma:_'
--0.248019 O        b'+1:lemma:.'
--0.248019 O        b'+1:postag:.'
--0.252029 O        b'lemma:n2'
--0.254610 O        b'lemma:30'
--0.266756 Temp     b'-1:lemma:\xc2\xb0c'
--0.270952 O        b'lemma:co2'
--0.272046 O        b'lemma:grow'
--0.282947 O        b'lemma:\xc2\xb0c'
--0.283749 O        b'-1:lemma:um'
--0.283749 O        b'+1:lemma:paraquat'
--0.285506 O        b'-1:postag:-LRB-'
--0.286217 OD       b'+1:postag:CC'
--0.286759 Gtype    b'-1:postag:CD'
--0.288124 pH       b'postag:NN'
--0.308133 O        b'lemma:e.'
--0.310367 O        b'-1:lemma:mid-log'
--0.312184 O        b'-1:lemma:20'
--0.313374 Air      b'postag:CD'
--0.319126 O        b'lemma:minimal'
--0.319471 Supp     b'postag:CC'
--0.340367 O        b'lemma:phase'
--0.348342 O        b'+1:lemma:cell'
--0.348640 O        b'-1:lemma:g/l'
--0.348662 Temp     b'postag:JJ'
--0.352296 O        b'-1:lemma:0.1'
--0.359633 O        b'-1:lemma:from'
--0.362174 O        b'+1:lemma:%'
--0.363822 O        b'postag:RB'
--0.381740 Supp     b'+1:postag:VBN'
--0.396234 O        b'-1:lemma:rifampicin'
--0.397794 Med      b'-1:postag:IN'
--0.400686 O        b'lemma:mg1655'
--0.402514 Gtype    b'lemma:_'
--0.409362 O        b'-1:lemma:30'
--0.421905 Gtype    b'-1:postag:SYM'
--0.422755 O        b'+1:postag:IN'
--0.428375 O        b'lemma:m63'
--0.433573 O        b'+1:postag:-RRB-'
--0.446895 Temp     b'postag:NN'
--0.463213 O        b'+1:lemma:rep1'
--0.476889 O        b'+1:lemma:Aerobic'
--0.478443 Gtype    b'lemma:delta'
--0.482787 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.485877 O        b'lemma:lb'
--0.514632 O        b'-1:lemma:until'
--0.518078 Gtype    b'-1:postag:DT'
--0.525623 O        b'lemma:media'
--0.525890 Technique b'-1:postag::'
--0.549894 Supp     b'-1:lemma:%'
--0.558083 O        b'-1:lemma:o2'
--0.565131 Temp     b'+1:lemma:to'
--0.565131 Temp     b'+1:postag:TO'
--0.574257 OD       b'+1:lemma:and'
--0.594559 OD       b'+1:postag:NN'
--0.604948 O        b'-1:lemma:od600'
--0.612232 O        b'+1:lemma:arginine'
--0.614534 O        b'lemma:purify'
--0.619152 O        b'lemma:150'
--0.619152 O        b'+1:lemma:mg/ml'
--0.621956 OD       b'lemma:-lrb-'
--0.622235 O        b'-1:lemma:cra'
--0.632733 Med      b'+1:postag:IN'
--0.667988 O        b'+1:lemma:\xc2\xb0c'
--0.701676 O        b'+1:lemma:0.3'
--0.702720 Anti     b'+1:lemma:anti-fur'
--0.715537 O        b'+1:lemma:300'
--0.717529 O        b'-1:lemma:\xe2\x88\x86'
--0.723154 O        b'+1:postag:NNS'
--0.743940 O        b'lemma:of'
--0.750458 OD       b'postag:-LRB-'
--0.756537 O        b'lemma:dissolve'
--0.780462 O        b'lemma:od600'
--0.795527 O        b'lemma:0.1'
--0.801265 O        b'+1:lemma:c'
--0.803646 O        b'lemma:20'
--0.821445 O        b'-1:lemma:1'
--0.826457 O        b'-1:lemma:~'
--0.832694 O        b'lemma:dpd'
--0.832795 Supp     b'+1:lemma:rifampicin'
--0.871325 O        b'-1:lemma:0.2'
--0.881067 O        b'-1:lemma:co2'
--0.888371 Phase    b'postag:JJ'
--0.896433 Supp     b'+1:lemma:acetate'
--0.904708 Air      b'-1:postag:JJ'
--0.921787 O        b'lemma:\xe2\x88\x86'
--0.945637 O        b'-1:postag:VBG'
--0.954150 O        b'+1:lemma:fecl2'
--0.973569 O        b'lemma:0.3'
--0.992597 O        b'lemma:anaerobic'
--1.028824 O        b'lemma:anaerobically'
--1.041899 O        b'lemma:0.2'
--1.042250 O        b'lemma:k-12'
--1.074389 O        b'+1:lemma:supplement'
--1.076645 O        b'lemma:2h'
--1.076645 O        b'-1:lemma:additional'
--1.091822 O        b'-1:lemma:dissolve'
--1.091822 O        b'+1:lemma:methanol'
--1.154399 O        b'lemma:mid-log'
--1.157754 O        b'lemma:\xce\xb4fur'
--1.158951 OD       b'postag:JJ'
--1.162611 O        b'+1:lemma:g/l'
--1.185695 O        b'+1:lemma:in'
--1.190815 Phase    b'-1:postag:JJ'
--1.231014 O        b'lemma:fecl2'
--1.238272 O        b'+1:postag:VBG'
--1.266384 O        b'lemma:37'
--1.270093 O        b'postag:VBP'
--1.297913 O        b'-1:lemma:rpob'
--1.310368 O        b'+1:lemma:at'
--1.315321 O        b'-1:lemma:sample'
--1.439337 O        b'-1:lemma:37'
--1.450525 O        b'-1:lemma:ml'
--1.462231 O        b'-1:postag::'
--1.474342 O        b'-1:lemma:ompr'
--1.487270 O        b'lemma:wt'
--1.575446 Supp     b'postag:JJ'
--1.641300 Air      b'+1:postag:JJ'
--1.665695 Air      b'postag:NN'
--1.677781 O        b'-1:lemma:IP'
--1.786584 O        b'+1:lemma:+'
--1.796122 Anti     b'postag:NNP'
--1.854444 O        b'lemma:rifampicin'
--1.946910 O        b'-1:lemma:nsrr'
--1.979248 O        b'lemma:methanol'
--2.077182 O        b'-1:lemma:2'
--2.088516 O        b'+1:lemma:hour'
--2.183645 O        b'+1:lemma:2'
--2.789864 O        b'+1:lemma:1'
--3.511399 O        b'-1:lemma::'
--3.697135 O        b'-1:lemma:_'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.07838162718183349, 'c2': 0.05887606797757319}
+best CV score:0.87030448615518
+model size: 0.16M
+
+Flat F1: 0.7823412170507693
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.925     0.961        53
+       Temp      0.917     0.759     0.830        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.875     0.933     0.903        15
+        Air      0.556     0.362     0.439        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.849     0.859     0.854        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.686     0.813     0.744       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.798     0.778     0.782       451
+
+
+Top likely transitions:
+Temp   -> Temp    4.911417
+OD     -> OD      4.541853
+Med    -> Med     4.405893
+Supp   -> Supp    4.305413
+Agit   -> Agit    4.272648
+Anti   -> Anti    3.837258
+O      -> O       3.787660
+Gtype  -> Gtype   3.752687
+Gversion -> Gversion 3.628661
+Air    -> Air     3.521236
+Phase  -> Phase   3.320009
+Technique -> Technique 2.966375
+pH     -> pH      2.362986
+Substrain -> Gtype   1.121355
+O      -> Technique 0.896285
+Gtype  -> Supp    0.860650
+O      -> Supp    0.689540
+O      -> Gtype   0.595827
+Gtype  -> Air     0.530941
+Technique -> Air     0.501834
+Air    -> O       0.490782
+Gtype  -> pH      0.392258
+Temp   -> O       0.195983
+Med    -> O       0.164949
+Supp   -> O       0.068384
+O      -> Temp    0.032340
+O      -> pH      0.007653
+O      -> Strain  -0.003076
+Gversion -> Gtype   -0.013131
+Gversion -> Air     -0.016755
+Supp   -> Anti    -0.028664
+Vess   -> O       -0.036195
+Agit   -> Supp    -0.042183
+Gtype  -> Phase   -0.047540
+Supp   -> Technique -0.060640
+Supp   -> pH      -0.062714
+O      -> Phase   -0.068478
+Technique -> OD      -0.069783
+Supp   -> OD      -0.073453
+O      -> Agit    -0.079631
+Phase  -> Air     -0.079705
+Anti   -> Med     -0.089699
+Anti   -> Gtype   -0.095119
+Gtype  -> Gversion -0.100232
+Temp   -> Air     -0.116744
+OD     -> O       -0.129801
+Phase  -> Med     -0.135688
+Air    -> Agit    -0.138019
+Phase  -> O       -0.139580
+pH     -> Supp    -0.141124
+
+
+Top unlikely transitions:
+Supp   -> Technique -0.060640
+Supp   -> pH      -0.062714
+O      -> Phase   -0.068478
+Technique -> OD      -0.069783
+Supp   -> OD      -0.073453
+O      -> Agit    -0.079631
+Phase  -> Air     -0.079705
+Anti   -> Med     -0.089699
+Anti   -> Gtype   -0.095119
+Gtype  -> Gversion -0.100232
+Temp   -> Air     -0.116744
+OD     -> O       -0.129801
+Phase  -> Med     -0.135688
+Air    -> Agit    -0.138019
+Phase  -> O       -0.139580
+pH     -> Supp    -0.141124
+Air    -> Temp    -0.146478
+OD     -> Supp    -0.177929
+Gversion -> O       -0.195235
+Med    -> Air     -0.218392
+Technique -> Supp    -0.218928
+O      -> OD      -0.220859
+Anti   -> O       -0.227867
+Anti   -> Supp    -0.241653
+Temp   -> Med     -0.265069
+Air    -> Gtype   -0.270959
+Gversion -> Supp    -0.271472
+Phase  -> OD      -0.278093
+O      -> Med     -0.292957
+Supp   -> Phase   -0.310262
+Agit   -> O       -0.315551
+Technique -> O       -0.317964
+Agit   -> Air     -0.327189
+Air    -> Phase   -0.332685
+Supp   -> Gtype   -0.386391
+Gtype  -> Technique -0.394676
+Supp   -> Air     -0.403362
+Gtype  -> Anti    -0.428993
+Phase  -> Supp    -0.440098
+Air    -> Supp    -0.449326
+Technique -> pH      -0.462944
+Air    -> Med     -0.469469
+OD     -> Air     -0.509283
+Gtype  -> Med     -0.621751
+Supp   -> Med     -0.659958
+Gtype  -> O       -0.671881
+O      -> Air     -0.712510
+Technique -> Gtype   -1.006943
+Substrain -> O       -1.077790
+Med    -> Supp    -1.486790
+
+
+Top positive:
+4.124249 Anti     b'-2:lemma:antibody'
+3.641687 Air      b'word:Aerobic'
+3.497811 O        b'-2:lemma:_'
+3.258366 Air      b'lemma:anaerobic'
+3.145552 O        b'lemma:_'
+3.145552 O        b'word:_'
+3.024671 Gtype    b'-2:lemma:genotype/variation'
+2.928771 Air      b'postag:RB'
+2.783339 Technique b'word:ChIP-Seq'
+2.697083 O        b'lemma:2'
+2.697083 O        b'word:2'
+2.670728 Phase    b'-2:lemma:phase'
+2.637125 O        b'postag::'
+2.618748 O        b'word:Cra'
+2.610104 Technique b'word:ChIP-exo'
+2.571728 O        b'lemma:1'
+2.571728 O        b'word:1'
+2.511177 O        b'postag:IN'
+2.472685 Gtype    b'-2:lemma:genotype'
+2.396386 Supp     b'lemma:pq'
+2.396386 Supp     b'word:PQ'
+2.337247 O        b'lemma:.'
+2.337247 O        b'postag:.'
+2.337247 O        b'word:.'
+2.332296 Technique b'lemma:rna-seq'
+2.320371 Gtype    b'word:WT'
+2.309222 Gtype    b'lemma:wt'
+2.274976 O        b'-2:lemma:flagtag'
+2.273949 Technique b'word:ChIPSeq'
+2.258997 Technique b'lemma:ChIP-exo'
+2.199264 Air      b'word:Anaerobic'
+2.142635 O        b'-1:lemma:ChIP-exo'
+2.096906 Supp     b'lemma:nh4cl'
+2.072818 Phase    b'lemma:mid-log'
+2.072818 Phase    b'word:mid-log'
+2.053563 Gtype    b'lemma:wild-type'
+2.044128 O        b'lemma:rpob'
+2.044128 O        b'word:RpoB'
+2.020270 O        b'postag:VBN'
+2.020107 O        b'lemma:3'
+2.020107 O        b'word:3'
+2.011865 Supp     b'-1:word:Cra'
+1.983566 Gtype    b'lemma:type'
+1.983566 Gtype    b'word:type'
+1.975796 O        b'lemma:-'
+1.975796 O        b'word:-'
+1.959537 O        b'-2:lemma:medium'
+1.955236 Gtype    b'-2:lemma:affyexp'
+1.942868 Gtype    b'lemma:\xce\xb4cra'
+1.939375 Gtype    b'word:\xce\x94cra'
+1.938173 Technique b'lemma:chipseq'
+1.890561 Supp     b'lemma:Iron'
+1.890561 Supp     b'word:Iron'
+1.890561 Supp     b'+1:word:Deficient'
+1.890561 Supp     b'-2:lemma:Anaerobic'
+1.874088 Supp     b'lemma:acetate'
+1.874088 Supp     b'word:acetate'
+1.819674 pH       b'+1:postag:CD'
+1.788257 O        b'lemma:b'
+1.788257 O        b'word:B'
+1.782368 O        b'word:A'
+1.774988 O        b'+2:lemma:\xc2\xb0c'
+1.768402 O        b'+2:postag:JJ'
+1.762269 Gtype    b'lemma:\xe2\x88\x86'
+1.762269 Gtype    b'word:\xe2\x88\x86'
+1.746520 Med      b'lemma:MOPS'
+1.746520 Med      b'word:MOPS'
+1.723641 Supp     b'+2:lemma:iptg'
+1.722034 Air      b'lemma:Aerobic'
+1.705697 O        b'-1:word:Aerobic'
+1.703316 Anti     b'+2:lemma:antibody'
+1.702891 O        b'postag:CC'
+1.699990 Supp     b'-1:lemma:with'
+1.699990 Supp     b'-1:word:with'
+1.688533 Supp     b'lemma:glucose'
+1.688533 Supp     b'word:glucose'
+1.674465 Supp     b'lemma:no3'
+1.674465 Supp     b'word:NO3'
+1.666479 Supp     b'lemma:nacl'
+1.666479 Supp     b'word:NaCl'
+1.641938 Supp     b'lemma:arginine'
+1.638237 Substrain b'lemma:mg1655'
+1.638237 Substrain b'word:MG1655'
+1.637725 Supp     b'+1:lemma:\xc2\xb5m'
+1.637725 Supp     b'+1:word:\xc2\xb5M'
+1.636903 Med      b'isUpper'
+1.611838 O        b'+1:postag:NNP'
+1.611343 O        b'lemma:a'
+1.607795 Technique b'+2:lemma:ph5'
+1.602510 Air      b'word:anaerobic'
+1.599293 O        b'+1:postag:RB'
+1.590988 Gtype    b'-1:lemma:\xe2\x88\x86'
+1.590988 Gtype    b'-1:word:\xe2\x88\x86'
+1.589631 Gtype    b'-2:postag:DT'
+1.583352 Med      b'+2:postag:CC'
+1.579250 O        b'isLower'
+1.578231 Gtype    b'+2:lemma:glucose'
+1.552685 Gtype    b'+1:lemma:type'
+1.552685 Gtype    b'+1:word:type'
+1.528892 Substrain b'-2:lemma:substr'
+1.515887 Supp     b'lemma:nitrate'
+1.515887 Supp     b'word:nitrate'
+1.503178 O        b'-1:lemma:tag'
+1.473485 Gtype    b'lemma:\xce\xb4soxr'
+1.473485 Gtype    b'word:\xce\x94soxR'
+1.456677 O        b'-1:word:tag'
+1.455346 Gtype    b'lemma:flag-tag'
+1.455346 Gtype    b'-1:lemma:c-terminal'
+1.455346 Gtype    b'word:Flag-tag'
+1.455346 Gtype    b'-1:word:C-terminal'
+1.451462 Technique b'word:RNA-Seq'
+1.434331 Supp     b'-1:lemma:Cra'
+1.432730 O        b'+1:word:ChIP-Seq'
+1.426572 O        b'-1:lemma:anaerobic'
+1.425108 Gtype    b'lemma:\xce\xb4fur'
+1.425108 Gtype    b'word:\xce\x94fur'
+1.425025 Technique b'lemma:rnaseq'
+1.425025 Technique b'word:RNASeq'
+1.416012 O        b'postag:VBG'
+1.415750 Gversion b'-2:lemma:nc'
+1.408974 Gversion b'lemma:chip-seq'
+1.379843 O        b'+1:lemma:arca-8myc'
+1.379843 O        b'+1:word:ArcA-8myc'
+1.374672 O        b'lemma:with'
+1.374672 O        b'word:with'
+1.374577 O        b'lemma:Cra'
+1.373182 Gversion b'word:ChIP-Seq'
+1.372454 Gtype    b'-2:lemma:delta'
+1.369100 O        b'+2:lemma:cra'
+1.367463 O        b'-1:lemma:0.3'
+1.367463 O        b'-1:word:0.3'
+1.366576 O        b'-2:lemma:myc'
+1.365144 O        b'lemma:ompr'
+1.365144 O        b'word:OmpR'
+1.358116 Supp     b'-1:postag:CC'
+1.351356 Gtype    b'postag:JJ'
+1.340661 Strain   b'+1:lemma:substr'
+1.340661 Strain   b'+1:word:substr'
+1.340661 Strain   b'-2:lemma:str'
+1.337333 Gtype    b'+1:lemma:with'
+1.337333 Gtype    b'+1:word:with'
+1.331237 Supp     b'-2:lemma:agent'
+1.319017 Air      b'+1:postag:IN'
+1.313717 O        b'lemma:harbor'
+1.313717 O        b'word:harboring'
+1.311281 Technique b'-1:lemma:chip-exo'
+1.310088 Air      b'lemma:aerobic'
+1.301908 Temp     b'isNumber'
+1.296057 O        b'lemma:chip'
+1.294021 Med      b'+2:lemma:b2'
+1.290231 O        b'+1:lemma:pq'
+1.290231 O        b'+1:word:PQ'
+1.288968 Supp     b'-2:lemma:media'
+1.285093 O        b'-1:lemma:lb'
+1.285093 O        b'-1:word:LB'
+1.284396 O        b'-1:lemma:glucose'
+1.284396 O        b'-1:word:glucose'
+1.281083 O        b'-1:lemma:media'
+1.281083 O        b'-1:word:media'
+1.280357 Med      b'lemma:lb'
+1.280357 Med      b'word:LB'
+1.277491 O        b'+2:lemma:70'
+1.276083 Supp     b'lemma:Leu'
+1.276083 Supp     b'word:Leu'
+1.276083 Supp     b'-2:lemma:Lrp'
+1.266271 Supp     b'-2:lemma:induce'
+1.263127 Phase    b'lemma:exponential'
+1.263127 Phase    b'word:exponential'
+1.263127 Phase    b'lemma:stationary'
+1.263127 Phase    b'word:stationary'
+1.250254 Air      b'-1:lemma:ChIP-Seq'
+1.250254 Air      b'-1:word:ChIP-Seq'
+1.245392 Air      b'-2:lemma:IP'
+1.237417 OD       b'postag:CD'
+1.227048 Supp     b'-1:lemma:+'
+1.227048 Supp     b'-1:word:+'
+1.225001 Gtype    b'-1:postag:VBG'
+1.222768 O        b'lemma:Custom'
+1.222768 O        b'word:Custom'
+1.222690 Strain   b'lemma:k-12'
+1.222690 Strain   b'word:K-12'
+1.211762 Gversion b'-2:lemma:build'
+1.207468 Supp     b'+1:lemma:1'
+1.207468 Supp     b'+1:word:1'
+1.200932 Air      b'-1:lemma:-'
+1.200932 Air      b'-1:word:-'
+1.200071 Gversion b'lemma:nc'
+1.200071 Gversion b'word:NC'
+1.192535 O        b'+2:lemma:fructose'
+1.191869 Gtype    b'postag:NN'
+1.189235 pH       b'lemma:ph5'
+1.189235 pH       b'+1:lemma:.5'
+1.189235 pH       b'word:pH5'
+1.189235 pH       b'+1:word:.5'
+1.180856 O        b'lemma:at'
+1.174453 Supp     b'lemma:rifampicin'
+1.174453 Supp     b'word:rifampicin'
+1.166521 O        b'lemma:argr'
+1.166521 O        b'word:ArgR'
+1.162681 OD       b'-1:postag:IN'
+
+
+Top negative:
+-0.311652 O        b'+1:word:supplemented'
+-0.312640 O        b'-2:lemma:control'
+-0.323532 O        b'lemma:minimal'
+-0.323532 O        b'word:minimal'
+-0.323844 O        b'-1:lemma:ph'
+-0.323844 O        b'-1:word:pH'
+-0.324956 O        b'lemma:37'
+-0.324956 O        b'word:37'
+-0.328081 O        b'-1:lemma:cra'
+-0.328436 O        b'lemma:methanol'
+-0.328436 O        b'word:methanol'
+-0.328436 O        b'-2:lemma:dissolve'
+-0.332352 O        b'-1:lemma:37'
+-0.332352 O        b'-1:word:37'
+-0.337835 Anti     b'+1:lemma:anti-fur'
+-0.337835 Anti     b'+1:word:anti-Fur'
+-0.338497 O        b'+1:lemma:1m'
+-0.338497 O        b'+1:word:1M'
+-0.338497 O        b'-2:lemma:vol'
+-0.340286 O        b'+2:lemma:add'
+-0.348253 Supp     b'-1:lemma:10'
+-0.348253 Supp     b'-1:word:10'
+-0.355580 O        b'-2:lemma:10'
+-0.356547 O        b'-2:lemma:minimal'
+-0.359288 O        b'-1:lemma:ml'
+-0.359288 O        b'-1:word:ml'
+-0.361424 O        b'-1:lemma:dissolve'
+-0.361424 O        b'+1:lemma:methanol'
+-0.361424 O        b'-1:word:dissolved'
+-0.361424 O        b'+1:word:methanol'
+-0.367262 Substrain b'isLower'
+-0.367703 Supp     b'postag:CC'
+-0.367998 O        b'-1:lemma:co2'
+-0.367998 O        b'-1:word:CO2'
+-0.370364 O        b'+2:lemma:-rrb-'
+-0.374065 O        b'-2:lemma:genome'
+-0.375208 Supp     b'-2:lemma:.'
+-0.375208 Supp     b'-2:postag:.'
+-0.378770 O        b'+2:lemma:at'
+-0.385912 O        b'-1:lemma:fresh'
+-0.385912 O        b'-1:word:fresh'
+-0.389093 Strain   b'isLower'
+-0.389489 Temp     b'-2:postag:NN'
+-0.390296 O        b'lemma:aerobic'
+-0.391758 O        b'-2:lemma:aerobically'
+-0.393460 O        b'-1:lemma:2'
+-0.393460 O        b'-1:word:2'
+-0.397723 O        b'+1:lemma:mm'
+-0.397723 O        b'+1:word:mM'
+-0.398729 O        b'-1:lemma:rpob'
+-0.398729 O        b'-1:word:RpoB'
+-0.401643 O        b'-1:lemma:mm'
+-0.401643 O        b'-1:word:mM'
+-0.402690 Supp     b'-2:lemma:grow'
+-0.403521 O        b'-2:lemma:pahse'
+-0.404104 O        b'-1:lemma:grow'
+-0.411213 O        b'lemma:nitrogen'
+-0.411213 O        b'word:nitrogen'
+-0.411373 O        b'+1:lemma:+'
+-0.411373 O        b'+1:word:+'
+-0.415137 Gtype    b'-2:postag:CD'
+-0.424176 O        b'+1:word:ChIP-exo'
+-0.437712 O        b'-2:postag:SYM'
+-0.445165 Supp     b'+1:lemma:,'
+-0.445165 Supp     b'+1:postag:,'
+-0.445165 Supp     b'+1:word:,'
+-0.453707 O        b'lemma:fructose'
+-0.453707 O        b'word:fructose'
+-0.457985 O        b'-2:lemma:nh4cl'
+-0.460272 O        b'lemma:anaerobically'
+-0.460272 O        b'word:anaerobically'
+-0.460899 O        b'+2:lemma:reference'
+-0.461152 O        b'lemma:2h'
+-0.461152 O        b'-1:lemma:additional'
+-0.461152 O        b'word:2h'
+-0.461152 O        b'-1:word:additional'
+-0.465651 O        b'-2:lemma:rpob'
+-0.467210 O        b'lemma:anaerobic'
+-0.482841 Supp     b'+1:lemma:-lrb-'
+-0.482841 Supp     b'+1:word:-LRB-'
+-0.487123 O        b'-1:lemma:\xe2\x88\x86'
+-0.487123 O        b'-1:word:\xe2\x88\x86'
+-0.490214 O        b'lemma:aerobically'
+-0.490214 O        b'word:aerobically'
+-0.493650 O        b'lemma:of'
+-0.493650 O        b'word:of'
+-0.498710 O        b'+2:lemma:mid-log'
+-0.499349 O        b'-1:lemma:30'
+-0.499349 O        b'-1:word:30'
+-0.499545 O        b'+2:lemma:fnr'
+-0.506778 Supp     b'+1:postag:-LRB-'
+-0.511585 O        b'word:ChIP-exo'
+-0.513406 O        b'-1:lemma:chip-exo'
+-0.517504 Supp     b'+2:lemma:glucose'
+-0.518174 O        b'+1:lemma:g/l'
+-0.518174 O        b'+1:word:g/L'
+-0.520916 O        b'-2:lemma:anaerobically'
+-0.530292 O        b'+2:postag:-RRB-'
+-0.531458 Med      b'-1:postag:NN'
+-0.532473 O        b'lemma:nh4cl'
+-0.535293 O        b'-2:lemma:IP'
+-0.538050 Gtype    b'-2:lemma:\xe2\x88\x86'
+-0.542753 pH       b'isUpper'
+-0.559582 O        b'lemma:glucose'
+-0.559582 O        b'word:glucose'
+-0.563071 O        b'-2:lemma:dpd'
+-0.568245 O        b'+1:lemma:until'
+-0.568245 O        b'+1:word:until'
+-0.569455 Supp     b'-2:postag:NNS'
+-0.569843 Air      b'+1:postag:JJ'
+-0.573996 O        b'lemma:\xce\xb4fur'
+-0.573996 O        b'word:\xce\x94fur'
+-0.574100 O        b'+1:postag:IN'
+-0.583141 O        b'+1:lemma:in'
+-0.583141 O        b'+1:word:in'
+-0.584211 O        b'lemma:30'
+-0.584211 O        b'word:30'
+-0.587080 Agit     b'isUpper'
+-0.591540 Supp     b'-1:postag:NNP'
+-0.595806 O        b'-1:postag::'
+-0.599170 O        b'-2:lemma:phase'
+-0.601235 O        b'+2:lemma:b'
+-0.602048 O        b'+2:lemma:then'
+-0.608335 O        b'-1:lemma:1'
+-0.608335 O        b'-1:word:1'
+-0.608384 Anti     b'isUpper'
+-0.617575 O        b'-2:lemma:until'
+-0.617630 O        b'lemma:mid-log'
+-0.617630 O        b'word:mid-log'
+-0.621155 O        b'-2:lemma:fresh'
+-0.626295 O        b'-2:lemma:media'
+-0.635986 Phase    b'isUpper'
+-0.639041 O        b'+2:lemma:250'
+-0.644310 Supp     b'-2:postag:JJ'
+-0.653651 O        b'+1:lemma:at'
+-0.653651 O        b'+1:word:at'
+-0.658042 Supp     b'-2:lemma:treat'
+-0.664028 Med      b'+2:postag:VBN'
+-0.670366 O        b'-1:lemma:nsrr'
+-0.670366 O        b'-1:word:NsrR'
+-0.670591 O        b'-2:postag:DT'
+-0.674143 O        b'-1:lemma:vol'
+-0.674143 O        b'-1:word:vol'
+-0.674143 O        b'-2:lemma:1/100'
+-0.674143 O        b'+2:lemma:1m'
+-0.698342 Med      b'-2:postag:VBN'
+-0.715097 O        b'+1:lemma:2.0'
+-0.715097 O        b'+1:word:2.0'
+-0.721531 pH       b'isLower'
+-0.742327 O        b'-1:lemma:sample'
+-0.752266 O        b'lemma:nitrate'
+-0.752266 O        b'word:nitrate'
+-0.767047 O        b'-2:lemma::'
+-0.787116 O        b'lemma:rifampicin'
+-0.787116 O        b'word:rifampicin'
+-0.792673 O        b'+2:lemma:rifampicin'
+-0.797812 O        b'+1:postag:VBG'
+-0.816000 O        b'lemma:wt'
+-0.816563 O        b'-1:lemma:IP'
+-0.816563 O        b'-1:word:IP'
+-0.834409 O        b'lemma:0.3'
+-0.834409 O        b'word:0.3'
+-0.837034 Supp     b'+2:postag:CD'
+-0.838689 O        b'postag:VBP'
+-0.840231 Technique b'isNumber'
+-0.846346 Air      b'postag:NN'
+-0.850091 Gtype    b'postag:VBG'
+-0.854432 O        b'-2:postag:RB'
+-0.883296 Gtype    b'isLower'
+-0.888784 O        b'lemma:media'
+-0.888784 O        b'word:media'
+-0.895754 Gversion b'isLower'
+-0.904522 Temp     b'postag:NN'
+-0.924495 O        b'+2:lemma:+'
+-0.935152 Gtype    b'+2:lemma:cra'
+-0.943613 Gtype    b'isNumber'
+-0.975059 O        b'postag:RB'
+-1.021612 Med      b'-2:lemma:grow'
+-1.024421 Anti     b'+2:lemma:polyclonal'
+-1.031484 O        b'-2:lemma:rifampicin'
+-1.059929 O        b'+1:lemma:1'
+-1.059929 O        b'+1:word:1'
+-1.084068 Supp     b'+2:lemma:fructose'
+-1.123084 Technique b'isLower'
+-1.132053 O        b'-2:lemma:0.3'
+-1.168749 Supp     b'+2:lemma:1'
+-1.183772 OD       b'+1:postag:NN'
+-1.263288 OD       b'+2:lemma:aerobically'
+-1.270174 Supp     b'+2:lemma:2'
+-1.329893 Anti     b'postag:NNP'
+-1.366300 O        b'+1:lemma:2'
+-1.366300 O        b'+1:word:2'
+-1.389405 Phase    b'-1:postag:JJ'
+-1.607302 Supp     b'postag:JJ'
+-1.676382 O        b'-1:postag:VBG'
+-1.773723 O        b'-1:lemma::'
+-1.773723 O        b'-1:word::'
+-1.857508 Phase    b'postag:JJ'
+-1.945074 O        b'-1:lemma:_'
+-1.945074 O        b'-1:word:_'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.34336652460986966, 'c2': 0.023606219975479584}
-best CV score:0.8168890593472544
-model size: 0.09M
-
-Flat F1: 0.8128223676488701
-             precision    recall  f1-score   support
-
-         OD      0.652     0.405     0.500        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.917     1.000     0.957        22
-        Med      1.000     0.860     0.925        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.789     0.882        19
-        Air      0.793     0.742     0.767        62
-       Anti      0.900     1.000     0.947         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.933     0.783     0.851       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.887     0.691     0.777       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.885     0.758     0.813       480
-
-
-Top likely transitions:
-OD     -> OD      6.265824
-Agit   -> Agit    5.869478
-Temp   -> Temp    5.488519
-Med    -> Med     5.144823
-Air    -> Air     4.771777
-Supp   -> Supp    4.593228
-Anti   -> Anti    4.550151
-Gversion -> Gversion 4.348826
-Gtype  -> Gtype   4.225492
-Technique -> Technique 3.988233
-O      -> O       3.774876
-Phase  -> Phase   3.702756
-Gtype  -> Supp    1.903024
-pH     -> pH      1.848213
-O      -> Supp    1.594685
-O      -> Technique 0.980723
-Air    -> O       0.980311
-O      -> Gtype   0.683784
-Med    -> O       0.581107
-Substrain -> Gtype   0.524869
-Technique -> Air     0.483765
-OD     -> Phase   0.447540
-Supp   -> O       0.422763
-Temp   -> O       0.383324
-Gtype  -> pH      0.198547
-O      -> Anti    0.179783
-Gtype  -> Air     0.052812
-O      -> Agit    -0.004958
-Technique -> pH      -0.041609
-Anti   -> O       -0.097695
-Gtype  -> O       -0.117083
-Technique -> O       -0.151878
-Phase  -> OD      -0.322970
-O      -> Air     -0.457974
-OD     -> O       -0.476767
-Substrain -> O       -0.946090
-Med    -> Supp    -0.949223
-Agit   -> O       -1.116660
-
-
-Top unlikely transitions:
-OD     -> OD      6.265824
-Agit   -> Agit    5.869478
-Temp   -> Temp    5.488519
-Med    -> Med     5.144823
-Air    -> Air     4.771777
-Supp   -> Supp    4.593228
-Anti   -> Anti    4.550151
-Gversion -> Gversion 4.348826
-Gtype  -> Gtype   4.225492
-Technique -> Technique 3.988233
-O      -> O       3.774876
-Phase  -> Phase   3.702756
-Gtype  -> Supp    1.903024
-pH     -> pH      1.848213
-O      -> Supp    1.594685
-O      -> Technique 0.980723
-Air    -> O       0.980311
-O      -> Gtype   0.683784
-Med    -> O       0.581107
-Substrain -> Gtype   0.524869
-Technique -> Air     0.483765
-OD     -> Phase   0.447540
-Supp   -> O       0.422763
-Temp   -> O       0.383324
-Gtype  -> pH      0.198547
-O      -> Anti    0.179783
-Gtype  -> Air     0.052812
-O      -> Agit    -0.004958
-Technique -> pH      -0.041609
-Anti   -> O       -0.097695
-Gtype  -> O       -0.117083
-Technique -> O       -0.151878
-Phase  -> OD      -0.322970
-O      -> Air     -0.457974
-OD     -> O       -0.476767
-Substrain -> O       -0.946090
-Med    -> Supp    -0.949223
-Agit   -> O       -1.116660
-
-
-Top positive:
-6.357696 Air      b'word:Aerobic'
-5.077540 Air      b'lemma:anaerobic'
-4.552250 Anti     b'-2:lemma:antibody'
-4.360948 O        b'-2:lemma:_'
-4.109534 Supp     b'lemma:nh4cl'
-4.096460 Technique b'word:ChIP-Seq'
-3.897866 O        b'-2:lemma:flagtag'
-3.611278 Gtype    b'-2:lemma:genotype/variation'
-3.568906 O        b'postag:IN'
-3.460895 O        b'lemma:_'
-3.460895 O        b'word:_'
-3.428391 O        b'lemma:1'
-3.428391 O        b'word:1'
-3.423275 Technique b'lemma:rna-seq'
-3.314745 Med      b'word:LB'
-3.281392 Technique b'word:ChIP-exo'
-3.278176 O        b'-1:lemma:ChIP-exo'
-3.237196 O        b'lemma:rpob'
-3.237196 O        b'word:RpoB'
-3.225531 Supp     b'lemma:nitrate'
-3.225531 Supp     b'word:nitrate'
-3.161794 O        b'postag::'
-3.139068 Air      b'word:Anaerobic'
-3.139066 O        b'+2:lemma:\xc2\xb0c'
-3.077701 Gtype    b'lemma:type'
-3.077701 Gtype    b'word:type'
-3.075219 Technique b'word:ChIPSeq'
-2.840391 O        b'lemma:2'
-2.840391 O        b'word:2'
-2.815117 Gtype    b'-2:lemma:delta'
-2.722376 O        b'lemma:3'
-2.722376 O        b'word:3'
-2.706348 O        b'word:Cra'
-2.634028 O        b'+1:postag:RB'
-2.495581 Substrain b'lemma:mg1655'
-2.495581 Substrain b'word:MG1655'
-2.448736 Med      b'+2:lemma:with'
-2.443674 Gtype    b'-2:lemma:affyexp'
-2.381962 O        b'lemma:.'
-2.381962 O        b'postag:.'
-2.381962 O        b'word:.'
-2.367230 Strain   b'lemma:k-12'
-2.367230 Strain   b'word:K-12'
-2.361973 Gtype    b'lemma:wild-type'
-2.355120 Phase    b'lemma:mid-log'
-2.355120 Phase    b'word:mid-log'
-2.319375 Gtype    b'-2:lemma:genotype'
-2.302990 Supp     b'lemma:no3'
-2.302990 Supp     b'word:NO3'
-2.291837 Med      b'lemma:MOPS'
-2.291837 Med      b'word:MOPS'
-2.228985 Technique b'lemma:ChIP-exo'
-2.205076 Supp     b'-2:lemma:supplement'
-2.202918 Supp     b'+1:lemma:\xc2\xb5m'
-2.202918 Supp     b'+1:word:\xc2\xb5M'
-2.172606 Gtype    b'+1:lemma:type'
-2.172606 Gtype    b'+1:word:type'
-2.164705 Gtype    b'+2:lemma:glucose'
-2.129804 Gtype    b'-1:lemma:\xe2\x88\x86'
-2.129804 Gtype    b'-1:word:\xe2\x88\x86'
-2.103445 Anti     b'+2:lemma:antibody'
-2.089681 Air      b'postag:RB'
-2.074019 Technique b'+2:lemma:ph5'
-2.072624 O        b'+2:lemma:fructose'
-2.067658 OD       b'lemma:od600'
-2.067658 OD       b'word:OD600'
-2.038104 Supp     b'-2:lemma:shake'
-2.013357 Supp     b'lemma:Iron'
-2.013357 Supp     b'word:Iron'
-2.013357 Supp     b'+1:word:Deficient'
-2.013357 Supp     b'-2:lemma:Anaerobic'
-1.980749 O        b'+1:word:ChIP-Seq'
-1.962748 O        b'postag:CC'
-1.930693 Supp     b'lemma:pq'
-1.930693 Supp     b'word:PQ'
-1.924374 O        b'-1:word:Aerobic'
-1.923374 O        b'word:A'
-1.922702 O        b'lemma:b'
-1.922702 O        b'word:B'
-1.917919 Supp     b'-2:lemma:purr'
-1.903045 O        b'+1:postag:NNP'
-1.888802 O        b'+1:postag:VBP'
-1.886279 Gtype    b'lemma:wt'
-1.882619 Phase    b'-2:lemma:phase'
-1.877260 Phase    b'lemma:stationary'
-1.877260 Phase    b'word:stationary'
-1.875788 O        b'-2:lemma:~'
-1.867119 O        b'postag:DT'
-1.857025 Technique b'lemma:chipseq'
-1.833096 O        b'postag:VBN'
-1.829071 Gversion b'-2:lemma:nc'
-1.818881 Gtype    b'word:WT'
-1.787639 O        b'lemma:culture'
-1.786961 O        b'-1:lemma:tag'
-1.786604 Gtype    b'postag:-RRB-'
-1.737297 Supp     b'-1:word:Cra'
-1.734300 O        b'-2:lemma:mg/ml'
-1.722597 O        b'-2:lemma:medium'
-1.711409 Technique b'lemma:rnaseq'
-1.711409 Technique b'word:RNASeq'
-1.696030 O        b'lemma:chip'
-1.694223 O        b'lemma:-'
-1.694223 O        b'word:-'
-1.694171 Supp     b'-2:lemma:for'
-1.691174 O        b'lemma:Custom'
-1.691174 O        b'word:Custom'
-1.681320 O        b'word:Lrp'
-1.673790 Gtype    b'postag:JJ'
-1.647891 O        b'isLower'
-1.643397 Gtype    b'lemma:nsrr'
-1.643397 Gtype    b'word:NsrR'
-1.632308 Supp     b'lemma:arginine'
-1.604616 O        b'lemma:a'
-1.600294 Gtype    b'lemma:\xce\xb4cra'
-1.596463 Gtype    b'word:\xce\x94cra'
-1.580527 Med      b'+2:lemma:b2'
-1.575286 O        b'-1:lemma:lb'
-1.556401 Temp     b'-1:word:sample'
-1.544845 O        b'+2:lemma:polyclonal'
-1.543849 Med      b'isUpper'
-1.541896 Supp     b'+2:lemma:rifampicin'
-1.535125 Supp     b'lemma:glucose'
-1.535125 Supp     b'word:glucose'
-1.524619 pH       b'+1:postag:CD'
-1.521913 Supp     b'-1:postag:CC'
-1.517190 O        b'+2:lemma:chipseq'
-1.503740 Supp     b'-2:lemma:Lrp'
-1.457179 O        b'-2:lemma:co2'
-1.447917 O        b'-1:lemma:anaerobic'
-1.447594 Temp     b'-1:lemma:sample'
-1.439709 Gtype    b'lemma:\xe2\x88\x86'
-1.439709 Gtype    b'word:\xe2\x88\x86'
-1.437966 Temp     b'isNumber'
-1.431128 Supp     b'lemma:acetate'
-1.431128 Supp     b'word:acetate'
-1.427889 Supp     b'+1:lemma:2'
-1.427889 Supp     b'+1:word:2'
-1.392397 Gversion b'lemma:nc'
-1.392397 Gversion b'word:NC'
-1.390556 pH       b'lemma:ph5'
-1.390556 pH       b'+1:lemma:.5'
-1.390556 pH       b'word:pH5'
-1.390556 pH       b'+1:word:.5'
-1.384470 Supp     b'lemma:iptg'
-1.384470 Supp     b'word:IPTG'
-1.365812 O        b'-2:lemma:\xe2\x88\x86'
-1.364153 Air      b'+2:postag:NNP'
-1.333446 Gtype    b'+1:lemma:with'
-1.333446 Gtype    b'+1:word:with'
-1.324361 Gtype    b'-2:postag::'
-1.306165 O        b'+2:postag:JJ'
-1.289867 Gtype    b'-2:postag:DT'
-1.281577 Gversion b'lemma:chip-seq'
-1.270110 Gversion b'+2:lemma:000913'
-1.267124 Vess     b'lemma:flask'
-1.267124 Vess     b'-1:lemma:warm'
-1.267124 Vess     b'word:flask'
-1.267124 Vess     b'-1:word:warmed'
-1.267124 Vess     b'-2:lemma:pre'
-1.267124 Vess     b'+2:lemma:43'
-1.263332 O        b'+1:postag::'
-1.249814 O        b'isNumber'
-1.246752 Air      b'-2:postag:CD'
-1.242966 Supp     b'+1:lemma:1'
-1.242966 Supp     b'+1:word:1'
-1.216506 Supp     b'lemma:fructose'
-1.216506 Supp     b'word:fructose'
-1.209634 Med      b'lemma:media'
-1.209634 Med      b'word:media'
-1.202005 O        b'-1:lemma:media'
-1.202005 O        b'-1:word:media'
-1.199774 Med      b'+2:lemma:medium'
-1.187094 Gtype    b'-1:lemma:rpob'
-1.187094 Gtype    b'-1:word:RpoB'
-1.183792 Supp     b'lemma:dpd'
-1.183792 Supp     b'word:DPD'
-1.180639 Air      b'+2:lemma:37'
-1.176560 Anti     b'+1:lemma:antibody'
-1.176560 Anti     b'+1:word:antibody'
-1.169611 O        b'-1:word:tag'
-1.165769 Gtype    b'lemma:flag-tag'
-1.165769 Gtype    b'-1:lemma:c-terminal'
-1.165769 Gtype    b'word:Flag-tag'
-1.165769 Gtype    b'-1:word:C-terminal'
-1.164325 Agit     b'-2:postag:IN'
-1.148652 O        b'-2:lemma:mid-log'
-1.147844 Gtype    b'postag:NN'
-1.145961 Phase    b'isLower'
-1.133253 O        b'-2:lemma:ChIP-Seq'
-1.129704 Temp     b'-2:lemma:\xcf\x8332'
-1.125804 Med      b'+1:lemma:0.4'
-1.125804 Med      b'+1:word:0.4'
-1.122954 Temp     b'isUpper'
-1.117074 Temp     b'lemma:43'
-1.117074 Temp     b'word:43'
-1.113876 Med      b'+1:postag:JJ'
-1.094450 Air      b'-1:lemma:ChIP-Seq'
-1.094450 Air      b'-1:word:ChIP-Seq'
-1.088461 Air      b'-2:lemma:IP'
-1.083576 Supp     b'+1:lemma:_'
-
-
-Top negative:
--0.031330 O        b'-1:word:~'
--0.033235 Air      b'+2:lemma:and'
--0.033826 Air      b'-2:lemma:n2'
--0.033868 Temp     b'+1:lemma:to'
--0.033868 Temp     b'+1:postag:TO'
--0.033868 Temp     b'+1:word:to'
--0.034239 O        b'-2:lemma:-lrb-'
--0.034758 OD       b'+2:postag:CD'
--0.034948 O        b'+2:lemma:reference'
--0.046088 Air      b'-1:postag:RB'
--0.047770 Temp     b'+2:lemma:to'
--0.047770 Temp     b'+2:postag:TO'
--0.048579 O        b'-1:lemma:rpob'
--0.048579 O        b'-1:word:RpoB'
--0.051599 Supp     b'+1:lemma:-rrb-'
--0.051599 Supp     b'+1:word:-RRB-'
--0.055182 O        b'+2:lemma:anaerobically'
--0.055535 Air      b'-1:lemma:,'
--0.055535 Air      b'-1:postag:,'
--0.055535 Air      b'-1:word:,'
--0.056326 OD       b'+1:postag:CD'
--0.059220 O        b'+1:word:cells'
--0.061552 O        b'+1:word:ChIP-exo'
--0.064402 O        b'lemma:fecl2'
--0.064402 O        b'word:FeCl2'
--0.066340 Supp     b'+1:postag:-RRB-'
--0.068654 Air      b'-2:postag:CC'
--0.073218 Temp     b'isLower'
--0.075683 O        b'-2:lemma:%'
--0.080063 Supp     b'postag:CC'
--0.081265 O        b'-1:lemma:the'
--0.081974 Air      b'postag:CD'
--0.082604 O        b'-2:lemma:anaerobically'
--0.084445 Gtype    b'-2:postag:IN'
--0.085948 O        b'lemma:grow'
--0.086016 O        b'lemma:20'
--0.086016 O        b'word:20'
--0.087663 OD       b'+2:postag:-LRB-'
--0.088450 pH       b'postag:NN'
--0.089437 O        b'-1:word:the'
--0.090217 O        b'+1:lemma:mg1655'
--0.090217 O        b'+1:word:MG1655'
--0.090497 O        b'+1:lemma:300'
--0.090497 O        b'+1:word:300'
--0.091900 O        b'+1:lemma:fecl2'
--0.091900 O        b'+1:word:FeCl2'
--0.091900 O        b'-2:lemma:0.1'
--0.095208 Air      b'+2:postag:IN'
--0.097435 O        b'+1:postag:-RRB-'
--0.102615 Gtype    b'+2:lemma:,'
--0.102615 Gtype    b'+2:postag:,'
--0.104429 O        b'-1:lemma:iptg'
--0.104429 O        b'-1:word:IPTG'
--0.104998 O        b'+1:lemma:.'
--0.104998 O        b'+1:postag:.'
--0.104998 O        b'+1:word:.'
--0.107677 O        b'lemma:k-12'
--0.107677 O        b'word:K-12'
--0.113262 O        b'-2:lemma:cell'
--0.116418 Supp     b'-2:postag:IN'
--0.122812 O        b'+2:lemma:-rrb-'
--0.124242 Supp     b'-1:postag:NNP'
--0.126377 Anti     b'+1:lemma:anti-fur'
--0.126377 Anti     b'+1:word:anti-Fur'
--0.154570 O        b'-1:postag:-LRB-'
--0.156192 O        b'-2:postag:VBG'
--0.158047 O        b'-2:postag:-LRB-'
--0.163530 Phase    b'-2:postag:NN'
--0.165038 O        b'-1:postag:VBN'
--0.172203 O        b'-2:lemma:to'
--0.172203 O        b'-2:postag:TO'
--0.175281 O        b'+2:lemma:b'
--0.177331 O        b'-2:lemma::'
--0.178997 O        b'-1:lemma:37'
--0.178997 O        b'-1:word:37'
--0.180982 Supp     b'isUpper'
--0.196878 O        b'lemma:dissolve'
--0.196878 O        b'word:dissolved'
--0.196878 O        b'+2:lemma:methanol'
--0.207471 Gtype    b'-1:postag:NN'
--0.209158 Air      b'isLower'
--0.211564 O        b'+2:lemma:mg1655'
--0.216055 O        b'+1:lemma:phase'
--0.216055 O        b'+1:word:phase'
--0.218804 Anti     b'+2:lemma:polyclonal'
--0.225020 Temp     b'-2:postag:NN'
--0.226672 O        b'+1:lemma:g/l'
--0.226672 O        b'+1:word:g/L'
--0.236399 O        b'-2:lemma:minimal'
--0.242119 Technique b'isNumber'
--0.243045 Air      b'+1:postag:JJ'
--0.244256 Supp     b'-2:postag:NN'
--0.247335 O        b'lemma:2h'
--0.247335 O        b'-1:lemma:additional'
--0.247335 O        b'word:2h'
--0.247335 O        b'-1:word:additional'
--0.249741 Air      b'-1:postag:JJ'
--0.253398 O        b'+1:word:hours'
--0.261331 O        b'-2:lemma:50'
--0.267379 O        b'+1:lemma:supplement'
--0.267379 O        b'+1:word:supplemented'
--0.268909 O        b'word:WT'
--0.273891 O        b'+2:postag:RB'
--0.274312 O        b'lemma:anaerobically'
--0.274312 O        b'word:anaerobically'
--0.295438 Phase    b'isUpper'
--0.297401 O        b'+2:lemma:+'
--0.299315 O        b'-1:lemma:co2'
--0.299315 O        b'-1:word:CO2'
--0.310768 O        b'-1:lemma:IP'
--0.310768 O        b'-1:word:IP'
--0.319418 Anti     b'+2:postag:JJ'
--0.325955 Supp     b'+2:lemma:-rrb-'
--0.334787 Med      b'+1:postag:NN'
--0.341329 O        b'lemma:37'
--0.341329 O        b'word:37'
--0.342615 O        b'-1:lemma:dissolve'
--0.342615 O        b'+1:lemma:methanol'
--0.342615 O        b'-1:word:dissolved'
--0.342615 O        b'+1:word:methanol'
--0.346343 O        b'+1:postag:NNS'
--0.346399 Agit     b'isUpper'
--0.361710 O        b'lemma:methanol'
--0.361710 O        b'word:methanol'
--0.361710 O        b'-2:lemma:dissolve'
--0.365689 O        b'+2:postag:-RRB-'
--0.371703 O        b'lemma:media'
--0.371703 O        b'word:media'
--0.375913 Med      b'+1:postag:IN'
--0.375941 O        b'-2:lemma:supplement'
--0.389209 O        b'-1:lemma:nsrr'
--0.389209 O        b'-1:word:NsrR'
--0.391437 Phase    b'postag:JJ'
--0.407412 O        b'-2:lemma:IP'
--0.420031 Supp     b'+2:postag:NNS'
--0.428280 O        b'lemma:glucose'
--0.428280 O        b'word:glucose'
--0.431094 O        b'-2:postag:RB'
--0.438906 Supp     b'+2:postag:-RRB-'
--0.441532 O        b'lemma:wt'
--0.462990 OD       b'lemma:-lrb-'
--0.462990 OD       b'word:-LRB-'
--0.468593 O        b'-2:lemma:a'
--0.475940 O        b'+1:postag:VBG'
--0.483738 Gtype    b'isUpper'
--0.485302 OD       b'-2:postag:JJ'
--0.500326 O        b'+2:lemma:medium'
--0.515103 O        b'-2:postag:DT'
--0.547995 O        b'+1:lemma:in'
--0.547995 O        b'+1:word:in'
--0.556608 O        b'lemma:rifampicin'
--0.556608 O        b'word:rifampicin'
--0.582146 OD       b'isNumber'
--0.583100 O        b'-1:postag:IN'
--0.592764 O        b'lemma:phase'
--0.592764 O        b'word:phase'
--0.595239 O        b'lemma:mid-log'
--0.595239 O        b'word:mid-log'
--0.605400 O        b'lemma:of'
--0.605400 O        b'word:of'
--0.607669 O        b'-1:lemma:grow'
--0.614149 Temp     b'postag:NN'
--0.632028 Supp     b'+2:lemma:2'
--0.641055 Supp     b'-2:postag:JJ'
--0.646532 OD       b'+1:postag:NN'
--0.649552 O        b'-1:lemma:sample'
--0.673065 O        b'-2:lemma:rpob'
--0.685360 Supp     b'+2:postag:NN'
--0.718536 Gversion b'isLower'
--0.726489 O        b'+2:lemma:rifampicin'
--0.728168 Med      b'-2:postag:VBN'
--0.728191 O        b'-1:postag::'
--0.732227 O        b'-1:lemma:2'
--0.732227 O        b'-1:word:2'
--0.751907 Technique b'isLower'
--0.756257 O        b'+1:postag:IN'
--0.788494 O        b'postag:RB'
--0.793328 O        b'+1:lemma:at'
--0.793328 O        b'+1:word:at'
--0.803395 Med      b'-1:postag:NN'
--0.840583 O        b'-1:postag:VBG'
--0.849074 O        b'word:cells'
--0.860641 O        b'+2:lemma:mid-log'
--0.885639 Gtype    b'isLower'
--0.907497 OD       b'postag:-LRB-'
--0.937466 O        b'-2:lemma:rifampicin'
--0.975829 Gtype    b'isNumber'
--1.088007 O        b'-2:lemma:phase'
--1.095557 Air      b'postag:NN'
--1.113735 O        b'+1:lemma:2'
--1.113735 O        b'+1:word:2'
--1.264849 Anti     b'postag:NNP'
--1.412293 O        b'+1:lemma:1'
--1.412293 O        b'+1:word:1'
--1.493591 Supp     b'postag:JJ'
--1.991234 O        b'-1:lemma::'
--1.991234 O        b'-1:word::'
--2.151194 Supp     b'+2:postag:CD'
--2.386492 O        b'-1:lemma:_'
--2.386492 O        b'-1:word:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.18334620784152844, 'c2': 0.008065728975440238}
-best CV score:0.7992328667891142
-model size: 0.06M
-
-Flat F1: 0.7861345162985679
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.939     0.742     0.829        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.866     0.792     0.828       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.802     0.654     0.721       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.863     0.738     0.786       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.441317
-OD     -> OD      6.198142
-Temp   -> Temp    5.464759
-Anti   -> Anti    5.428002
-Med    -> Med     5.387458
-Air    -> Air     5.209961
-Phase  -> Phase   4.695053
-O      -> O       4.548631
-Gversion -> Gversion 4.547965
-Gtype  -> Gtype   4.475060
-Supp   -> Supp    4.114913
-Technique -> Technique 4.082736
-pH     -> pH      1.944903
-O      -> Supp    1.807640
-Air    -> O       1.622322
-Gtype  -> Supp    1.534817
-Substrain -> Gtype   1.344174
-O      -> Technique 1.336522
-O      -> Gtype   1.245629
-O      -> Anti    0.936139
-Technique -> Air     0.714948
-O      -> Temp    0.637848
-Med    -> O       0.459165
-O      -> Gversion 0.360936
-Temp   -> O       0.204109
-OD     -> Phase   0.159046
-O      -> Med     0.104640
-Supp   -> O       0.075713
-Phase  -> O       0.056846
-Gtype  -> pH      0.037916
-O      -> Strain  0.016408
-O      -> OD      -0.000411
-Technique -> O       -0.074489
-OD     -> Air     -0.121140
-Technique -> Gtype   -0.135273
-Gtype  -> Med     -0.165067
-Supp   -> Air     -0.232833
-Technique -> OD      -0.233483
-Gtype  -> O       -0.424837
-Gtype  -> Anti    -0.430777
-OD     -> O       -0.542516
-Supp   -> Med     -0.717785
-O      -> Air     -0.775058
-Agit   -> O       -0.784243
-Gtype  -> OD      -0.845217
-Substrain -> O       -1.160866
-Med    -> Supp    -1.461608
-Phase  -> OD      -1.657661
-
-
-Top unlikely transitions:
-Agit   -> Agit    6.441317
-OD     -> OD      6.198142
-Temp   -> Temp    5.464759
-Anti   -> Anti    5.428002
-Med    -> Med     5.387458
-Air    -> Air     5.209961
-Phase  -> Phase   4.695053
-O      -> O       4.548631
-Gversion -> Gversion 4.547965
-Gtype  -> Gtype   4.475060
-Supp   -> Supp    4.114913
-Technique -> Technique 4.082736
-pH     -> pH      1.944903
-O      -> Supp    1.807640
-Air    -> O       1.622322
-Gtype  -> Supp    1.534817
-Substrain -> Gtype   1.344174
-O      -> Technique 1.336522
-O      -> Gtype   1.245629
-O      -> Anti    0.936139
-Technique -> Air     0.714948
-O      -> Temp    0.637848
-Med    -> O       0.459165
-O      -> Gversion 0.360936
-Temp   -> O       0.204109
-OD     -> Phase   0.159046
-O      -> Med     0.104640
-Supp   -> O       0.075713
-Phase  -> O       0.056846
-Gtype  -> pH      0.037916
-O      -> Strain  0.016408
-O      -> OD      -0.000411
-Technique -> O       -0.074489
-OD     -> Air     -0.121140
-Technique -> Gtype   -0.135273
-Gtype  -> Med     -0.165067
-Supp   -> Air     -0.232833
-Technique -> OD      -0.233483
-Gtype  -> O       -0.424837
-Gtype  -> Anti    -0.430777
-OD     -> O       -0.542516
-Supp   -> Med     -0.717785
-O      -> Air     -0.775058
-Agit   -> O       -0.784243
-Gtype  -> OD      -0.845217
-Substrain -> O       -1.160866
-Med    -> Supp    -1.461608
-Phase  -> OD      -1.657661
-
-
-Top positive:
-8.540612 Supp     b'lemma:Iron'
-8.329515 O        b'lemma:_'
-7.954212 Air      b'lemma:anaerobic'
-7.558303 Air      b'lemma:aerobic'
-7.425659 Supp     b'lemma:nitrate'
-7.188063 O        b'lemma:1'
-7.151953 Technique b'lemma:ChIP-exo'
-6.868721 Phase    b'lemma:stationary'
-6.736734 Strain   b'lemma:k-12'
-6.164335 O        b'lemma:rpob'
-6.164166 Air      b'-1:lemma:ChIP-Seq'
-6.145220 Phase    b'lemma:mid-log'
-6.083537 O        b'lemma:2'
-6.046633 Technique b'lemma:chipseq'
-5.843991 Substrain b'lemma:mg1655'
-5.625605 Gversion b'lemma:asm584v2'
-5.595675 Supp     b'lemma:pq'
-5.579787 O        b'lemma:3'
-5.528331 Gtype    b'lemma:type'
-5.458452 O        b'-1:lemma:ChIP-exo'
-5.389356 Med      b'lemma:MOPS'
-5.261442 O        b'-1:lemma:tag'
-5.221290 Gtype    b'lemma:\xce\xb4cra'
-5.207575 O        b'lemma:\xcf\x8332'
-5.185393 OD       b'lemma:od600'
-5.129342 O        b'lemma:Custom'
-5.077322 O        b'lemma:rep1'
-5.062790 Air      b'lemma:Aerobic'
-5.039230 Gtype    b'lemma:flag-tag'
-5.039230 Gtype    b'-1:lemma:c-terminal'
-4.960492 O        b'lemma:b'
-4.944484 Med      b'lemma:LB'
-4.895657 O        b'lemma:rep2'
-4.895123 Gversion b'lemma:nc'
-4.892927 O        b'postag:IN'
-4.878845 Supp     b'+1:lemma:\xc2\xb5m'
-4.777473 Supp     b'lemma:nh4cl'
-4.733229 O        b'lemma:rep3'
-4.700693 Technique b'lemma:ChIP-Seq'
-4.522919 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.506447 O        b'lemma:a'
-4.486239 Gtype    b'lemma:delta-arca'
-4.484173 Gtype    b'+1:lemma:type'
-4.469270 Temp     b'-1:lemma:sample'
-4.466501 Gtype    b'lemma:arca8myc'
-4.444728 O        b'lemma:Cra'
-4.370578 Supp     b'lemma:glucose'
-4.315203 Technique b'lemma:rna-seq'
-4.281493 O        b'postag::'
-4.229592 Gtype    b'lemma:wt'
-4.150659 Supp     b'lemma:Fe'
-4.147004 OD       b'lemma:od450'
-4.134772 O        b'-1:lemma:Aerobic'
-4.128050 Gtype    b'lemma:fnr8myc'
-4.061029 Med      b'lemma:lb'
-3.983457 Gversion b'-1:lemma:nc'
-3.979082 Anti     b'lemma:none'
-3.866545 Gtype    b'lemma:delta-fnr'
-3.851958 Supp     b'lemma:acetate'
-3.765754 Supp     b'lemma:dpd'
-3.751043 Gtype    b'lemma:\xe2\x88\x86'
-3.745952 Technique b'lemma:chip-seq'
-3.717926 Supp     b'lemma:no3'
-3.687851 Supp     b'lemma:arginine'
-3.686242 Anti     b'lemma:seqa'
-3.685360 O        b'lemma:.'
-3.685360 O        b'postag:.'
-3.654301 O        b'+1:lemma:od600'
-3.652925 Technique b'lemma:rnaseq'
-3.626342 Gtype    b'lemma:\xce\xb4fur'
-3.609455 Gtype    b'lemma:nsrr'
-3.595076 O        b'-1:lemma:0.3-0.35'
-3.582662 O        b'lemma:-'
-3.473034 Supp     b'lemma:rifampicin'
-3.422494 Gtype    b'lemma:wild-type'
-3.383395 Supp     b'lemma:fructose'
-3.373092 O        b'+1:postag:RB'
-3.370884 Vess     b'lemma:flask'
-3.370884 Vess     b'-1:lemma:warm'
-3.350883 Med      b'+1:lemma:0.4'
-3.305547 O        b'-1:lemma:type'
-3.282833 Anti     b'+1:lemma:antibody'
-3.274554 O        b'lemma:CEL'
-3.202139 Gtype    b'lemma:\xce\xb4ompr'
-3.201589 pH       b'lemma:ph5'
-3.201589 pH       b'+1:lemma:.5'
-3.179454 OD       b'+1:lemma:stationary'
-3.176547 Strain   b'+1:lemma:substr'
-3.170822 O        b'-1:lemma:glucose'
-3.142788 Technique b'+1:lemma:chip-exo'
-3.131035 Med      b'lemma:m63'
-3.104780 Gversion b'lemma:chip-seq'
-3.102061 O        b'lemma:chip'
-3.089303 Med      b'+1:lemma:minimal'
-3.068476 O        b'-1:lemma:0.3'
-3.053453 O        b'-1:lemma:anaerobic'
-2.941730 Gtype    b'+1:lemma:with'
-2.941090 Temp     b'-1:lemma:\xcf\x8332'
-2.924228 O        b'lemma:or'
-2.920487 Gversion b'lemma:u00096'
-2.920487 Gversion b'+1:lemma:.2'
-2.919801 Anti     b'lemma:anti-myc'
-2.909988 Gtype    b'+1:lemma:pq'
-2.906926 O        b'postag:VBN'
-2.903384 Air      b'lemma:anaerobically'
-2.892016 Technique b'-1:lemma:IP'
-2.855009 Temp     b'-1:lemma:37'
-2.841195 Gtype    b'-1:lemma:ptac'
-2.840168 Gtype    b'+1:lemma:ph5'
-2.824282 O        b'lemma:with'
-2.811989 Supp     b'-1:lemma:Cra'
-2.803863 Supp     b'+1:lemma:1'
-2.775638 Gtype    b'-1:lemma:rpob'
-2.742550 Gversion b'lemma:.2'
-2.742550 Gversion b'-1:lemma:u00096'
-2.725585 Supp     b'lemma:nacl'
-2.718890 O        b'postag:CC'
-2.663906 Med      b'lemma:media'
-2.648781 Supp     b'+1:lemma:2'
-2.634231 O        b'+1:postag:NNP'
-2.619387 Anti     b'lemma:anti-rpos'
-2.617733 Med      b'-1:lemma:ml'
-2.607952 O        b'lemma:s'
-2.604146 Med      b'+1:lemma:2.0'
-2.596931 Supp     b'lemma:iptg'
-2.582684 O        b'lemma:oxyr'
-2.582365 Supp     b'-1:lemma:+'
-2.553826 Technique b'-1:lemma:chip-exo'
-2.553515 Temp     b'-1:lemma:43'
-2.539094 Gtype    b'lemma:pk4854'
-2.536990 Gversion b'lemma:000913'
-2.536605 O        b'postag:DT'
-2.518305 O        b'+1:lemma:chip-seq'
-2.477235 Supp     b'-1:lemma:\xc2\xb5m'
-2.471748 Gtype    b'+1:lemma:flagtag'
-2.466305 O        b'+1:lemma:pq'
-2.452553 Supp     b'+1:lemma:_'
-2.440883 O        b'-1:lemma:lb'
-2.436674 Gtype    b'lemma:\xce\xb4soxs'
-2.430228 pH       b'lemma:.5'
-2.430228 pH       b'-1:lemma:ph5'
-2.426250 O        b'-1:lemma:l1'
-2.384757 Temp     b'lemma:43'
-2.377779 O        b'lemma:for'
-2.359688 Temp     b'lemma:\xc2\xb0c'
-2.350893 O        b'postag:VBG'
-2.345463 Supp     b'lemma:Leu'
-2.342569 Gtype    b'lemma:ptac'
-2.329995 Med      b'lemma:L'
-2.329995 Med      b'+1:lemma:broth'
-2.326782 Air      b'postag:RB'
-2.308974 O        b'lemma:Lrp'
-2.261997 O        b'-1:lemma:stpa'
-2.261829 O        b'lemma:affyexp'
-2.235812 OD       b'-1:lemma:~'
-2.218246 Med      b'lemma:glucose'
-2.195328 Gtype    b'lemma:deltaseqa'
-2.195328 Gtype    b'-1:lemma:old'
-2.183473 Air      b'-1:lemma:-'
-2.179368 O        b'+1:lemma:sparging'
-2.167113 O        b'lemma:ompr'
-2.162481 Gtype    b'-1:lemma:nsrr'
-2.144923 O        b'lemma:chip-arca'
-2.136602 Phase    b'+1:lemma:for'
-2.135598 Supp     b'+1:lemma:hour'
-2.135317 Med      b'+1:lemma:supplement'
-2.126541 Gtype    b'+1:lemma:_'
-2.123397 O        b'-1:lemma:media'
-2.105149 O        b'+1:lemma:o.d.'
-2.089279 Phase    b'-1:lemma:until'
-2.080166 Supp     b'lemma:20'
-2.074063 O        b'lemma:Fur'
-2.064834 Technique b'-1:lemma:input'
-2.043986 Gtype    b'-1:lemma:phtpg'
-2.037910 Supp     b'+1:lemma:Deficient'
-2.037801 Supp     b'-1:lemma:with'
-2.030413 Med      b'+1:lemma:g/l'
-2.023253 O        b'-1:lemma:\xc2\xb0c'
-2.015889 O        b'lemma:culture'
-2.012914 Supp     b'lemma:Adenine'
-1.961151 O        b'lemma:condition'
-1.959484 OD       b'lemma:0.3'
-1.954444 O        b'lemma:at'
-1.926198 Gtype    b'lemma:WT'
-1.917991 Med      b'+1:lemma:+'
-1.914469 Technique b'+1:lemma:rna-seq'
-1.908781 O        b'+1:lemma:mid-log'
-1.905871 Supp     b'+1:lemma:and'
-1.900742 Med      b'-1:lemma:glucose'
-1.887953 O        b'lemma:soxs'
-1.887953 O        b'lemma:soxr'
-1.887594 OD       b'+1:lemma:phase'
-1.885281 O        b'lemma:purr'
-1.881926 O        b'lemma:argr'
-1.870206 Supp     b'lemma:methanol'
-1.855988 Air      b'lemma:Anaerobic'
-1.848701 Temp     b'lemma:37'
-1.821308 OD       b'-1:lemma:about'
-1.790114 Vess     b'-1:postag:VBN'
-1.778495 Substrain b'+1:lemma:phtpg'
-
-
-Top negative:
-0.008475 O        b'+1:lemma:source'
-0.008182 Supp     b'-1:postag:VBN'
-0.007577 OD       b'lemma:0.3-0.35'
-0.006822 O        b'-1:lemma:escherichia'
-0.006285 Gtype    b'+1:lemma:ryhb'
-0.006132 O        b'lemma:250'
-0.006049 Gtype    b'lemma:-rcb-'
-0.005285 Supp     b'-1:postag:NN'
-0.004330 Air      b'-1:postag:RB'
-0.003915 O        b'-1:lemma:total'
-0.003749 O        b'+1:lemma:total'
-0.003385 OD       b'-1:lemma:coli'
-0.003150 Med      b'+1:lemma:,'
-0.003150 Med      b'+1:postag:,'
-0.002999 Supp     b'-1:lemma:1g/l'
-0.002933 Air      b'-1:lemma:,'
-0.002933 Air      b'-1:postag:,'
-0.002755 Gtype    b'+1:postag:CD'
-0.002753 O        b'lemma:fructose'
-0.002509 O        b'lemma:fresh'
-0.002233 O        b'-1:lemma:no3'
-0.001827 O        b'-1:lemma:95'
-0.001712 Gtype    b'+1:lemma:chip'
-0.001566 Phase    b'+1:postag:RB'
-0.001444 O        b'-1:lemma:l2'
-0.001388 O        b'-1:postag:DT'
-0.001213 Phase    b'-1:postag:IN'
-0.001197 Phase    b'+1:lemma:aerobically'
-0.000889 O        b'lemma:contain'
-0.000863 Gversion b'-1:postag::'
-0.000854 Temp     b'-1:postag:NN'
-0.000693 O        b'lemma:total'
-0.000497 Gtype    b'lemma:input'
-0.000476 O        b'+1:lemma:wash'
-0.000274 Agit     b'+1:postag:NN'
-0.000249 Temp     b'-1:postag:NNS'
-0.000240 O        b'lemma:minute'
-0.000192 O        b'lemma:w0002'
-0.000188 Supp     b'+1:postag:JJ'
-0.000170 O        b'lemma:95'
-0.000154 O        b'-1:postag:VBD'
-0.000117 Gtype    b'postag::'
-0.000115 O        b'+1:lemma:for'
-0.000056 O        b'-1:lemma:Fur'
-0.000047 Air      b'+1:postag::'
-0.000047 O        b'-1:lemma:in'
-0.000045 O        b'lemma:hour'
-0.000020 O        b'-1:lemma:be'
-0.000020 Supp     b'+1:lemma:respiratory'
-0.000003 O        b'+1:lemma:ChIP-Seq'
-0.000000 Phase    b'-1:lemma:to'
-0.000000 Phase    b'-1:postag:TO'
--0.000012 O        b'+1:lemma:phase'
--0.000031 O        b'lemma:\xc2\xb0c'
--0.000095 O        b'+1:lemma:c'
--0.000192 OD       b'-1:lemma:a'
--0.000224 OD       b'+1:lemma:0.4'
--0.000561 OD       b'-1:postag:DT'
--0.000675 O        b'lemma:anaerobic'
--0.001077 Gtype    b'+1:lemma:2'
--0.001543 Supp     b'lemma:and'
--0.001755 Air      b'-1:lemma:aerobically'
--0.002433 O        b'+1:lemma:aerobically'
--0.002622 OD       b'+1:postag:-LRB-'
--0.003351 O        b'lemma:o2'
--0.003461 Supp     b'lemma:mm'
--0.003669 Med      b'+1:postag:IN'
--0.003709 OD       b'postag:IN'
--0.003711 O        b'-1:lemma:mm'
--0.004712 O        b'-1:postag:-RRB-'
--0.005352 Supp     b'+1:lemma:-rrb-'
--0.005698 Supp     b'+1:postag:-RRB-'
--0.006752 O        b'+1:lemma:grow'
--0.010187 Air      b'-1:lemma:and'
--0.010327 Med      b'postag:JJ'
--0.011310 O        b'-1:postag:VBN'
--0.014869 Gtype    b'-1:postag:NNP'
--0.017264 O        b'+1:lemma:rep1'
--0.019988 O        b'-1:lemma:1'
--0.020468 Air      b'postag:CC'
--0.024010 O        b'-1:lemma:,'
--0.024010 O        b'-1:postag:,'
--0.032490 Air      b'+1:postag:-LRB-'
--0.038677 Air      b'+1:lemma:-lrb-'
--0.042409 Gtype    b'-1:postag:NN'
--0.045287 O        b'+1:lemma:0.4'
--0.048558 OD       b'postag:JJ'
--0.052074 O        b'-1:lemma:e.'
--0.054143 O        b'+1:lemma:or'
--0.055074 O        b'+1:lemma:\xc2\xb0c'
--0.057686 Gtype    b'-1:postag:CD'
--0.059261 O        b'lemma:grow'
--0.064670 Air      b'-1:postag:CC'
--0.085677 Phase    b'-1:postag:NN'
--0.088185 O        b'+1:lemma:300'
--0.091727 O        b'-1:lemma:o2'
--0.094970 O        b'lemma:n2'
--0.095466 O        b'-1:lemma:0.1'
--0.100732 O        b'-1:lemma:30'
--0.104433 O        b'+1:lemma:arginine'
--0.107064 O        b'+1:lemma:5'
--0.119788 Med      b'postag:CD'
--0.121641 O        b'+1:lemma:until'
--0.126774 OD       b'+1:postag:CD'
--0.129423 Anti     b'+1:postag:JJ'
--0.131961 Supp     b'+1:postag:VBN'
--0.134047 Supp     b'postag:CC'
--0.137677 Gtype    b'postag:CD'
--0.149809 O        b'-1:lemma:from'
--0.150140 Temp     b'postag:JJ'
--0.157105 O        b'-1:lemma:-lrb-'
--0.163836 O        b'+1:lemma:.'
--0.163836 O        b'+1:postag:.'
--0.176704 O        b'lemma:co2'
--0.183646 O        b'-1:lemma:cra'
--0.186855 Med      b'+1:postag:NN'
--0.194451 O        b'+1:lemma:-rrb-'
--0.195654 O        b'lemma:\xce\xb4fur'
--0.204517 O        b'+1:postag:IN'
--0.207835 O        b'-1:lemma:the'
--0.220665 O        b'-1:lemma:of'
--0.229001 Phase    b'+1:postag:NN'
--0.237611 pH       b'postag:NN'
--0.240067 O        b'-1:postag:IN'
--0.271765 Phase    b'-1:lemma:at'
--0.272351 O        b'+1:postag:NNS'
--0.288235 O        b'-1:lemma:sample'
--0.292134 O        b'lemma:lb'
--0.307663 O        b'postag:RB'
--0.309475 O        b'-1:lemma:ml'
--0.310188 Air      b'-1:lemma:or'
--0.311946 O        b'+1:lemma:%'
--0.326171 O        b'-1:postag:-LRB-'
--0.346740 O        b'lemma:dissolve'
--0.377272 Med      b'-1:postag:NN'
--0.382593 Temp     b'postag:NN'
--0.388931 O        b'lemma:od600'
--0.389222 Air      b'postag:CD'
--0.434666 O        b'-1:lemma:0.2'
--0.436034 Gversion b'+1:postag:NN'
--0.444684 O        b'-1:lemma:~'
--0.447800 Phase    b'-1:postag:JJ'
--0.479171 O        b'-1:lemma:od600'
--0.501180 O        b'+1:lemma:0.3'
--0.508699 O        b'lemma:20'
--0.510331 O        b'lemma:phase'
--0.515267 Supp     b'+1:lemma:rifampicin'
--0.563739 O        b'-1:lemma:grow'
--0.564966 OD       b'+1:postag:NN'
--0.590510 O        b'lemma:anaerobically'
--0.599810 O        b'-1:lemma:rpob'
--0.601743 O        b'-1:lemma:37'
--0.610426 O        b'+1:postag:-RRB-'
--0.616300 O        b'lemma:0.3'
--0.638052 O        b'-1:postag::'
--0.643137 Phase    b'postag:JJ'
--0.663649 Air      b'-1:postag:JJ'
--0.669047 O        b'+1:lemma:fecl2'
--0.674359 Technique b'-1:postag::'
--0.688223 O        b'lemma:37'
--0.710522 Temp     b'+1:lemma:to'
--0.710522 Temp     b'+1:postag:TO'
--0.719253 O        b'+1:postag:VBG'
--0.763315 OD       b'lemma:-lrb-'
--0.811771 O        b'+1:lemma:cell'
--0.814345 Supp     b'+1:lemma:acetate'
--0.815613 O        b'lemma:of'
--0.847971 Supp     b'-1:lemma:%'
--0.882271 O        b'-1:lemma:co2'
--0.885833 O        b'lemma:fecl2'
--0.926916 O        b'lemma:0.2'
--0.956430 O        b'+1:lemma:g/l'
--0.983784 O        b'-1:postag:VBG'
--0.983894 O        b'lemma:0.1'
--1.010718 O        b'+1:lemma:hour'
--1.016547 OD       b'postag:-LRB-'
--1.050740 O        b'lemma:mid-log'
--1.054828 O        b'-1:lemma:dissolve'
--1.054828 O        b'+1:lemma:methanol'
--1.099862 O        b'lemma:2h'
--1.099862 O        b'-1:lemma:additional'
--1.167797 O        b'+1:lemma:+'
--1.232705 Anti     b'postag:NNP'
--1.359414 Air      b'+1:postag:JJ'
--1.434137 O        b'-1:lemma:IP'
--1.480595 O        b'-1:lemma:ompr'
--1.489420 O        b'+1:lemma:in'
--1.499340 O        b'+1:lemma:at'
--1.520824 O        b'lemma:wt'
--1.526038 O        b'+1:lemma:supplement'
--1.551927 Air      b'postag:NN'
--1.631005 O        b'-1:lemma:nsrr'
--1.648045 O        b'lemma:methanol'
--1.709156 O        b'lemma:rifampicin'
--1.751173 Supp     b'postag:JJ'
--2.001540 O        b'-1:lemma:2'
--2.347334 O        b'+1:lemma:2'
--2.780459 O        b'+1:lemma:1'
--3.924496 O        b'-1:lemma:_'
--4.403653 O        b'-1:lemma::'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.04677173929140849, 'c2': 0.02379834069563392}
-best CV score:0.7990064924027899
-model size: 0.09M
-
-Flat F1: 0.7946783128458758
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.863     0.774     0.816       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.865     0.662     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.877     0.746     0.795       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.134641
-OD     -> OD      5.677741
-Anti   -> Anti    5.362057
-Temp   -> Temp    5.263270
-Med    -> Med     5.132754
-O      -> O       4.728785
-Air    -> Air     4.725974
-Gversion -> Gversion 4.440261
-Phase  -> Phase   4.387821
-Gtype  -> Gtype   4.174708
-Supp   -> Supp    3.913450
-Technique -> Technique 3.154023
-pH     -> pH      2.449543
-O      -> Supp    1.770580
-Gtype  -> Supp    1.668161
-Substrain -> Gtype   1.640169
-Air    -> O       1.249366
-O      -> Gtype   1.164153
-O      -> Technique 1.104849
-O      -> Temp    0.933808
-Technique -> Air     0.909479
-Gtype  -> pH      0.842607
-O      -> Anti    0.645228
-Gtype  -> Air     0.522992
-O      -> Strain  0.463558
-Med    -> O       0.403658
-O      -> Gversion 0.351834
-Phase  -> O       0.234348
-O      -> pH      0.165655
-O      -> Phase   0.095939
-Temp   -> O       0.048543
-O      -> Vess    0.041922
-O      -> Med     0.035257
-OD     -> Phase   0.028957
-Anti   -> O       0.009316
-OD     -> Anti    -0.000732
-Phase  -> Air     -0.015739
-Technique -> Gversion -0.018772
-Phase  -> Med     -0.022546
-Phase  -> Gtype   -0.022549
-Supp   -> Vess    -0.030895
-Anti   -> Med     -0.033179
-pH     -> Supp    -0.040764
-Supp   -> O       -0.040968
-OD     -> Temp    -0.042912
-O      -> OD      -0.068011
-Gversion -> Gtype   -0.074143
-Med    -> Gtype   -0.079772
-OD     -> Technique -0.093206
-Gversion -> Technique -0.100359
-
-
-Top unlikely transitions:
-OD     -> Technique -0.093206
-Gversion -> Technique -0.100359
-Gversion -> O       -0.108780
-Gtype  -> Temp    -0.110250
-Gtype  -> Phase   -0.170695
-Gversion -> Supp    -0.170820
-Anti   -> Supp    -0.187552
-Gtype  -> O       -0.225882
-Air    -> Temp    -0.230459
-Technique -> O       -0.233549
-Anti   -> Gtype   -0.271657
-Supp   -> pH      -0.276160
-Supp   -> Phase   -0.284897
-Air    -> Gtype   -0.305208
-Gversion -> Air     -0.325062
-Med    -> Air     -0.325731
-Technique -> Supp    -0.334858
-Air    -> Phase   -0.349173
-OD     -> Supp    -0.354028
-Gtype  -> Technique -0.374277
-Supp   -> Temp    -0.396374
-Phase  -> Technique -0.429552
-Supp   -> Anti    -0.516081
-Air    -> Med     -0.526139
-Anti   -> OD      -0.539948
-Supp   -> Gversion -0.628938
-Temp   -> Med     -0.632351
-OD     -> Med     -0.653167
-Air    -> Supp    -0.653757
-Gtype  -> Gversion -0.690790
-Supp   -> Gtype   -0.708051
-OD     -> Gtype   -0.713878
-Gtype  -> Med     -0.724292
-Supp   -> OD      -0.756035
-OD     -> Air     -0.790987
-Supp   -> Technique -0.797069
-Air    -> OD      -0.800777
-OD     -> O       -0.818966
-Supp   -> Air     -0.835352
-Agit   -> O       -0.856989
-Gtype  -> Anti    -0.935186
-O      -> Air     -0.982462
-Technique -> OD      -1.202863
-Technique -> pH      -1.218760
-Gtype  -> OD      -1.289303
-Substrain -> O       -1.293089
-Supp   -> Med     -1.346101
-Technique -> Gtype   -1.361871
-Med    -> Supp    -1.701189
-Phase  -> OD      -2.114354
-
-
-Top positive:
-7.534104 O        b'lemma:_'
-6.628671 O        b'lemma:1'
-6.331443 Phase    b'lemma:stationary'
-6.147039 Supp     b'lemma:Iron'
-5.873757 Strain   b'lemma:k-12'
-5.867898 Air      b'lemma:anaerobic'
-5.663960 O        b'lemma:2'
-5.524127 Technique b'lemma:ChIP-exo'
-5.510347 O        b'lemma:rpob'
-5.509700 Air      b'lemma:aerobic'
-5.383908 Technique b'lemma:chipseq'
-5.138707 Supp     b'lemma:pq'
-5.111571 O        b'lemma:3'
-4.862319 Air      b'-1:lemma:ChIP-Seq'
-4.820668 Phase    b'lemma:mid-log'
-4.756582 Supp     b'lemma:nitrate'
-4.733587 O        b'lemma:rep1'
-4.695668 Supp     b'lemma:nh4cl'
-4.657172 Gtype    b'lemma:\xce\xb4cra'
-4.653346 Gversion b'lemma:asm584v2'
-4.604440 O        b'-1:lemma:tag'
-4.598239 Gtype    b'lemma:flag-tag'
-4.598239 Gtype    b'-1:lemma:c-terminal'
-4.560223 Supp     b'lemma:glucose'
-4.518418 O        b'lemma:rep2'
-4.442957 Substrain b'lemma:mg1655'
-4.384855 O        b'postag:IN'
-4.373803 Gtype    b'lemma:arca8myc'
-4.288264 O        b'lemma:rep3'
-4.280619 Gtype    b'lemma:wt'
-4.244271 Supp     b'+1:lemma:\xc2\xb5m'
-4.243033 O        b'lemma:Cra'
-4.226369 Med      b'lemma:MOPS'
-4.201990 Air      b'lemma:Aerobic'
-4.134023 Med      b'lemma:LB'
-4.091845 Med      b'lemma:lb'
-4.032302 Supp     b'lemma:acetate'
-3.973554 O        b'lemma:b'
-3.942411 OD       b'lemma:od600'
-3.928969 Gtype    b'lemma:delta-arca'
-3.863545 Supp     b'lemma:no3'
-3.858283 O        b'lemma:\xcf\x8332'
-3.832869 O        b'lemma:a'
-3.823681 Gtype    b'lemma:fnr8myc'
-3.816982 Technique b'lemma:rna-seq'
-3.782384 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.739595 Anti     b'lemma:none'
-3.727287 Supp     b'lemma:Fe'
-3.715581 O        b'+1:postag:RB'
-3.678487 Supp     b'lemma:dpd'
-3.659984 O        b'lemma:.'
-3.659984 O        b'postag:.'
-3.648715 O        b'-1:lemma:ChIP-exo'
-3.614582 Technique b'lemma:chip-seq'
-3.583103 Gtype    b'lemma:\xe2\x88\x86'
-3.579453 O        b'lemma:Custom'
-3.579229 Supp     b'lemma:rifampicin'
-3.576123 O        b'-1:lemma:Aerobic'
-3.569749 Anti     b'lemma:seqa'
-3.487112 O        b'lemma:-'
-3.459968 Gtype    b'lemma:type'
-3.455121 Supp     b'lemma:fructose'
-3.452777 O        b'postag::'
-3.447911 Technique b'lemma:rnaseq'
-3.441629 O        b'lemma:CEL'
-3.393478 Gtype    b'+1:lemma:type'
-3.377102 OD       b'lemma:od450'
-3.366350 Supp     b'-1:lemma:Cra'
-3.356047 Gversion b'lemma:chip-seq'
-3.319052 O        b'+1:lemma:od600'
-3.292164 Gtype    b'lemma:delta-fnr'
-3.267801 Gtype    b'+1:lemma:with'
-3.173282 Gversion b'lemma:nc'
-3.159588 Supp     b'lemma:arginine'
-3.157495 Supp     b'+1:lemma:Deficient'
-3.142138 Supp     b'+1:lemma:1'
-3.110124 Med      b'+1:lemma:0.4'
-3.070894 pH       b'lemma:ph5'
-3.070894 pH       b'+1:lemma:.5'
-3.055480 O        b'postag:VBN'
-3.042474 O        b'-1:lemma:glucose'
-3.026214 Gtype    b'lemma:wild-type'
-3.023824 O        b'-1:lemma:0.3-0.35'
-3.014842 Vess     b'lemma:flask'
-3.014842 Vess     b'-1:lemma:warm'
-3.008710 Gtype    b'lemma:\xce\xb4fur'
-3.002326 Air      b'postag:RB'
-2.997223 O        b'-1:lemma:anaerobic'
-2.995282 Strain   b'+1:lemma:substr'
-2.984104 Technique b'lemma:ChIP-Seq'
-2.963817 O        b'-1:lemma:lb'
-2.963222 O        b'lemma:affyexp'
-2.932438 O        b'lemma:with'
-2.930598 O        b'lemma:chip-arca'
-2.927299 O        b'lemma:or'
-2.924379 Med      b'lemma:m63'
-2.907457 Anti     b'lemma:anti-myc'
-2.863249 O        b'lemma:oxyr'
-2.862524 O        b'lemma:s'
-2.860715 Gtype    b'lemma:nsrr'
-2.848040 Med      b'+1:lemma:minimal'
-2.835399 Gversion b'lemma:u00096'
-2.835399 Gversion b'+1:lemma:.2'
-2.784084 Gversion b'lemma:.2'
-2.784084 Gversion b'-1:lemma:u00096'
-2.759399 O        b'lemma:argr'
-2.748921 Supp     b'+1:lemma:2'
-2.745607 Gtype    b'lemma:\xce\xb4soxs'
-2.734894 Gtype    b'lemma:WT'
-2.724494 Supp     b'+1:lemma:_'
-2.724148 Gtype    b'-1:lemma:ptac'
-2.708775 O        b'lemma:ompr'
-2.704416 O        b'-1:lemma:type'
-2.702036 Temp     b'lemma:\xc2\xb0c'
-2.697776 Air      b'lemma:anaerobically'
-2.689994 O        b'-1:lemma:stpa'
-2.680820 O        b'+1:lemma:anti-fur'
-2.655921 Air      b'lemma:Anaerobic'
-2.655797 Supp     b'-1:lemma:+'
-2.622529 Technique b'-1:lemma:IP'
-2.621136 Med      b'+1:lemma:2.0'
-2.617145 Gversion b'lemma:000913'
-2.616146 Gtype    b'lemma:\xce\xb4ompr'
-2.590492 Gversion b'+1:lemma:000913'
-2.585180 Temp     b'-1:lemma:43'
-2.573573 O        b'lemma:purr'
-2.573022 Supp     b'lemma:nacl'
-2.569061 Gtype    b'+1:lemma:flagtag'
-2.519791 O        b'+1:lemma:pq'
-2.506876 Anti     b'+1:lemma:antibody'
-2.476869 O        b'lemma:for'
-2.476779 OD       b'+1:lemma:stationary'
-2.468830 Gversion b'-1:lemma:nc'
-2.462372 Supp     b'lemma:Leu'
-2.457208 O        b'lemma:Lrp'
-2.436354 Anti     b'lemma:anti-rpos'
-2.425547 Gtype    b'lemma:ptac'
-2.423670 O        b'lemma:Fur'
-2.407480 Technique b'-1:lemma:chip-exo'
-2.398179 Gtype    b'lemma:pk4854'
-2.385757 O        b'+1:lemma:o.d.'
-2.379658 Technique b'-1:lemma:input'
-2.376821 O        b'+1:lemma:chip-seq'
-2.371298 O        b'lemma:chip'
-2.356254 Gtype    b'+1:lemma:pq'
-2.346453 Substrain b'+1:lemma:phtpg'
-2.325961 Supp     b'lemma:Adenine'
-2.324750 Gtype    b'lemma:deltaseqa'
-2.324750 Gtype    b'-1:lemma:old'
-2.319652 O        b'-1:lemma:dpd'
-2.309116 Temp     b'lemma:43'
-2.274038 Phase    b'lemma:phase'
-2.271043 O        b'lemma:2-3'
-2.257073 O        b'lemma:soxs'
-2.257073 O        b'lemma:soxr'
-2.244724 Gtype    b'-1:lemma:rpob'
-2.229381 Technique b'+1:lemma:chip-exo'
-2.222498 Temp     b'-1:lemma:\xcf\x8332'
-2.216473 Phase    b'-1:lemma:mid-log'
-2.208114 Air      b'-1:lemma:-'
-2.198129 O        b'postag:SYM'
-2.197977 Temp     b'-1:lemma:sample'
-2.197671 pH       b'lemma:.5'
-2.197671 pH       b'-1:lemma:ph5'
-2.191655 O        b'lemma:pt7'
-2.179497 Temp     b'-1:lemma:37'
-2.163485 O        b'lemma:at'
-2.159035 O        b'-1:lemma:l1'
-2.157894 Med      b'lemma:L'
-2.157894 Med      b'+1:lemma:broth'
-2.155748 Gtype    b'+1:lemma:ph5'
-2.154483 Supp     b'+1:lemma:hour'
-2.149987 Med      b'postag:NNP'
-2.130185 Gtype    b'lemma:\xce\xb4oxyr'
-2.128728 Technique b'postag:NNP'
-2.120879 Gtype    b'+1:lemma:aerobic'
-2.119345 O        b'+1:lemma:43'
-2.118846 Temp     b'+1:lemma:\xc2\xb0c'
-2.117976 O        b'postag:DT'
-2.112237 Gtype    b'lemma:\xce\xb4soxr'
-2.103111 O        b'lemma:chip-fnr'
-2.095565 Gtype    b'-1:lemma:_'
-2.095139 Air      b'lemma:anerobically'
-2.088059 pH       b'+1:postag:CD'
-2.082289 Vess     b'-1:postag:VBN'
-2.082182 Air      b'+1:lemma:at'
-2.072000 Supp     b'-1:lemma:\xc2\xb5m'
-2.063372 O        b'lemma:culture'
-2.052919 Supp     b'+1:postag:CC'
-2.051661 Gtype    b'+1:lemma:_'
-2.042397 Supp     b'lemma:iptg'
-2.038377 OD       b'-1:lemma:~'
-2.032972 Air      b'-1:postag::'
-2.032763 Med      b'lemma:broth'
-2.032763 Med      b'-1:lemma:L'
-2.015625 O        b'lemma:genotype/variation'
-2.011175 Phase    b'+1:lemma:for'
-2.009864 Med      b'lemma:glucose'
-2.006608 Med      b'+1:lemma:+'
-2.006544 O        b'postag:CC'
-
-
-Top negative:
--0.030705 O        b'-1:lemma:chip-exo'
--0.033076 OD       b'lemma:~'
--0.042809 Gtype    b'lemma:control'
--0.044545 O        b'-1:postag:DT'
--0.050305 O        b'-1:lemma:rna'
--0.052149 Supp     b'-1:postag:NN'
--0.059299 O        b'lemma:paraquat'
--0.061867 Med      b'-1:postag:NN'
--0.063794 O        b'-1:lemma:mm'
--0.064411 OD       b'+1:lemma:and'
--0.065739 Supp     b'-1:postag:JJ'
--0.067296 Med      b'-1:postag:CD'
--0.068394 Air      b'-1:postag:CC'
--0.071978 O        b'+1:lemma:-rrb-'
--0.072542 Phase    b'-1:lemma:at'
--0.072594 O        b'+1:lemma:5'
--0.073614 Phase    b'+1:postag:NN'
--0.074214 O        b'+1:lemma:-lcb-'
--0.078588 O        b'+1:lemma:delta'
--0.080091 O        b'-1:lemma:the'
--0.084524 O        b'-1:lemma:of'
--0.084670 O        b'-1:lemma:fresh'
--0.092681 Gtype    b'+1:lemma:cra'
--0.094545 Air      b'-1:lemma:or'
--0.098369 O        b'lemma:o2'
--0.102102 Air      b'postag:CD'
--0.103275 OD       b'postag:JJ'
--0.104224 O        b'-1:lemma:with'
--0.110720 Supp     b'lemma:and'
--0.116486 O        b'lemma:mg/ml'
--0.116486 O        b'-1:lemma:150'
--0.117260 Technique b'-1:lemma::'
--0.123127 Med      b'postag:-LRB-'
--0.125962 O        b'-1:lemma:affinity'
--0.126151 Med      b'lemma:-lrb-'
--0.132649 Supp     b'-1:lemma:and'
--0.137087 OD       b'+1:lemma:0.4'
--0.138413 O        b'-1:lemma:delta'
--0.138623 O        b'+1:lemma:mg1655'
--0.144390 O        b'lemma:medium'
--0.147406 O        b'lemma:e.'
--0.149940 O        b'-1:postag:VBN'
--0.171711 O        b'-1:postag:IN'
--0.171840 O        b'+1:lemma:mm'
--0.172335 O        b'-1:lemma:iptg'
--0.172927 O        b'lemma:pahse'
--0.174410 O        b'-1:lemma:e.'
--0.180259 O        b'+1:lemma:0.4'
--0.184212 Gtype    b'-1:postag:DT'
--0.192140 O        b'lemma:aerobically'
--0.195145 O        b'-1:lemma:20'
--0.196338 O        b'-1:lemma:-lrb-'
--0.202283 O        b'+1:lemma:shake'
--0.203197 O        b'lemma:co2'
--0.203279 O        b'+1:lemma:antibody'
--0.217474 Gversion b'+1:postag:NN'
--0.221749 O        b'-1:lemma:o2'
--0.225204 Supp     b'+1:postag:IN'
--0.227101 O        b'lemma:n2'
--0.229126 O        b'+1:lemma:.'
--0.229126 O        b'+1:postag:.'
--0.229774 Gtype    b'postag:CD'
--0.229916 O        b'+1:lemma:minimal'
--0.234531 Gtype    b'-1:postag:CD'
--0.235270 Supp     b'-1:postag:NNP'
--0.241460 O        b'-1:lemma:n2'
--0.246278 Supp     b'-1:postag:VBG'
--0.247884 O        b'-1:lemma:mid-log'
--0.249629 O        b'lemma:grow'
--0.256652 Anti     b'+1:postag:JJ'
--0.258827 O        b'-1:postag:-LRB-'
--0.259766 OD       b'+1:lemma:mid-log'
--0.260676 O        b'lemma:30'
--0.262198 O        b'lemma:lb'
--0.264023 Med      b'+1:postag:NN'
--0.264423 O        b'postag:RB'
--0.274539 O        b'+1:lemma:b'
--0.274643 O        b'+1:lemma:rep1'
--0.276742 O        b'-1:lemma:um'
--0.276742 O        b'+1:lemma:paraquat'
--0.279342 Med      b'+1:postag:NNS'
--0.286088 O        b'+1:lemma:phase'
--0.286355 O        b'lemma:nacl'
--0.288644 Med      b'postag:CD'
--0.291831 Temp     b'postag:JJ'
--0.292363 O        b'+1:lemma:or'
--0.292909 O        b'+1:lemma:_'
--0.309719 O        b'-1:lemma:minimal'
--0.310879 O        b'lemma:minimal'
--0.316065 O        b'-1:lemma:0.1'
--0.317315 O        b'lemma:glucose'
--0.331509 O        b'lemma:\xc2\xb0c'
--0.335559 O        b'-1:lemma:from'
--0.337031 Gtype    b'lemma:_'
--0.367204 O        b'-1:lemma:od600'
--0.376428 O        b'+1:lemma:Aerobic'
--0.392320 Supp     b'postag:CC'
--0.394063 Med      b'-1:postag:IN'
--0.397299 O        b'-1:lemma:g/l'
--0.400353 O        b'+1:postag:IN'
--0.411740 O        b'+1:postag:-RRB-'
--0.414297 Supp     b'+1:lemma:glucose'
--0.417115 O        b'-1:lemma:grow'
--0.434939 O        b'+1:lemma:cell'
--0.455419 Technique b'-1:postag::'
--0.464919 O        b'+1:lemma:dissolve'
--0.465860 O        b'+1:lemma:%'
--0.466338 O        b'+1:lemma:until'
--0.481860 O        b'-1:lemma:rifampicin'
--0.483707 pH       b'postag:NN'
--0.485247 Gtype    b'-1:postag:SYM'
--0.501917 Gtype    b'lemma:delta'
--0.503189 O        b'lemma:mg1655'
--0.508938 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.518932 OD       b'+1:postag:NN'
--0.534335 O        b'-1:lemma:until'
--0.547846 Supp     b'+1:postag:VBN'
--0.575194 O        b'-1:lemma:cra'
--0.583475 OD       b'lemma:-lrb-'
--0.585808 Supp     b'+1:lemma:rifampicin'
--0.587062 Med      b'+1:postag:IN'
--0.591031 O        b'lemma:phase'
--0.604967 O        b'-1:lemma:\xe2\x88\x86'
--0.607989 O        b'lemma:m63'
--0.609363 O        b'+1:lemma:300'
--0.622369 Temp     b'-1:lemma:\xc2\xb0c'
--0.627260 Temp     b'postag:NN'
--0.639822 O        b'lemma:od600'
--0.640212 O        b'lemma:150'
--0.640212 O        b'+1:lemma:mg/ml'
--0.652984 OD       b'postag:-LRB-'
--0.673873 Temp     b'+1:lemma:to'
--0.673873 Temp     b'+1:postag:TO'
--0.674063 O        b'+1:lemma:c'
--0.677850 O        b'lemma:purify'
--0.683914 O        b'lemma:of'
--0.689091 O        b'+1:postag:NNS'
--0.698464 O        b'-1:lemma:1'
--0.705692 O        b'-1:lemma:30'
--0.714318 O        b'lemma:dissolve'
--0.716763 O        b'lemma:dpd'
--0.740206 O        b'+1:lemma:\xc2\xb0c'
--0.752744 O        b'+1:lemma:arginine'
--0.788403 Phase    b'-1:postag:JJ'
--0.834026 O        b'-1:lemma:~'
--0.843212 O        b'lemma:k-12'
--0.849778 O        b'-1:lemma:co2'
--0.851042 O        b'+1:lemma:0.3'
--0.909147 O        b'lemma:media'
--0.910481 Air      b'-1:postag:JJ'
--0.915586 O        b'lemma:20'
--0.923944 O        b'lemma:\xe2\x88\x86'
--0.924668 O        b'lemma:anaerobically'
--0.929792 O        b'+1:lemma:fecl2'
--0.940939 Anti     b'+1:lemma:anti-fur'
--0.942359 Supp     b'-1:lemma:%'
--0.975994 O        b'+1:lemma:supplement'
--0.981045 O        b'lemma:mid-log'
--0.985760 O        b'-1:lemma:dissolve'
--0.985760 O        b'+1:lemma:methanol'
--0.991880 O        b'lemma:anaerobic'
--1.004133 O        b'-1:lemma:0.2'
--1.047975 O        b'-1:postag:VBG'
--1.056100 O        b'lemma:\xce\xb4fur'
--1.058032 O        b'lemma:2h'
--1.058032 O        b'-1:lemma:additional'
--1.065496 O        b'lemma:0.3'
--1.108652 O        b'lemma:0.1'
--1.114961 O        b'+1:postag:VBG'
--1.137551 Supp     b'+1:lemma:acetate'
--1.154485 O        b'lemma:0.2'
--1.248669 O        b'+1:lemma:at'
--1.249902 O        b'lemma:fecl2'
--1.259624 O        b'-1:lemma:rpob'
--1.282405 O        b'+1:lemma:in'
--1.300959 O        b'postag:VBP'
--1.307774 O        b'-1:postag::'
--1.330717 Air      b'+1:postag:JJ'
--1.343057 O        b'+1:lemma:g/l'
--1.370626 O        b'lemma:37'
--1.394308 O        b'-1:lemma:sample'
--1.451537 O        b'-1:lemma:ompr'
--1.539969 Supp     b'postag:JJ'
--1.574060 Air      b'postag:NN'
--1.626564 O        b'lemma:rifampicin'
--1.646551 Phase    b'postag:JJ'
--1.690746 O        b'-1:lemma:ml'
--1.723948 Anti     b'postag:NNP'
--1.752448 O        b'-1:lemma:37'
--1.808172 O        b'-1:lemma:nsrr'
--1.877830 O        b'-1:lemma:IP'
--1.901078 O        b'lemma:wt'
--1.911145 O        b'+1:lemma:+'
--2.060304 O        b'-1:lemma:2'
--2.238911 O        b'lemma:methanol'
--2.346827 O        b'+1:lemma:2'
--2.515820 O        b'+1:lemma:hour'
--2.737658 O        b'+1:lemma:1'
--3.430701 O        b'-1:lemma:_'
--3.751199 O        b'-1:lemma::'
-

+********** TRAINING AND TESTING REPORT **********
+Training file: training-data-set-70.txt
+
+best params:{'c1': 0.04223966754804299, 'c2': 0.014836666503726496}
+best CV score:0.879077327666518
+model size: 0.17M
+
+Flat F1: 0.7889011067174645
+             precision    recall  f1-score   support
+
+         OD      1.000     0.818     0.900        22
+         pH      1.000     1.000     1.000         8
+  Technique      1.000     0.913     0.955        23
+        Med      1.000     0.962     0.981        53
+       Temp      0.923     0.828     0.873        29
+       Vess      1.000     1.000     1.000         1
+       Agit      0.000     0.000     0.000         0
+      Phase      0.882     1.000     0.938        15
+        Air      0.556     0.362     0.439        69
+       Anti      1.000     1.000     1.000        11
+     Strain      0.000     0.000     0.000         1
+      Gtype      0.864     0.824     0.843        85
+  Substrain      0.000     0.000     0.000         0
+       Supp      0.716     0.791     0.752       134
+   Gversion      0.000     0.000     0.000         0
+
+avg / total      0.811     0.776     0.789       451
+
+
+Top likely transitions:
+Temp   -> Temp    6.132401
+Agit   -> Agit    5.867978
+Med    -> Med     5.493382
+Anti   -> Anti    4.899201
+Gversion -> Gversion 4.720775
+OD     -> OD      4.580439
+Gtype  -> Gtype   4.270714
+Supp   -> Supp    4.146870
+O      -> O       4.001305
+Phase  -> Phase   3.777096
+Air    -> Air     3.280795
+Technique -> Technique 3.042386
+pH     -> pH      2.638890
+Substrain -> Gtype   0.639428
+O      -> Technique 0.597359
+O      -> Gtype   0.301586
+Med    -> O       0.113620
+Gtype  -> Air     0.032970
+Air    -> O       0.023112
+Temp   -> O       0.007528
+O      -> Temp    0.000729
+Agit   -> O       -0.000016
+Supp   -> Technique -0.000031
+O      -> Strain  -0.002771
+Phase  -> Air     -0.018013
+Technique -> OD      -0.019361
+Supp   -> OD      -0.031281
+pH     -> Supp    -0.038004
+Air    -> Gtype   -0.060170
+OD     -> Supp    -0.078565
+Anti   -> Gtype   -0.100971
+Gtype  -> Phase   -0.118162
+Gtype  -> Anti    -0.120765
+Air    -> Agit    -0.147345
+Air    -> Temp    -0.149520
+Anti   -> Air     -0.164013
+Gversion -> Supp    -0.166044
+Anti   -> O       -0.170392
+Gtype  -> OD      -0.173948
+Anti   -> Supp    -0.206647
+Air    -> Technique -0.220913
+Technique -> Gtype   -0.276956
+Supp   -> Phase   -0.297344
+Air    -> Phase   -0.306210
+O      -> Supp    -0.348583
+O      -> Med     -0.368131
+Phase  -> OD      -0.382985
+O      -> Phase   -0.399249
+OD     -> Air     -0.479222
+Phase  -> Supp    -0.503166
+
+
+Top unlikely transitions:
+Agit   -> O       -0.000016
+Supp   -> Technique -0.000031
+O      -> Strain  -0.002771
+Phase  -> Air     -0.018013
+Technique -> OD      -0.019361
+Supp   -> OD      -0.031281
+pH     -> Supp    -0.038004
+Air    -> Gtype   -0.060170
+OD     -> Supp    -0.078565
+Anti   -> Gtype   -0.100971
+Gtype  -> Phase   -0.118162
+Gtype  -> Anti    -0.120765
+Air    -> Agit    -0.147345
+Air    -> Temp    -0.149520
+Anti   -> Air     -0.164013
+Gversion -> Supp    -0.166044
+Anti   -> O       -0.170392
+Gtype  -> OD      -0.173948
+Anti   -> Supp    -0.206647
+Air    -> Technique -0.220913
+Technique -> Gtype   -0.276956
+Supp   -> Phase   -0.297344
+Air    -> Phase   -0.306210
+O      -> Supp    -0.348583
+O      -> Med     -0.368131
+Phase  -> OD      -0.382985
+O      -> Phase   -0.399249
+OD     -> Air     -0.479222
+Phase  -> Supp    -0.503166
+Supp   -> Air     -0.513142
+Phase  -> O       -0.522452
+Air    -> Med     -0.532689
+Gtype  -> Med     -0.539650
+Technique -> Supp    -0.572989
+Gtype  -> Technique -0.595348
+Temp   -> Med     -0.595579
+Supp   -> Gtype   -0.613937
+Agit   -> Air     -0.625302
+OD     -> O       -0.641071
+Gversion -> O       -0.641193
+Technique -> pH      -0.782400
+Supp   -> O       -0.786822
+Supp   -> Med     -0.932343
+Air    -> Supp    -0.964410
+Technique -> O       -1.106191
+O      -> OD      -1.374945
+Gtype  -> O       -1.475612
+Substrain -> O       -1.620808
+Med    -> Supp    -1.753990
+O      -> Air     -1.843623
+
+
+Top positive:
+5.458764 Anti     b'-2:lemma:antibody'
+4.034933 O        b'-2:lemma:_'
+3.995360 Technique b'lemma[:2]:Ch'
+3.737588 O        b'lemma[:2]:re'
+3.686472 Gtype    b'lemma[:1]:\xce\xb4'
+3.552793 Phase    b'-2:lemma:phase'
+3.469041 Air      b'word:Aerobic'
+3.439462 O        b'lemma:2'
+3.439462 O        b'word:2'
+3.243564 Air      b'lemma:anaerobic'
+3.182295 Supp     b'-1:word:Cra'
+3.047566 Gtype    b'-2:lemma:genotype/variation'
+3.006963 O        b'-2:lemma:medium'
+2.984615 O        b'lemma:1'
+2.984615 O        b'word:1'
+2.738121 O        b'lemma:-'
+2.738121 O        b'word:-'
+2.718196 O        b'+1:postag:RB'
+2.700586 O        b'word:Cra'
+2.653876 Supp     b'+2:lemma:iptg'
+2.620648 O        b'lemma:with'
+2.620648 O        b'word:with'
+2.599865 O        b'lemma:_'
+2.599865 O        b'lemma[:1]:_'
+2.599865 O        b'word:_'
+2.575314 Med      b'+2:postag:CC'
+2.571913 Supp     b'lemma:arginine'
+2.568347 O        b'word:A'
+2.546240 Gtype    b'lemma[:2]:pk'
+2.527855 O        b'lemma:3'
+2.527855 O        b'word:3'
+2.379121 O        b'-1:lemma:ChIP-exo'
+2.355972 O        b'lemma[:2]:ge'
+2.355054 Technique b'lemma[:2]:rn'
+2.341062 Supp     b'lemma:pq'
+2.341062 Supp     b'lemma[:2]:pq'
+2.341062 Supp     b'word:PQ'
+2.297430 O        b'+2:lemma:cra'
+2.280338 O        b'+2:lemma:\xc2\xb0c'
+2.251142 O        b'+2:lemma:70'
+2.245883 Gtype    b'word:WT'
+2.241264 Air      b'word:Anaerobic'
+2.237739 Supp     b'+2:lemma:for'
+2.234179 Anti     b'+2:lemma:antibody'
+2.153589 O        b'-1:lemma:tag'
+2.117142 O        b'lemma[:1]:h'
+2.088934 Air      b'lemma[:2]:ae'
+2.076795 Technique b'word:ChIPSeq'
+2.068935 Gtype    b'hGreek'
+2.047132 O        b'-2:lemma:mid-log'
+2.041924 O        b'lemma:.'
+2.041924 O        b'postag:.'
+2.041924 O        b'postag[:1]:.'
+2.041924 O        b'word:.'
+2.032495 Gtype    b'-1:lemma:\xe2\x88\x86'
+2.032495 Gtype    b'-1:word:\xe2\x88\x86'
+2.016938 Gtype    b'lemma[:1]:w'
+2.000225 O        b'+2:lemma:fructose'
+1.992930 Supp     b'-1:lemma:with'
+1.992930 Supp     b'-1:word:with'
+1.991763 Gtype    b'-2:lemma:delta'
+1.990954 Substrain b'lemma[:2]:mg'
+1.983708 Phase    b'+2:lemma:o.d.'
+1.977886 Supp     b'-1:lemma:Cra'
+1.960916 Phase    b'lemma:mid-log'
+1.960916 Phase    b'word:mid-log'
+1.958437 Phase    b'lemma[:2]:ex'
+1.945077 Supp     b'-1:postag:CC'
+1.944452 Substrain b'lemma[:1]:m'
+1.940793 Gtype    b'lemma:type'
+1.940793 Gtype    b'lemma[:2]:ty'
+1.940793 Gtype    b'word:type'
+1.931978 Technique b'lemma:chipseq'
+1.906924 O        b'+1:postag:NNP'
+1.904357 O        b'lemma:b'
+1.904357 O        b'word:B'
+1.900770 O        b'-1:word:tag'
+1.894287 Technique b'lemma:ChIP-exo'
+1.866276 Technique b'lemma[:1]:C'
+1.856571 O        b'-1:word:Aerobic'
+1.849985 Supp     b'lemma:Iron'
+1.849985 Supp     b'lemma[:2]:Ir'
+1.849985 Supp     b'word:Iron'
+1.849985 Supp     b'+1:word:Deficient'
+1.849985 Supp     b'-2:lemma:Anaerobic'
+1.843831 Supp     b'lemma:acetate'
+1.843831 Supp     b'word:acetate'
+1.843349 Air      b'lemma[:1]:A'
+1.840981 Supp     b'-2:lemma:media'
+1.831812 Technique b'lemma[:2]:ch'
+1.820538 Gtype    b'-2:postag:DT'
+1.819950 Supp     b'-1:lemma:+'
+1.819950 Supp     b'-1:word:+'
+1.813584 Air      b'lemma[:1]:a'
+1.788160 Gversion b'word:ChIP-Seq'
+1.786490 Gtype    b'-2:lemma:genotype'
+1.771090 Gtype    b'+1:lemma:type'
+1.771090 Gtype    b'+1:word:type'
+1.765859 Gtype    b'-2:lemma:affyexp'
+1.729836 Gversion b'lemma:chip-seq'
+1.715972 Air      b'lemma[:2]:an'
+1.702637 O        b'-2:lemma:myc'
+1.701777 O        b'-2:lemma:flagtag'
+1.685559 Supp     b'-2:lemma:agent'
+1.676248 Supp     b'lemma[:1]:n'
+1.665235 Technique b'symb'
+1.650041 Technique b'-1:lemma:chip-exo'
+1.645472 O        b'-1:lemma:anaerobic'
+1.628175 Gtype    b'lemma[:2]:ar'
+1.620209 Supp     b'postag:VBP'
+1.612275 O        b'isLower'
+1.611690 O        b'+1:lemma:pq'
+1.611690 O        b'+1:word:PQ'
+1.609561 Supp     b'lemma[:1]:I'
+1.608561 O        b'-1:lemma:media'
+1.608561 O        b'-1:word:media'
+1.597175 Med      b'isUpper'
+1.593363 Gtype    b'lemma:wt'
+1.593363 Gtype    b'lemma[:2]:wt'
+1.593216 Med      b'+2:lemma:b2'
+1.592123 Supp     b'-2:lemma:induce'
+1.590184 Air      b'lemma:Aerobic'
+1.590184 Air      b'lemma[:2]:Ae'
+1.571628 Phase    b'lemma:stationary'
+1.571628 Phase    b'word:stationary'
+1.555960 Gtype    b'lemma[:1]:f'
+1.552005 Med      b'lemma:MOPS'
+1.552005 Med      b'lemma[:1]:M'
+1.552005 Med      b'lemma[:2]:MO'
+1.552005 Med      b'word:MOPS'
+1.545220 Technique b'word:ChIP-Seq'
+1.544051 Supp     b'lemma[:2]:gl'
+1.540691 O        b'-1:lemma:0.3'
+1.540691 O        b'-1:word:0.3'
+1.540357 Supp     b'-2:lemma:argr'
+1.535458 Gtype    b'symb'
+1.531560 O        b'-2:lemma:fructose'
+1.530754 O        b'-1:lemma:lb'
+1.530754 O        b'-1:word:LB'
+1.528067 Supp     b'-1:lemma:final'
+1.528067 Supp     b'-1:word:final'
+1.513494 Phase    b'-2:lemma:until'
+1.493341 Supp     b'lemma:fructose'
+1.493341 Supp     b'word:fructose'
+1.491583 Technique b'-1:lemma:input'
+1.491583 Technique b'-1:word:Input'
+1.487376 Supp     b'lemma[:2]:ac'
+1.472895 pH       b'+1:postag:CD'
+1.458550 O        b'-1:lemma:glucose'
+1.458550 O        b'-1:word:glucose'
+1.450710 Gtype    b'-1:postag:VBG'
+1.450118 Air      b'-1:postag::'
+1.449701 Supp     b'+1:lemma:\xc2\xb5m'
+1.449701 Supp     b'+1:word:\xc2\xb5M'
+1.430882 O        b'+1:lemma:mid-log'
+1.430882 O        b'+1:word:mid-log'
+1.420013 Strain   b'+1:lemma:substr'
+1.420013 Strain   b'+1:word:substr'
+1.420013 Strain   b'-2:lemma:str'
+1.408799 O        b'lemma:Custom'
+1.408799 O        b'lemma[:2]:Cu'
+1.408799 O        b'word:Custom'
+1.401545 O        b'lemma:chip'
+1.400074 O        b'lemma[:1]:C'
+1.398389 Gtype    b'lemma[:2]:wi'
+1.394023 O        b'lemma:rpob'
+1.394023 O        b'word:RpoB'
+1.389762 Supp     b'-2:lemma:supplement'
+1.388021 Supp     b'lemma[:2]:ni'
+1.387197 Phase    b'lemma[:1]:e'
+1.380149 Air      b'postag:RB'
+1.380149 Air      b'postag[:1]:R'
+1.380149 Air      b'postag[:2]:RB'
+1.378405 O        b'lemma:a'
+1.377531 O        b'+1:word:ChIP-Seq'
+1.375054 Technique b'+2:lemma:ph5'
+1.371660 Anti     b'+1:lemma:antibody'
+1.371660 Anti     b'+1:word:antibody'
+1.355865 O        b'postag:VBN'
+1.352947 OD       b'lemma:0.3'
+1.352947 OD       b'word:0.3'
+1.351689 Phase    b'+1:lemma:phase'
+1.351689 Phase    b'+1:word:phase'
+1.350446 pH       b'lemma[:2]:ph'
+1.341756 O        b'isNumber'
+1.330917 Supp     b'+1:lemma:1'
+1.330917 Supp     b'+1:word:1'
+1.327538 Gversion b'-2:lemma:build'
+1.323732 O        b'lemma:ompr'
+1.323732 O        b'word:OmpR'
+1.322881 Air      b'+1:postag:IN'
+1.322130 Temp     b'-1:lemma:43'
+1.322130 Temp     b'-1:word:43'
+1.298940 O        b'-1:lemma:aerobically'
+1.298940 O        b'-1:word:aerobically'
+1.297300 OD       b'lemma[:1]:o'
+1.295797 Med      b'+1:lemma:0.4'
+1.295797 Med      b'+1:word:0.4'
+1.282176 O        b'+2:postag:JJ'
+1.271164 O        b'+2:lemma:polyclonal'
+
+
+Top negative:
+-0.367697 Supp     b'-1:postag:-LRB-'
+-0.371915 O        b'-2:lemma:fresh'
+-0.376710 O        b'+2:lemma:fnr'
+-0.377206 O        b'lemma:2h'
+-0.377206 O        b'-1:lemma:additional'
+-0.377206 O        b'lemma[:2]:2h'
+-0.377206 O        b'word:2h'
+-0.377206 O        b'-1:word:additional'
+-0.379729 O        b'-2:postag:-LRB-'
+-0.380849 Air      b'-1:postag:JJ'
+-0.381928 Strain   b'isLower'
+-0.382657 Med      b'-1:postag:IN'
+-0.383403 O        b'-2:lemma:at'
+-0.384281 Technique b'postag:NN'
+-0.389220 O        b'-1:lemma:until'
+-0.389220 O        b'-1:word:until'
+-0.393047 O        b'lemma[:1]:4'
+-0.393058 O        b'+2:lemma:follow'
+-0.393999 O        b'-1:lemma:control'
+-0.393999 O        b'-1:word:control'
+-0.395395 O        b'lemma[:2]:0.'
+-0.396201 O        b'-2:lemma:minimal'
+-0.397167 O        b'lemma:37'
+-0.397167 O        b'lemma[:2]:37'
+-0.397167 O        b'word:37'
+-0.397928 Gtype    b'lemma[:1]:g'
+-0.404533 O        b'lemma:glucose'
+-0.404533 O        b'word:glucose'
+-0.408273 O        b'lemma:30'
+-0.408273 O        b'word:30'
+-0.409885 O        b'-2:lemma:supplement'
+-0.411648 O        b'+1:lemma:mm'
+-0.411648 O        b'+1:word:mM'
+-0.412683 O        b'+2:lemma:at'
+-0.413401 O        b'-2:lemma:of'
+-0.419317 O        b'-2:postag:RB'
+-0.420417 Temp     b'isLower'
+-0.424626 O        b'+1:lemma:phase'
+-0.424626 O        b'+1:word:phase'
+-0.426973 Supp     b'lemma[:1]:s'
+-0.427251 O        b'lemma:wt'
+-0.427251 O        b'lemma[:2]:wt'
+-0.434566 O        b'+2:lemma:mid-log'
+-0.434970 O        b'lemma[:1]:0'
+-0.440663 O        b'-1:lemma:37'
+-0.440663 O        b'-1:word:37'
+-0.441568 Temp     b'-2:postag:NN'
+-0.443930 O        b'lemma[:1]:\xce\xb4'
+-0.458877 O        b'-1:lemma:mm'
+-0.458877 O        b'-1:word:mM'
+-0.463660 Supp     b'+1:postag:NNS'
+-0.463834 O        b'lemma:media'
+-0.463834 O        b'word:media'
+-0.464229 O        b'-2:lemma:a'
+-0.482105 O        b'-1:lemma:\xe2\x88\x86'
+-0.482105 O        b'-1:word:\xe2\x88\x86'
+-0.485832 O        b'+1:word:ChIP-exo'
+-0.487845 Supp     b'hGreek'
+-0.488218 O        b'-2:lemma:nh4cl'
+-0.497873 Supp     b'+2:postag:NNP'
+-0.503699 O        b'-2:lemma:genome'
+-0.505194 O        b'+2:lemma:b'
+-0.506273 O        b'-1:lemma:IP'
+-0.506273 O        b'-1:word:IP'
+-0.506359 O        b'-1:lemma:nsrr'
+-0.506359 O        b'-1:word:NsrR'
+-0.506668 O        b'lemma[:1]:L'
+-0.507329 O        b'+1:postag:VBG'
+-0.511337 O        b'+1:lemma:2.0'
+-0.511337 O        b'+1:word:2.0'
+-0.514855 Gtype    b'lemma[:1]:h'
+-0.521122 Med      b'-1:postag:NN'
+-0.525468 O        b'+1:lemma:until'
+-0.525468 O        b'+1:word:until'
+-0.529295 Med      b'postag[:1]:C'
+-0.531677 O        b'+1:lemma:+'
+-0.531677 O        b'+1:word:+'
+-0.535215 O        b'lemma[:2]:ar'
+-0.537907 O        b'lemma[:2]:gl'
+-0.550679 Air      b'isLower'
+-0.551345 O        b'-1:lemma:ml'
+-0.551345 O        b'-1:word:ml'
+-0.555528 Supp     b'+1:lemma:,'
+-0.555528 Supp     b'+1:postag:,'
+-0.555528 Supp     b'+1:word:,'
+-0.562680 Gtype    b'lemma[:1]:s'
+-0.564487 O        b'lemma[:1]:p'
+-0.574109 Agit     b'symb'
+-0.582388 O        b'-2:postag:DT'
+-0.587178 O        b'-2:lemma:rpob'
+-0.589072 O        b'+2:lemma:.'
+-0.589072 O        b'+2:postag:.'
+-0.595658 O        b'+1:lemma:g/l'
+-0.595658 O        b'+1:word:g/L'
+-0.596954 O        b'-2:postag:SYM'
+-0.599195 O        b'-1:lemma:rpob'
+-0.599195 O        b'-1:word:RpoB'
+-0.604186 O        b'+2:lemma:250'
+-0.608815 Supp     b'+1:lemma:-lrb-'
+-0.608815 Supp     b'+1:word:-LRB-'
+-0.609845 Anti     b'isUpper'
+-0.610591 Technique b'isNumber'
+-0.617650 O        b'-1:lemma:co2'
+-0.617650 O        b'-1:word:CO2'
+-0.622948 Supp     b'+1:postag:-LRB-'
+-0.641001 Agit     b'hUpper'
+-0.641001 Agit     b'hLower'
+-0.645491 O        b'+1:postag:IN'
+-0.647159 Gtype    b'postag[:1]:V'
+-0.647159 Gtype    b'postag[:2]:VB'
+-0.659968 O        b'lemma[:2]:ri'
+-0.661117 Anti     b'+2:postag:JJ'
+-0.661585 O        b'-1:lemma:1'
+-0.661585 O        b'-1:word:1'
+-0.666026 O        b'lemma:mid-log'
+-0.666026 O        b'word:mid-log'
+-0.667310 O        b'-2:lemma:pahse'
+-0.680963 Anti     b'+2:lemma:polyclonal'
+-0.685918 Supp     b'-1:postag:NNP'
+-0.698925 Supp     b'-2:postag:JJ'
+-0.704054 O        b'lemma[:1]:d'
+-0.707980 Gtype    b'-2:lemma:\xe2\x88\x86'
+-0.710771 O        b'+2:postag:-RRB-'
+-0.713877 O        b'+1:lemma:at'
+-0.713877 O        b'+1:word:at'
+-0.722406 O        b'-2:lemma::'
+-0.722643 O        b'lemma:rifampicin'
+-0.722643 O        b'word:rifampicin'
+-0.728674 Med      b'-2:postag:VBN'
+-0.732685 Supp     b'-2:lemma:treat'
+-0.742976 Anti     b'+1:lemma:anti-fur'
+-0.742976 Anti     b'+1:word:anti-Fur'
+-0.744610 O        b'lemma[:1]:k'
+-0.745118 O        b'-2:lemma:aerobically'
+-0.745353 O        b'lemma:anaerobic'
+-0.747402 O        b'+1:lemma:in'
+-0.747402 O        b'+1:word:in'
+-0.757568 O        b'+2:lemma:tag'
+-0.766874 O        b'lemma[:1]:I'
+-0.768100 O        b'-1:postag::'
+-0.770179 O        b'-1:lemma:2'
+-0.770179 O        b'-1:word:2'
+-0.779152 Gtype    b'isNumber'
+-0.782788 Technique b'isLower'
+-0.789896 Phase    b'hUpper'
+-0.789896 Phase    b'hLower'
+-0.799453 O        b'lemma[:1]:n'
+-0.803431 pH       b'isLower'
+-0.809089 O        b'-2:postag::'
+-0.822848 O        b'-2:lemma:dpd'
+-0.835295 Supp     b'lemma[:2]:an'
+-0.862215 O        b'-2:lemma:phase'
+-0.867939 Gtype    b'lemma[:1]:c'
+-0.884275 Supp     b'+2:lemma:glucose'
+-0.904915 Gtype    b'lemma[:1]:a'
+-0.913465 O        b'-1:lemma:vol'
+-0.913465 O        b'-1:word:vol'
+-0.913465 O        b'-2:lemma:1/100'
+-0.913465 O        b'+2:lemma:1m'
+-0.930521 Supp     b'+2:postag:CD'
+-0.948465 O        b'-2:lemma:rifampicin'
+-0.960959 O        b'-2:lemma:until'
+-0.973929 O        b'+2:lemma:+'
+-0.989863 OD       b'+1:postag:NN'
+-0.993812 Med      b'symb'
+-1.066464 Gtype    b'+2:lemma:cra'
+-1.076108 Gtype    b'isUpper'
+-1.103829 O        b'lemma[:2]:ae'
+-1.145933 Supp     b'-2:lemma:grow'
+-1.165009 O        b'+2:lemma:then'
+-1.184152 Phase    b'postag[:1]:J'
+-1.184152 Phase    b'postag[:2]:JJ'
+-1.216149 Gtype    b'lemma[:1]:r'
+-1.241717 O        b'+2:lemma:rifampicin'
+-1.245965 Gversion b'isLower'
+-1.248268 O        b'lemma[:2]:30'
+-1.250676 O        b'+1:lemma:1'
+-1.250676 O        b'+1:word:1'
+-1.261488 Phase    b'postag:JJ'
+-1.293329 Anti     b'postag:NNP'
+-1.311043 Supp     b'lemma[:1]:c'
+-1.361957 O        b'-1:lemma:sample'
+-1.486502 Phase    b'-1:postag:JJ'
+-1.506572 Supp     b'+2:lemma:1'
+-1.518267 Supp     b'+2:lemma:2'
+-1.561744 O        b'-2:lemma:0.3'
+-1.581023 O        b'-2:lemma:media'
+-1.615538 Med      b'-2:lemma:grow'
+-1.662192 O        b'+1:lemma:2'
+-1.662192 O        b'+1:word:2'
+-1.765435 Med      b'+2:postag:VBN'
+-1.789575 Supp     b'+2:lemma:fructose'
+-1.949737 O        b'postag:VBP'
+-2.303519 O        b'-1:postag:VBG'
+-2.349341 O        b'lemma[:2]:fl'
+-2.351661 OD       b'+2:lemma:aerobically'
+-2.480527 O        b'-1:lemma::'
+-2.480527 O        b'-1:word::'
+-2.674521 O        b'-1:lemma:_'
+-2.674521 O        b'-1:word:_'
+

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.37575104918065877, 'c2': 0.014068909404949474}
-best CV score:0.8255861440832887
-model size: 0.09M
-
-Flat F1: 0.8259332647953259
-             precision    recall  f1-score   support
-
-         OD      0.652     0.405     0.500        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     1.000     1.000        22
-        Med      1.000     0.912     0.954        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.807     0.742     0.773        62
-       Anti      0.900     1.000     0.947         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.883     0.858     0.871       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.887     0.691     0.777       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.880     0.785     0.826       480
-
-
-Top likely transitions:
-OD     -> OD      7.084434
-Agit   -> Agit    6.186786
-Temp   -> Temp    5.929541
-Air    -> Air     5.333804
-Med    -> Med     5.303931
-Supp   -> Supp    4.741743
-Gversion -> Gversion 4.640552
-Anti   -> Anti    4.494565
-Phase  -> Phase   4.151550
-Gtype  -> Gtype   4.131202
-Technique -> Technique 3.603317
-O      -> O       3.497598
-pH     -> pH      1.761638
-O      -> Supp    1.456972
-Gtype  -> Supp    1.262299
-Air    -> O       1.158446
-O      -> Technique 0.833897
-OD     -> Phase   0.824018
-O      -> Gtype   0.581942
-Temp   -> O       0.517869
-Med    -> O       0.476850
-Substrain -> Gtype   0.368872
-Supp   -> O       0.290899
-Technique -> Air     0.268494
-O      -> Anti    0.125794
-O      -> Gversion 0.041462
-O      -> OD      0.003049
-Gtype  -> Air     0.000025
-O      -> Air     -0.236692
-Gtype  -> O       -0.409359
-OD     -> O       -0.632212
-Med    -> Supp    -0.705455
-Technique -> O       -0.720532
-Substrain -> O       -0.793543
-Agit   -> O       -0.912986
-
-
-Top unlikely transitions:
-OD     -> OD      7.084434
-Agit   -> Agit    6.186786
-Temp   -> Temp    5.929541
-Air    -> Air     5.333804
-Med    -> Med     5.303931
-Supp   -> Supp    4.741743
-Gversion -> Gversion 4.640552
-Anti   -> Anti    4.494565
-Phase  -> Phase   4.151550
-Gtype  -> Gtype   4.131202
-Technique -> Technique 3.603317
-O      -> O       3.497598
-pH     -> pH      1.761638
-O      -> Supp    1.456972
-Gtype  -> Supp    1.262299
-Air    -> O       1.158446
-O      -> Technique 0.833897
-OD     -> Phase   0.824018
-O      -> Gtype   0.581942
-Temp   -> O       0.517869
-Med    -> O       0.476850
-Substrain -> Gtype   0.368872
-Supp   -> O       0.290899
-Technique -> Air     0.268494
-O      -> Anti    0.125794
-O      -> Gversion 0.041462
-O      -> OD      0.003049
-Gtype  -> Air     0.000025
-O      -> Air     -0.236692
-Gtype  -> O       -0.409359
-OD     -> O       -0.632212
-Med    -> Supp    -0.705455
-Technique -> O       -0.720532
-Substrain -> O       -0.793543
-Agit   -> O       -0.912986
-
-
-Top positive:
-5.026788 Anti     b'-2:lemma:antibody'
-4.581170 O        b'word[:2]:re'
-4.532914 O        b'-2:lemma:_'
-4.141075 Technique b'word[:2]:Ch'
-4.000190 Air      b'lemma:anaerobic'
-3.925942 O        b'word[:2]:Rp'
-3.588650 O        b'lemma:1'
-3.588650 O        b'word:1'
-3.545521 O        b'postag::'
-3.537943 O        b'postag:IN'
-3.493406 O        b'+2:lemma:\xc2\xb0c'
-3.393325 Gtype    b'-2:lemma:genotype/variation'
-3.329554 O        b'word:A'
-3.068046 Gtype    b'word[:1]:\xce\x94'
-3.034385 O        b'word[:1]:G'
-3.015992 O        b'word[:1]:S'
-2.836526 Supp     b'word[:2]:Fe'
-2.820630 Air      b'word[:2]:Ae'
-2.820630 Air      b'word:Aerobic'
-2.738575 Gtype    b'word[:2]:Fl'
-2.722116 Air      b'word[:1]:A'
-2.638126 Temp     b'word[:1]:3'
-2.523318 O        b'lemma:3'
-2.523318 O        b'word:3'
-2.522986 O        b'postag:CC'
-2.473237 O        b'lemma:2'
-2.473237 O        b'word:2'
-2.468222 O        b'postag:VBN'
-2.391799 Gtype    b'-2:lemma:delta'
-2.346345 O        b'word[:1]:B'
-2.285720 Gtype    b'lemma:type'
-2.285720 Gtype    b'word[:2]:ty'
-2.285720 Gtype    b'word:type'
-2.284112 Gtype    b'+2:lemma:glucose'
-2.211360 Technique b'word[:2]:RN'
-2.182686 O        b'+1:postag:RB'
-2.177098 O        b'postag:DT'
-2.169923 Phase    b'lemma:stationary'
-2.169923 Phase    b'word:stationary'
-2.155319 Anti     b'+2:lemma:antibody'
-2.151791 O        b'lemma:.'
-2.151791 O        b'postag:.'
-2.151791 O        b'word:.'
-2.145140 Gtype    b'-1:lemma:\xe2\x88\x86'
-2.145140 Gtype    b'-1:word:\xe2\x88\x86'
-2.134554 Supp     b'-2:lemma:supplement'
-2.134313 O        b'-1:word:Aerobic'
-2.089564 OD       b'word[:2]:OD'
-2.068607 Supp     b'lemma:arginine'
-2.061542 O        b'isLower'
-2.024477 Supp     b'lemma:nitrate'
-2.024477 Supp     b'word[:2]:ni'
-2.024477 Supp     b'word:nitrate'
-1.995233 O        b'word[:2]:ge'
-1.977149 O        b'-1:lemma:tag'
-1.954967 O        b'+2:lemma:cra'
-1.948541 O        b'+2:lemma:fructose'
-1.925028 Med      b'word[:1]:L'
-1.908907 Med      b'word[:1]:M'
-1.872648 Supp     b'word[:1]:I'
-1.862418 Med      b'+2:lemma:with'
-1.818612 Phase    b'lemma:mid-log'
-1.818612 Phase    b'word:mid-log'
-1.808244 Temp     b'-1:word:sample'
-1.800900 Supp     b'+1:word:hours'
-1.794367 O        b'lemma:_'
-1.794367 O        b'word[:1]:_'
-1.794367 O        b'word:_'
-1.771399 O        b'-2:lemma:~'
-1.768285 Temp     b'-1:lemma:sample'
-1.765360 OD       b'word[:1]:O'
-1.739074 O        b'word[:2]:ch'
-1.734592 Gtype    b'word[:1]:d'
-1.733152 Supp     b'-1:word:Cra'
-1.720079 O        b'+1:word:ChIP-Seq'
-1.719613 O        b'+1:postag:VBP'
-1.680129 Technique b'word[:1]:R'
-1.672356 O        b'+2:lemma:chipseq'
-1.646401 Supp     b'-1:postag:CC'
-1.634591 Air      b'+2:lemma:37'
-1.616241 Gtype    b'-2:postag:DT'
-1.602328 Supp     b'+1:lemma:\xc2\xb5m'
-1.602328 Supp     b'+1:word:\xc2\xb5M'
-1.563258 Gtype    b'word[:1]:W'
-1.536685 Air      b'word[:1]:a'
-1.524926 Supp     b'-2:lemma:purr'
-1.515693 Air      b'word[:2]:An'
-1.515693 Air      b'word:Anaerobic'
-1.512353 Supp     b'+2:lemma:rifampicin'
-1.503664 Med      b'word[:1]:g'
-1.496011 Supp     b'word[:1]:N'
-1.494242 O        b'-1:lemma:anaerobic'
-1.482358 O        b'-1:lemma:lb'
-1.476473 Gtype    b'lemma:nsrr'
-1.476473 Gtype    b'word[:2]:Ns'
-1.476473 Gtype    b'word:NsrR'
-1.475408 pH       b'+1:postag:CD'
-1.464474 Supp     b'word[:2]:gl'
-1.459471 Air      b'word[:2]:an'
-1.449561 O        b'-1:word:tag'
-1.441346 O        b'-2:lemma:medium'
-1.436637 Gtype    b'-2:postag:NNS'
-1.405198 Phase    b'-2:lemma:phase'
-1.403755 Supp     b'word[:1]:\xc2\xb5'
-1.381552 Technique b'word[:1]:C'
-1.367426 O        b'word[:1]:C'
-1.358817 Anti     b'word[:2]:an'
-1.352736 Supp     b'+1:lemma:2'
-1.352736 Supp     b'+1:word:2'
-1.338532 Technique b'symb'
-1.327081 pH       b'lemma:ph5'
-1.327081 pH       b'+1:lemma:.5'
-1.327081 pH       b'word:pH5'
-1.327081 pH       b'+1:word:.5'
-1.320139 O        b'lemma:-'
-1.320139 O        b'word:-'
-1.312227 OD       b'word[:2]:0.'
-1.306758 Air      b'-2:postag:CD'
-1.306653 Technique b'lemma:ChIP-exo'
-1.294854 Supp     b'+1:lemma:1'
-1.294854 Supp     b'+1:word:1'
-1.291466 Gtype    b'hGreek'
-1.288351 Gtype    b'lemma:wt'
-1.281820 Med      b'isUpper'
-1.280384 O        b'word[:2]:Cu'
-1.273897 Strain   b'lemma:k-12'
-1.273897 Strain   b'word[:2]:K-'
-1.273897 Strain   b'word:K-12'
-1.263759 Supp     b'lemma:pq'
-1.263759 Supp     b'word[:2]:PQ'
-1.263759 Supp     b'word:PQ'
-1.262897 Gversion b'postag:CD'
-1.260684 Substrain b'lemma:mg1655'
-1.260684 Substrain b'word[:2]:MG'
-1.260684 Substrain b'word:MG1655'
-1.257247 Med      b'+2:lemma:b2'
-1.250577 Gtype    b'word[:2]:cr'
-1.245268 Supp     b'lemma:Iron'
-1.245268 Supp     b'word[:2]:Ir'
-1.245268 Supp     b'word:Iron'
-1.245268 Supp     b'+1:word:Deficient'
-1.245268 Supp     b'-2:lemma:Anaerobic'
-1.242618 Gtype    b'postag:JJ'
-1.229834 Gversion b'lemma:chip-seq'
-1.223343 O        b'+2:postag:JJ'
-1.202557 O        b'lemma:a'
-1.198655 Gtype    b'+1:lemma:type'
-1.198655 Gtype    b'+1:word:type'
-1.198344 Strain   b'word[:1]:K'
-1.192715 Gtype    b'lemma:\xe2\x88\x86'
-1.192715 Gtype    b'word[:1]:\xe2\x88\x86'
-1.192715 Gtype    b'word:\xe2\x88\x86'
-1.191305 O        b'+2:lemma:of'
-1.187697 Med      b'lemma:MOPS'
-1.187697 Med      b'word[:2]:MO'
-1.187697 Med      b'word:MOPS'
-1.171501 Substrain b'word[:1]:M'
-1.171059 Air      b'postag:RB'
-1.169190 Med      b'word[:2]:LB'
-1.169190 Med      b'word:LB'
-1.154631 Gversion b'word:ChIP-Seq'
-1.142086 O        b'isNumber'
-1.141002 Gversion b'-2:lemma:build'
-1.140702 Gtype    b'-2:lemma:genotype'
-1.126546 Technique b'+2:lemma:ph5'
-1.113495 O        b'+1:postag:NNP'
-1.108444 O        b'-2:lemma:fructose'
-1.100127 O        b'-2:lemma:co2'
-1.093797 O        b'-2:lemma:\xe2\x88\x86'
-1.087633 Supp     b'+1:lemma:_'
-1.087633 Supp     b'+1:word:_'
-1.087387 O        b'word[:1]:H'
-1.079339 Anti     b'+1:lemma:antibody'
-1.079339 Anti     b'+1:word:antibody'
-1.053803 Supp     b'lemma:acetate'
-1.053803 Supp     b'word:acetate'
-1.052666 Supp     b'-1:postag:CD'
-1.041028 Anti     b'-2:lemma:polymerase'
-1.026459 O        b'+1:postag:VBN'
-1.021797 O        b'-2:lemma:mid-log'
-1.014372 Gtype    b'-1:lemma:rpob'
-1.014372 Gtype    b'-1:word:RpoB'
-0.999828 O        b'+1:postag:VBZ'
-0.999620 Gversion b'+1:postag:CD'
-0.998043 O        b'word[:2]:Cr'
-0.998043 O        b'word:Cra'
-0.994250 Supp     b'word[:2]:0.'
-0.985843 O        b'lemma:purr'
-0.985843 O        b'word:PurR'
-0.983781 Supp     b'word[:1]:1'
-0.980764 Gtype    b'-2:postag::'
-0.978629 O        b'lemma:b'
-0.978629 O        b'word:B'
-0.978589 O        b'-1:lemma:media'
-0.978589 O        b'-1:word:media'
-0.978508 O        b'lemma:at'
-0.969017 O        b'word[:1]:c'
-0.967404 O        b'word[:1]:R'
-0.958802 O        b'word[:1]:E'
-0.953468 O        b'+1:postag::'
-
-
-Top negative:
--0.052044 O        b'+1:lemma:-rrb-'
--0.052044 O        b'+1:word:-RRB-'
--0.056554 O        b'word[:2]:ce'
--0.060548 Phase    b'-2:postag:NN'
--0.062690 Supp     b'+2:lemma:glucose'
--0.064571 Agit     b'symb'
--0.065267 O        b'+1:lemma:_'
--0.065267 O        b'+1:word:_'
--0.068598 O        b'-1:lemma:rpob'
--0.068598 O        b'-1:word:RpoB'
--0.068684 Gtype    b'lemma:_'
--0.068684 Gtype    b'word[:1]:_'
--0.068684 Gtype    b'word:_'
--0.074203 Air      b'+2:lemma:and'
--0.074727 O        b'-1:lemma:iptg'
--0.074727 O        b'-1:word:IPTG'
--0.074850 OD       b'+1:postag:CD'
--0.077216 O        b'+2:lemma:+'
--0.078067 Temp     b'+2:lemma:to'
--0.078067 Temp     b'+2:postag:TO'
--0.079117 O        b'+2:lemma:mg1655'
--0.079758 O        b'word[:2]:30'
--0.080740 Anti     b'+2:postag:JJ'
--0.083302 Air      b'-1:postag:RB'
--0.083969 O        b'-2:lemma:anaerobically'
--0.084742 Supp     b'isNumber'
--0.086180 O        b'+2:lemma:anaerobically'
--0.092175 O        b'-2:postag:-LRB-'
--0.095060 O        b'word[:1]:F'
--0.097644 Air      b'postag:CC'
--0.099744 O        b'lemma:k-12'
--0.099744 O        b'word[:2]:K-'
--0.099744 O        b'word:K-12'
--0.106457 O        b'lemma:media'
--0.106457 O        b'word:media'
--0.108219 O        b'+1:lemma:until'
--0.108219 O        b'+1:word:until'
--0.108963 Supp     b'lemma:2'
--0.108963 Supp     b'word:2'
--0.110990 OD       b'+1:postag:IN'
--0.111975 Gtype    b'-1:postag:NN'
--0.112503 O        b'+1:word:cells'
--0.113137 Gtype    b'-1:lemma:,'
--0.113137 Gtype    b'-1:postag:,'
--0.113137 Gtype    b'-1:word:,'
--0.116950 O        b'-1:lemma:37'
--0.116950 O        b'-1:word:37'
--0.117677 O        b'-1:word:the'
--0.120669 O        b'+1:lemma:supplement'
--0.120669 O        b'+1:word:supplemented'
--0.121823 O        b'+1:postag:-RRB-'
--0.121829 O        b'word[:1]:p'
--0.129179 O        b'+2:lemma:-rrb-'
--0.130177 O        b'-1:lemma:mid-log'
--0.130177 O        b'-1:word:mid-log'
--0.133448 O        b'-1:lemma:the'
--0.133564 O        b'word[:2]:Fe'
--0.134575 O        b'+1:lemma:cell'
--0.135676 O        b'-1:lemma:nsrr'
--0.135676 O        b'-1:word:NsrR'
--0.136278 Med      b'-2:lemma:grow'
--0.137702 OD       b'-2:postag:JJ'
--0.138850 O        b'+2:lemma:a'
--0.139158 O        b'postag:NN'
--0.141309 Air      b'-2:postag:RB'
--0.142269 Temp     b'-2:postag:NN'
--0.150696 Air      b'-2:postag:CC'
--0.152422 OD       b'postag:CD'
--0.155346 Gtype    b'isNumber'
--0.157347 O        b'lemma:phase'
--0.157347 O        b'word:phase'
--0.158371 Supp     b'hGreek'
--0.162404 O        b'+2:lemma:medium'
--0.163618 O        b'-2:postag:-RRB-'
--0.166539 O        b'+2:postag:RB'
--0.168007 Supp     b'+2:postag:NNS'
--0.169738 O        b'lemma:of'
--0.169738 O        b'word[:2]:of'
--0.169738 O        b'word:of'
--0.172303 O        b'+2:lemma:.'
--0.172303 O        b'+2:postag:.'
--0.172600 O        b'-1:lemma:sample'
--0.178258 O        b'+1:word:hours'
--0.185213 Anti     b'+2:lemma:polyclonal'
--0.186446 O        b'word[:2]:OD'
--0.187064 O        b'+1:lemma:g/l'
--0.187064 O        b'+1:word:g/L'
--0.189574 O        b'lemma:2h'
--0.189574 O        b'-1:lemma:additional'
--0.189574 O        b'word[:2]:2h'
--0.189574 O        b'word:2h'
--0.189574 O        b'-1:word:additional'
--0.189977 O        b'-1:postag:-LRB-'
--0.192454 O        b'+1:lemma:.'
--0.192454 O        b'+1:postag:.'
--0.192454 O        b'+1:word:.'
--0.198550 Gtype    b'+2:lemma:,'
--0.198550 Gtype    b'+2:postag:,'
--0.199077 Supp     b'+2:lemma:-rrb-'
--0.209538 Supp     b'+2:postag:-RRB-'
--0.216556 O        b'lemma:methanol'
--0.216556 O        b'word:methanol'
--0.216556 O        b'-2:lemma:dissolve'
--0.222399 O        b'+2:lemma:b'
--0.230362 Supp     b'-2:postag:JJ'
--0.230473 O        b'-1:lemma:dissolve'
--0.230473 O        b'+1:lemma:methanol'
--0.230473 O        b'-1:word:dissolved'
--0.230473 O        b'+1:word:methanol'
--0.246071 Temp     b'postag:NN'
--0.253325 O        b'-1:lemma:grow'
--0.262317 Temp     b'isLower'
--0.263799 O        b'word[:2]:gl'
--0.265145 OD       b'isLower'
--0.271959 O        b'-2:lemma:50'
--0.277605 O        b'-2:postag:RB'
--0.294527 O        b'+2:lemma:rifampicin'
--0.296283 Supp     b'isUpper'
--0.303601 O        b'+1:postag:VBG'
--0.305609 Gtype    b'postag:NNP'
--0.306835 O        b'-2:postag:DT'
--0.307435 O        b'word[:2]:ri'
--0.308156 O        b'-1:lemma:co2'
--0.308156 O        b'-1:word:CO2'
--0.308934 Med      b'+1:postag:NN'
--0.312777 O        b'-1:postag:IN'
--0.331437 O        b'-2:lemma:a'
--0.342737 O        b'word[:1]:K'
--0.345243 Anti     b'+1:lemma:anti-fur'
--0.345243 Anti     b'+1:word:anti-Fur'
--0.357708 Agit     b'hUpper'
--0.357708 Agit     b'hLower'
--0.360267 Supp     b'word[:2]:an'
--0.374118 O        b'+1:postag:NNS'
--0.375266 O        b'-2:postag:VBG'
--0.382105 Phase    b'postag:JJ'
--0.396801 Med      b'symb'
--0.399800 O        b'word[:1]:g'
--0.401641 Med      b'-2:postag:NNP'
--0.404890 OD       b'+1:postag:NN'
--0.415691 Phase    b'hUpper'
--0.415691 Phase    b'hLower'
--0.419849 O        b'lemma:rifampicin'
--0.419849 O        b'word:rifampicin'
--0.451527 O        b'word[:1]:N'
--0.494122 Supp     b'+2:lemma:2'
--0.511421 OD       b'+2:postag:NN'
--0.530842 O        b'-2:lemma:supplement'
--0.535189 O        b'lemma:wt'
--0.537729 O        b'word:cells'
--0.557817 OD       b'+2:postag:CD'
--0.562708 Med      b'-1:postag:NN'
--0.567600 O        b'-2:lemma::'
--0.588931 O        b'+2:postag:-RRB-'
--0.588979 Air      b'isLower'
--0.648905 O        b'postag:RB'
--0.650990 O        b'+2:lemma:mid-log'
--0.653045 O        b'-2:lemma:rpob'
--0.658979 Air      b'-1:postag:JJ'
--0.664709 Supp     b'+2:postag:NN'
--0.715070 O        b'-1:postag:VBG'
--0.728681 Med      b'-2:postag:VBN'
--0.764375 O        b'+1:lemma:in'
--0.764375 O        b'+1:word:in'
--0.781477 O        b'word[:1]:0'
--0.789024 OD       b'isNumber'
--0.793942 O        b'lemma:mid-log'
--0.793942 O        b'word:mid-log'
--0.808561 O        b'word[:1]:\xce\x94'
--0.808585 Med      b'+1:postag:IN'
--0.828064 O        b'+1:lemma:at'
--0.828064 O        b'+1:word:at'
--0.852882 O        b'+1:postag:IN'
--0.863301 O        b'word[:1]:P'
--0.887183 Gversion b'isLower'
--0.892329 O        b'-2:lemma:rifampicin'
--0.892363 O        b'word[:2]:me'
--0.923638 O        b'+1:lemma:2'
--0.923638 O        b'+1:word:2'
--0.926320 O        b'-1:lemma:2'
--0.926320 O        b'-1:word:2'
--0.953731 Gtype    b'isUpper'
--0.983394 Gtype    b'word[:1]:C'
--0.991482 O        b'word[:1]:d'
--1.050165 O        b'-2:lemma:phase'
--1.081955 Supp     b'symb'
--1.100341 Anti     b'postag:NNP'
--1.101751 O        b'+1:lemma:1'
--1.101751 O        b'+1:word:1'
--1.313954 O        b'-1:postag::'
--1.342158 Technique b'postag:NN'
--1.383899 O        b'word[:2]:Ch'
--1.392025 Supp     b'postag:JJ'
--1.498805 Air      b'postag:NN'
--1.634162 O        b'-1:lemma::'
--1.634162 O        b'-1:word::'
--2.037586 O        b'-1:lemma:_'
--2.037586 O        b'-1:word:_'
--2.050665 Supp     b'+2:postag:CD'
--3.447085 OD       b'word[:1]:-'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.005890787510878062, 'c2': 0.06901405430753309}
-best CV score:0.800439058983579
-model size: 0.13M
-
-Flat F1: 0.7875530357193007
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.889     0.842     0.865        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.862     0.764     0.810       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.865     0.662     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.875     0.733     0.788       480
-
-
-Top likely transitions:
-OD     -> OD      5.295300
-Med    -> Med     4.817027
-Air    -> Air     4.541687
-Temp   -> Temp    4.477980
-Anti   -> Anti    4.403961
-Agit   -> Agit    4.189406
-O      -> O       4.155711
-Gversion -> Gversion 3.926573
-Phase  -> Phase   3.764540
-Gtype  -> Gtype   3.728193
-Supp   -> Supp    3.500024
-Technique -> Technique 2.523454
-pH     -> pH      2.120930
-O      -> Supp    1.644804
-Substrain -> Gtype   1.553365
-Gtype  -> Supp    1.549696
-Air    -> O       1.305073
-O      -> Gtype   1.048094
-Technique -> Air     1.030180
-O      -> Technique 0.933161
-O      -> Temp    0.764897
-Gtype  -> pH      0.723788
-Med    -> O       0.647341
-Gtype  -> Air     0.646357
-O      -> Anti    0.639501
-OD     -> Phase   0.283925
-O      -> Strain  0.281301
-Phase  -> O       0.224883
-O      -> Gversion 0.199014
-O      -> Vess    0.165133
-O      -> pH      0.164399
-Supp   -> O       0.147494
-Temp   -> O       0.060602
-O      -> Med     0.024988
-pH     -> Vess    -0.000034
-Gversion -> Strain  -0.000143
-Agit   -> Anti    -0.005756
-Strain -> Gversion -0.006189
-Vess   -> O       -0.008273
-Vess   -> Technique -0.009171
-Substrain -> Phase   -0.009186
-Temp   -> Substrain -0.014198
-Med    -> Strain  -0.014524
-Vess   -> Med     -0.015908
-Med    -> Agit    -0.017755
-Agit   -> Gversion -0.019478
-Med    -> Vess    -0.019502
-Gversion -> Agit    -0.021787
-Substrain -> Med     -0.022015
-pH     -> Agit    -0.023370
-
-
-Top unlikely transitions:
-Gversion -> Gtype   -0.449091
-Anti   -> Supp    -0.469341
-Technique -> O       -0.471772
-Air    -> Gtype   -0.471801
-OD     -> Anti    -0.472176
-Med    -> Air     -0.493933
-Gversion -> Supp    -0.505303
-Air    -> Temp    -0.514758
-Anti   -> Gtype   -0.526422
-Technique -> Gversion -0.527475
-OD     -> Supp    -0.540365
-Gversion -> Air     -0.543215
-Gversion -> Technique -0.557808
-OD     -> Technique -0.562317
-Anti   -> OD      -0.572231
-Air    -> Supp    -0.574414
-Gtype  -> Phase   -0.589533
-Supp   -> pH      -0.634245
-Air    -> Med     -0.635679
-OD     -> Med     -0.653630
-O      -> Air     -0.677094
-Supp   -> Phase   -0.687344
-Gtype  -> Technique -0.694977
-Technique -> Supp    -0.714796
-OD     -> Temp    -0.724798
-Supp   -> Temp    -0.735059
-Gtype  -> Gversion -0.783076
-Temp   -> Med     -0.785893
-Phase  -> Technique -0.787474
-OD     -> Gtype   -0.788802
-Gtype  -> Med     -0.799774
-Air    -> OD      -0.822597
-Supp   -> Anti    -0.844375
-Supp   -> Air     -0.856507
-OD     -> O       -0.872397
-Supp   -> OD      -0.885971
-Supp   -> Gversion -0.902285
-Gtype  -> Anti    -0.919969
-Gtype  -> OD      -0.936809
-Agit   -> O       -0.963196
-Supp   -> Gtype   -0.973061
-Supp   -> Technique -0.989494
-OD     -> Air     -1.170906
-Technique -> OD      -1.195273
-Technique -> Gtype   -1.215623
-Substrain -> O       -1.241298
-Supp   -> Med     -1.319744
-Technique -> pH      -1.339939
-Med    -> Supp    -1.354155
-Phase  -> OD      -1.507830
-
-
-Top positive:
-6.001404 O        b'lemma:_'
-5.108046 O        b'lemma:1'
-4.607885 Air      b'lemma:anaerobic'
-4.487322 O        b'lemma:2'
-4.403039 Strain   b'lemma:k-12'
-4.353066 Technique b'lemma:ChIP-exo'
-4.261832 Technique b'lemma:chipseq'
-4.120645 Air      b'lemma:aerobic'
-4.097041 Supp     b'lemma:Iron'
-4.006566 O        b'lemma:rpob'
-3.971422 Supp     b'lemma:nh4cl'
-3.946783 Supp     b'lemma:pq'
-3.920412 Supp     b'lemma:glucose'
-3.913288 O        b'postag:IN'
-3.777202 O        b'lemma:3'
-3.702196 Gtype    b'lemma:arca8myc'
-3.696052 O        b'lemma:rep1'
-3.694299 Gtype    b'lemma:wt'
-3.684859 Phase    b'lemma:stationary'
-3.619890 Gtype    b'lemma:flag-tag'
-3.619890 Gtype    b'-1:lemma:c-terminal'
-3.561287 Gtype    b'lemma:\xce\xb4cra'
-3.436909 Substrain b'lemma:mg1655'
-3.399977 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.390171 O        b'lemma:rep2'
-3.367223 Supp     b'lemma:acetate'
-3.313496 Supp     b'+1:lemma:\xc2\xb5m'
-3.310220 Phase    b'lemma:mid-log'
-3.304995 Gversion b'lemma:asm584v2'
-3.270028 O        b'lemma:Cra'
-3.220110 Supp     b'lemma:no3'
-3.184611 O        b'lemma:b'
-3.183606 O        b'postag::'
-3.173832 Supp     b'lemma:nitrate'
-3.172458 Air      b'-1:lemma:ChIP-Seq'
-3.117942 O        b'lemma:a'
-3.086615 Gtype    b'lemma:delta-arca'
-3.060393 Med      b'lemma:LB'
-3.052585 O        b'lemma:.'
-3.052585 O        b'postag:.'
-3.040998 O        b'-1:lemma:tag'
-3.039527 Air      b'lemma:Aerobic'
-3.034395 O        b'lemma:rep3'
-3.030474 Med      b'lemma:lb'
-3.013829 Supp     b'lemma:Fe'
-2.993252 Technique b'lemma:rna-seq'
-2.946753 Supp     b'lemma:dpd'
-2.934731 Gtype    b'lemma:fnr8myc'
-2.888684 Technique b'lemma:chip-seq'
-2.845234 Supp     b'lemma:fructose'
-2.833231 OD       b'lemma:od600'
-2.824550 O        b'-1:lemma:Aerobic'
-2.820328 Gtype    b'lemma:\xe2\x88\x86'
-2.817149 O        b'lemma:\xcf\x8332'
-2.807553 O        b'-1:lemma:ChIP-exo'
-2.800013 O        b'+1:postag:RB'
-2.767317 Supp     b'+1:lemma:1'
-2.763849 Technique b'lemma:rnaseq'
-2.736019 Anti     b'lemma:none'
-2.735616 Med      b'lemma:MOPS'
-2.704042 O        b'postag:VBN'
-2.692426 Anti     b'lemma:seqa'
-2.674687 O        b'lemma:CEL'
-2.641978 Med      b'+1:lemma:0.4'
-2.538323 O        b'lemma:Custom'
-2.532184 OD       b'lemma:od450'
-2.528303 Gtype    b'lemma:type'
-2.515549 Gtype    b'+1:lemma:type'
-2.508151 O        b'lemma:-'
-2.506162 Gtype    b'lemma:delta-fnr'
-2.494354 pH       b'lemma:ph5'
-2.494354 pH       b'+1:lemma:.5'
-2.483580 Gversion b'lemma:nc'
-2.472529 Supp     b'lemma:rifampicin'
-2.439115 Air      b'postag:RB'
-2.437715 Supp     b'+1:lemma:Deficient'
-2.432663 Gtype    b'lemma:nsrr'
-2.426483 O        b'lemma:affyexp'
-2.426224 Vess     b'lemma:flask'
-2.426224 Vess     b'-1:lemma:warm'
-2.409664 Gtype    b'lemma:\xce\xb4fur'
-2.401638 Supp     b'-1:lemma:Cra'
-2.397836 Gversion b'lemma:chip-seq'
-2.376616 Gtype    b'+1:lemma:with'
-2.376328 Supp     b'+1:lemma:2'
-2.352749 O        b'+1:lemma:od600'
-2.350360 Temp     b'lemma:\xc2\xb0c'
-2.340801 Supp     b'+1:lemma:_'
-2.340243 Supp     b'lemma:arginine'
-2.296460 O        b'lemma:chip-arca'
-2.263142 O        b'-1:lemma:glucose'
-2.259312 Gtype    b'lemma:wild-type'
-2.256120 O        b'lemma:with'
-2.252353 Gversion b'lemma:.2'
-2.252353 Gversion b'-1:lemma:u00096'
-2.250177 Gtype    b'lemma:WT'
-2.244062 O        b'lemma:s'
-2.242532 Technique b'lemma:ChIP-Seq'
-2.236704 Gtype    b'-1:lemma:_'
-2.235688 O        b'lemma:argr'
-2.232314 Gversion b'lemma:u00096'
-2.232314 Gversion b'+1:lemma:.2'
-2.227051 Med      b'lemma:m63'
-2.196925 Gversion b'lemma:000913'
-2.195820 O        b'-1:lemma:stpa'
-2.190615 O        b'lemma:oxyr'
-2.167202 O        b'-1:lemma:anaerobic'
-2.153126 Gtype    b'-1:lemma:ptac'
-2.138902 pH       b'+1:postag:CD'
-2.137252 Strain   b'+1:lemma:substr'
-2.135331 Gtype    b'lemma:\xce\xb4soxs'
-2.132696 Technique b'-1:lemma:IP'
-2.130445 O        b'+1:lemma:pq'
-2.121844 O        b'lemma:or'
-2.120627 Med      b'+1:lemma:2.0'
-2.119248 O        b'-1:lemma:0.3-0.35'
-2.102124 Anti     b'lemma:anti-myc'
-2.099119 Gtype    b'+1:lemma:pq'
-2.097053 Gversion b'-1:lemma:nc'
-2.095915 O        b'postag:SYM'
-2.087696 Gtype    b'+1:lemma:flagtag'
-2.068537 Phase    b'lemma:phase'
-2.039522 O        b'-1:lemma:lb'
-2.034656 O        b'lemma:ompr'
-2.020219 Supp     b'lemma:nacl'
-2.011236 O        b'+1:lemma:anti-fur'
-2.002622 O        b'lemma:purr'
-1.989136 Gtype    b'lemma:ptac'
-1.986425 O        b'lemma:Lrp'
-1.986041 Air      b'lemma:anaerobically'
-1.984872 Technique b'postag:NNP'
-1.982619 Supp     b'lemma:Leu'
-1.963147 Air      b'-1:lemma:_'
-1.960508 Air      b'-1:lemma:-'
-1.951971 O        b'lemma:chip'
-1.946660 Gtype    b'lemma:deltaseqa'
-1.946660 Gtype    b'-1:lemma:old'
-1.941357 Technique b'-1:lemma:chip-exo'
-1.929969 Anti     b'+1:lemma:antibody'
-1.926992 Phase    b'-1:lemma:mid-log'
-1.917242 Gtype    b'-1:lemma:rpob'
-1.913616 Substrain b'+1:lemma:phtpg'
-1.907553 Temp     b'-1:lemma:37'
-1.902343 O        b'-1:lemma:type'
-1.899563 Gtype    b'lemma:\xce\xb4ompr'
-1.896818 Gtype    b'+1:lemma:aerobic'
-1.896130 Supp     b'lemma:iptg'
-1.891122 Air      b'lemma:Anaerobic'
-1.888582 Gtype    b'lemma:pk4854'
-1.885003 Temp     b'lemma:43'
-1.884992 Med      b'+1:lemma:+'
-1.883373 Gtype    b'+1:lemma:ph5'
-1.883065 Air      b'-1:postag::'
-1.880978 O        b'postag:DT'
-1.869735 O        b'postag:CC'
-1.867667 Supp     b'-1:lemma:with'
-1.859135 Supp     b'-1:lemma:\xc2\xb5m'
-1.850190 Temp     b'+1:lemma:\xc2\xb0c'
-1.849895 Vess     b'-1:postag:VBN'
-1.830649 O        b'+1:lemma:43'
-1.826705 Supp     b'+1:lemma:respiratory'
-1.826425 Med      b'postag:NNP'
-1.818906 O        b'lemma:culture'
-1.815650 Med      b'-1:lemma:ml'
-1.814335 Gtype    b'-1:lemma:nsrr'
-1.807866 Technique b'-1:lemma:input'
-1.801111 pH       b'lemma:.5'
-1.801111 pH       b'-1:lemma:ph5'
-1.799448 Supp     b'lemma:Adenine'
-1.798437 Air      b'+1:lemma:at'
-1.797384 O        b'lemma:genotype/variation'
-1.795853 Temp     b'-1:lemma:43'
-1.792969 O        b'lemma:Fur'
-1.792070 Technique b'-1:lemma:_'
-1.790333 O        b'+1:lemma:chip-seq'
-1.785178 Gversion b'+1:lemma:000913'
-1.777548 Anti     b'lemma:anti-rpos'
-1.772627 Supp     b'+1:lemma:hour'
-1.771735 O        b'lemma:chip-fnr'
-1.766973 Technique b'+1:lemma:chip-exo'
-1.765244 Supp     b'lemma:methanol'
-1.753576 OD       b'+1:lemma:stationary'
-1.735182 O        b'lemma:for'
-1.733859 Vess     b'+1:lemma:at'
-1.726551 O        b'lemma:pt7'
-1.711211 O        b'postag:VBG'
-1.709643 O        b'-1:lemma:\xc2\xb0c'
-1.699026 Temp     b'lemma:37'
-1.698654 Gtype    b'+1:lemma:,'
-1.698654 Gtype    b'+1:postag:,'
-1.691558 Gtype    b'+1:lemma:_'
-1.691282 O        b'lemma:soxs'
-1.691282 O        b'lemma:soxr'
-1.691054 Supp     b'lemma:20'
-1.680349 Gversion b'postag:CD'
-1.680242 O        b'+1:lemma:mid-log'
-1.676394 O        b'lemma:at'
-1.671037 Supp     b'-1:lemma:+'
-1.657960 Phase    b'+1:lemma:for'
-1.657799 Technique b'-1:lemma:rna-seq'
-
-
-Top negative:
--0.138337 OD       b'postag:IN'
--0.140202 O        b'lemma:n2'
--0.141199 Gtype    b'-1:lemma:-lrb-'
--0.141513 Med      b'postag:-LRB-'
--0.142816 O        b'lemma:aerobically'
--0.148531 Technique b'+1:postag:JJ'
--0.153818 Gtype    b'postag:VBG'
--0.163124 Supp     b'postag:CD'
--0.169140 O        b'-1:lemma:of'
--0.172938 O        b'+1:lemma:2.0'
--0.175379 Technique b'-1:lemma::'
--0.175946 Supp     b'-1:lemma:%'
--0.176380 O        b'-1:postag:-LRB-'
--0.177032 OD       b'+1:postag:CD'
--0.186317 O        b'+1:lemma:pahse'
--0.188005 OD       b'+1:postag:NNS'
--0.189604 Med      b'+1:lemma:m9'
--0.194248 Gtype    b'postag:CD'
--0.196879 Med      b'-1:lemma:MOPS'
--0.200307 O        b'+1:lemma:purify'
--0.202100 Med      b'-1:postag:NN'
--0.209858 O        b'-1:lemma:delta'
--0.209949 O        b'lemma:10'
--0.214403 OD       b'+1:lemma:0.4'
--0.215059 O        b'lemma:co2'
--0.217010 Phase    b'postag:JJ'
--0.220806 Med      b'postag:CD'
--0.221059 Gtype    b'-1:lemma:,'
--0.221059 Gtype    b'-1:postag:,'
--0.227070 O        b'lemma:mg/ml'
--0.227070 O        b'-1:lemma:150'
--0.228793 O        b'-1:lemma:grow'
--0.241460 Supp     b'lemma:and'
--0.241888 O        b'lemma:medium'
--0.246141 Gtype    b'+1:lemma:2'
--0.251300 Gtype    b'postag:NNS'
--0.251694 O        b'+1:lemma:sample'
--0.253709 Supp     b'+1:postag:IN'
--0.255442 Gtype    b'-1:lemma:-'
--0.263468 O        b'+1:postag:-RRB-'
--0.271432 Gtype    b'+1:postag:NNS'
--0.278350 Air      b'postag:CD'
--0.280151 O        b'postag:RB'
--0.286504 O        b'-1:lemma:purify'
--0.287229 Supp     b'-1:postag:VBG'
--0.291292 O        b'+1:lemma:%'
--0.295935 OD       b'+1:lemma:in'
--0.296047 O        b'-1:lemma:rna'
--0.296196 Gtype    b'lemma:ompr'
--0.297998 O        b'+1:lemma:phase'
--0.299404 Phase    b'-1:lemma:at'
--0.304065 O        b'lemma:30'
--0.305817 O        b'+1:lemma:-lcb-'
--0.308356 O        b'-1:lemma:20'
--0.308695 O        b'+1:lemma:mg1655'
--0.311346 O        b'+1:lemma:delta'
--0.313799 O        b'-1:postag:VBP'
--0.315020 O        b'lemma:e.'
--0.315230 O        b'-1:lemma:e.'
--0.319138 Gtype    b'+1:lemma:-lrb-'
--0.321739 Anti     b'+1:postag:JJ'
--0.322662 O        b'-1:lemma:30'
--0.329200 O        b'lemma:nacl'
--0.329442 Gtype    b'+1:lemma:cra'
--0.332012 O        b'-1:lemma:o2'
--0.332558 O        b'+1:lemma:from'
--0.333621 Gtype    b'+1:lemma:a'
--0.335398 O        b'+1:lemma:cell'
--0.339984 O        b'lemma:pahse'
--0.350806 O        b'-1:lemma:fresh'
--0.364120 O        b'+1:lemma:dissolve'
--0.372799 O        b'+1:lemma:minimal'
--0.374219 Supp     b'+1:postag:VBN'
--0.377677 Gtype    b'-1:postag:CD'
--0.390295 O        b'+1:postag:IN'
--0.390779 Med      b'-1:postag:CD'
--0.399008 Technique b'-1:postag::'
--0.401291 O        b'+1:lemma:strain'
--0.405578 O        b'-1:lemma:affinity'
--0.411039 O        b'lemma:minimal'
--0.413767 O        b'lemma:8'
--0.418867 O        b'-1:lemma:rifampicin'
--0.420435 Med      b'+1:postag:NNS'
--0.421888 O        b'-1:lemma:iptg'
--0.426304 O        b'-1:lemma:0.1'
--0.427748 O        b'-1:lemma:um'
--0.427748 O        b'+1:lemma:paraquat'
--0.432025 Supp     b'+1:lemma:glucose'
--0.439327 OD       b'+1:postag:CC'
--0.440292 Gtype    b'+1:lemma:b'
--0.444597 Med      b'+1:postag:NN'
--0.449089 O        b'+1:lemma:shake'
--0.454608 O        b'-1:lemma:from'
--0.468184 O        b'lemma:of'
--0.472171 O        b'lemma:\xc2\xb0c'
--0.475747 O        b'lemma:phase'
--0.483124 O        b'-1:lemma:mid-log'
--0.485719 O        b'+1:lemma:until'
--0.487110 Temp     b'postag:JJ'
--0.495708 O        b'-1:lemma:chip-exo'
--0.495761 O        b'-1:lemma:cra'
--0.499278 Temp     b'+1:lemma:to'
--0.499278 Temp     b'+1:postag:TO'
--0.502976 O        b'+1:lemma:rep1'
--0.516570 O        b'lemma:150'
--0.516570 O        b'+1:lemma:mg/ml'
--0.517552 OD       b'+1:lemma:and'
--0.526042 O        b'lemma:dissolve'
--0.528223 O        b'lemma:m63'
--0.532678 O        b'lemma:glucose'
--0.539809 O        b'-1:lemma:mm'
--0.555116 O        b'+1:lemma:Aerobic'
--0.560647 Supp     b'postag:CC'
--0.568048 O        b'+1:lemma:b'
--0.574891 O        b'+1:lemma:300'
--0.583571 O        b'+1:lemma:c'
--0.591151 O        b'-1:lemma:g/l'
--0.591330 Temp     b'-1:lemma:\xc2\xb0c'
--0.600038 O        b'+1:postag:NNS'
--0.602099 OD       b'postag:JJ'
--0.605582 pH       b'postag:NN'
--0.607566 OD       b'+1:lemma:mid-log'
--0.610267 O        b'lemma:lb'
--0.612280 O        b'lemma:purify'
--0.617785 Gtype    b'lemma:_'
--0.625835 O        b'+1:lemma:0.4'
--0.638498 O        b'+1:lemma:arginine'
--0.643623 OD       b'lemma:-lrb-'
--0.644126 Gtype    b'-1:postag:SYM'
--0.658568 Temp     b'postag:NN'
--0.658731 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.661085 O        b'+1:lemma:fecl2'
--0.669040 O        b'lemma:mg1655'
--0.672673 O        b'lemma:dpd'
--0.698443 Supp     b'+1:lemma:rifampicin'
--0.713908 O        b'-1:lemma:until'
--0.714588 O        b'-1:lemma:od600'
--0.721807 Gtype    b'-1:postag:DT'
--0.723775 Gtype    b'lemma:delta'
--0.727392 OD       b'postag:-LRB-'
--0.754913 O        b'-1:lemma:1'
--0.773161 OD       b'+1:postag:NN'
--0.785912 Anti     b'+1:lemma:anti-fur'
--0.798212 O        b'+1:lemma:0.3'
--0.806842 O        b'lemma:anaerobically'
--0.817840 O        b'lemma:od600'
--0.828895 Phase    b'-1:postag:JJ'
--0.832410 O        b'+1:lemma:in'
--0.838317 Med      b'+1:postag:IN'
--0.843570 O        b'+1:lemma:\xc2\xb0c'
--0.853228 O        b'+1:lemma:at'
--0.895416 Air      b'-1:postag:JJ'
--0.900736 O        b'lemma:media'
--0.902081 O        b'-1:lemma:\xe2\x88\x86'
--0.906592 O        b'lemma:0.3'
--0.918504 O        b'-1:lemma:0.2'
--0.931732 O        b'+1:postag:VBG'
--0.943156 O        b'lemma:0.1'
--0.954406 O        b'-1:lemma:dissolve'
--0.954406 O        b'+1:lemma:methanol'
--0.966339 Supp     b'+1:lemma:acetate'
--0.995930 O        b'lemma:fecl2'
--1.003164 O        b'lemma:20'
--1.026277 O        b'lemma:mid-log'
--1.053295 O        b'-1:lemma:ompr'
--1.054899 O        b'lemma:anaerobic'
--1.057596 O        b'lemma:2h'
--1.057596 O        b'-1:lemma:additional'
--1.080282 O        b'+1:lemma:g/l'
--1.082820 O        b'lemma:0.2'
--1.104495 O        b'-1:lemma:~'
--1.121867 O        b'-1:lemma:ml'
--1.127613 O        b'lemma:k-12'
--1.175804 O        b'lemma:\xe2\x88\x86'
--1.176063 O        b'lemma:\xce\xb4fur'
--1.192468 O        b'+1:lemma:supplement'
--1.233751 O        b'-1:postag:VBG'
--1.236448 O        b'postag:VBP'
--1.249871 O        b'-1:lemma:sample'
--1.284753 O        b'-1:lemma:rpob'
--1.294533 O        b'-1:lemma:co2'
--1.310574 O        b'lemma:37'
--1.338283 O        b'-1:postag::'
--1.367124 Anti     b'postag:NNP'
--1.397494 O        b'-1:lemma:37'
--1.398009 Supp     b'postag:JJ'
--1.437506 Air      b'+1:postag:JJ'
--1.540588 O        b'lemma:wt'
--1.569408 O        b'-1:lemma:2'
--1.577711 O        b'+1:lemma:+'
--1.615554 O        b'+1:lemma:hour'
--1.616588 O        b'lemma:methanol'
--1.673269 O        b'lemma:rifampicin'
--1.677284 O        b'-1:lemma:IP'
--1.688519 O        b'-1:lemma:nsrr'
--1.716711 Air      b'postag:NN'
--1.806551 O        b'+1:lemma:2'
--1.992901 O        b'+1:lemma:1'
--2.768062 O        b'-1:lemma:_'
--2.825339 O        b'-1:lemma::'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.16058815571126603, 'c2': 0.009129664457456948}
-best CV score:0.7991895289243558
-model size: 0.07M
-
-Flat F1: 0.7842038431135264
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.800     0.842     0.821        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.780     0.742     0.760        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.872     0.774     0.820       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.823     0.684     0.747       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.850     0.744     0.784       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.719064
-OD     -> OD      6.323533
-Temp   -> Temp    5.626965
-Med    -> Med     5.518631
-Anti   -> Anti    5.387568
-Air    -> Air     5.306006
-Gtype  -> Gtype   4.649741
-O      -> O       4.602569
-Phase  -> Phase   4.554949
-Gversion -> Gversion 4.497882
-Supp   -> Supp    4.147792
-Technique -> Technique 4.061262
-pH     -> pH      2.238372
-O      -> Supp    1.895496
-Air    -> O       1.750002
-Gtype  -> Supp    1.554366
-Substrain -> Gtype   1.504459
-O      -> Gtype   1.372037
-O      -> Technique 1.353039
-Technique -> Air     0.944695
-O      -> Anti    0.631594
-O      -> Temp    0.503749
-Med    -> O       0.429416
-O      -> Gversion 0.344788
-OD     -> Phase   0.332615
-Temp   -> O       0.259256
-O      -> Med     0.223793
-Gtype  -> Air     0.098960
-Supp   -> O       0.061572
-O      -> Phase   0.048636
-Gtype  -> pH      0.031023
-Phase  -> O       0.028306
-O      -> Strain  0.026662
-OD     -> Air     -0.000013
-Technique -> O       -0.002223
-Technique -> Gtype   -0.072225
-Supp   -> Air     -0.245156
-Technique -> OD      -0.270904
-OD     -> Med     -0.284259
-Gtype  -> Med     -0.389196
-Gtype  -> O       -0.401680
-OD     -> O       -0.570578
-Agit   -> O       -0.633985
-Gtype  -> Anti    -0.634022
-O      -> Air     -0.700283
-Gtype  -> OD      -0.910835
-Supp   -> Med     -0.967944
-Substrain -> O       -1.090330
-Med    -> Supp    -1.725214
-Phase  -> OD      -1.762859
-
-
-Top unlikely transitions:
-Agit   -> Agit    6.719064
-OD     -> OD      6.323533
-Temp   -> Temp    5.626965
-Med    -> Med     5.518631
-Anti   -> Anti    5.387568
-Air    -> Air     5.306006
-Gtype  -> Gtype   4.649741
-O      -> O       4.602569
-Phase  -> Phase   4.554949
-Gversion -> Gversion 4.497882
-Supp   -> Supp    4.147792
-Technique -> Technique 4.061262
-pH     -> pH      2.238372
-O      -> Supp    1.895496
-Air    -> O       1.750002
-Gtype  -> Supp    1.554366
-Substrain -> Gtype   1.504459
-O      -> Gtype   1.372037
-O      -> Technique 1.353039
-Technique -> Air     0.944695
-O      -> Anti    0.631594
-O      -> Temp    0.503749
-Med    -> O       0.429416
-O      -> Gversion 0.344788
-OD     -> Phase   0.332615
-Temp   -> O       0.259256
-O      -> Med     0.223793
-Gtype  -> Air     0.098960
-Supp   -> O       0.061572
-O      -> Phase   0.048636
-Gtype  -> pH      0.031023
-Phase  -> O       0.028306
-O      -> Strain  0.026662
-OD     -> Air     -0.000013
-Technique -> O       -0.002223
-Technique -> Gtype   -0.072225
-Supp   -> Air     -0.245156
-Technique -> OD      -0.270904
-OD     -> Med     -0.284259
-Gtype  -> Med     -0.389196
-Gtype  -> O       -0.401680
-OD     -> O       -0.570578
-Agit   -> O       -0.633985
-Gtype  -> Anti    -0.634022
-O      -> Air     -0.700283
-Gtype  -> OD      -0.910835
-Supp   -> Med     -0.967944
-Substrain -> O       -1.090330
-Med    -> Supp    -1.725214
-Phase  -> OD      -1.762859
-
-
-Top positive:
-8.837637 Phase    b'lemma:stationary'
-8.799335 Supp     b'lemma:Iron'
-8.611049 O        b'lemma:_'
-7.279883 O        b'lemma:1'
-6.932654 Supp     b'lemma:nitrate'
-6.880712 Air      b'lemma:anaerobic'
-6.848692 Strain   b'lemma:k-12'
-6.839307 Air      b'lemma:aerobic'
-6.789788 Technique b'lemma:ChIP-exo'
-6.727217 Phase    b'lemma:mid-log'
-6.413420 O        b'lemma:rpob'
-5.946980 O        b'lemma:2'
-5.848343 Technique b'lemma:chipseq'
-5.826514 Substrain b'lemma:mg1655'
-5.584982 Supp     b'lemma:pq'
-5.578193 O        b'-1:lemma:tag'
-5.564380 Gtype    b'lemma:\xce\xb4cra'
-5.533718 Air      b'-1:lemma:ChIP-Seq'
-5.522763 Gversion b'lemma:asm584v2'
-5.497653 O        b'lemma:3'
-5.471837 Med      b'lemma:MOPS'
-5.411070 O        b'lemma:\xcf\x8332'
-5.308684 Gtype    b'lemma:type'
-5.245931 O        b'-1:lemma:ChIP-exo'
-5.210520 O        b'lemma:rep1'
-5.173302 Air      b'lemma:Aerobic'
-4.949891 O        b'lemma:rep2'
-4.893059 Med      b'lemma:LB'
-4.891835 O        b'lemma:b'
-4.883141 O        b'postag:IN'
-4.880173 Gtype    b'lemma:flag-tag'
-4.880173 Gtype    b'-1:lemma:c-terminal'
-4.852218 O        b'lemma:rep3'
-4.830297 OD       b'lemma:od600'
-4.826485 Supp     b'lemma:nh4cl'
-4.743281 Technique b'lemma:ChIP-Seq'
-4.722036 O        b'lemma:Custom'
-4.717849 Gversion b'lemma:nc'
-4.701135 Gtype    b'+1:lemma:type'
-4.682123 O        b'postag::'
-4.648660 Gtype    b'-1:lemma:\xe2\x88\x86'
-4.639269 Supp     b'+1:lemma:\xc2\xb5m'
-4.607690 O        b'lemma:a'
-4.570893 Med      b'lemma:lb'
-4.466395 O        b'lemma:Cra'
-4.390246 Supp     b'lemma:glucose'
-4.349340 Gtype    b'lemma:arca8myc'
-4.320335 Gtype    b'lemma:wt'
-4.311807 Gtype    b'lemma:delta-arca'
-4.197474 Technique b'lemma:rna-seq'
-4.168693 O        b'-1:lemma:Aerobic'
-4.160315 Supp     b'lemma:Fe'
-4.109646 Gtype    b'lemma:fnr8myc'
-4.033076 OD       b'lemma:od450'
-3.947930 Gversion b'-1:lemma:nc'
-3.908993 Anti     b'lemma:none'
-3.885757 O        b'-1:lemma:0.3-0.35'
-3.879994 Technique b'lemma:rnaseq'
-3.842850 Supp     b'lemma:dpd'
-3.840223 Supp     b'lemma:rifampicin'
-3.804681 Vess     b'lemma:flask'
-3.804681 Vess     b'-1:lemma:warm'
-3.791974 Supp     b'lemma:no3'
-3.760306 O        b'lemma:.'
-3.760306 O        b'postag:.'
-3.728479 Technique b'lemma:chip-seq'
-3.712550 Gtype    b'lemma:\xe2\x88\x86'
-3.655598 Gtype    b'lemma:delta-fnr'
-3.646988 Supp     b'lemma:acetate'
-3.634096 Gtype    b'lemma:\xce\xb4fur'
-3.586071 Gtype    b'lemma:nsrr'
-3.578964 OD       b'+1:lemma:stationary'
-3.567614 Med      b'+1:lemma:0.4'
-3.480912 Supp     b'+1:lemma:1'
-3.460781 Anti     b'lemma:seqa'
-3.449791 Supp     b'lemma:arginine'
-3.441583 Supp     b'+1:lemma:hour'
-3.432425 O        b'lemma:-'
-3.371367 O        b'+1:lemma:od600'
-3.362556 O        b'-1:lemma:type'
-3.291275 O        b'lemma:or'
-3.273720 O        b'postag:VBN'
-3.265269 Temp     b'-1:lemma:\xcf\x8332'
-3.250448 Supp     b'lemma:fructose'
-3.225849 Gtype    b'+1:lemma:ph5'
-3.222217 Temp     b'-1:lemma:sample'
-3.219063 Med      b'lemma:m63'
-3.216977 O        b'lemma:CEL'
-3.176530 Anti     b'lemma:anti-myc'
-3.146575 O        b'+1:postag:RB'
-3.134788 O        b'-1:lemma:glucose'
-3.125043 Gtype    b'lemma:\xce\xb4ompr'
-3.100972 Strain   b'+1:lemma:substr'
-3.072971 pH       b'lemma:ph5'
-3.072971 pH       b'+1:lemma:.5'
-3.067075 O        b'-1:lemma:0.3'
-3.036857 O        b'lemma:chip'
-3.030617 Supp     b'-1:lemma:Cra'
-3.025659 Gtype    b'+1:lemma:with'
-3.008031 Gversion b'lemma:chip-seq'
-2.994019 Gversion b'lemma:u00096'
-2.994019 Gversion b'+1:lemma:.2'
-2.993336 Supp     b'+1:lemma:2'
-2.990986 Gtype    b'lemma:wild-type'
-2.989694 O        b'-1:lemma:anaerobic'
-2.983685 Anti     b'+1:lemma:antibody'
-2.981744 Technique b'+1:lemma:chip-exo'
-2.956476 Gtype    b'+1:lemma:pq'
-2.936131 Technique b'-1:lemma:IP'
-2.919804 Gtype    b'-1:lemma:ptac'
-2.910451 Med      b'+1:lemma:minimal'
-2.869576 Gversion b'lemma:000913'
-2.862556 O        b'lemma:s'
-2.839985 O        b'lemma:with'
-2.828830 Gtype    b'-1:lemma:rpob'
-2.818885 Anti     b'lemma:anti-rpos'
-2.813806 Gtype    b'+1:lemma:flagtag'
-2.813297 O        b'-1:lemma:lb'
-2.741808 Temp     b'-1:lemma:43'
-2.719888 Supp     b'-1:lemma:+'
-2.682019 Technique b'-1:lemma:chip-exo'
-2.665763 O        b'+1:postag:NNP'
-2.664036 O        b'postag:CC'
-2.648305 Supp     b'lemma:nacl'
-2.635798 Gversion b'lemma:.2'
-2.635798 Gversion b'-1:lemma:u00096'
-2.631519 OD       b'-1:lemma:~'
-2.630404 pH       b'lemma:.5'
-2.630404 pH       b'-1:lemma:ph5'
-2.610537 Temp     b'-1:lemma:37'
-2.585402 O        b'postag:VBG'
-2.582024 O        b'lemma:oxyr'
-2.534944 Gtype    b'lemma:\xce\xb4soxs'
-2.529286 Med      b'lemma:media'
-2.526833 O        b'lemma:for'
-2.522683 Temp     b'lemma:\xc2\xb0c'
-2.517678 O        b'+1:lemma:pq'
-2.481621 O        b'postag:DT'
-2.467547 Air      b'postag:RB'
-2.465592 Supp     b'+1:lemma:_'
-2.465328 Supp     b'-1:lemma:\xc2\xb5m'
-2.462075 Supp     b'lemma:Leu'
-2.457045 Air      b'-1:lemma:-'
-2.398092 Supp     b'lemma:20'
-2.393465 O        b'-1:lemma:l1'
-2.392516 OD       b'lemma:0.3'
-2.388541 O        b'+1:lemma:chip-seq'
-2.372930 O        b'lemma:culture'
-2.354906 Med      b'+1:lemma:2.0'
-2.354774 O        b'lemma:2-3'
-2.346860 O        b'lemma:affyexp'
-2.323757 Technique b'-1:lemma:input'
-2.321220 Gtype    b'lemma:pk4854'
-2.318926 O        b'+1:lemma:o.d.'
-2.307787 Temp     b'lemma:43'
-2.301344 Med      b'+1:lemma:g/l'
-2.300110 Med      b'-1:lemma:ml'
-2.281743 Air      b'lemma:anaerobically'
-2.255382 Gtype    b'lemma:deltaseqa'
-2.255382 Gtype    b'-1:lemma:old'
-2.248647 Temp     b'lemma:37'
-2.228191 O        b'lemma:ompr'
-2.227705 O        b'-1:lemma:\xc2\xb0c'
-2.223375 Supp     b'lemma:Adenine'
-2.216690 Supp     b'lemma:iptg'
-2.192106 Gtype    b'lemma:ptac'
-2.185607 Phase    b'-1:lemma:until'
-2.150538 O        b'-1:lemma:stpa'
-2.139915 Gtype    b'-1:lemma:nsrr'
-2.138681 O        b'+1:lemma:sparging'
-2.124332 Med      b'lemma:L'
-2.124332 Med      b'+1:lemma:broth'
-2.090590 Air      b'lemma:Anaerobic'
-2.084963 O        b'lemma:condition'
-2.083373 Supp     b'lemma:0.2'
-2.071469 O        b'lemma:at'
-2.070008 O        b'+1:lemma:anti-fur'
-2.046312 O        b'lemma:Lrp'
-2.038220 Phase    b'-1:lemma:mid-log'
-2.029113 O        b'lemma:chip-arca'
-2.027744 Supp     b'lemma:methanol'
-2.017925 Technique b'+1:lemma:rna-seq'
-2.017005 Substrain b'+1:lemma:phtpg'
-2.011726 Med      b'lemma:broth'
-2.011726 Med      b'-1:lemma:L'
-1.998337 pH       b'+1:postag:CD'
-1.982325 O        b'lemma:Fur'
-1.968163 Med      b'lemma:glucose'
-1.939193 Gversion b'postag:CD'
-1.930022 Phase    b'+1:postag:NNS'
-1.926820 O        b'lemma:soxs'
-1.926820 O        b'lemma:soxr'
-1.910127 Supp     b'-1:lemma:with'
-1.904564 Air      b'lemma:anerobically'
-1.901117 O        b'lemma:genotype/variation'
-1.899206 Gtype    b'+1:lemma:_'
-1.889629 Gtype    b'lemma:WT'
-1.854673 Phase    b'+1:lemma:for'
-1.839203 Temp     b'-1:lemma:30'
-1.838657 Temp     b'+1:lemma:\xc2\xb0c'
-
-
-Top negative:
-0.009154 Gtype    b'-1:lemma:small'
-0.008958 O        b'-1:lemma:concentration'
-0.008958 O        b'+1:lemma:150'
-0.008749 Supp     b'+1:lemma:%'
-0.008295 Gtype    b'-1:postag:IN'
-0.007225 Temp     b'-1:postag:NN'
-0.007001 O        b'+1:lemma:dpd'
-0.006253 O        b'-1:lemma:to'
-0.006253 O        b'-1:postag:TO'
-0.005971 O        b'lemma:25'
-0.005588 Supp     b'-1:postag:VBN'
-0.005564 Supp     b'postag:NNP'
-0.005481 Vess     b'+1:postag:IN'
-0.005374 Med      b'-1:lemma:w2'
-0.005034 Med      b'-1:lemma:2'
-0.004923 Phase    b'+1:lemma:aerobically'
-0.004818 Air      b'-1:lemma:-lrb-'
-0.004778 Phase    b'+1:postag:RB'
-0.002918 Supp     b'+1:lemma:dpd'
-0.001853 Supp     b'-1:postag:NN'
-0.001254 O        b'-1:lemma:25'
-0.001130 O        b'+1:lemma:minute'
-0.000839 Supp     b'lemma:2'
-0.000645 O        b'lemma:250'
-0.000633 O        b'+1:lemma:use'
-0.000599 OD       b'+1:lemma:-rrb-'
-0.000522 Gtype    b'postag::'
-0.000521 O        b'lemma:contain'
-0.000301 Air      b'postag:CC'
-0.000277 O        b'-1:postag:DT'
-0.000223 Air      b'-1:lemma:and'
-0.000188 O        b'-1:lemma:Iron'
-0.000172 Technique b'+1:lemma:-rrb-'
-0.000156 O        b'+1:lemma:um'
-0.000120 Technique b'+1:postag:-RRB-'
-0.000082 O        b'lemma:fresh'
-0.000007 O        b'-1:lemma:chip'
-0.000004 Technique b'-1:postag:NN'
-0.000004 Gtype    b'lemma:input'
-0.000002 Supp     b'+1:lemma:feso4'
--0.000001 Supp     b'+1:lemma:-rrb-'
--0.000002 Supp     b'+1:postag:-RRB-'
--0.000013 O        b'+1:lemma:95'
--0.000014 Gtype    b'+1:postag:NNS'
--0.000015 OD       b'+1:postag:-LRB-'
--0.000019 Gtype    b'postag:CD'
--0.000030 O        b'lemma:purify'
--0.000053 O        b'lemma:10'
--0.000099 O        b'lemma:\xe2\x88\x86'
--0.000279 Temp     b'postag:JJ'
--0.000305 O        b'+1:lemma:0.4'
--0.000901 O        b'-1:lemma:iptg'
--0.002039 OD       b'+1:postag:NNS'
--0.002046 O        b'+1:lemma:mm'
--0.002243 O        b'-1:lemma:the'
--0.003015 O        b'-1:lemma:with'
--0.004660 Technique b'-1:lemma::'
--0.005024 OD       b'+1:lemma:of'
--0.006171 O        b'+1:postag:CD'
--0.006255 Air      b'+1:postag:-LRB-'
--0.006748 O        b'+1:lemma:rep1'
--0.009757 O        b'-1:lemma:g/l'
--0.010305 OD       b'lemma:~'
--0.012303 Air      b'+1:lemma:-lrb-'
--0.014317 O        b'+1:lemma:25'
--0.017635 O        b'lemma:lb'
--0.020425 O        b'-1:postag:VBN'
--0.020857 Air      b'-1:lemma:70'
--0.021641 OD       b'+1:postag:CD'
--0.026926 Anti     b'+1:postag:JJ'
--0.030050 O        b'-1:lemma:rifampicin'
--0.030184 O        b'+1:lemma:o2'
--0.033398 O        b'+1:lemma:grow'
--0.034272 O        b'lemma:o2'
--0.038973 O        b'lemma:medium'
--0.041512 O        b'+1:lemma:phase'
--0.047966 O        b'+1:lemma:300'
--0.051332 O        b'-1:lemma:mm'
--0.052636 O        b'lemma:e.'
--0.055634 Med      b'postag:CD'
--0.055801 Phase    b'+1:postag:NN'
--0.062955 Air      b'-1:postag:CC'
--0.065091 O        b'-1:lemma:o2'
--0.065456 OD       b'+1:lemma:and'
--0.079195 OD       b'+1:lemma:0.4'
--0.085840 Med      b'+1:postag:NN'
--0.089782 Gversion b'+1:postag:NN'
--0.090118 O        b'-1:lemma:e.'
--0.091747 O        b'+1:lemma:shake'
--0.096366 O        b'+1:lemma:5'
--0.104686 OD       b'postag:JJ'
--0.110082 O        b'+1:lemma:-rrb-'
--0.117489 Phase    b'-1:postag:NN'
--0.118330 Gtype    b'-1:postag:CD'
--0.123321 Air      b'-1:lemma:or'
--0.125308 O        b'lemma:co2'
--0.126112 Air      b'postag:CD'
--0.127371 O        b'-1:lemma:from'
--0.128004 Supp     b'lemma:and'
--0.138630 Med      b'+1:postag:IN'
--0.140700 OD       b'+1:postag:CC'
--0.141775 Med      b'-1:postag:NN'
--0.143861 O        b'lemma:grow'
--0.147202 O        b'-1:lemma:um'
--0.147202 O        b'+1:lemma:paraquat'
--0.151027 O        b'-1:postag:IN'
--0.151499 Gtype    b'-1:postag:NN'
--0.158428 Supp     b'+1:lemma:rifampicin'
--0.162488 O        b'-1:lemma:30'
--0.173747 O        b'-1:lemma:1'
--0.185340 O        b'-1:lemma:0.1'
--0.197510 O        b'lemma:anaerobic'
--0.202853 Supp     b'postag:CC'
--0.212861 O        b'-1:lemma:-lrb-'
--0.215175 O        b'-1:lemma:cra'
--0.224143 Supp     b'+1:postag:VBN'
--0.230836 O        b'-1:lemma:of'
--0.240457 O        b'lemma:aerobically'
--0.244805 O        b'+1:postag:IN'
--0.254690 Phase    b'-1:lemma:at'
--0.255175 Temp     b'postag:NN'
--0.261806 O        b'+1:postag:NNS'
--0.267878 pH       b'postag:NN'
--0.269047 O        b'postag:VBP'
--0.270124 O        b'lemma:150'
--0.270124 O        b'+1:lemma:mg/ml'
--0.276353 O        b'+1:lemma:until'
--0.286173 O        b'+1:lemma:.'
--0.286173 O        b'+1:postag:.'
--0.305770 O        b'+1:lemma:%'
--0.305965 O        b'-1:lemma:ml'
--0.324166 O        b'lemma:media'
--0.339524 O        b'lemma:phase'
--0.352773 O        b'+1:lemma:arginine'
--0.363361 O        b'lemma:\xce\xb4fur'
--0.388894 O        b'lemma:dissolve'
--0.389770 O        b'-1:postag:-LRB-'
--0.397946 O        b'-1:lemma:mid-log'
--0.420065 O        b'-1:lemma:~'
--0.440463 O        b'+1:lemma:0.3'
--0.449972 O        b'-1:lemma:od600'
--0.451810 O        b'+1:postag:-RRB-'
--0.452722 Temp     b'+1:lemma:to'
--0.452722 Temp     b'+1:postag:TO'
--0.483420 OD       b'+1:postag:NN'
--0.485997 Phase    b'-1:postag:JJ'
--0.497094 O        b'-1:lemma:0.2'
--0.501676 O        b'lemma:od600'
--0.531049 O        b'lemma:20'
--0.559644 O        b'-1:lemma:grow'
--0.580617 O        b'+1:lemma:\xc2\xb0c'
--0.620523 Technique b'-1:postag::'
--0.630289 O        b'lemma:0.3'
--0.679102 Supp     b'-1:lemma:%'
--0.685275 O        b'lemma:anaerobically'
--0.715057 OD       b'lemma:-lrb-'
--0.717401 O        b'+1:lemma:fecl2'
--0.759134 O        b'-1:lemma:37'
--0.770187 Air      b'-1:postag:JJ'
--0.786415 O        b'lemma:0.2'
--0.821217 O        b'+1:postag:VBG'
--0.822213 O        b'lemma:37'
--0.824982 O        b'+1:lemma:supplement'
--0.842762 O        b'-1:lemma:sample'
--0.857711 Supp     b'+1:lemma:acetate'
--0.859301 O        b'+1:lemma:cell'
--0.865248 O        b'lemma:fecl2'
--0.895821 OD       b'postag:-LRB-'
--0.909763 O        b'-1:postag:VBG'
--0.924925 O        b'lemma:of'
--0.938966 O        b'+1:lemma:hour'
--0.948215 O        b'lemma:2h'
--0.948215 O        b'-1:lemma:additional'
--1.035032 O        b'-1:lemma:co2'
--1.038239 O        b'-1:lemma:rpob'
--1.049551 O        b'-1:lemma:dissolve'
--1.049551 O        b'+1:lemma:methanol'
--1.057377 O        b'-1:postag::'
--1.072361 O        b'lemma:mid-log'
--1.076264 O        b'lemma:0.1'
--1.182064 O        b'+1:lemma:+'
--1.269769 O        b'+1:lemma:g/l'
--1.341512 O        b'+1:lemma:at'
--1.349849 O        b'-1:lemma:IP'
--1.412012 Air      b'+1:postag:JJ'
--1.427656 O        b'-1:lemma:ompr'
--1.459404 O        b'lemma:wt'
--1.465487 Anti     b'postag:NNP'
--1.539253 O        b'lemma:rifampicin'
--1.604435 O        b'lemma:methanol'
--1.624731 Supp     b'postag:JJ'
--1.646056 O        b'-1:lemma:nsrr'
--1.650493 Air      b'postag:NN'
--1.947720 O        b'+1:lemma:in'
--1.988778 O        b'+1:lemma:2'
--2.105490 O        b'+1:lemma:1'
--2.188210 O        b'-1:lemma:2'
--2.454354 Phase    b'postag:JJ'
--4.082146 O        b'-1:lemma::'
--4.315245 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.004866974423027767, 'c2': 0.056472219713063834}
-best CV score:0.7979749356861161
-model size: 0.13M
-
-Flat F1: 0.788756583016598
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      0.891     0.860     0.875        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.754     0.742     0.748        62
-       Anti      1.000     0.444     0.615         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.862     0.764     0.810       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.865     0.662     0.750       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.876     0.735     0.789       480
-
-
-Top likely transitions:
-OD     -> OD      5.351049
-Med    -> Med     4.871670
-Temp   -> Temp    4.705964
-Air    -> Air     4.663634
-Anti   -> Anti    4.552648
-Agit   -> Agit    4.406608
-O      -> O       4.159955
-Gversion -> Gversion 4.029197
-Phase  -> Phase   3.961410
-Gtype  -> Gtype   3.736759
-Supp   -> Supp    3.715319
-Technique -> Technique 2.638663
-pH     -> pH      2.247503
-O      -> Supp    1.602461
-Substrain -> Gtype   1.572374
-Gtype  -> Supp    1.509554
-Air    -> O       1.254615
-Technique -> Air     1.032953
-O      -> Gtype   1.031819
-O      -> Technique 0.950111
-Gtype  -> pH      0.787931
-O      -> Temp    0.697463
-O      -> Anti    0.689482
-Gtype  -> Air     0.553152
-Med    -> O       0.452122
-O      -> Strain  0.249152
-O      -> pH      0.230580
-OD     -> Phase   0.217826
-Phase  -> O       0.176822
-O      -> Vess    0.163152
-O      -> Gversion 0.124767
-Supp   -> O       0.087651
-Temp   -> O       0.034867
-Strain -> Substrain -0.000001
-Substrain -> Phase   -0.000221
-Strain -> Gversion -0.003698
-Vess   -> Technique -0.004821
-Temp   -> Substrain -0.012876
-Agit   -> Gversion -0.014323
-Temp   -> Strain  -0.014360
-Temp   -> Vess    -0.017410
-Substrain -> Med     -0.018817
-pH     -> Agit    -0.019211
-Med    -> Agit    -0.020010
-Gversion -> Agit    -0.021113
-Phase  -> Vess    -0.022758
-O      -> Phase   -0.024164
-Med    -> Strain  -0.025997
-pH     -> Phase   -0.028833
-pH     -> Anti    -0.029581
-
-
-Top unlikely transitions:
-Technique -> Med     -0.461151
-O      -> Agit    -0.476494
-Gtype  -> Temp    -0.480794
-Technique -> O       -0.518387
-Gtype  -> Phase   -0.520282
-Air    -> Temp    -0.525360
-Gversion -> Technique -0.535188
-Air    -> Gtype   -0.543291
-Anti   -> Gtype   -0.553848
-Technique -> Gversion -0.562140
-OD     -> Anti    -0.571138
-Gversion -> Air     -0.589331
-OD     -> Temp    -0.589841
-Anti   -> OD      -0.591125
-Supp   -> pH      -0.600581
-Supp   -> Phase   -0.607554
-Med    -> Air     -0.627218
-OD     -> Supp    -0.663510
-Air    -> Supp    -0.665817
-OD     -> Technique -0.667134
-Air    -> Med     -0.686105
-Gtype  -> Technique -0.710838
-Air    -> OD      -0.743300
-Technique -> Supp    -0.744356
-Phase  -> Technique -0.789682
-Temp   -> Med     -0.799451
-Supp   -> Anti    -0.809910
-Supp   -> Temp    -0.821276
-OD     -> Med     -0.825536
-Gtype  -> Gversion -0.857454
-Supp   -> OD      -0.882092
-Supp   -> Technique -0.895485
-Supp   -> Air     -0.917425
-O      -> Air     -0.919505
-Supp   -> Gversion -0.925617
-Gtype  -> Med     -0.929322
-Supp   -> Gtype   -0.987028
-OD     -> Gtype   -0.992669
-Gtype  -> Anti    -1.017609
-Agit   -> O       -1.031217
-Gtype  -> OD      -1.100242
-OD     -> O       -1.178810
-Substrain -> O       -1.224261
-OD     -> Air     -1.229479
-Supp   -> Med     -1.270572
-Technique -> OD      -1.299192
-Technique -> Gtype   -1.368938
-Technique -> pH      -1.381051
-Med    -> Supp    -1.415487
-Phase  -> OD      -1.647415
-
-
-Top positive:
-6.440045 O        b'lemma:_'
-5.284742 O        b'lemma:1'
-4.692157 Air      b'lemma:anaerobic'
-4.658957 O        b'lemma:2'
-4.619385 Technique b'lemma:ChIP-exo'
-4.561015 Strain   b'lemma:k-12'
-4.494705 Supp     b'lemma:Iron'
-4.430737 Technique b'lemma:chipseq'
-4.213284 O        b'lemma:rpob'
-4.193080 Air      b'lemma:aerobic'
-4.127725 Phase    b'lemma:stationary'
-4.112519 Supp     b'lemma:pq'
-4.107025 Supp     b'lemma:nh4cl'
-4.068762 O        b'postag:IN'
-3.990976 Supp     b'lemma:glucose'
-3.981614 O        b'lemma:3'
-3.895423 O        b'lemma:rep1'
-3.893328 Gtype    b'lemma:arca8myc'
-3.831178 Gtype    b'lemma:wt'
-3.766316 Gtype    b'lemma:flag-tag'
-3.766316 Gtype    b'-1:lemma:c-terminal'
-3.741501 Gtype    b'lemma:\xce\xb4cra'
-3.650417 Phase    b'lemma:mid-log'
-3.632631 O        b'lemma:rep2'
-3.630470 Substrain b'lemma:mg1655'
-3.547965 Gversion b'lemma:asm584v2'
-3.532543 Supp     b'lemma:acetate'
-3.517907 O        b'lemma:Cra'
-3.498084 Air      b'-1:lemma:ChIP-Seq'
-3.480891 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.424575 Supp     b'lemma:no3'
-3.422537 Supp     b'+1:lemma:\xc2\xb5m'
-3.363386 Supp     b'lemma:nitrate'
-3.346533 O        b'lemma:b'
-3.329553 O        b'-1:lemma:tag'
-3.312533 O        b'lemma:rep3'
-3.288138 O        b'postag::'
-3.274111 O        b'lemma:a'
-3.231297 Technique b'lemma:rna-seq'
-3.218715 O        b'lemma:.'
-3.218715 O        b'postag:.'
-3.215008 Gtype    b'lemma:delta-arca'
-3.202775 Supp     b'lemma:Fe'
-3.165237 Gtype    b'lemma:fnr8myc'
-3.155991 Air      b'lemma:Aerobic'
-3.133804 Supp     b'lemma:dpd'
-3.090343 Med      b'lemma:LB'
-3.073422 Technique b'lemma:chip-seq'
-3.060962 Med      b'lemma:lb'
-3.050123 O        b'postag:VBN'
-3.028391 Med      b'lemma:MOPS'
-3.017487 O        b'+1:postag:RB'
-2.979906 Anti     b'lemma:none'
-2.978981 O        b'-1:lemma:Aerobic'
-2.962117 Supp     b'lemma:fructose'
-2.953345 O        b'lemma:\xcf\x8332'
-2.890455 Anti     b'lemma:seqa'
-2.860514 O        b'-1:lemma:ChIP-exo'
-2.856286 Gtype    b'lemma:\xe2\x88\x86'
-2.827313 O        b'lemma:CEL'
-2.783360 Technique b'lemma:rnaseq'
-2.775420 Med      b'+1:lemma:0.4'
-2.774305 OD       b'lemma:od600'
-2.753373 O        b'lemma:-'
-2.742915 Supp     b'lemma:rifampicin'
-2.675772 Gtype    b'lemma:delta-fnr'
-2.630113 Supp     b'+1:lemma:1'
-2.629618 Supp     b'+1:lemma:Deficient'
-2.620392 Vess     b'lemma:flask'
-2.620392 Vess     b'-1:lemma:warm'
-2.618241 O        b'lemma:affyexp'
-2.609048 pH       b'lemma:ph5'
-2.609048 pH       b'+1:lemma:.5'
-2.605367 Temp     b'lemma:\xc2\xb0c'
-2.605338 Gtype    b'+1:lemma:type'
-2.604381 Gtype    b'lemma:\xce\xb4fur'
-2.603271 Air      b'postag:RB'
-2.594594 Gtype    b'+1:lemma:with'
-2.582369 O        b'lemma:Custom'
-2.567820 Gtype    b'lemma:type'
-2.567689 Gversion b'lemma:nc'
-2.557861 Supp     b'-1:lemma:Cra'
-2.552038 OD       b'lemma:od450'
-2.550932 Gtype    b'lemma:nsrr'
-2.550177 Gversion b'lemma:chip-seq'
-2.524549 O        b'+1:lemma:od600'
-2.502467 O        b'-1:lemma:glucose'
-2.498403 Gtype    b'lemma:wild-type'
-2.496663 Supp     b'lemma:arginine'
-2.495738 Supp     b'+1:lemma:_'
-2.483625 O        b'lemma:chip-arca'
-2.479625 O        b'lemma:with'
-2.455411 Supp     b'+1:lemma:2'
-2.454463 Gtype    b'lemma:WT'
-2.388316 O        b'-1:lemma:stpa'
-2.376289 O        b'lemma:s'
-2.368051 Phase    b'-1:lemma:mid-log'
-2.360684 Technique b'lemma:ChIP-Seq'
-2.349033 O        b'lemma:argr'
-2.347947 Strain   b'+1:lemma:substr'
-2.329446 O        b'lemma:oxyr'
-2.326483 Gversion b'lemma:u00096'
-2.326483 Gversion b'+1:lemma:.2'
-2.322186 O        b'-1:lemma:anaerobic'
-2.319676 Anti     b'lemma:anti-myc'
-2.310676 Gversion b'lemma:.2'
-2.310676 Gversion b'-1:lemma:u00096'
-2.309895 Gtype    b'lemma:\xce\xb4soxs'
-2.304666 O        b'-1:lemma:lb'
-2.286012 Gversion b'-1:lemma:nc'
-2.283995 Med      b'+1:lemma:2.0'
-2.263722 Gtype    b'-1:lemma:ptac'
-2.251060 Technique b'-1:lemma:IP'
-2.241105 O        b'postag:CC'
-2.233213 O        b'postag:SYM'
-2.228846 Air      b'lemma:Anaerobic'
-2.221020 O        b'+1:lemma:pq'
-2.217171 O        b'lemma:purr'
-2.215541 Med      b'lemma:m63'
-2.210660 Gversion b'lemma:000913'
-2.208620 Phase    b'lemma:phase'
-2.200256 Air      b'lemma:anaerobically'
-2.160285 Supp     b'lemma:nacl'
-2.159816 O        b'lemma:Lrp'
-2.146260 O        b'+1:lemma:anti-fur'
-2.142375 Gtype    b'+1:lemma:pq'
-2.137685 O        b'lemma:ompr'
-2.137493 O        b'-1:lemma:0.3-0.35'
-2.135033 pH       b'+1:postag:CD'
-2.132965 Gtype    b'+1:lemma:flagtag'
-2.132516 Air      b'-1:lemma:-'
-2.129831 O        b'lemma:or'
-2.127593 Air      b'-1:postag::'
-2.100892 Technique b'postag:NNP'
-2.095024 Air      b'-1:lemma:_'
-2.079808 Gtype    b'lemma:ptac'
-2.078817 Med      b'postag:NNP'
-2.065995 Supp     b'lemma:Leu'
-2.045237 O        b'lemma:chip'
-2.027925 Temp     b'lemma:43'
-2.022011 Gtype    b'lemma:\xce\xb4ompr'
-2.015716 Supp     b'-1:lemma:+'
-2.010073 Substrain b'+1:lemma:phtpg'
-2.008340 Temp     b'-1:lemma:37'
-2.004601 Temp     b'-1:lemma:43'
-1.996465 Gtype    b'lemma:deltaseqa'
-1.996465 Gtype    b'-1:lemma:old'
-1.991818 Anti     b'+1:lemma:antibody'
-1.986009 Gtype    b'lemma:pk4854'
-1.981713 Technique b'-1:lemma:input'
-1.981625 Med      b'+1:lemma:+'
-1.979648 Gtype    b'-1:lemma:rpob'
-1.974870 Gtype    b'-1:lemma:_'
-1.973288 O        b'lemma:chip-fnr'
-1.969889 Temp     b'+1:lemma:\xc2\xb0c'
-1.968489 O        b'-1:lemma:type'
-1.959681 Supp     b'lemma:iptg'
-1.950150 Gtype    b'+1:lemma:_'
-1.947863 Supp     b'lemma:Adenine'
-1.947687 Technique b'-1:lemma:chip-exo'
-1.941978 Anti     b'lemma:anti-rpos'
-1.937288 Med      b'-1:lemma:ml'
-1.924562 Gtype    b'+1:lemma:aerobic'
-1.924487 Phase    b'+1:lemma:for'
-1.922675 O        b'postag:DT'
-1.914419 Supp     b'+1:lemma:hour'
-1.913395 O        b'+1:lemma:43'
-1.912727 O        b'lemma:Fur'
-1.876476 O        b'lemma:genotype/variation'
-1.869806 Supp     b'-1:lemma:\xc2\xb5m'
-1.868961 O        b'+1:lemma:mid-log'
-1.867289 O        b'+1:lemma:chip-seq'
-1.863790 Supp     b'lemma:methanol'
-1.861757 Supp     b'lemma:20'
-1.857902 Supp     b'-1:lemma:with'
-1.856991 OD       b'+1:lemma:stationary'
-1.852369 Temp     b'-1:lemma:sample'
-1.848158 Gversion b'+1:lemma:000913'
-1.846987 Gtype    b'-1:lemma:nsrr'
-1.845305 O        b'lemma:for'
-1.843025 Technique b'+1:lemma:chip-exo'
-1.842623 O        b'postag:VBG'
-1.827664 Gversion b'postag:CD'
-1.820283 O        b'lemma:soxs'
-1.820283 O        b'lemma:soxr'
-1.820233 Gtype    b'+1:lemma:ph5'
-1.815561 Supp     b'+1:lemma:respiratory'
-1.810671 O        b'lemma:culture'
-1.809579 pH       b'lemma:.5'
-1.809579 pH       b'-1:lemma:ph5'
-1.802708 Gtype    b'lemma:\xce\xb4oxyr'
-1.802434 Temp     b'lemma:37'
-1.802103 Med      b'+1:lemma:minimal'
-1.788823 Gtype    b'lemma:\xce\xb4soxr'
-1.787884 Supp     b'+1:lemma:deficient'
-1.781577 O        b'lemma:at'
-1.774963 O        b'lemma:pt7'
-1.766232 Vess     b'-1:postag:VBN'
-1.758278 Gversion b'lemma:_'
-1.754083 Supp     b'+1:lemma:and'
-
-
-Top negative:
--0.165340 O        b'-1:lemma:with'
--0.170223 Phase    b'+1:postag:NN'
--0.171143 Med      b'-1:lemma:MOPS'
--0.171691 O        b'lemma:co2'
--0.172496 O        b'+1:lemma:antibody'
--0.173573 O        b'-1:lemma:control'
--0.175923 O        b'-1:postag:-LRB-'
--0.178273 O        b'+1:lemma:purify'
--0.178964 Gtype    b'+1:lemma:1'
--0.179388 O        b'lemma:medium'
--0.190175 Gtype    b'+1:lemma:-lrb-'
--0.193476 Anti     b'+1:postag:JJ'
--0.194108 O        b'+1:lemma:2.0'
--0.195669 O        b'lemma:n2'
--0.198645 O        b'-1:lemma:300'
--0.201659 O        b'-1:lemma:of'
--0.210827 O        b'lemma:aerobically'
--0.216287 O        b'+1:lemma:pahse'
--0.216954 Gtype    b'+1:lemma:2'
--0.222719 Technique b'-1:lemma::'
--0.225921 Gtype    b'lemma:rna'
--0.227807 O        b'+1:lemma:sample'
--0.229277 Gtype    b'+1:postag:NNS'
--0.232261 O        b'-1:lemma:n2'
--0.233570 Gtype    b'-1:lemma:-'
--0.237526 OD       b'+1:lemma:in'
--0.240536 Gtype    b'lemma:control'
--0.242225 Phase    b'-1:postag:NN'
--0.252367 O        b'-1:lemma:delta'
--0.255317 O        b'-1:postag:VBP'
--0.255936 O        b'-1:lemma:rna'
--0.260735 Gtype    b'postag:NNS'
--0.263059 O        b'-1:lemma:e.'
--0.265319 O        b'+1:lemma:from'
--0.273429 O        b'-1:lemma:minimal'
--0.276572 O        b'lemma:e.'
--0.276704 Gtype    b'-1:lemma:,'
--0.276704 Gtype    b'-1:postag:,'
--0.279370 O        b'postag:RB'
--0.280295 O        b'-1:lemma:grow'
--0.282926 O        b'+1:lemma:mg1655'
--0.288333 O        b'lemma:10'
--0.289288 O        b'lemma:pahse'
--0.291441 Gtype    b'+1:lemma:cra'
--0.295834 Air      b'postag:CD'
--0.300317 O        b'lemma:nacl'
--0.302273 Supp     b'+1:postag:IN'
--0.304479 O        b'lemma:30'
--0.305051 O        b'-1:lemma:purify'
--0.306221 OD       b'+1:lemma:0.4'
--0.306561 OD       b'+1:lemma:and'
--0.315073 Supp     b'lemma:and'
--0.317269 O        b'-1:lemma:0.1'
--0.320606 O        b'+1:lemma:delta'
--0.324445 O        b'+1:lemma:%'
--0.328680 O        b'+1:lemma:or'
--0.335995 Gtype    b'lemma:ompr'
--0.337994 Med      b'postag:CD'
--0.339794 O        b'+1:lemma:-lcb-'
--0.341876 O        b'+1:postag:-RRB-'
--0.348075 OD       b'+1:postag:CC'
--0.350623 O        b'+1:lemma:strain'
--0.351953 O        b'-1:lemma:mm'
--0.354366 Med      b'+1:postag:NN'
--0.359119 Gtype    b'+1:lemma:a'
--0.368580 Med      b'-1:postag:CD'
--0.369042 O        b'-1:lemma:mid-log'
--0.369832 O        b'+1:lemma:phase'
--0.374612 O        b'-1:lemma:um'
--0.374612 O        b'+1:lemma:paraquat'
--0.378047 Gtype    b'-1:postag:CD'
--0.378990 O        b'lemma:\xc2\xb0c'
--0.382063 O        b'+1:lemma:cell'
--0.383941 O        b'lemma:minimal'
--0.383980 Temp     b'postag:JJ'
--0.384553 O        b'+1:lemma:dissolve'
--0.390868 O        b'+1:lemma:until'
--0.397770 Technique b'-1:postag::'
--0.403782 O        b'+1:postag:IN'
--0.420663 Supp     b'+1:lemma:glucose'
--0.421882 O        b'-1:lemma:fresh'
--0.423208 O        b'-1:lemma:iptg'
--0.425203 O        b'lemma:8'
--0.425322 O        b'lemma:phase'
--0.426379 Gtype    b'+1:lemma:b'
--0.436102 O        b'+1:lemma:shake'
--0.441221 O        b'-1:lemma:rifampicin'
--0.444583 Air      b'-1:lemma:or'
--0.447161 Supp     b'-1:postag:VBG'
--0.448411 Med      b'+1:postag:NNS'
--0.460422 O        b'-1:lemma:affinity'
--0.461216 Supp     b'+1:postag:VBN'
--0.467958 O        b'-1:lemma:cra'
--0.469465 O        b'+1:lemma:minimal'
--0.469624 Supp     b'-1:lemma:%'
--0.477155 O        b'-1:lemma:20'
--0.479874 O        b'lemma:of'
--0.505244 O        b'lemma:glucose'
--0.508080 O        b'-1:lemma:from'
--0.508329 Phase    b'postag:JJ'
--0.519825 O        b'lemma:mg1655'
--0.520316 O        b'+1:lemma:0.4'
--0.531961 Gtype    b'lemma:_'
--0.540846 O        b'lemma:dissolve'
--0.541927 Temp     b'+1:lemma:to'
--0.541927 Temp     b'+1:postag:TO'
--0.543538 OD       b'+1:lemma:mid-log'
--0.554268 Phase    b'-1:lemma:at'
--0.567076 O        b'lemma:150'
--0.567076 O        b'+1:lemma:mg/ml'
--0.586115 O        b'+1:lemma:Aerobic'
--0.590065 OD       b'+1:postag:NN'
--0.591060 O        b'+1:lemma:b'
--0.601984 OD       b'lemma:-lrb-'
--0.602651 O        b'-1:lemma:30'
--0.610779 Gtype    b'-1:postag:SYM'
--0.611922 O        b'-1:lemma:chip-exo'
--0.624890 pH       b'postag:NN'
--0.628877 Supp     b'postag:CC'
--0.642872 O        b'lemma:lb'
--0.645246 O        b'+1:lemma:rep1'
--0.646910 O        b'+1:postag:NNS'
--0.648451 Gtype    b'-1:postag:DT'
--0.656497 O        b'+1:lemma:c'
--0.671297 Temp     b'-1:lemma:\xc2\xb0c'
--0.672555 Supp     b'+1:lemma:rifampicin'
--0.675146 Med      b'+1:postag:IN'
--0.684210 OD       b'postag:-LRB-'
--0.690268 O        b'lemma:m63'
--0.692418 O        b'lemma:purify'
--0.711910 O        b'-1:lemma:g/l'
--0.714120 O        b'+1:lemma:300'
--0.719637 O        b'+1:lemma:arginine'
--0.720246 Temp     b'postag:NN'
--0.723885 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.729214 O        b'-1:lemma:until'
--0.731048 O        b'+1:lemma:fecl2'
--0.733838 O        b'-1:lemma:1'
--0.754956 O        b'+1:lemma:\xc2\xb0c'
--0.760036 O        b'-1:lemma:od600'
--0.785671 Anti     b'+1:lemma:anti-fur'
--0.789666 OD       b'postag:JJ'
--0.822362 O        b'lemma:dpd'
--0.825176 O        b'-1:lemma:o2'
--0.856382 O        b'-1:lemma:~'
--0.858874 O        b'lemma:od600'
--0.861229 O        b'+1:lemma:0.3'
--0.867648 O        b'lemma:media'
--0.877526 O        b'+1:lemma:in'
--0.899345 O        b'+1:lemma:at'
--0.903562 Gtype    b'lemma:delta'
--0.909951 O        b'-1:lemma:0.2'
--0.924018 O        b'-1:lemma:\xe2\x88\x86'
--0.936952 Phase    b'-1:postag:JJ'
--0.937687 O        b'lemma:anaerobically'
--0.958929 O        b'lemma:0.3'
--0.977286 Air      b'-1:postag:JJ'
--0.979403 O        b'lemma:20'
--0.989887 O        b'lemma:0.1'
--1.003141 O        b'lemma:mid-log'
--1.016700 Supp     b'+1:lemma:acetate'
--1.042214 O        b'lemma:2h'
--1.042214 O        b'-1:lemma:additional'
--1.072377 O        b'+1:postag:VBG'
--1.075398 O        b'-1:lemma:dissolve'
--1.075398 O        b'+1:lemma:methanol'
--1.082645 O        b'+1:lemma:g/l'
--1.096557 O        b'lemma:anaerobic'
--1.126451 O        b'lemma:0.2'
--1.166660 O        b'lemma:\xe2\x88\x86'
--1.172209 O        b'lemma:fecl2'
--1.173636 O        b'+1:lemma:supplement'
--1.193870 O        b'-1:postag:VBG'
--1.194541 O        b'-1:lemma:ompr'
--1.232022 O        b'lemma:k-12'
--1.253980 O        b'lemma:\xce\xb4fur'
--1.288532 O        b'-1:lemma:ml'
--1.301101 O        b'postag:VBP'
--1.312157 O        b'-1:lemma:co2'
--1.347620 O        b'-1:lemma:rpob'
--1.379029 O        b'-1:postag::'
--1.416689 Supp     b'postag:JJ'
--1.422574 O        b'-1:lemma:37'
--1.454115 O        b'-1:lemma:sample'
--1.461328 O        b'lemma:37'
--1.464702 Anti     b'postag:NNP'
--1.488429 Air      b'+1:postag:JJ'
--1.542774 O        b'lemma:rifampicin'
--1.620387 O        b'-1:lemma:2'
--1.621084 O        b'lemma:wt'
--1.634867 Air      b'postag:NN'
--1.635440 O        b'-1:lemma:IP'
--1.705295 O        b'lemma:methanol'
--1.742392 O        b'+1:lemma:+'
--1.747036 O        b'-1:lemma:nsrr'
--1.856713 O        b'+1:lemma:hour'
--1.966783 O        b'+1:lemma:2'
--2.387888 O        b'+1:lemma:1'
--2.893303 O        b'-1:lemma::'
--2.945684 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.29457600411613616, 'c2': 0.0017589762043383245}
-best CV score:0.8078796055237475
-model size: 0.05M
-
-Flat F1: 0.7794612343667667
-             precision    recall  f1-score   support
-
-         OD      1.000     0.405     0.577        37
-         pH      1.000     1.000     1.000        12
-  Technique      0.952     0.909     0.930        22
-        Med      1.000     0.737     0.848        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.780     0.742     0.760        62
-       Anti      0.571     0.444     0.500         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.848     0.792     0.820       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.796     0.662     0.723       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.861     0.727     0.779       480
-
-
-Top likely transitions:
-OD     -> OD      6.390430
-Agit   -> Agit    6.117830
-Temp   -> Temp    5.690422
-Anti   -> Anti    5.526528
-Med    -> Med     5.389776
-Gtype  -> Gtype   5.136395
-Air    -> Air     4.861639
-Gversion -> Gversion 4.681583
-Technique -> Technique 4.547400
-O      -> O       4.328164
-Supp   -> Supp    4.275170
-Phase  -> Phase   3.947478
-O      -> Supp    2.168179
-Gtype  -> Supp    2.126815
-pH     -> pH      1.951624
-O      -> Technique 1.752428
-O      -> Gtype   1.686100
-Air    -> O       1.391236
-Substrain -> Gtype   0.941140
-O      -> Anti    0.799854
-Med    -> O       0.671251
-O      -> Temp    0.557904
-O      -> Gversion 0.509095
-Technique -> Air     0.285589
-Gtype  -> pH      0.187722
-Temp   -> O       0.127072
-Supp   -> O       0.081093
-O      -> OD      0.056972
-Gtype  -> Air     0.021236
-O      -> Med     0.002225
-OD     -> Phase   0.001636
-OD     -> Med     -0.056726
-Technique -> O       -0.084720
-Gtype  -> Anti    -0.290184
-Gtype  -> O       -0.349078
-Gtype  -> OD      -0.351477
-OD     -> O       -0.547705
-O      -> Air     -0.672320
-Supp   -> Med     -0.757781
-Substrain -> O       -0.945716
-Phase  -> OD      -0.974380
-Agit   -> O       -1.057441
-Med    -> Supp    -1.117202
-
-
-Top unlikely transitions:
-OD     -> OD      6.390430
-Agit   -> Agit    6.117830
-Temp   -> Temp    5.690422
-Anti   -> Anti    5.526528
-Med    -> Med     5.389776
-Gtype  -> Gtype   5.136395
-Air    -> Air     4.861639
-Gversion -> Gversion 4.681583
-Technique -> Technique 4.547400
-O      -> O       4.328164
-Supp   -> Supp    4.275170
-Phase  -> Phase   3.947478
-O      -> Supp    2.168179
-Gtype  -> Supp    2.126815
-pH     -> pH      1.951624
-O      -> Technique 1.752428
-O      -> Gtype   1.686100
-Air    -> O       1.391236
-Substrain -> Gtype   0.941140
-O      -> Anti    0.799854
-Med    -> O       0.671251
-O      -> Temp    0.557904
-O      -> Gversion 0.509095
-Technique -> Air     0.285589
-Gtype  -> pH      0.187722
-Temp   -> O       0.127072
-Supp   -> O       0.081093
-O      -> OD      0.056972
-Gtype  -> Air     0.021236
-O      -> Med     0.002225
-OD     -> Phase   0.001636
-OD     -> Med     -0.056726
-Technique -> O       -0.084720
-Gtype  -> Anti    -0.290184
-Gtype  -> O       -0.349078
-Gtype  -> OD      -0.351477
-OD     -> O       -0.547705
-O      -> Air     -0.672320
-Supp   -> Med     -0.757781
-Substrain -> O       -0.945716
-Phase  -> OD      -0.974380
-Agit   -> O       -1.057441
-Med    -> Supp    -1.117202
-
-
-Top positive:
-9.784769 O        b'lemma:_'
-8.777655 Air      b'lemma:anaerobic'
-7.930641 Air      b'lemma:aerobic'
-7.220796 Technique b'lemma:ChIP-exo'
-7.196554 O        b'lemma:1'
-7.103993 Phase    b'lemma:stationary'
-6.998968 O        b'lemma:rpob'
-6.988146 Supp     b'lemma:Iron'
-6.971195 Supp     b'lemma:nitrate'
-6.730326 Med      b'lemma:MOPS'
-6.729792 Air      b'-1:lemma:ChIP-Seq'
-6.615444 Gtype    b'lemma:type'
-6.497802 O        b'-1:lemma:ChIP-exo'
-6.115603 Strain   b'lemma:k-12'
-6.006143 Phase    b'lemma:mid-log'
-5.813042 Substrain b'lemma:mg1655'
-5.750692 Supp     b'lemma:pq'
-5.692854 O        b'postag::'
-5.640080 Gversion b'lemma:asm584v2'
-5.442313 Gtype    b'-1:lemma:\xe2\x88\x86'
-5.421944 Gversion b'lemma:nc'
-5.369011 O        b'lemma:2'
-5.323172 O        b'lemma:3'
-5.227211 O        b'lemma:Custom'
-5.221194 Supp     b'lemma:nh4cl'
-5.036519 Technique b'lemma:chipseq'
-5.002570 O        b'lemma:b'
-4.911066 Temp     b'-1:lemma:sample'
-4.803502 Gversion b'-1:lemma:nc'
-4.759594 Gtype    b'lemma:wt'
-4.756971 Air      b'lemma:Aerobic'
-4.733958 Supp     b'+1:lemma:\xc2\xb5m'
-4.696241 OD       b'lemma:od600'
-4.618934 O        b'lemma:\xcf\x8332'
-4.610324 Gtype    b'+1:lemma:type'
-4.544628 Gtype    b'lemma:\xce\xb4cra'
-4.517060 O        b'lemma:a'
-4.407754 OD       b'lemma:od450'
-4.400043 O        b'postag:IN'
-4.361805 Supp     b'lemma:no3'
-4.357088 O        b'-1:lemma:tag'
-4.352412 Gtype    b'lemma:delta-fnr'
-4.311823 O        b'lemma:Cra'
-4.167960 Gtype    b'lemma:flag-tag'
-4.167960 Gtype    b'-1:lemma:c-terminal'
-4.162564 Med      b'lemma:LB'
-4.113496 Strain   b'+1:lemma:substr'
-4.107297 Anti     b'+1:lemma:antibody'
-4.060899 Technique b'lemma:ChIP-Seq'
-4.009046 O        b'lemma:rep1'
-3.995454 Supp     b'lemma:rifampicin'
-3.963685 Technique b'lemma:rna-seq'
-3.933835 Supp     b'lemma:glucose'
-3.917748 O        b'lemma:.'
-3.917748 O        b'postag:.'
-3.845505 Supp     b'lemma:dpd'
-3.808636 O        b'lemma:rep2'
-3.774698 Gtype    b'lemma:wild-type'
-3.760833 Med      b'lemma:lb'
-3.747355 Technique b'-1:lemma:IP'
-3.703487 Air      b'postag:RB'
-3.662819 O        b'lemma:rep3'
-3.662186 Supp     b'lemma:Fe'
-3.579211 Temp     b'-1:lemma:\xcf\x8332'
-3.504088 Technique b'lemma:chip-seq'
-3.459881 Vess     b'lemma:flask'
-3.459881 Vess     b'-1:lemma:warm'
-3.395894 Supp     b'lemma:acetate'
-3.371382 O        b'+1:lemma:od600'
-3.355281 Supp     b'lemma:arginine'
-3.288615 Anti     b'lemma:seqa'
-3.267673 Gtype    b'lemma:arca8myc'
-3.257108 Gtype    b'-1:lemma:rpob'
-3.214124 Med      b'+1:lemma:0.4'
-3.198215 O        b'lemma:chip'
-3.191605 OD       b'+1:lemma:stationary'
-3.129303 pH       b'lemma:ph5'
-3.129303 pH       b'+1:lemma:.5'
-3.116874 Supp     b'-1:lemma:Cra'
-3.111015 O        b'+1:lemma:chip-seq'
-3.100779 Gtype    b'+1:lemma:with'
-3.096274 Technique b'+1:lemma:chip-exo'
-3.080007 O        b'-1:lemma:0.3-0.35'
-3.076638 Technique b'lemma:rnaseq'
-2.996028 Gtype    b'+1:lemma:ph5'
-2.989922 Anti     b'lemma:none'
-2.975187 O        b'-1:lemma:Aerobic'
-2.962110 Anti     b'lemma:anti-rpos'
-2.927775 Supp     b'+1:lemma:1'
-2.897627 Gtype    b'lemma:delta-arca'
-2.894293 Supp     b'+1:lemma:2'
-2.870010 Gtype    b'lemma:nsrr'
-2.836891 O        b'lemma:escherichia'
-2.823759 O        b'+1:lemma:pq'
-2.729622 Gtype    b'+1:lemma:pq'
-2.721450 Supp     b'lemma:fructose'
-2.715488 Supp     b'lemma:iptg'
-2.707351 Gtype    b'lemma:\xce\xb4ompr'
-2.706414 Gtype    b'lemma:fnr8myc'
-2.705613 O        b'-1:lemma:0.3'
-2.696678 O        b'-1:lemma:type'
-2.677637 O        b'-1:lemma:anaerobic'
-2.617637 Technique b'-1:lemma:chip-exo'
-2.601501 O        b'lemma:with'
-2.598938 O        b'postag:CC'
-2.589617 Gversion b'lemma:chip-seq'
-2.564844 Gtype    b'lemma:\xce\xb4fur'
-2.529911 Temp     b'-1:lemma:37'
-2.512630 Temp     b'-1:lemma:43'
-2.501323 O        b'-1:lemma:glucose'
-2.465702 Supp     b'-1:lemma:+'
-2.437465 Gversion b'lemma:u00096'
-2.437465 Gversion b'+1:lemma:.2'
-2.390733 O        b'lemma:-'
-2.390656 O        b'lemma:oxyr'
-2.389452 Gtype    b'lemma:WT'
-2.388101 O        b'+1:postag:RB'
-2.371844 Gtype    b'lemma:\xe2\x88\x86'
-2.368954 Gversion b'lemma:000913'
-2.357589 pH       b'lemma:.5'
-2.357589 pH       b'-1:lemma:ph5'
-2.347080 Med      b'lemma:m63'
-2.341653 Med      b'+1:lemma:minimal'
-2.312104 Temp     b'lemma:43'
-2.303920 Supp     b'lemma:Leu'
-2.303021 Anti     b'lemma:anti-myc'
-2.298956 Gtype    b'lemma:pk4854'
-2.289285 Med      b'lemma:glucose'
-2.270819 O        b'+1:postag:NNP'
-2.250795 Air      b'lemma:anaerobically'
-2.249574 Gtype    b'postag:-RRB-'
-2.245776 Gversion b'lemma:.2'
-2.245776 Gversion b'-1:lemma:u00096'
-2.239995 Air      b'-1:lemma:co2'
-2.227457 Supp     b'lemma:20'
-2.212330 Supp     b'+1:lemma:hour'
-2.212247 Temp     b'-1:lemma:30'
-2.173944 Supp     b'lemma:nacl'
-2.172282 O        b'+1:lemma:sparging'
-2.129033 O        b'lemma:s'
-2.126416 Phase    b'-1:lemma:mid-log'
-2.125863 Supp     b'+1:lemma:_'
-2.114093 Med      b'+1:lemma:2.0'
-2.111768 Med      b'-1:lemma:glucose'
-2.073983 Gtype    b'+1:lemma:flagtag'
-2.071701 O        b'-1:lemma:lb'
-2.052281 Med      b'-1:lemma:ml'
-2.050869 Gtype    b'-1:lemma:nsrr'
-1.973985 O        b'postag:VBN'
-1.966483 Med      b'lemma:L'
-1.966483 Med      b'+1:lemma:broth'
-1.943849 Med      b'lemma:broth'
-1.943849 Med      b'-1:lemma:L'
-1.943198 Supp     b'-1:lemma:with'
-1.933549 Supp     b'lemma:Adenine'
-1.928306 O        b'lemma:CEL'
-1.904039 Supp     b'-1:lemma:\xc2\xb5m'
-1.854835 Med      b'lemma:media'
-1.849121 O        b'lemma:at'
-1.846853 Phase    b'-1:lemma:until'
-1.845040 OD       b'lemma:phase'
-1.843752 Supp     b'+1:lemma:Deficient'
-1.834795 Gtype    b'+1:lemma:_'
-1.832489 O        b'-1:lemma:\xc2\xb0c'
-1.818739 O        b'lemma:chip-arca'
-1.813945 OD       b'lemma:0.3'
-1.805051 O        b'+1:lemma:o.d.'
-1.797440 Temp     b'lemma:37'
-1.792631 Vess     b'-1:postag:VBN'
-1.776920 Technique b'-1:lemma:_'
-1.773247 OD       b'+1:lemma:phase'
-1.762789 Temp     b'lemma:\xc2\xb0c'
-1.761249 Technique b'+1:lemma:rna-seq'
-1.758774 Gtype    b'-1:postag::'
-1.752571 O        b'lemma:or'
-1.747526 O        b'-1:lemma:l1'
-1.747292 Supp     b'lemma:of'
-1.740326 Temp     b'+1:lemma:\xc2\xb0c'
-1.701975 O        b'lemma:ompr'
-1.696253 O        b'lemma:c-terminal'
-1.696253 O        b'+1:lemma:flag-tag'
-1.690400 Med      b'+1:lemma:supplement'
-1.689524 pH       b'+1:postag:CD'
-1.687584 O        b'+1:lemma:nacl'
-1.685346 O        b'+1:lemma:acetate'
-1.674079 O        b'-1:lemma:dpd'
-1.668207 Gtype    b'-1:lemma:_'
-1.667206 Temp     b'+1:lemma:in'
-1.666468 Supp     b'lemma:methanol'
-1.660722 Air      b'-1:lemma:-'
-1.655979 Gtype    b'-1:lemma:vector'
-1.642097 O        b'lemma:culture'
-1.641394 Med      b'-1:lemma:LB'
-1.639030 Phase    b'+1:lemma:for'
-1.635194 OD       b'-1:lemma:about'
-1.632144 Gtype    b'lemma:\xce\xb4soxs'
-1.622571 O        b'-1:lemma:media'
-1.574984 Gversion b'postag:CD'
-1.574818 O        b'lemma:soxs'
-1.574818 O        b'lemma:soxr'
-
-
-Top negative:
-0.012428 O        b'lemma:build'
-0.011706 OD       b'-1:postag:JJ'
-0.010758 O        b'-1:lemma:m63'
-0.010555 Temp     b'+1:lemma:rep1'
-0.009338 O        b'-1:lemma:\xce\xbcm'
-0.009111 OD       b'lemma:of'
-0.008729 O        b'lemma:~'
-0.008132 Gtype    b'lemma:cra-8myc-tagged'
-0.008132 Gtype    b'lemma:fur-8myc'
-0.007873 Air      b'-1:lemma:95'
-0.005830 OD       b'+1:postag:-RRB-'
-0.005750 Air      b'lemma:-lrb-'
-0.005529 Phase    b'-1:postag::'
-0.005242 Gtype    b'+1:postag:CD'
-0.004042 Substrain b'isUpper'
-0.003852 O        b'-1:lemma:5'
-0.003021 O        b'+1:lemma:use'
-0.003019 Air      b'postag:CC'
-0.002663 Air      b'postag:-LRB-'
-0.002334 O        b'+1:lemma:ml'
-0.001862 O        b'-1:lemma:pq'
-0.000956 O        b'lemma:short'
-0.000945 O        b'+1:postag:SYM'
-0.000941 Med      b'-1:postag::'
-0.000813 O        b'+1:lemma:mm'
-0.000791 Supp     b'lemma:\xc2\xb5l'
-0.000791 Supp     b'+1:lemma:cm20'
-0.000762 O        b'-1:lemma:k-12'
-0.000330 Supp     b'+1:postag:RB'
-0.000321 O        b'+1:lemma:rnase'
-0.000279 OD       b'postag:CC'
-0.000211 Gtype    b'+1:lemma:-lcb-'
-0.000154 Med      b'postag:NN'
-0.000123 Supp     b'-1:lemma:1mm'
-0.000066 O        b'-1:lemma:respiratory'
-0.000047 O        b'postag:VB'
-0.000031 O        b'+1:postag:JJ'
-0.000022 O        b'+1:postag:FW'
-0.000021 Phase    b'postag:VBG'
-0.000014 Temp     b'-1:postag:NNS'
-0.000012 O        b'-1:lemma:genotype/variation'
-0.000011 Phase    b'lemma:grow'
-0.000009 O        b'+1:lemma:genbank'
-0.000009 O        b'postag:FW'
-0.000006 Gtype    b'lemma:knock-out'
-0.000005 O        b'lemma:ip'
-0.000005 Gtype    b'+1:lemma:strain'
-0.000001 O        b'+1:lemma:ph5'
-0.000000 Phase    b'-1:lemma::'
--0.000002 O        b'-1:lemma:from'
--0.000009 O        b'-1:lemma:rifampicin'
--0.000018 O        b'+1:lemma:95'
--0.000109 O        b'-1:lemma:um'
--0.000109 O        b'+1:lemma:paraquat'
--0.000363 Agit     b'-1:postag:NN'
--0.000429 O        b'+1:lemma:+'
--0.000494 O        b'-1:lemma:iptg'
--0.000617 Supp     b'postag:CD'
--0.000722 O        b'lemma:150'
--0.000722 O        b'+1:lemma:mg/ml'
--0.000846 O        b'lemma:grow'
--0.001402 Air      b'-1:lemma:or'
--0.001659 O        b'-1:lemma:to'
--0.001659 O        b'-1:postag:TO'
--0.001932 Gtype    b'+1:lemma:-lrb-'
--0.002534 O        b'+1:lemma:until'
--0.004418 Phase    b'-1:postag:NN'
--0.004820 O        b'+1:lemma:rep1'
--0.005823 Gtype    b'-1:postag:NNP'
--0.006241 O        b'+1:lemma:300'
--0.006734 Air      b'lemma:,'
--0.006734 Air      b'postag:,'
--0.008040 Air      b'-1:lemma:25'
--0.010122 O        b'+1:lemma:-rrb-'
--0.010159 O        b'-1:lemma:-lrb-'
--0.012456 Supp     b'-1:postag:NN'
--0.013973 OD       b'postag:JJ'
--0.014420 OD       b'isUpper'
--0.015511 OD       b'+1:postag:CD'
--0.022697 Air      b'+1:postag:-RRB-'
--0.022913 O        b'-1:lemma:30'
--0.023313 OD       b'+1:postag:-LRB-'
--0.023317 Air      b'-1:postag:RB'
--0.024110 O        b'-1:lemma:,'
--0.024110 O        b'-1:postag:,'
--0.024675 O        b'+1:lemma:hour'
--0.025573 O        b'-1:lemma:of'
--0.028769 Air      b'-1:postag:-LRB-'
--0.030732 Anti     b'+1:postag:JJ'
--0.030900 Air      b'-1:lemma:and'
--0.032775 Med      b'postag:CD'
--0.033408 O        b'-1:postag:JJ'
--0.041591 Air      b'lemma:95'
--0.044656 Air      b'-1:lemma:-lrb-'
--0.060308 O        b'-1:lemma:o2'
--0.063061 O        b'-1:lemma:rpob'
--0.066181 O        b'-1:postag:VBN'
--0.069187 Med      b'-1:postag:CD'
--0.069620 O        b'lemma:and'
--0.080450 Gtype    b'-1:postag:CD'
--0.085466 O        b'+1:lemma:c'
--0.087314 O        b'+1:lemma:5'
--0.091477 O        b'+1:lemma:shake'
--0.095092 Med      b'+1:postag:IN'
--0.102952 Air      b'+1:lemma:-lrb-'
--0.103900 Supp     b'-1:postag:NNP'
--0.104806 Air      b'-1:postag:CC'
--0.130716 Phase    b'-1:postag:JJ'
--0.144760 O        b'lemma:20'
--0.147668 O        b'+1:lemma:phase'
--0.151840 Supp     b'+1:lemma:rifampicin'
--0.155431 O        b'lemma:medium'
--0.157846 Agit     b'isUpper'
--0.162132 O        b'-1:lemma:ml'
--0.163703 Air      b'+1:postag:-LRB-'
--0.168213 Agit     b'postag:NN'
--0.197124 Temp     b'postag:JJ'
--0.199293 Med      b'-1:postag:IN'
--0.201861 O        b'lemma:fecl2'
--0.233445 Air      b'isLower'
--0.243970 O        b'-1:lemma:the'
--0.256444 Air      b'-1:postag:JJ'
--0.259109 O        b'-1:lemma:~'
--0.278225 O        b'+1:lemma:%'
--0.280267 Temp     b'+1:lemma:to'
--0.280267 Temp     b'+1:postag:TO'
--0.288621 Supp     b'+1:postag:VBN'
--0.292707 O        b'+1:lemma:cell'
--0.315187 O        b'lemma:od600'
--0.355514 Phase    b'-1:lemma:at'
--0.357298 O        b'lemma:0.1'
--0.357570 O        b'lemma:glucose'
--0.360899 Temp     b'isLower'
--0.411019 O        b'lemma:anaerobically'
--0.420592 O        b'lemma:dissolve'
--0.443294 O        b'lemma:0.2'
--0.451505 Technique b'isNumber'
--0.453164 pH       b'postag:NN'
--0.453934 O        b'-1:lemma:37'
--0.477659 Med      b'+1:postag:NN'
--0.482028 Supp     b'isUpper'
--0.486122 Supp     b'+1:lemma:acetate'
--0.490659 O        b'+1:postag:IN'
--0.492086 O        b'-1:lemma:cra'
--0.499001 O        b'+1:lemma:fecl2'
--0.542612 O        b'-1:lemma:od600'
--0.556265 Supp     b'-1:lemma:%'
--0.559133 O        b'-1:postag:IN'
--0.563772 O        b'-1:postag:-LRB-'
--0.590111 Technique b'-1:postag::'
--0.595480 O        b'+1:postag:NNS'
--0.600550 O        b'postag:RB'
--0.603193 O        b'+1:postag:-RRB-'
--0.608705 OD       b'+1:postag:NN'
--0.619170 O        b'+1:lemma:.'
--0.619170 O        b'+1:postag:.'
--0.631410 Temp     b'postag:NN'
--0.680972 OD       b'lemma:-lrb-'
--0.692074 O        b'lemma:phase'
--0.696523 O        b'+1:lemma:g/l'
--0.703554 Med      b'-1:postag:NN'
--0.722638 O        b'-1:lemma:co2'
--0.737448 O        b'lemma:37'
--0.793378 O        b'-1:lemma:IP'
--0.881901 O        b'-1:lemma:grow'
--0.936753 O        b'lemma:2h'
--0.936753 O        b'-1:lemma:additional'
--0.951203 O        b'-1:lemma:ompr'
--0.961075 OD       b'isNumber'
--0.975747 O        b'lemma:media'
--0.999574 O        b'lemma:mid-log'
--1.013924 O        b'-1:lemma:dissolve'
--1.013924 O        b'+1:lemma:methanol'
--1.038456 O        b'+1:postag:VBG'
--1.044424 Gtype    b'isLower'
--1.054187 Anti     b'postag:NNP'
--1.055980 Air      b'+1:postag:JJ'
--1.097851 O        b'-1:postag::'
--1.150472 Gtype    b'isUpper'
--1.157093 O        b'-1:postag:VBG'
--1.186007 O        b'lemma:wt'
--1.252971 O        b'+1:lemma:supplement'
--1.282305 Gversion b'isLower'
--1.308302 Technique b'isLower'
--1.325280 O        b'+1:lemma:in'
--1.418383 O        b'-1:lemma:nsrr'
--1.424917 O        b'+1:lemma:at'
--1.469077 O        b'lemma:methanol'
--1.485871 OD       b'postag:-LRB-'
--1.502986 Air      b'postag:NN'
--1.512421 O        b'lemma:of'
--1.560223 Phase    b'postag:JJ'
--1.560628 O        b'lemma:rifampicin'
--1.895357 Supp     b'postag:JJ'
--1.938119 O        b'+1:lemma:2'
--2.020790 O        b'-1:lemma:2'
--2.056482 Gtype    b'isNumber'
--2.518371 O        b'+1:lemma:1'
--3.915561 O        b'-1:lemma::'
--4.466114 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.3717925853055416, 'c2': 0.017924580629424793}
-best CV score:0.8125475599052483
-model size: 0.07M
-
-Flat F1: 0.8015576085711513
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.891     0.860     0.875        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.783     0.758     0.770        62
-       Anti      0.857     0.667     0.750         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.897     0.821     0.857       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.857     0.662     0.747       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.868     0.754     0.802       480
-
-
-Top likely transitions:
-Agit   -> Agit    6.913143
-OD     -> OD      6.546357
-Temp   -> Temp    5.712726
-Med    -> Med     5.305596
-Anti   -> Anti    5.023718
-Supp   -> Supp    4.631165
-Phase  -> Phase   4.500208
-Gtype  -> Gtype   4.293158
-Air    -> Air     4.246276
-Gversion -> Gversion 4.168987
-O      -> O       3.925497
-Technique -> Technique 3.566379
-pH     -> pH      2.052884
-O      -> Supp    1.936178
-Gtype  -> Supp    1.326152
-Air    -> O       1.051292
-O      -> Technique 0.918460
-O      -> Gtype   0.855955
-O      -> Anti    0.549728
-Med    -> O       0.455808
-Phase  -> O       0.391302
-O      -> Temp    0.389367
-OD     -> Phase   0.349412
-Supp   -> O       0.327410
-Substrain -> Gtype   0.326440
-Temp   -> O       0.267368
-O      -> Med     0.077179
-O      -> Phase   0.028994
-O      -> Gversion 0.026775
-Technique -> pH      -0.006596
-Air    -> Temp    -0.006647
-Phase  -> OD      -0.020087
-Gtype  -> Anti    -0.153729
-Supp   -> Gtype   -0.163416
-Gtype  -> OD      -0.192090
-Supp   -> Med     -0.235685
-OD     -> O       -0.243341
-Med    -> Supp    -0.274565
-Agit   -> O       -0.322550
-Gtype  -> O       -0.369110
-OD     -> Air     -0.568717
-O      -> Air     -0.731642
-Technique -> O       -0.757868
-Substrain -> O       -0.822866
-
-
-Top unlikely transitions:
-Agit   -> Agit    6.913143
-OD     -> OD      6.546357
-Temp   -> Temp    5.712726
-Med    -> Med     5.305596
-Anti   -> Anti    5.023718
-Supp   -> Supp    4.631165
-Phase  -> Phase   4.500208
-Gtype  -> Gtype   4.293158
-Air    -> Air     4.246276
-Gversion -> Gversion 4.168987
-O      -> O       3.925497
-Technique -> Technique 3.566379
-pH     -> pH      2.052884
-O      -> Supp    1.936178
-Gtype  -> Supp    1.326152
-Air    -> O       1.051292
-O      -> Technique 0.918460
-O      -> Gtype   0.855955
-O      -> Anti    0.549728
-Med    -> O       0.455808
-Phase  -> O       0.391302
-O      -> Temp    0.389367
-OD     -> Phase   0.349412
-Supp   -> O       0.327410
-Substrain -> Gtype   0.326440
-Temp   -> O       0.267368
-O      -> Med     0.077179
-O      -> Phase   0.028994
-O      -> Gversion 0.026775
-Technique -> pH      -0.006596
-Air    -> Temp    -0.006647
-Phase  -> OD      -0.020087
-Gtype  -> Anti    -0.153729
-Supp   -> Gtype   -0.163416
-Gtype  -> OD      -0.192090
-Supp   -> Med     -0.235685
-OD     -> O       -0.243341
-Med    -> Supp    -0.274565
-Agit   -> O       -0.322550
-Gtype  -> O       -0.369110
-OD     -> Air     -0.568717
-O      -> Air     -0.731642
-Technique -> O       -0.757868
-Substrain -> O       -0.822866
-
-
-Top positive:
-7.111444 Technique b'lemma[:2]:Ch'
-4.825937 O        b'lemma[:2]:re'
-4.279457 Air      b'lemma:anaerobic'
-3.725935 O        b'lemma[:2]:ge'
-3.543228 O        b'lemma:1'
-3.543228 O        b'lemma[:2]:1'
-3.524472 OD       b'lemma[:2]:od'
-3.478950 Phase    b'lemma:stationary'
-3.469718 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.448630 Gtype    b'lemma:arca8myc'
-3.428352 Air      b'-1:lemma:ChIP-Seq'
-3.363763 Air      b'lemma:aerobic'
-3.207046 O        b'lemma:rpob'
-3.019693 Supp     b'lemma:Iron'
-3.019693 Supp     b'lemma[:2]:Ir'
-3.010875 O        b'-1:lemma:ChIP-exo'
-2.921711 Supp     b'+1:lemma:\xc2\xb5m'
-2.911305 Gtype    b'lemma[:1]:\xce\xb4'
-2.889155 O        b'-1:lemma:tag'
-2.855933 O        b'lemma:with'
-2.855646 Med      b'lemma[:1]:L'
-2.846749 Technique b'lemma:chipseq'
-2.827870 O        b'lemma:2'
-2.827870 O        b'lemma[:2]:2'
-2.817912 Air      b'lemma[:2]:ae'
-2.797895 Substrain b'lemma:mg1655'
-2.792078 Phase    b'lemma:mid-log'
-2.745493 Supp     b'+1:lemma:1'
-2.729132 Technique b'lemma[:2]:rn'
-2.682269 O        b'lemma:3'
-2.682269 O        b'lemma[:2]:3'
-2.657675 Gtype    b'lemma:type'
-2.657675 Gtype    b'lemma[:2]:ty'
-2.623761 Med      b'+1:lemma:0.4'
-2.580684 Gtype    b'lemma[:2]:cr'
-2.579976 O        b'lemma:_'
-2.579976 O        b'lemma[:1]:_'
-2.579976 O        b'lemma[:2]:_'
-2.569904 O        b'+1:lemma:od600'
-2.544048 Gtype    b'lemma[:2]:de'
-2.507607 Temp     b'-1:lemma:sample'
-2.491621 Supp     b'lemma:nitrate'
-2.491621 Supp     b'lemma[:2]:ni'
-2.487340 Gtype    b'lemma:flag-tag'
-2.487340 Gtype    b'-1:lemma:c-terminal'
-2.476917 Supp     b'lemma:arginine'
-2.470339 Anti     b'+1:lemma:antibody'
-2.468809 Gtype    b'lemma[:2]:fl'
-2.457061 Air      b'lemma[:2]:an'
-2.401035 Gversion b'lemma:nc'
-2.401035 Gversion b'lemma[:2]:nc'
-2.380072 O        b'-1:lemma:0.3-0.35'
-2.346761 O        b'+1:lemma:pq'
-2.337210 Supp     b'+1:lemma:2'
-2.311094 Gversion b'-1:lemma:nc'
-2.292513 Gtype    b'+1:lemma::'
-2.281017 Med      b'lemma:MOPS'
-2.281017 Med      b'lemma[:1]:M'
-2.281017 Med      b'lemma[:2]:MO'
-2.204715 Substrain b'lemma[:2]:mg'
-2.199859 O        b'lemma:0.4'
-2.194544 Gversion b'lemma[:2]:00'
-2.169851 Temp     b'-1:lemma:\xcf\x8332'
-2.168672 Gtype    b'lemma:fnr8myc'
-2.159299 Air      b'-1:lemma:co2'
-2.156668 Strain   b'lemma:k-12'
-2.156668 Strain   b'lemma[:2]:k-'
-2.155314 O        b'-1:lemma:Aerobic'
-2.138255 Supp     b'-1:lemma:Cra'
-2.135365 Anti     b'lemma[:2]:an'
-2.117472 pH       b'lemma:ph5'
-2.117472 pH       b'+1:lemma:.5'
-2.108610 Temp     b'lemma[:1]:3'
-2.107391 Air      b'lemma[:1]:A'
-2.102650 Supp     b'lemma:pq'
-2.102650 Supp     b'lemma[:2]:pq'
-2.096866 Air      b'-1:lemma:-'
-2.086323 Supp     b'lemma[:2]:gl'
-2.074272 O        b'-1:lemma:anaerobic'
-2.064241 Gtype    b'lemma:nsrr'
-2.064241 Gtype    b'lemma[:2]:ns'
-2.029654 O        b'lemma:b'
-2.029654 O        b'lemma[:2]:b'
-2.016572 Gtype    b'lemma[:1]:W'
-1.998951 Technique b'lemma[:2]:ch'
-1.998131 O        b'lemma:a'
-1.998131 O        b'lemma[:2]:a'
-1.968766 Gtype    b'-1:lemma:rpob'
-1.962195 Gtype    b'hGreek'
-1.961034 Med      b'lemma:lb'
-1.961034 Med      b'lemma[:2]:lb'
-1.938806 Gtype    b'lemma[:2]:ar'
-1.930507 OD       b'+1:lemma:stationary'
-1.923810 Gversion b'lemma:chip-seq'
-1.891990 O        b'-1:lemma:0.3'
-1.889150 Strain   b'+1:lemma:substr'
-1.888844 Technique b'lemma[:1]:C'
-1.884878 Gtype    b'+1:lemma:flagtag'
-1.882512 O        b'postag::'
-1.882512 O        b'postag[:1]::'
-1.882512 O        b'postag[:2]::'
-1.856991 O        b'+1:postag:RB'
-1.851608 O        b'postag:IN'
-1.851608 O        b'postag[:1]:I'
-1.851608 O        b'postag[:2]:IN'
-1.840138 Supp     b'-1:lemma:with'
-1.839774 Supp     b'lemma[:1]:\xc2\xb5'
-1.822500 Gtype    b'+1:lemma:type'
-1.816568 O        b'lemma[:1]:C'
-1.815184 Gversion b'lemma:asm584v2'
-1.805652 Gversion b'lemma[:2]:as'
-1.792629 O        b'+1:postag:NNP'
-1.791305 Supp     b'lemma:fructose'
-1.786544 O        b'-1:lemma:type'
-1.762437 Supp     b'+1:lemma:_'
-1.759820 O        b'-1:lemma:lb'
-1.756744 O        b'-1:lemma:glucose'
-1.754105 Vess     b'lemma:flask'
-1.754105 Vess     b'-1:lemma:warm'
-1.750186 O        b'lemma:Custom'
-1.750186 O        b'lemma[:2]:Cu'
-1.745341 Strain   b'lemma[:1]:k'
-1.739577 Vess     b'lemma[:2]:fl'
-1.726669 Supp     b'lemma:rifampicin'
-1.707436 Supp     b'lemma[:2]:ri'
-1.707207 Gtype    b'+1:lemma:with'
-1.696113 O        b'lemma[:1]:-'
-1.692259 Air      b'lemma[:1]:a'
-1.639949 Air      b'lemma:Aerobic'
-1.639949 Air      b'lemma[:2]:Ae'
-1.635409 O        b'postag:CC'
-1.635409 O        b'postag[:2]:CC'
-1.628056 Med      b'+1:lemma:g/l'
-1.615358 Technique b'symb'
-1.610565 Supp     b'lemma[:1]:1'
-1.597091 pH       b'+1:postag:CD'
-1.589795 O        b'lemma:\xcf\x8332'
-1.589795 O        b'lemma[:1]:\xcf\x83'
-1.589795 O        b'lemma[:2]:\xcf\x833'
-1.563036 O        b'-1:lemma:l1'
-1.532125 Supp     b'lemma:acetate'
-1.523450 Supp     b'lemma[:1]:I'
-1.498488 O        b'+1:lemma:nacl'
-1.484546 Supp     b'lemma:no3'
-1.474134 Gtype    b'-1:lemma:_'
-1.462775 Technique b'-1:lemma:input'
-1.457922 O        b'+1:lemma:ph5'
-1.445969 Gtype    b'-1:postag:VBG'
-1.435822 Gtype    b'+1:lemma:_'
-1.434655 Supp     b'lemma:Fe'
-1.434655 Supp     b'lemma[:2]:Fe'
-1.433511 Gtype    b'-1:lemma:vector'
-1.429069 Supp     b'-1:postag:CD'
-1.428528 Gtype    b'lemma[:1]:w'
-1.424222 pH       b'lemma:.5'
-1.424222 pH       b'-1:lemma:ph5'
-1.424222 pH       b'lemma[:2]:.5'
-1.422747 Med      b'+1:lemma:2.0'
-1.408132 Supp     b'+1:lemma:hour'
-1.397778 O        b'lemma:.'
-1.397778 O        b'postag:.'
-1.397778 O        b'postag[:1]:.'
-1.397778 O        b'postag[:2]:.'
-1.397778 O        b'lemma[:2]:.'
-1.381316 Gtype    b'lemma:wt'
-1.381316 Gtype    b'lemma[:2]:wt'
-1.377815 Temp     b'lemma:43'
-1.377815 Temp     b'lemma[:2]:43'
-1.377716 Air      b'+1:postag:IN'
-1.372036 Med      b'+1:postag:-LRB-'
-1.371743 Med      b'+1:lemma:-lrb-'
-1.357313 Anti     b'lemma:none'
-1.356053 Temp     b'-1:lemma:43'
-1.355054 Supp     b'lemma[:2]:fr'
-1.352442 Gversion b'+1:lemma:000913'
-1.348258 O        b'-1:lemma:\xc2\xb0c'
-1.339531 Supp     b'-1:postag:SYM'
-1.337456 O        b'lemma:delta'
-1.335121 Supp     b'lemma[:2]:ac'
-1.330202 O        b'+1:lemma:mid-log'
-1.317551 Supp     b'-1:postag:CC'
-1.312876 OD       b'lemma:od600'
-1.304321 O        b'lemma[:1]:s'
-1.301244 Technique b'+1:lemma:chip-exo'
-1.288165 Supp     b'lemma[:1]:2'
-1.287921 Phase    b'+1:lemma:-lrb-'
-1.287384 Temp     b'-1:lemma:37'
-1.287206 Supp     b'lemma:nh4cl'
-1.287206 Supp     b'lemma[:2]:nh'
-1.285698 Supp     b'lemma[:2]:0.'
-1.283844 Supp     b'lemma[:2]:fe'
-1.280443 Med      b'+1:lemma:supplement'
-1.280143 Gtype    b'lemma[:1]:t'
-1.278668 Phase    b'+1:postag:-LRB-'
-1.258754 Technique b'-1:lemma:1'
-1.258397 Med      b'+1:lemma:minimal'
-1.256238 Med      b'lemma[:1]:m'
-1.247668 OD       b'lemma[:1]:o'
-1.247204 Gversion b'lemma:u00096'
-1.247204 Gversion b'+1:lemma:.2'
-
-
-Top negative:
--0.000006 O        b'lemma[:1]:f'
--0.000014 Temp     b'postag:NN'
--0.000014 O        b'lemma[:1]:4'
--0.000077 O        b'-1:postag:JJ'
--0.000104 O        b'lemma:\xe2\x88\x86'
--0.000104 O        b'lemma[:1]:\xe2\x88\x86'
--0.000104 O        b'lemma[:2]:\xe2\x88\x86'
--0.000117 O        b'-1:lemma:to'
--0.000117 O        b'-1:postag:TO'
--0.000139 Gtype    b'lemma[:1]:-'
--0.000165 O        b'-1:lemma:rifampicin'
--0.000244 Air      b'postag:-RRB-'
--0.000244 Air      b'postag[:2]:-R'
--0.000244 Air      b'lemma[:2]:-r'
--0.000251 O        b'+1:lemma:n2'
--0.000490 O        b'-1:lemma:\xe2\x88\x86'
--0.000570 OD       b'+1:postag:NNS'
--0.001255 Supp     b'postag[:1]:N'
--0.001255 Supp     b'postag[:2]:NN'
--0.001277 O        b'lemma[:2]:an'
--0.001620 Supp     b'+1:postag:IN'
--0.001834 O        b'-1:lemma:mid-log'
--0.004139 Air      b'lemma[:2]:25'
--0.004380 O        b'postag:VBP'
--0.004418 O        b'+1:lemma:phase'
--0.004475 Gtype    b'+1:lemma:-rrb-'
--0.004892 O        b'lemma:phase'
--0.005013 Anti     b'postag[:1]:N'
--0.005013 Anti     b'postag[:2]:NN'
--0.005037 O        b'lemma[:2]:ph'
--0.005405 Air      b'lemma:-lrb-'
--0.005662 O        b'-1:lemma:of'
--0.006882 O        b'lemma:media'
--0.007168 Gtype    b'lemma[:1]:g'
--0.007303 Air      b'postag:-LRB-'
--0.007303 Air      b'postag[:2]:-L'
--0.007303 Air      b'lemma[:2]:-l'
--0.007834 Air      b'+1:lemma:and'
--0.008160 Air      b'lemma:25'
--0.008761 OD       b'postag[:1]:C'
--0.010588 OD       b'postag:CD'
--0.010588 OD       b'postag[:2]:CD'
--0.012329 Phase    b'-1:lemma:at'
--0.013171 Med      b'postag[:1]:C'
--0.013817 Air      b'+1:lemma:until'
--0.016734 OD       b'postag[:1]:N'
--0.016734 OD       b'postag[:2]:NN'
--0.018208 Air      b'lemma[:1]:n'
--0.022588 Supp     b'hUpper'
--0.022588 Supp     b'hLower'
--0.023822 Air      b'postag[:1]:C'
--0.024287 O        b'symb'
--0.025967 Med      b'lemma[:1]:c'
--0.026538 Air      b'-1:postag:-LRB-'
--0.031765 Technique b'postag[:1]:N'
--0.031765 Technique b'postag[:2]:NN'
--0.032068 Supp     b'lemma[:2]:mi'
--0.037401 Air      b'lemma[:1]:o'
--0.040028 Med      b'postag:NN'
--0.043803 Air      b'+1:lemma:-lrb-'
--0.044062 OD       b'+1:postag:CD'
--0.044602 Supp     b'-1:lemma:%'
--0.044731 Air      b'+1:postag:-LRB-'
--0.046035 OD       b'postag:JJ'
--0.046795 Air      b'-1:lemma:-lrb-'
--0.048808 OD       b'postag[:1]:J'
--0.048808 OD       b'postag[:2]:JJ'
--0.049349 O        b'+1:lemma:rep1'
--0.050801 Supp     b'postag:CD'
--0.050801 Supp     b'postag[:2]:CD'
--0.056455 O        b'+1:lemma:0.3'
--0.057472 O        b'-1:lemma:from'
--0.066677 O        b'lemma:dissolve'
--0.071601 Supp     b'lemma[:1]:o'
--0.072755 O        b'lemma[:1]:k'
--0.073873 O        b'lemma:150'
--0.073873 O        b'+1:lemma:mg/ml'
--0.073873 O        b'lemma[:2]:15'
--0.076685 O        b'-1:lemma:ml'
--0.076846 O        b'lemma[:2]:gl'
--0.077209 O        b'-1:lemma:od600'
--0.083778 O        b'+1:lemma:300'
--0.087471 Air      b'symb'
--0.091928 Supp     b'+1:postag:VBN'
--0.092333 Air      b'postag:CC'
--0.092333 Air      b'postag[:2]:CC'
--0.092993 O        b'+1:lemma:%'
--0.100219 Supp     b'+1:lemma:rifampicin'
--0.100582 O        b'lemma:0.1'
--0.102695 O        b'-1:lemma:-lrb-'
--0.109000 Air      b'-1:lemma:or'
--0.111199 Supp     b'lemma[:2]:an'
--0.112020 Air      b'-1:postag:CC'
--0.113367 O        b'+1:lemma:shake'
--0.119111 Anti     b'+1:lemma:anti-fur'
--0.124927 O        b'+1:lemma:+'
--0.125975 O        b'-1:postag:VBN'
--0.128619 O        b'-1:lemma:ompr'
--0.137106 Gtype    b'-1:lemma:,'
--0.137106 Gtype    b'-1:postag:,'
--0.145475 Gtype    b'lemma[:1]:n'
--0.150071 O        b'lemma[:1]:d'
--0.151088 Anti     b'symb'
--0.158504 Air      b'+1:postag:JJ'
--0.162749 O        b'-1:lemma:37'
--0.168152 O        b'-1:lemma:grow'
--0.177645 Technique b'-1:lemma::'
--0.186245 O        b'-1:lemma:IP'
--0.188141 Temp     b'+1:lemma:to'
--0.188141 Temp     b'+1:postag:TO'
--0.189069 O        b'-1:lemma:rna'
--0.190006 O        b'+1:lemma:-rrb-'
--0.192143 O        b'lemma[:2]:30'
--0.219680 O        b'lemma:co2'
--0.231361 Agit     b'symb'
--0.256617 O        b'lemma:of'
--0.256617 O        b'lemma[:2]:of'
--0.259140 O        b'lemma:37'
--0.259140 O        b'lemma[:2]:37'
--0.267489 O        b'lemma[:2]:od'
--0.270561 Med      b'+1:postag:NN'
--0.273391 O        b'+1:lemma:fecl2'
--0.274839 O        b'+1:postag:IN'
--0.277041 Technique b'postag:NN'
--0.281854 O        b'+1:lemma:\xc2\xb0c'
--0.292441 O        b'lemma:20'
--0.295792 Med      b'-1:postag:CD'
--0.308709 Supp     b'postag[:1]:C'
--0.308783 O        b'lemma[:1]:p'
--0.311181 O        b'lemma:wt'
--0.311181 O        b'lemma[:2]:wt'
--0.318567 Med      b'+1:postag:IN'
--0.318793 O        b'lemma:2h'
--0.318793 O        b'-1:lemma:additional'
--0.318793 O        b'lemma[:2]:2h'
--0.330370 O        b'+1:postag:-RRB-'
--0.332499 Air      b'postag[:1]:N'
--0.332499 Air      b'postag[:2]:NN'
--0.334391 Med      b'-1:postag:NN'
--0.338586 Temp     b'hGreek'
--0.351814 O        b'lemma[:2]:me'
--0.363828 O        b'lemma[:1]:L'
--0.365790 Gtype    b'lemma:delta'
--0.396021 O        b'+1:lemma:.'
--0.396021 O        b'+1:postag:.'
--0.405253 OD       b'+1:postag:NN'
--0.409588 O        b'lemma[:2]:ri'
--0.436123 O        b'lemma[:2]:0.'
--0.437523 O        b'-1:postag:IN'
--0.461538 O        b'-1:postag:-LRB-'
--0.480537 O        b'-1:lemma:cra'
--0.524678 Technique b'-1:postag::'
--0.534816 Supp     b'postag:JJ'
--0.541445 O        b'-1:lemma:sample'
--0.544159 Med      b'symb'
--0.553976 Anti     b'postag:NNP'
--0.557482 O        b'+1:lemma:hour'
--0.572719 Gtype    b'lemma[:2]:rp'
--0.577168 Air      b'postag:NN'
--0.603309 Supp     b'postag[:1]:J'
--0.603309 Supp     b'postag[:2]:JJ'
--0.608253 Air      b'-1:postag:JJ'
--0.609440 O        b'lemma[:1]:A'
--0.611762 Agit     b'hUpper'
--0.611762 Agit     b'hLower'
--0.616867 Supp     b'lemma[:1]:c'
--0.662379 O        b'-1:lemma:the'
--0.665646 O        b'+1:postag:VBG'
--0.667220 O        b'+1:postag:NNS'
--0.672166 O        b'lemma:methanol'
--0.688760 O        b'+1:lemma:cell'
--0.696400 Gtype    b'lemma[:1]:m'
--0.709438 O        b'-1:lemma:rpob'
--0.746988 O        b'+1:lemma:supplement'
--0.748227 O        b'-1:lemma:nsrr'
--0.750862 Gtype    b'lemma[:1]:c'
--0.762647 O        b'lemma:mid-log'
--0.764019 O        b'+1:lemma:g/l'
--0.820923 O        b'-1:lemma:dissolve'
--0.820923 O        b'+1:lemma:methanol'
--0.849761 Phase    b'hUpper'
--0.849761 Phase    b'hLower'
--0.878961 O        b'lemma:rifampicin'
--0.991808 O        b'-1:lemma:co2'
--1.038541 O        b'lemma[:1]:0'
--1.156169 O        b'+1:lemma:at'
--1.157980 Gtype    b'lemma[:1]:a'
--1.204180 Supp     b'symb'
--1.233540 O        b'lemma[:1]:\xce\xb4'
--1.266754 Supp     b'hGreek'
--1.301358 O        b'-1:postag:VBG'
--1.514277 O        b'-1:postag::'
--1.655597 OD       b'postag[:1]:-'
--1.753063 O        b'+1:lemma:in'
--1.852806 OD       b'lemma[:1]:-'
--1.885226 O        b'-1:lemma:2'
--1.959854 O        b'+1:lemma:2'
--2.144976 O        b'+1:lemma:1'
--3.787456 O        b'-1:lemma::'
--4.714231 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.279361962019874, 'c2': 0.0038200106679588276}
-best CV score:0.8186573824050531
-model size: 0.07M
-
-Flat F1: 0.8128691445699846
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.947     0.973        19
-        Air      0.780     0.742     0.760        62
-       Anti      1.000     0.889     0.941         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.918     0.849     0.882       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.835     0.669     0.743       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.869     0.773     0.813       480
-
-
-Top likely transitions:
-Agit   -> Agit    7.239488
-OD     -> OD      6.986110
-Temp   -> Temp    6.018161
-Anti   -> Anti    5.460406
-Med    -> Med     5.405632
-Supp   -> Supp    4.891085
-Air    -> Air     4.827197
-Phase  -> Phase   4.808148
-Gversion -> Gversion 4.563407
-Gtype  -> Gtype   4.416717
-O      -> O       3.914205
-Technique -> Technique 3.585291
-pH     -> pH      2.066900
-O      -> Supp    2.030835
-Gtype  -> Supp    1.504335
-Air    -> O       1.080882
-O      -> Technique 0.833471
-O      -> Gtype   0.713793
-O      -> Anti    0.531693
-OD     -> Phase   0.408195
-Substrain -> Gtype   0.381038
-O      -> Gversion 0.245512
-O      -> Temp    0.216347
-Med    -> O       0.140439
-Supp   -> O       0.136031
-Phase  -> O       0.111016
-O      -> Phase   0.102578
-O      -> Med     0.027873
-Technique -> Air     0.004864
-Temp   -> O       0.002877
-Phase  -> Air     0.002070
-O      -> OD      -0.000053
-Air    -> Temp    -0.001109
-Technique -> pH      -0.003137
-Anti   -> O       -0.004004
-OD     -> Air     -0.082107
-Supp   -> Med     -0.222493
-Gtype  -> Anti    -0.266509
-Phase  -> OD      -0.268963
-OD     -> O       -0.365524
-Gtype  -> O       -0.470283
-Supp   -> Gtype   -0.575625
-Agit   -> O       -0.740344
-O      -> Air     -0.754198
-Med    -> Supp    -0.916394
-Technique -> O       -0.944892
-Substrain -> O       -1.056452
-
-
-Top unlikely transitions:
-Agit   -> Agit    7.239488
-OD     -> OD      6.986110
-Temp   -> Temp    6.018161
-Anti   -> Anti    5.460406
-Med    -> Med     5.405632
-Supp   -> Supp    4.891085
-Air    -> Air     4.827197
-Phase  -> Phase   4.808148
-Gversion -> Gversion 4.563407
-Gtype  -> Gtype   4.416717
-O      -> O       3.914205
-Technique -> Technique 3.585291
-pH     -> pH      2.066900
-O      -> Supp    2.030835
-Gtype  -> Supp    1.504335
-Air    -> O       1.080882
-O      -> Technique 0.833471
-O      -> Gtype   0.713793
-O      -> Anti    0.531693
-OD     -> Phase   0.408195
-Substrain -> Gtype   0.381038
-O      -> Gversion 0.245512
-O      -> Temp    0.216347
-Med    -> O       0.140439
-Supp   -> O       0.136031
-Phase  -> O       0.111016
-O      -> Phase   0.102578
-O      -> Med     0.027873
-Technique -> Air     0.004864
-Temp   -> O       0.002877
-Phase  -> Air     0.002070
-O      -> OD      -0.000053
-Air    -> Temp    -0.001109
-Technique -> pH      -0.003137
-Anti   -> O       -0.004004
-OD     -> Air     -0.082107
-Supp   -> Med     -0.222493
-Gtype  -> Anti    -0.266509
-Phase  -> OD      -0.268963
-OD     -> O       -0.365524
-Gtype  -> O       -0.470283
-Supp   -> Gtype   -0.575625
-Agit   -> O       -0.740344
-O      -> Air     -0.754198
-Med    -> Supp    -0.916394
-Technique -> O       -0.944892
-Substrain -> O       -1.056452
-
-
-Top positive:
-8.966672 Technique b'lemma[:2]:Ch'
-6.588612 Phase    b'lemma:stationary'
-5.718268 Air      b'lemma:anaerobic'
-5.159572 O        b'lemma[:2]:re'
-4.823035 O        b'-1:lemma:tag'
-4.717845 Air      b'lemma:aerobic'
-4.658070 Phase    b'lemma:mid-log'
-4.421877 OD       b'lemma[:2]:od'
-4.420602 Gtype    b'lemma:arca8myc'
-4.062533 O        b'lemma:1'
-4.062533 O        b'lemma[:2]:1'
-3.912148 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.888418 Air      b'-1:lemma:ChIP-Seq'
-3.848911 O        b'lemma:rpob'
-3.769611 O        b'lemma[:2]:ge'
-3.714984 Strain   b'+1:lemma:substr'
-3.670004 Gtype    b'lemma[:2]:fl'
-3.560689 O        b'lemma:with'
-3.436525 O        b'-1:lemma:ChIP-exo'
-3.429177 Supp     b'lemma:arginine'
-3.425608 Technique b'lemma[:2]:rn'
-3.371645 Med      b'+1:lemma:0.4'
-3.328846 Supp     b'lemma:Iron'
-3.328846 Supp     b'lemma[:2]:Ir'
-3.321795 Supp     b'+1:lemma:1'
-3.310404 Supp     b'+1:lemma:\xc2\xb5m'
-3.308999 Temp     b'-1:lemma:sample'
-3.277763 Technique b'lemma:chipseq'
-3.240649 Gversion b'-1:lemma:nc'
-3.124383 Gtype    b'lemma[:1]:\xce\xb4'
-3.090861 O        b'-1:lemma:Aerobic'
-3.008868 O        b'lemma:3'
-3.008868 O        b'lemma[:2]:3'
-3.007173 O        b'+1:lemma:pq'
-3.000180 O        b'+1:lemma:od600'
-3.000100 Gtype    b'lemma[:2]:cr'
-2.948508 OD       b'+1:lemma:stationary'
-2.947897 O        b'-1:lemma:0.3-0.35'
-2.947877 O        b'lemma:2'
-2.947877 O        b'lemma[:2]:2'
-2.932527 Gtype    b'lemma:fnr8myc'
-2.885967 Supp     b'lemma:fructose'
-2.838346 Temp     b'lemma[:1]:3'
-2.804560 Supp     b'+1:lemma:2'
-2.762138 Med      b'lemma:MOPS'
-2.762138 Med      b'lemma[:1]:M'
-2.762138 Med      b'lemma[:2]:MO'
-2.737960 O        b'-1:lemma:anaerobic'
-2.712644 Gtype    b'lemma[:2]:de'
-2.710120 Anti     b'+1:lemma:antibody'
-2.704453 Supp     b'lemma[:2]:0.'
-2.695502 O        b'-1:lemma:0.3'
-2.674794 O        b'lemma:_'
-2.674794 O        b'lemma[:1]:_'
-2.674794 O        b'lemma[:2]:_'
-2.661858 Supp     b'-1:lemma:Cra'
-2.648028 Anti     b'lemma[:2]:an'
-2.616030 Supp     b'lemma:nitrate'
-2.616030 Supp     b'lemma[:2]:ni'
-2.599686 Technique b'-1:lemma:input'
-2.597924 Med      b'lemma[:1]:L'
-2.576426 Gtype    b'-1:lemma:rpob'
-2.565057 Gtype    b'lemma:type'
-2.565057 Gtype    b'lemma[:2]:ty'
-2.560359 pH       b'lemma:ph5'
-2.560359 pH       b'+1:lemma:.5'
-2.509084 O        b'lemma:delta'
-2.478623 Gtype    b'lemma[:1]:W'
-2.469353 O        b'+1:postag:RB'
-2.432106 Gtype    b'lemma:nsrr'
-2.432106 Gtype    b'lemma[:2]:ns'
-2.399084 Temp     b'-1:lemma:\xcf\x8332'
-2.385698 Gversion b'lemma:nc'
-2.385698 Gversion b'lemma[:2]:nc'
-2.368284 Supp     b'lemma:rifampicin'
-2.366613 Gtype    b'lemma:flag-tag'
-2.366613 Gtype    b'-1:lemma:c-terminal'
-2.365159 O        b'+1:lemma:sparging'
-2.361737 Gversion b'lemma[:2]:00'
-2.353117 Substrain b'lemma:mg1655'
-2.347459 O        b'-1:lemma:lb'
-2.343081 Supp     b'lemma[:2]:ri'
-2.304781 O        b'lemma:b'
-2.304781 O        b'lemma[:2]:b'
-2.284446 Gversion b'lemma:chip-seq'
-2.229948 Supp     b'lemma:pq'
-2.229948 Supp     b'lemma[:2]:pq'
-2.222205 Strain   b'lemma:k-12'
-2.222205 Strain   b'lemma[:2]:k-'
-2.167335 Supp     b'lemma[:1]:I'
-2.161918 Gtype    b'+1:lemma:flagtag'
-2.159386 Gversion b'lemma:asm584v2'
-2.144731 Gversion b'lemma[:2]:as'
-2.113656 Supp     b'+1:lemma:_'
-2.112060 Supp     b'lemma:acetate'
-2.090761 O        b'lemma[:2]:fo'
-2.078514 O        b'-1:lemma:glucose'
-2.068162 Air      b'lemma[:2]:an'
-2.062479 Air      b'lemma[:2]:ae'
-2.059001 Strain   b'lemma[:1]:k'
-2.056638 Technique b'+1:lemma:chip-exo'
-2.052703 O        b'-1:lemma:type'
-2.051285 O        b'lemma:\xcf\x8332'
-2.051285 O        b'lemma[:1]:\xcf\x83'
-2.051285 O        b'lemma[:2]:\xcf\x833'
-2.050334 Vess     b'lemma:flask'
-2.050334 Vess     b'-1:lemma:warm'
-2.032344 Substrain b'lemma[:2]:mg'
-2.030892 Vess     b'lemma[:2]:fl'
-2.027838 Air      b'-1:lemma:-'
-2.024791 Air      b'lemma[:1]:A'
-2.015955 Technique b'lemma[:2]:ch'
-2.002652 O        b'lemma:a'
-2.002652 O        b'lemma[:2]:a'
-1.996430 Substrain b'+1:lemma:phtpg'
-1.981067 Supp     b'lemma[:1]:1'
-1.954710 pH       b'+1:postag:CD'
-1.953189 Gtype    b'lemma[:2]:ar'
-1.939301 Gtype    b'hGreek'
-1.934603 Gtype    b'-1:lemma:_'
-1.932040 Med      b'+1:lemma:2.0'
-1.930878 O        b'lemma:0.4'
-1.909748 Supp     b'-1:lemma:+'
-1.867334 O        b'+1:postag:NNP'
-1.854658 Supp     b'+1:lemma:hour'
-1.852643 Supp     b'lemma[:2]:gl'
-1.850156 Supp     b'-1:lemma:with'
-1.841046 O        b'postag:IN'
-1.841046 O        b'postag[:1]:I'
-1.841046 O        b'postag[:2]:IN'
-1.840736 Air      b'lemma:Aerobic'
-1.840736 Air      b'lemma[:2]:Ae'
-1.839093 O        b'lemma[:1]:C'
-1.831912 Gtype    b'+1:lemma::'
-1.810536 Med      b'lemma:lb'
-1.810536 Med      b'lemma[:2]:lb'
-1.802382 Gtype    b'-1:lemma:vector'
-1.794761 Supp     b'lemma[:1]:\xc2\xb5'
-1.793907 O        b'lemma:Custom'
-1.793907 O        b'lemma[:2]:Cu'
-1.710377 Anti     b'lemma:none'
-1.695245 Air      b'lemma[:1]:a'
-1.679966 Gtype    b'+1:lemma:with'
-1.678353 O        b'postag::'
-1.678353 O        b'postag[:1]::'
-1.678353 O        b'postag[:2]::'
-1.672503 O        b'-1:lemma:l1'
-1.660511 O        b'+1:lemma:nacl'
-1.634575 Gtype    b'+1:lemma:type'
-1.633916 Air      b'-1:lemma:co2'
-1.633212 Temp     b'lemma:43'
-1.633212 Temp     b'lemma[:2]:43'
-1.630422 Technique b'+1:lemma:rna-seq'
-1.627467 Supp     b'lemma[:1]:2'
-1.617176 Med      b'+1:lemma:g/l'
-1.591078 Temp     b'-1:lemma:43'
-1.584703 Phase    b'lemma:exponentially'
-1.580088 Gtype    b'lemma[:1]:w'
-1.569142 Technique b'symb'
-1.544136 Med      b'+1:lemma:minimal'
-1.543828 Gversion b'lemma:.2'
-1.543828 Gversion b'-1:lemma:u00096'
-1.543828 Gversion b'lemma[:2]:.2'
-1.539233 Technique b'-1:lemma:1'
-1.535225 Gtype    b'-1:lemma:Combined'
-1.530825 O        b'lemma[:1]:-'
-1.529855 Gtype    b'lemma:wt'
-1.529855 Gtype    b'lemma[:2]:wt'
-1.526054 Med      b'lemma:broth'
-1.526054 Med      b'-1:lemma:L'
-1.526054 Med      b'lemma[:2]:br'
-1.523299 O        b'lemma:chip'
-1.508452 Supp     b'lemma:Fe'
-1.508452 Supp     b'lemma[:2]:Fe'
-1.503882 O        b'+1:lemma:mid-log'
-1.496251 Anti     b'-1:lemma::'
-1.486906 Supp     b'lemma[:2]:fe'
-1.470644 Anti     b'lemma:anti-rpos'
-1.462451 Supp     b'lemma:dpd'
-1.462451 Supp     b'lemma[:2]:dp'
-1.460661 Med      b'+1:lemma:-lrb-'
-1.458027 O        b'lemma[:2]:in'
-1.451098 pH       b'lemma:.5'
-1.451098 pH       b'-1:lemma:ph5'
-1.451098 pH       b'lemma[:2]:.5'
-1.446735 Med      b'+1:postag:-LRB-'
-1.442566 O        b'+1:lemma:ph5'
-1.438411 Supp     b'lemma:no3'
-1.436805 Supp     b'lemma:iptg'
-1.433263 O        b'lemma:.'
-1.433263 O        b'postag:.'
-1.433263 O        b'postag[:1]:.'
-1.433263 O        b'postag[:2]:.'
-1.433263 O        b'lemma[:2]:.'
-1.423900 O        b'-1:lemma:\xc2\xb0c'
-1.418739 Supp     b'lemma:0.1'
-1.401196 O        b'lemma:purr'
-1.384007 Med      b'+1:lemma:contain'
-1.375436 Supp     b'lemma:nh4cl'
-1.375436 Supp     b'lemma[:2]:nh'
-
-
-Top negative:
--0.001541 O        b'+1:lemma:mm'
--0.001854 Gtype    b'postag[:1]:V'
--0.001854 Gtype    b'postag[:2]:VB'
--0.001951 Med      b'-1:postag:IN'
--0.002248 Air      b'lemma:-rrb-'
--0.002552 O        b'+1:lemma:phase'
--0.002974 O        b'lemma[:2]:an'
--0.003066 OD       b'postag[:1]:N'
--0.003066 OD       b'postag[:2]:NN'
--0.003120 O        b'lemma[:2]:de'
--0.004645 Supp     b'lemma:2'
--0.004645 Supp     b'lemma[:2]:2'
--0.004667 Med      b'+1:postag:NNS'
--0.005354 O        b'-1:lemma:from'
--0.006386 Temp     b'postag:NN'
--0.006593 Air      b'-1:postag:-LRB-'
--0.007131 Supp     b'postag:NNS'
--0.007895 O        b'-1:lemma:mid-log'
--0.011115 O        b'+1:lemma:delta'
--0.011562 Agit     b'-1:postag:NN'
--0.011701 Air      b'-1:lemma:-lrb-'
--0.012537 Technique b'postag[:1]:N'
--0.012537 Technique b'postag[:2]:NN'
--0.013175 OD       b'+1:postag:CC'
--0.013422 O        b'-1:lemma:o2'
--0.014314 Air      b'-1:lemma:aerobically'
--0.014690 OD       b'+1:lemma:of'
--0.019165 Air      b'lemma:and'
--0.019727 Air      b'-1:lemma:and'
--0.020299 Gtype    b'lemma[:1]:g'
--0.020563 O        b'-1:lemma:mm'
--0.020740 O        b'+1:lemma:shake'
--0.024009 Supp     b'-1:lemma:for'
--0.028824 Phase    b'-1:postag:NN'
--0.029809 Supp     b'lemma[:1]:t'
--0.031578 Gtype    b'lemma[:1]:,'
--0.032015 Gtype    b'lemma:,'
--0.032015 Gtype    b'postag:,'
--0.032015 Gtype    b'postag[:1]:,'
--0.032015 Gtype    b'postag[:2]:,'
--0.032015 Gtype    b'lemma[:2]:,'
--0.032915 Gversion b'+1:postag:NN'
--0.035323 Air      b'lemma[:1]:o'
--0.039237 O        b'-1:postag:JJ'
--0.040153 Supp     b'+1:postag:IN'
--0.043438 Supp     b'hUpper'
--0.043438 Supp     b'hLower'
--0.046431 O        b'lemma[:1]:d'
--0.048385 O        b'+1:lemma:co2'
--0.051633 Supp     b'+1:lemma:rifampicin'
--0.053267 O        b'+1:lemma:c'
--0.060706 O        b'+1:lemma:until'
--0.062235 pH       b'postag[:1]:N'
--0.062235 pH       b'postag[:2]:NN'
--0.063097 O        b'lemma[:2]:30'
--0.065359 Air      b'-1:postag:RB'
--0.065508 O        b'lemma:phase'
--0.071547 Agit     b'postag[:1]:N'
--0.071547 Agit     b'postag[:2]:NN'
--0.071659 O        b'+1:lemma:or'
--0.072012 O        b'+1:lemma:%'
--0.072345 Gtype    b'-1:postag:NN'
--0.075128 Gtype    b'-1:lemma:,'
--0.075128 Gtype    b'-1:postag:,'
--0.076044 Supp     b'-1:postag:NNP'
--0.076147 O        b'-1:lemma:of'
--0.082454 O        b'-1:lemma:IP'
--0.085284 Supp     b'lemma[:1]:o'
--0.086193 O        b'lemma[:2]:ce'
--0.091551 O        b'lemma[:2]:fe'
--0.091759 O        b'+1:lemma:+'
--0.095917 O        b'lemma:co2'
--0.101416 O        b'lemma:anaerobically'
--0.101520 Temp     b'hGreek'
--0.111323 O        b'lemma:37'
--0.111323 O        b'lemma[:2]:37'
--0.114466 O        b'-1:lemma:od600'
--0.114596 OD       b'postag:CD'
--0.114596 OD       b'postag[:2]:CD'
--0.117991 Air      b'+1:postag:-LRB-'
--0.119139 O        b'lemma[:2]:mg'
--0.122079 Air      b'+1:lemma:-lrb-'
--0.123263 O        b'-1:lemma:rna'
--0.128253 O        b'-1:postag:VBN'
--0.135604 O        b'+1:lemma:\xc2\xb0c'
--0.137855 Air      b'symb'
--0.144842 Supp     b'postag:CD'
--0.144842 Supp     b'postag[:2]:CD'
--0.147096 Gtype    b'+1:lemma:-rrb-'
--0.154114 Med      b'postag:NN'
--0.155465 Phase    b'postag:JJ'
--0.156939 Med      b'+1:postag:IN'
--0.159442 O        b'-1:lemma:rpob'
--0.159504 Air      b'postag:CC'
--0.159504 Air      b'postag[:2]:CC'
--0.165569 O        b'lemma:anaerobic'
--0.169530 Air      b'+1:postag:JJ'
--0.175033 Anti     b'symb'
--0.207569 Technique b'-1:lemma::'
--0.211170 O        b'-1:lemma:the'
--0.212648 Med      b'postag[:1]:C'
--0.215967 O        b'-1:lemma:grow'
--0.217662 Med      b'+1:postag:NN'
--0.222008 Technique b'postag:NN'
--0.224207 O        b'+1:lemma:-rrb-'
--0.227966 O        b'lemma[:2]:od'
--0.234046 O        b'-1:lemma:-lrb-'
--0.242892 Anti     b'+1:lemma:anti-fur'
--0.243109 O        b'lemma[:2]:me'
--0.257081 O        b'lemma:of'
--0.257081 O        b'lemma[:2]:of'
--0.276390 Phase    b'-1:postag:JJ'
--0.293682 O        b'lemma:wt'
--0.293682 O        b'lemma[:2]:wt'
--0.295413 O        b'+1:postag:IN'
--0.297541 OD       b'+1:postag:CD'
--0.307394 O        b'lemma[:2]:ae'
--0.307787 O        b'-1:lemma:ml'
--0.308022 O        b'lemma[:1]:p'
--0.312845 O        b'-1:lemma:37'
--0.316240 Temp     b'+1:lemma:to'
--0.316240 Temp     b'+1:postag:TO'
--0.318530 Phase    b'-1:lemma:at'
--0.325023 Agit     b'symb'
--0.330260 O        b'lemma:2h'
--0.330260 O        b'-1:lemma:additional'
--0.330260 O        b'lemma[:2]:2h'
--0.331312 Air      b'postag[:1]:N'
--0.331312 Air      b'postag[:2]:NN'
--0.335232 O        b'postag:VBP'
--0.345145 Phase    b'postag[:1]:J'
--0.345145 Phase    b'postag[:2]:JJ'
--0.346773 O        b'lemma[:2]:0.'
--0.347618 Air      b'-1:postag:CC'
--0.356296 O        b'-1:postag:-LRB-'
--0.358625 O        b'+1:lemma:fecl2'
--0.364284 O        b'+1:postag:-RRB-'
--0.380241 Med      b'-1:postag:CD'
--0.399176 O        b'+1:postag:VBG'
--0.399486 O        b'lemma[:2]:gl'
--0.403156 O        b'lemma:20'
--0.442379 O        b'+1:lemma:cell'
--0.447923 Technique b'-1:postag::'
--0.457780 Med      b'-1:postag:NN'
--0.460270 Supp     b'+1:postag:VBN'
--0.472546 O        b'lemma[:1]:L'
--0.491295 O        b'-1:postag:IN'
--0.492050 O        b'lemma[:2]:ri'
--0.496617 Supp     b'postag[:1]:C'
--0.506785 O        b'-1:lemma:ompr'
--0.527743 Supp     b'postag:JJ'
--0.527772 Agit     b'hUpper'
--0.527772 Agit     b'hLower'
--0.536034 Air      b'postag:NN'
--0.546321 Supp     b'postag[:1]:J'
--0.546321 Supp     b'postag[:2]:JJ'
--0.559301 Air      b'-1:lemma:or'
--0.562023 Gtype    b'lemma:delta'
--0.583547 O        b'+1:lemma:.'
--0.583547 O        b'+1:postag:.'
--0.587969 O        b'lemma:mid-log'
--0.616736 O        b'-1:lemma:cra'
--0.626025 Supp     b'lemma[:1]:c'
--0.634232 Med      b'symb'
--0.636392 Supp     b'lemma[:2]:an'
--0.643020 O        b'-1:lemma:nsrr'
--0.651532 O        b'+1:postag:NNS'
--0.679804 Gtype    b'lemma[:1]:m'
--0.686303 O        b'lemma[:1]:0'
--0.688904 O        b'+1:lemma:supplement'
--0.736464 Supp     b'-1:lemma:%'
--0.766132 O        b'+1:lemma:hour'
--0.767111 O        b'lemma:rifampicin'
--0.796135 O        b'+1:lemma:g/l'
--0.812830 O        b'-1:lemma:co2'
--0.838937 Gtype    b'lemma[:1]:c'
--0.841550 O        b'-1:lemma:dissolve'
--0.841550 O        b'+1:lemma:methanol'
--0.856382 O        b'lemma:methanol'
--0.892060 Phase    b'hUpper'
--0.892060 Phase    b'hLower'
--0.975475 O        b'+1:lemma:at'
--0.989308 O        b'lemma[:1]:A'
--1.004723 Anti     b'postag:NNP'
--1.018629 OD       b'+1:postag:NN'
--1.026001 Air      b'-1:postag:JJ'
--1.155732 O        b'-1:postag:VBG'
--1.224739 Gtype    b'lemma[:1]:a'
--1.278104 O        b'-1:postag::'
--1.599751 Supp     b'hGreek'
--1.606260 Supp     b'symb'
--1.617602 O        b'lemma[:1]:\xce\xb4'
--1.739815 OD       b'postag[:1]:-'
--1.843942 O        b'+1:lemma:in'
--1.945645 O        b'+1:lemma:2'
--1.964299 OD       b'lemma[:1]:-'
--2.043167 O        b'-1:lemma:2'
--2.316510 O        b'+1:lemma:1'
--4.221572 O        b'-1:lemma::'
--4.721306 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.2964346107181682, 'c2': 0.033092970074011845}
-best CV score:0.7978231610325259
-model size: 0.07M
-
-Flat F1: 0.8182231777447608
-             precision    recall  f1-score   support
-
-         OD      0.769     0.400     0.526        25
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.789     0.882        19
-        Air      0.763     0.763     0.763        59
-       Anti      0.875     0.778     0.824         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.810     0.833     0.821       102
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.879     0.740     0.803       127
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.854     0.794     0.818       452
-
-
-Top likely transitions:
-OD     -> OD      6.341340
-Agit   -> Agit    5.796664
-Med    -> Med     5.137165
-Temp   -> Temp    4.995762
-Anti   -> Anti    4.990782
-Gtype  -> Gtype   4.240477
-Gversion -> Gversion 4.225898
-Supp   -> Supp    4.204534
-Air    -> Air     3.999870
-Phase  -> Phase   3.766897
-Technique -> Technique 3.408533
-O      -> O       3.070414
-pH     -> pH      2.382635
-O      -> Supp    1.706269
-Gtype  -> Supp    1.701317
-Phase  -> Supp    1.187792
-Air    -> Temp    1.062230
-O      -> Gtype   1.028035
-O      -> Technique 0.914562
-Vess   -> Temp    0.909296
-Substrain -> Gtype   0.750526
-Air    -> Phase   0.620936
-Med    -> O       0.613845
-Temp   -> Agit    0.571012
-Air    -> Med     0.331698
-O      -> Anti    0.318145
-O      -> Gversion 0.070972
-Med    -> Supp    0.067887
-Technique -> Air     0.035349
-Air    -> O       0.020752
-Supp   -> O       0.013814
-Supp   -> Technique -0.037404
-Vess   -> O       -0.060438
-Gtype  -> Phase   -0.068194
-O      -> Phase   -0.091450
-OD     -> O       -0.114114
-Supp   -> Gtype   -0.122317
-Gtype  -> OD      -0.173122
-Anti   -> O       -0.230490
-Gtype  -> Med     -0.240559
-O      -> Air     -0.241130
-O      -> Temp    -0.243070
-Technique -> pH      -0.267697
-Phase  -> OD      -0.299766
-Supp   -> Med     -0.355333
-Gversion -> O       -0.394835
-OD     -> Med     -0.450024
-Gtype  -> Anti    -0.546414
-O      -> Agit    -0.704801
-Agit   -> O       -0.801535
-
-
-Top unlikely transitions:
-Temp   -> Temp    4.995762
-Anti   -> Anti    4.990782
-Gtype  -> Gtype   4.240477
-Gversion -> Gversion 4.225898
-Supp   -> Supp    4.204534
-Air    -> Air     3.999870
-Phase  -> Phase   3.766897
-Technique -> Technique 3.408533
-O      -> O       3.070414
-pH     -> pH      2.382635
-O      -> Supp    1.706269
-Gtype  -> Supp    1.701317
-Phase  -> Supp    1.187792
-Air    -> Temp    1.062230
-O      -> Gtype   1.028035
-O      -> Technique 0.914562
-Vess   -> Temp    0.909296
-Substrain -> Gtype   0.750526
-Air    -> Phase   0.620936
-Med    -> O       0.613845
-Temp   -> Agit    0.571012
-Air    -> Med     0.331698
-O      -> Anti    0.318145
-O      -> Gversion 0.070972
-Med    -> Supp    0.067887
-Technique -> Air     0.035349
-Air    -> O       0.020752
-Supp   -> O       0.013814
-Supp   -> Technique -0.037404
-Vess   -> O       -0.060438
-Gtype  -> Phase   -0.068194
-O      -> Phase   -0.091450
-OD     -> O       -0.114114
-Supp   -> Gtype   -0.122317
-Gtype  -> OD      -0.173122
-Anti   -> O       -0.230490
-Gtype  -> Med     -0.240559
-O      -> Air     -0.241130
-O      -> Temp    -0.243070
-Technique -> pH      -0.267697
-Phase  -> OD      -0.299766
-Supp   -> Med     -0.355333
-Gversion -> O       -0.394835
-OD     -> Med     -0.450024
-Gtype  -> Anti    -0.546414
-O      -> Agit    -0.704801
-Agit   -> O       -0.801535
-Gtype  -> O       -0.877514
-Substrain -> O       -0.942951
-Technique -> O       -1.070076
-
-
-Top positive:
-5.560165 Technique b'lemma[:2]:Ch'
-3.867275 O        b'lemma[:2]:re'
-3.624712 Air      b'lemma:anaerobic'
-3.330563 Phase    b'lemma:mid-log'
-3.251308 O        b'-1:lemma:tag'
-3.248997 O        b'+1:lemma:m63'
-3.228929 Gtype    b'-1:lemma:\xe2\x88\x86'
-3.210040 O        b'lemma:1'
-3.210040 O        b'lemma[:2]:1'
-3.159131 OD       b'lemma[:2]:od'
-3.135910 Gtype    b'+1:lemma:flagtag'
-3.047581 Supp     b'+1:lemma:\xc2\xb5m'
-2.949460 Med      b'+1:lemma:0.4'
-2.916942 Air      b'lemma:aerobic'
-2.901664 Gtype    b'lemma[:1]:\xce\xb4'
-2.895390 Gtype    b'lemma:arca8myc'
-2.891054 O        b'+1:lemma:od600'
-2.884994 Gtype    b'lemma[:2]:cr'
-2.868477 Phase    b'lemma:stationary'
-2.758780 Supp     b'lemma:Iron'
-2.758780 Supp     b'lemma[:2]:Ir'
-2.751464 Supp     b'+1:lemma:1'
-2.749032 Air      b'lemma[:1]:a'
-2.739001 Air      b'-1:lemma:ChIP-Seq'
-2.637207 Supp     b'+1:lemma:2'
-2.611400 Anti     b'+1:lemma:antibody'
-2.538029 Substrain b'lemma:mg1655'
-2.532452 O        b'-1:lemma:ChIP-exo'
-2.530749 Gversion b'-1:lemma:nc'
-2.522114 O        b'lemma:rpob'
-2.497323 O        b'lemma:_'
-2.497323 O        b'lemma[:1]:_'
-2.497323 O        b'lemma[:2]:_'
-2.467576 O        b'lemma:2'
-2.467576 O        b'lemma[:2]:2'
-2.451387 Technique b'lemma[:2]:rn'
-2.450652 O        b'lemma:c-terminal'
-2.450652 O        b'+1:lemma:flag-tag'
-2.450652 O        b'lemma[:2]:c-'
-2.442475 Gtype    b'lemma[:2]:de'
-2.418091 O        b'lemma:3'
-2.418091 O        b'lemma[:2]:3'
-2.408360 OD       b'+1:lemma:stationary'
-2.385694 Temp     b'-1:lemma:sample'
-2.372903 Gtype    b'-1:lemma:rpob'
-2.354163 Gtype    b'lemma:type'
-2.354163 Gtype    b'lemma[:2]:ty'
-2.346327 O        b'lemma[:2]:ge'
-2.344928 Technique b'lemma:chipseq'
-2.307523 Gtype    b'lemma[:1]:w'
-2.303430 Med      b'lemma[:1]:L'
-2.301957 Technique b'lemma[:1]:C'
-2.289093 Supp     b'lemma:arginine'
-2.273052 O        b'-1:lemma:Aerobic'
-2.264869 Med      b'+1:lemma:2.0'
-2.254065 O        b'-1:lemma:anaerobic'
-2.249649 Gtype    b'lemma[:1]:W'
-2.162423 Anti     b'lemma[:2]:an'
-2.160242 Strain   b'lemma:k-12'
-2.160242 Strain   b'lemma[:2]:k-'
-2.144723 Supp     b'lemma:acetate'
-2.129184 Gtype    b'lemma:flag-tag'
-2.129184 Gtype    b'-1:lemma:c-terminal'
-2.111214 Air      b'lemma[:1]:A'
-2.098945 Gtype    b'lemma:nsrr'
-2.098945 Gtype    b'lemma[:2]:ns'
-2.095022 Supp     b'-1:lemma:supplement'
-2.082819 O        b'-1:lemma:fructose'
-2.076750 pH       b'lemma:ph5'
-2.076750 pH       b'+1:lemma:.5'
-2.072261 Temp     b'-1:lemma:\xcf\x8332'
-2.065755 O        b'lemma:b'
-2.065755 O        b'lemma[:2]:b'
-2.065419 Gtype    b'+1:lemma:type'
-2.051267 Air      b'lemma[:2]:an'
-2.036209 Technique b'lemma[:2]:ch'
-2.031416 O        b'+1:lemma:pq'
-2.016412 Temp     b'lemma[:1]:3'
-2.004704 Supp     b'+1:lemma:mid-log'
-1.984448 O        b'-1:lemma:0.3-0.35'
-1.967808 Supp     b'lemma[:2]:0.'
-1.947363 Supp     b'lemma:nitrate'
-1.947363 Supp     b'lemma[:2]:ni'
-1.937420 Gversion b'lemma:chip-seq'
-1.913900 Gversion b'lemma:nc'
-1.913900 Gversion b'lemma[:2]:nc'
-1.912878 O        b'lemma:0.4'
-1.907802 Strain   b'+1:lemma:substr'
-1.897924 Air      b'lemma[:2]:ae'
-1.871109 Phase    b'-1:lemma:mid-log'
-1.845125 Air      b'lemma:Aerobic'
-1.845125 Air      b'lemma[:2]:Ae'
-1.827855 Supp     b'-1:lemma:Cra'
-1.824332 Supp     b'lemma:Fe'
-1.824332 Supp     b'lemma[:2]:Fe'
-1.824175 Supp     b'lemma:pq'
-1.824175 Supp     b'lemma[:2]:pq'
-1.809404 Supp     b'+1:lemma:_'
-1.808766 OD       b'lemma[:1]:o'
-1.806302 Med      b'isUpper'
-1.798647 Gtype    b'lemma[:2]:fl'
-1.798534 Supp     b'lemma[:2]:gl'
-1.795820 O        b'lemma:Custom'
-1.795820 O        b'lemma[:2]:Cu'
-1.790374 Air      b'+1:lemma:37'
-1.790074 Gversion b'lemma[:2]:00'
-1.785485 Supp     b'lemma[:2]:fe'
-1.780403 O        b'+1:postag:RB'
-1.756454 Supp     b'lemma:iptg'
-1.735997 Supp     b'lemma[:1]:I'
-1.733781 Gtype    b'lemma:fnr8myc'
-1.728269 Gversion b'lemma:asm584v2'
-1.728269 Gversion b'lemma[:2]:as'
-1.720876 Supp     b'+1:lemma:hour'
-1.715461 Temp     b'-1:lemma:37'
-1.694020 Substrain b'lemma[:2]:mg'
-1.689985 Strain   b'lemma[:1]:k'
-1.673566 O        b'postag::'
-1.673566 O        b'postag[:1]::'
-1.673566 O        b'postag[:2]::'
-1.669711 Supp     b'lemma[:1]:2'
-1.661627 O        b'+1:postag:VBD'
-1.659863 Vess     b'lemma:flask'
-1.659863 Vess     b'-1:lemma:warm'
-1.656423 Gtype    b'lemma[:2]:ar'
-1.655250 Supp     b'lemma[:1]:1'
-1.654055 Med      b'lemma[:1]:m'
-1.646225 Med      b'lemma:MOPS'
-1.646225 Med      b'lemma[:1]:M'
-1.646225 Med      b'lemma[:2]:MO'
-1.643933 Vess     b'lemma[:2]:fl'
-1.636408 O        b'-1:lemma:medium'
-1.620415 O        b'postag[:1]:V'
-1.620415 O        b'postag[:2]:VB'
-1.611470 Supp     b'lemma:fructose'
-1.588047 Temp     b'+1:lemma:\xc2\xb0c'
-1.571785 Technique b'symb'
-1.567665 Supp     b'lemma:dpd'
-1.567665 Supp     b'lemma[:2]:dp'
-1.561904 Gtype    b'+1:lemma:_'
-1.558404 O        b'+1:lemma:grow'
-1.556080 Technique b'-1:lemma:input'
-1.531102 Gtype    b'+1:lemma::'
-1.516656 O        b'isNumber'
-1.513499 Technique b'+1:lemma:chip-exo'
-1.484457 pH       b'+1:postag:CD'
-1.479000 Gtype    b'lemma[:2]:wi'
-1.463363 O        b'+1:lemma:sparging'
-1.455056 Med      b'+1:lemma:supplement'
-1.451942 Anti     b'-1:lemma::'
-1.445199 Gtype    b'+1:postag::'
-1.418029 Gtype    b'-1:lemma:_'
-1.414884 Gtype    b'hGreek'
-1.409332 Supp     b'lemma[:2]:ac'
-1.384832 Med      b'lemma:lb'
-1.384832 Med      b'lemma[:2]:lb'
-1.381767 Gtype    b'lemma:wt'
-1.381767 Gtype    b'lemma[:2]:wt'
-1.376804 O        b'isLower'
-1.370539 O        b'-1:lemma:wt'
-1.369037 Supp     b'-1:lemma:media'
-1.368164 O        b'lemma:chip'
-1.362593 Temp     b'-1:lemma:43'
-1.357457 O        b'lemma:.'
-1.357457 O        b'postag:.'
-1.357457 O        b'postag[:1]:.'
-1.357457 O        b'postag[:2]:.'
-1.357457 O        b'lemma[:2]:.'
-1.343506 Gtype    b'-1:lemma:vector'
-1.332982 Gtype    b'lemma:pk4854'
-1.332982 Gtype    b'lemma[:2]:pk'
-1.331836 O        b'-1:lemma:antibody'
-1.322840 Gtype    b'lemma[:1]:f'
-1.319451 Gtype    b'-1:lemma:dna'
-1.319338 Med      b'+1:lemma:g/l'
-1.314272 O        b'lemma:\xcf\x8332'
-1.314272 O        b'lemma[:1]:\xcf\x83'
-1.314272 O        b'lemma[:2]:\xcf\x833'
-1.313977 Technique b'-1:lemma:chip-exo'
-1.307181 O        b'-1:lemma:mg/ml'
-1.305428 Supp     b'-1:lemma:+'
-1.296639 O        b'lemma:purr'
-1.293394 Supp     b'-1:lemma:0.2'
-1.292494 O        b'-1:lemma:l1'
-1.282743 Supp     b'lemma[:2]:fr'
-1.274232 Supp     b'lemma:rifampicin'
-1.268226 Air      b'+1:lemma:L'
-1.266974 Supp     b'lemma:nh4cl'
-1.266974 Supp     b'lemma[:2]:nh'
-1.264907 Supp     b'lemma[:2]:ri'
-1.262307 Supp     b'-1:postag:CD'
-1.260796 O        b'+1:lemma:acetate'
-1.259575 OD       b'lemma[:2]:0.'
-1.259142 Technique b'-1:lemma:_'
-1.246498 Gversion b'postag:NN'
-1.244033 Gtype    b'symb'
-1.240305 Supp     b'lemma[:2]:ip'
-1.236703 Temp     b'lemma:43'
-1.236703 Temp     b'lemma[:2]:43'
-1.228007 Gtype    b'+1:lemma:control'
-
-
-Top negative:
--0.001047 O        b'+1:lemma:0.4'
--0.001061 Supp     b'postag[:1]:C'
--0.001343 O        b'lemma[:2]:co'
--0.001801 Phase    b'+1:postag:NN'
--0.001816 Supp     b'lemma[:1]:r'
--0.003273 Supp     b'+1:lemma:-rrb-'
--0.004514 Agit     b'isUpper'
--0.005651 Supp     b'+1:postag:-RRB-'
--0.007968 O        b'lemma[:2]:0.'
--0.008508 Air      b'isUpper'
--0.008563 Supp     b'-1:postag::'
--0.008695 Air      b'postag:-RRB-'
--0.008695 Air      b'postag[:2]:-R'
--0.008695 Air      b'lemma[:2]:-r'
--0.009571 OD       b'hUpper'
--0.009571 OD       b'hLower'
--0.011349 Supp     b'hUpper'
--0.011349 Supp     b'hLower'
--0.011606 O        b'-1:postag:JJ'
--0.011683 pH       b'postag[:1]:N'
--0.011683 pH       b'postag[:2]:NN'
--0.012286 Supp     b'isNumber'
--0.014704 Air      b'lemma:-rrb-'
--0.017854 O        b'-1:lemma:control'
--0.021700 Med      b'postag:NN'
--0.024044 O        b'lemma:sample'
--0.026147 Supp     b'postag:CD'
--0.026147 Supp     b'postag[:2]:CD'
--0.028829 Air      b'-1:postag:RB'
--0.029219 Gtype    b'lemma[:1]:n'
--0.031150 Agit     b'symb'
--0.031420 O        b'-1:postag:VBN'
--0.031634 Air      b'lemma[:1]:n'
--0.032172 O        b'+1:lemma:rep1'
--0.032713 O        b'+1:postag:JJ'
--0.033674 OD       b'postag:CD'
--0.033674 OD       b'postag[:2]:CD'
--0.033755 OD       b'postag[:1]:N'
--0.033755 OD       b'postag[:2]:NN'
--0.035292 Air      b'+1:lemma:anaerobically'
--0.038458 Temp     b'postag:NN'
--0.040319 Supp     b'-1:lemma:%'
--0.041803 Temp     b'hGreek'
--0.050279 Med      b'-1:lemma:lb'
--0.052295 O        b'-1:lemma:ml'
--0.053032 O        b'+1:lemma:sample'
--0.061146 Gtype    b'lemma[:1]:m'
--0.063531 Vess     b'hUpper'
--0.063531 Vess     b'hLower'
--0.067513 Supp     b'isLower'
--0.080308 Temp     b'postag[:1]:N'
--0.080308 Temp     b'postag[:2]:NN'
--0.082384 Supp     b'isUpper'
--0.086496 Supp     b'+1:lemma:acetate'
--0.089008 O        b'lemma[:2]:30'
--0.093208 O        b'lemma[:2]:fe'
--0.093816 O        b'lemma[:1]:m'
--0.096992 O        b'lemma[:1]:d'
--0.099835 Gtype    b'+1:lemma:-rrb-'
--0.103697 O        b'lemma[:2]:od'
--0.106617 Anti     b'symb'
--0.111217 Phase    b'postag:JJ'
--0.111217 Phase    b'postag[:1]:J'
--0.111217 Phase    b'postag[:2]:JJ'
--0.115123 Gversion b'+1:postag:NN'
--0.120980 Air      b'-1:postag:-RRB-'
--0.124184 Gtype    b'lemma[:2]:rp'
--0.124385 Air      b'-1:lemma:-rrb-'
--0.134523 O        b'lemma:phase'
--0.137832 Air      b'isLower'
--0.138018 O        b'-1:postag:RB'
--0.142066 Anti     b'+1:lemma:anti-fur'
--0.154765 O        b'+1:lemma:hour'
--0.162942 O        b'lemma[:1]:n'
--0.164561 O        b'lemma:20'
--0.167133 OD       b'postag[:1]:C'
--0.167374 O        b'lemma:2h'
--0.167374 O        b'-1:lemma:additional'
--0.167374 O        b'lemma[:2]:2h'
--0.168348 OD       b'isLower'
--0.175723 O        b'-1:lemma:stir'
--0.176493 O        b'+1:lemma:0.3'
--0.176731 O        b'+1:lemma:culture'
--0.176925 O        b'-1:lemma:dna'
--0.178939 O        b'+1:lemma:delta'
--0.190332 Air      b'symb'
--0.197832 Anti     b'+1:postag:JJ'
--0.203484 Supp     b'lemma[:2]:mi'
--0.206368 Air      b'postag[:1]:N'
--0.206368 Air      b'postag[:2]:NN'
--0.207030 Gtype    b'-1:lemma:,'
--0.207030 Gtype    b'-1:postag:,'
--0.209582 O        b'-1:lemma:IP'
--0.213265 Gtype    b'+1:lemma:\xe2\x88\x86'
--0.215249 Gtype    b'-1:lemma:mg1655'
--0.217685 O        b'lemma:fecl2'
--0.220159 O        b'+1:lemma:-rrb-'
--0.220935 Gtype    b'-1:postag:NN'
--0.227404 Technique b'postag:NN'
--0.230401 Technique b'-1:lemma::'
--0.232009 Air      b'lemma:aerobically'
--0.236029 O        b'+1:lemma:phase'
--0.238310 O        b'lemma:wt'
--0.238310 O        b'lemma[:2]:wt'
--0.243118 Temp     b'-1:postag:NN'
--0.244383 O        b'lemma[:2]:ph'
--0.246532 O        b'-1:lemma:-lrb-'
--0.249897 O        b'-1:lemma:37'
--0.254341 O        b'lemma[:1]:L'
--0.257191 Gtype    b'-1:postag:SYM'
--0.263503 O        b'lemma[:2]:di'
--0.264603 O        b'lemma[:1]:w'
--0.264928 O        b'-1:lemma:grow'
--0.265388 O        b'+1:lemma:antibody'
--0.273738 O        b'lemma[:2]:ce'
--0.277706 O        b'lemma[:1]:k'
--0.279240 O        b'lemma[:1]:4'
--0.290259 Supp     b'postag:JJ'
--0.290259 Supp     b'postag[:1]:J'
--0.290259 Supp     b'postag[:2]:JJ'
--0.292361 O        b'-1:lemma:rna'
--0.304576 Technique b'isUpper'
--0.307541 Technique b'isLower'
--0.310027 O        b'lemma[:2]:me'
--0.339328 O        b'-1:lemma:ompr'
--0.339987 O        b'-1:postag:-LRB-'
--0.345773 O        b'lemma:150'
--0.345773 O        b'-1:lemma:concentration'
--0.345773 O        b'+1:lemma:mg/ml'
--0.345773 O        b'lemma[:2]:15'
--0.347446 Med      b'-1:postag:NN'
--0.348906 Supp     b'lemma:2'
--0.348906 Supp     b'lemma[:2]:2'
--0.351429 Air      b'+1:lemma:-lrb-'
--0.352484 Air      b'+1:postag:-LRB-'
--0.353556 O        b'-1:lemma:cra'
--0.356329 Supp     b'+1:lemma:dpd'
--0.369302 Agit     b'hUpper'
--0.369302 Agit     b'hLower'
--0.381952 Technique b'-1:postag::'
--0.384746 O        b'-1:lemma:rifampicin'
--0.399014 O        b'lemma:cell'
--0.402687 O        b'+1:lemma:dissolve'
--0.409688 Gtype    b'isNumber'
--0.436191 O        b'lemma[:2]:gl'
--0.440734 O        b'+1:lemma:cell'
--0.442622 O        b'+1:postag:NNS'
--0.452887 O        b'lemma[:1]:p'
--0.455834 O        b'+1:lemma:.'
--0.455834 O        b'+1:postag:.'
--0.459545 O        b'lemma[:2]:mg'
--0.481182 Air      b'-1:postag:JJ'
--0.482835 OD       b'+1:postag:NN'
--0.494269 Air      b'postag:NN'
--0.509176 O        b'+1:postag:-RRB-'
--0.510299 Anti     b'postag:NNP'
--0.510777 Air      b'+1:postag:RB'
--0.521353 Gtype    b'lemma[:1]:g'
--0.528030 O        b'lemma:dissolve'
--0.528030 O        b'+1:lemma:methanol'
--0.544300 Med      b'-1:postag:VBN'
--0.544878 O        b'lemma:mid-log'
--0.558725 Med      b'+1:postag:NN'
--0.565193 O        b'lemma[:1]:0'
--0.574181 OD       b'+1:postag:CD'
--0.594752 Supp     b'-1:lemma:glucose'
--0.616524 O        b'-1:lemma:sample'
--0.632529 Phase    b'hUpper'
--0.632529 Phase    b'hLower'
--0.635261 Gtype    b'lemma:delta'
--0.674300 O        b'lemma:methanol'
--0.674300 O        b'-1:lemma:dissolve'
--0.705737 Med      b'-1:postag:CD'
--0.728901 O        b'+1:lemma:supplement'
--0.740907 O        b'lemma[:2]:ri'
--0.792014 Phase    b'-1:postag:NN'
--0.804108 O        b'lemma[:1]:A'
--0.910559 OD       b'isNumber'
--0.914108 O        b'+1:lemma:g/l'
--0.932717 O        b'lemma:rifampicin'
--0.954851 O        b'-1:lemma:supplement'
--0.966998 Gtype    b'lemma[:1]:a'
--0.969405 Supp     b'lemma[:1]:c'
--1.019136 O        b'lemma[:1]:\xce\xb4'
--1.110821 Med      b'symb'
--1.170611 Gversion b'isLower'
--1.220694 Gtype    b'lemma[:1]:c'
--1.221441 Gtype    b'isUpper'
--1.282188 O        b'+1:postag:VBG'
--1.331537 OD       b'postag[:1]:-'
--1.377314 Supp     b'symb'
--1.414732 Supp     b'hGreek'
--1.450462 OD       b'lemma[:1]:-'
--1.661998 O        b'-1:lemma:2'
--1.785964 O        b'+1:lemma:2'
--1.952351 O        b'-1:postag::'
--1.971208 O        b'+1:lemma:1'
--2.697878 O        b'-1:lemma::'
--2.771750 O        b'-1:postag:VBG'
--4.091719 O        b'-1:lemma:_'
-

-********** TRAINING AND TESTING REPORT **********
-Training file: training-data-set-70_v4.txt
-
-best params:{'c1': 0.27193776724339846, 'c2': 0.057295268767110843}
-best CV score:0.8163630580002407
-model size: 0.08M
-
-Flat F1: 0.8109731224696033
-             precision    recall  f1-score   support
-
-         OD      0.789     0.405     0.536        37
-         pH      1.000     1.000     1.000        12
-  Technique      1.000     0.909     0.952        22
-        Med      0.897     0.912     0.904        57
-       Temp      0.818     1.000     0.900        18
-       Vess      0.000     0.000     0.000         0
-       Agit      0.000     0.000     0.000         0
-      Phase      1.000     0.895     0.944        19
-        Air      0.807     0.742     0.773        62
-       Anti      0.800     0.889     0.842         9
-     Strain      1.000     1.000     1.000         1
-      Gtype      0.896     0.811     0.851       106
-  Substrain      0.000     0.000     0.000         1
-       Supp      0.835     0.706     0.765       136
-   Gversion      0.000     0.000     0.000         0
-
-avg / total      0.864     0.773     0.811       480
-
-
-Top likely transitions:
-OD     -> OD      6.289427
-Agit   -> Agit    6.267353
-Temp   -> Temp    5.783774
-Air    -> Air     5.351944
-Med    -> Med     5.160137
-Anti   -> Anti    4.729843
-Gversion -> Gversion 4.256435
-Gtype  -> Gtype   4.229740
-Supp   -> Supp    4.114596
-Phase  -> Phase   4.079539
-Technique -> Technique 3.363448
-O      -> O       3.125273
-pH     -> pH      2.487113
-O      -> Supp    1.331978
-Air    -> O       1.197935
-Substrain -> Gtype   0.867656
-O      -> Technique 0.848943
-Gtype  -> Supp    0.842999
-O      -> Gtype   0.806504
-Med    -> O       0.277505
-OD     -> Phase   0.274387
-Technique -> Air     0.254899
-Gtype  -> Air     0.194030
-O      -> Anti    0.155845
-Temp   -> O       0.076714
-O      -> Temp    0.055684
-O      -> Gversion 0.011422
-Phase  -> Technique -0.000422
-O      -> Med     -0.114582
-Supp   -> Technique -0.122463
-Phase  -> OD      -0.142889
-Supp   -> O       -0.146822
-O      -> Phase   -0.168062
-O      -> OD      -0.179767
-OD     -> Gtype   -0.206495
-Supp   -> Gtype   -0.284656
-Gtype  -> Med     -0.297248
-Gtype  -> OD      -0.310283
-Technique -> OD      -0.344965
-OD     -> Air     -0.364197
-Anti   -> O       -0.368065
-Technique -> pH      -0.470302
-Gversion -> O       -0.499305
-Supp   -> Med     -0.541780
-Gtype  -> Anti    -0.621750
-OD     -> O       -0.828115
-O      -> Air     -0.867377
-Med    -> Supp    -0.872960
-Gtype  -> O       -0.956730
-Substrain -> O       -1.072085
-
-
-Top unlikely transitions:
-Temp   -> Temp    5.783774
-Air    -> Air     5.351944
-Med    -> Med     5.160137
-Anti   -> Anti    4.729843
-Gversion -> Gversion 4.256435
-Gtype  -> Gtype   4.229740
-Supp   -> Supp    4.114596
-Phase  -> Phase   4.079539
-Technique -> Technique 3.363448
-O      -> O       3.125273
-pH     -> pH      2.487113
-O      -> Supp    1.331978
-Air    -> O       1.197935
-Substrain -> Gtype   0.867656
-O      -> Technique 0.848943
-Gtype  -> Supp    0.842999
-O      -> Gtype   0.806504
-Med    -> O       0.277505
-OD     -> Phase   0.274387
-Technique -> Air     0.254899
-Gtype  -> Air     0.194030
-O      -> Anti    0.155845
-Temp   -> O       0.076714
-O      -> Temp    0.055684
-O      -> Gversion 0.011422
-Phase  -> Technique -0.000422
-O      -> Med     -0.114582
-Supp   -> Technique -0.122463
-Phase  -> OD      -0.142889
-Supp   -> O       -0.146822
-O      -> Phase   -0.168062
-O      -> OD      -0.179767
-OD     -> Gtype   -0.206495
-Supp   -> Gtype   -0.284656
-Gtype  -> Med     -0.297248
-Gtype  -> OD      -0.310283
-Technique -> OD      -0.344965
-OD     -> Air     -0.364197
-Anti   -> O       -0.368065
-Technique -> pH      -0.470302
-Gversion -> O       -0.499305
-Supp   -> Med     -0.541780
-Gtype  -> Anti    -0.621750
-OD     -> O       -0.828115
-O      -> Air     -0.867377
-Med    -> Supp    -0.872960
-Gtype  -> O       -0.956730
-Substrain -> O       -1.072085
-Agit   -> O       -1.092872
-Technique -> O       -1.136884
-
-
-Top positive:
-4.371447 Technique b'lemma[:2]:Ch'
-3.412737 O        b'lemma[:2]:re'
-3.346233 Air      b'lemma:anaerobic'
-3.006455 O        b'lemma:1'
-3.006455 O        b'lemma[:2]:1'
-2.974851 Gtype    b'lemma[:1]:\xce\xb4'
-2.912775 Gtype    b'lemma:arca8myc'
-2.849140 Supp     b'+1:lemma:\xc2\xb5m'
-2.828513 Phase    b'lemma:mid-log'
-2.792393 O        b'lemma:_'
-2.792393 O        b'lemma[:1]:_'
-2.792393 O        b'lemma[:2]:_'
-2.775899 Gtype    b'-1:lemma:\xe2\x88\x86'
-2.625937 Air      b'-1:lemma:ChIP-Seq'
-2.548311 Phase    b'lemma:stationary'
-2.540916 Supp     b'+1:lemma:1'
-2.487761 Supp     b'+1:lemma:2'
-2.442931 Air      b'lemma:aerobic'
-2.440190 O        b'lemma[:2]:ge'
-2.435018 Gtype    b'lemma[:2]:fl'
-2.424212 O        b'-1:lemma:tag'
-2.408234 Supp     b'lemma:Iron'
-2.408234 Supp     b'lemma[:2]:Ir'
-2.348537 Technique b'lemma[:1]:C'
-2.317292 O        b'lemma:2'
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-2.026279 Supp     b'-1:lemma:Cra'
-2.019223 Supp     b'lemma:fructose'
-1.992770 Gversion b'lemma:nc'
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-1.970609 O        b'isLower'
-1.937619 Strain   b'lemma:k-12'
-1.937619 Strain   b'lemma[:2]:k-'
-1.931122 O        b'-1:lemma:0.3-0.35'
-1.881593 Supp     b'-1:lemma:with'
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-1.852069 Technique b'lemma[:2]:ch'
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-1.836687 pH       b'+1:lemma:.5'
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-1.820497 O        b'postag[:2]::'
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-1.792963 O        b'postag[:2]:IN'
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-1.750706 Gversion b'lemma[:2]:00'
-1.749953 Gtype    b'-1:lemma:_'
-1.737043 Substrain b'lemma[:2]:mg'
-1.733603 O        b'-1:lemma:anaerobic'
-1.709162 Gversion b'lemma:chip-seq'
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-1.688968 Gtype    b'+1:lemma:with'
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-1.650389 O        b'lemma:b'
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-1.636378 Med      b'lemma:lb'
-1.636378 Med      b'lemma[:2]:lb'
-1.622025 Vess     b'lemma[:2]:fl'
-1.617013 O        b'-1:lemma:glucose'
-1.592815 Med      b'isUpper'
-1.589934 Supp     b'lemma:rifampicin'
-1.589786 O        b'lemma:a'
-1.589786 O        b'lemma[:2]:a'
-1.586603 O        b'+1:lemma:nacl'
-1.583003 Supp     b'lemma[:1]:I'
-1.580604 Supp     b'lemma[:2]:gl'
-1.576478 Supp     b'lemma[:2]:ri'
-1.566704 Vess     b'lemma:flask'
-1.566704 Vess     b'-1:lemma:warm'
-1.563672 O        b'-1:lemma:l1'
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-1.557695 Med      b'lemma[:2]:MO'
-1.555428 O        b'+1:postag:NNP'
-1.545733 Gtype    b'hGreek'
-1.540517 Supp     b'+1:lemma:_'
-1.532630 Strain   b'+1:lemma:substr'
-1.524978 Phase    b'-1:lemma:mid-log'
-1.523410 O        b'lemma:Custom'
-1.523410 O        b'lemma[:2]:Cu'
-1.506527 Supp     b'lemma[:2]:0.'
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-1.489084 Gtype    b'-1:lemma:rpob'
-1.468114 Technique b'lemma:ChIP-exo'
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-1.435640 Temp     b'lemma[:2]:43'
-1.430453 Gtype    b'lemma:fnr8myc'
-1.423051 Temp     b'-1:lemma:43'
-1.422224 O        b'+1:lemma:ph5'
-1.419624 Supp     b'lemma:acetate'
-1.403936 Med      b'lemma[:1]:m'
-1.397641 O        b'lemma:Cra'
-1.397641 O        b'lemma[:2]:Cr'
-1.395977 Temp     b'-1:lemma:\xcf\x8332'
-1.392367 O        b'lemma:.'
-1.392367 O        b'postag:.'
-1.392367 O        b'postag[:1]:.'
-1.392367 O        b'postag[:2]:.'
-1.392367 O        b'lemma[:2]:.'
-1.391334 Gtype    b'+1:lemma:flagtag'
-1.377069 OD       b'+1:lemma:stationary'
-1.376467 Supp     b'lemma[:1]:1'
-1.373778 Gtype    b'-1:postag:VBG'
-1.369190 pH       b'+1:postag:CD'
-1.364150 Phase    b'-1:lemma:until'
-1.356359 Air      b'+1:postag:IN'
-1.353508 Air      b'lemma[:1]:a'
-1.350471 Supp     b'lemma:no3'
-1.347435 Med      b'lemma:broth'
-1.347435 Med      b'-1:lemma:L'
-1.347435 Med      b'lemma[:2]:br'
-1.340636 Gtype    b'symb'
-1.337653 Supp     b'lemma[:1]:2'
-1.337468 OD       b'lemma[:1]:o'
-1.332813 O        b'+1:lemma:anti-fur'
-1.329231 Gtype    b'+1:lemma::'
-1.323371 Temp     b'+1:lemma:\xc2\xb0c'
-1.316239 O        b'-1:lemma:media'
-1.308580 Anti     b'-1:lemma::'
-1.308448 Technique b'-1:lemma:input'
-1.305697 Gtype    b'lemma[:1]:f'
-1.304733 O        b'lemma[:1]:r'
-1.298211 Gversion b'+1:lemma:000913'
-1.282839 Supp     b'lemma:methanol'
-1.281363 Air      b'-1:postag:CD'
-1.280599 Supp     b'lemma:Fe'
-1.280599 Supp     b'lemma[:2]:Fe'
-1.280195 O        b'lemma[:1]:C'
-1.274450 O        b'-1:lemma:type'
-1.274241 Supp     b'lemma:dpd'
-1.274241 Supp     b'lemma[:2]:dp'
-1.264726 Phase    b'lemma[:2]:st'
-1.261615 Med      b'+1:lemma:-lrb-'
-1.258563 Phase    b'lemma[:2]:mi'
-1.256496 Supp     b'lemma:of'
-1.256496 Supp     b'lemma[:2]:of'
-1.254569 Substrain b'+1:lemma:phtpg'
-1.254075 Technique b'-1:lemma:_'
-1.245791 Med      b'+1:postag:-LRB-'
-1.240716 Technique b'lemma[:1]:c'
-1.237704 Anti     b'lemma:none'
-1.235216 Supp     b'lemma[:2]:ac'
-1.234140 Gtype    b'-1:lemma:nsrr'
-1.233335 O        b'lemma:\xcf\x8332'
-1.233335 O        b'lemma[:1]:\xcf\x83'
-1.233335 O        b'lemma[:2]:\xcf\x833'
-1.229676 Air      b'-1:lemma:-'
-
-
-Top negative:
--0.051463 Temp     b'postag:JJ'
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--0.074669 Supp     b'postag[:2]:CD'
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--0.083466 O        b'+1:lemma:mg/ml'
--0.083466 O        b'lemma[:2]:15'
--0.084358 O        b'lemma:glucose'
--0.089803 Supp     b'lemma[:1]:o'
--0.090889 Gtype    b'lemma[:1]:r'
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--0.096854 Supp     b'lemma[:2]:2'
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--0.111139 O        b'-1:lemma:rna'
--0.113070 Air      b'postag:CC'
--0.113070 Air      b'postag[:2]:CC'
--0.116092 OD       b'postag[:1]:J'
--0.116092 OD       b'postag[:2]:JJ'
--0.116551 O        b'-1:lemma:\xe2\x88\x86'
--0.119208 O        b'-1:lemma:of'
--0.120060 O        b'+1:lemma:arginine'
--0.120674 pH       b'isLower'
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--0.123572 Phase    b'postag:JJ'
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--0.129027 Gtype    b'-1:lemma:,'
--0.129027 Gtype    b'-1:postag:,'
--0.130686 Med      b'postag[:1]:C'
--0.131309 Supp     b'+1:lemma:rifampicin'
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--0.147695 Air      b'-1:lemma:anaerobically'
--0.147731 pH       b'postag[:1]:N'
--0.147731 pH       b'postag[:2]:NN'
--0.150331 Supp     b'hUpper'
--0.150331 Supp     b'hLower'
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--0.168761 Vess     b'hLower'
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--0.244233 O        b'+1:lemma:.'
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--0.289474 Phase    b'-1:postag:JJ'
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--0.301898 O        b'lemma[:2]:wt'
--0.302943 O        b'lemma[:2]:0.'
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--0.308105 O        b'+1:lemma:fecl2'
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--0.327682 O        b'lemma[:2]:37'
--0.327793 Supp     b'postag[:1]:C'
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--0.337349 Supp     b'-1:lemma:%'
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--0.339976 Air      b'-1:lemma:or'
--0.355481 O        b'-1:postag:-LRB-'
--0.358486 O        b'lemma:anaerobically'
--0.362559 Technique b'postag:NN'
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--0.369284 Temp     b'+1:lemma:to'
--0.369284 Temp     b'+1:postag:TO'
--0.371266 O        b'+1:postag:-RRB-'
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--0.435796 Agit     b'hUpper'
--0.435796 Agit     b'hLower'
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--0.511772 Supp     b'postag[:2]:JJ'
--0.518180 Temp     b'hGreek'
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--0.750040 Gversion b'isLower'
--0.776375 O        b'+1:lemma:g/l'
--0.778177 O        b'-1:lemma:dissolve'
--0.778177 O        b'+1:lemma:methanol'
--0.796433 O        b'+1:lemma:hour'
--0.798962 Gtype    b'isNumber'
--0.864076 O        b'lemma[:2]:ri'
--0.864983 O        b'-1:lemma:nsrr'
--0.897796 Gtype    b'isUpper'
--0.915145 Phase    b'hUpper'
--0.915145 Phase    b'hLower'
--0.971040 O        b'lemma:mid-log'
--0.973820 O        b'lemma:rifampicin'
--0.985135 O        b'lemma[:1]:\xce\xb4'
--0.989912 Supp     b'symb'
--1.024646 O        b'-1:lemma:rpob'
--1.027096 O        b'lemma:methanol'
--1.040232 O        b'+1:postag:VBG'
--1.074775 Gtype    b'lemma[:2]:rp'
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--1.242720 O        b'-1:postag:VBG'
--1.254198 O        b'+1:lemma:in'
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--1.431865 Supp     b'hGreek'
--1.551257 O        b'-1:postag::'
--1.707232 O        b'-1:lemma:2'
--1.771113 OD       b'postag[:1]:-'
--1.831476 O        b'+1:lemma:2'
--1.836996 OD       b'lemma[:1]:-'
--2.234728 O        b'+1:lemma:1'
--3.071950 O        b'-1:lemma::'
--3.880058 O        b'-1:lemma:_'
-

@@ -24,9 +24,9 @@ echo
 echo
 echo "Filter all paragraphs with tags..."
 echo "Add sentence-end-tag PGCGROWTHCONDITIONS..."
-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
+grep -E "<[^<]*>"  * | grep -E  '!'| cut -f2-5 -d'='|sort|uniq|awk '{ print $_" PGCGROWTHCONDITIONS"; }'  > /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt
 echo
-echo "Number of total tag sentences: "$(wc /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt -l);
+echo "Number of total tag sentences: "$(wc /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt -l);
 echo
 echo
-echo "Saving file: /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt";
+echo "Saving file: /home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt";

@@ -4,7 +4,7 @@ echo "==============================Run CoreNLP=================================
 echo
 echo
 
-input="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces_v2.txt";
+input="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/input/raw-metadata-senteneces.txt";
 output="/home/egaytan/automatic-extraction-growth-conditions/CoreNLP/output/";
 echo "input file: "$input;
 echo

@@ -35,7 +35,11 @@
  ArgR_<Supp>Arginine</Supp>_2 PGCGROWTHCONDITIONS
  ArgR_<Supp>NH4Cl</Supp>_1 PGCGROWTHCONDITIONS
  ArgR_<Supp>NH4Cl</Supp>_2 PGCGROWTHCONDITIONS
- At <OD>OD450  PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 0 min after induction PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 10 min after induction PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 20 min after induction PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 2.5 min after induction PGCGROWTHCONDITIONS
+ At <OD>OD450 = 0.3</OD>, cultures induced with <Supp>1 mM IPTG</Supp>. Cells harvested 5 min after induction PGCGROWTHCONDITIONS
  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
  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
  carbon source: <Supp>acetate</Supp> PGCGROWTHCONDITIONS
@@ -112,8 +116,8 @@
  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
  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
  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
- 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
- E. coli K-12 MG1655 WT, gadE, gadW and gadX mutant cells were grown to mid-log phase (OD600  PGCGROWTHCONDITIONS
+ 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
+ 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
  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
  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
  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 @@
  growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>1 µM FeSO4</Supp> PGCGROWTHCONDITIONS
  growth phase: <Phase>exponential</Phase> PGCGROWTHCONDITIONS
  growth phase: <Phase>mid-log</Phase> PGCGROWTHCONDITIONS
- growth phase: <Phase>mid-log phase</Phase> (<OD>OD600  PGCGROWTHCONDITIONS
+ growth phase: <Phase>mid-log phase</Phase> (<OD>OD600 = 0.3</OD>) PGCGROWTHCONDITIONS
  growth phase: <Phase>stationary</Phase> PGCGROWTHCONDITIONS
  <Gtype>∆fnr</Gtype> - <Air>Anaeroibc</Air> PGCGROWTHCONDITIONS
  <Gtype>∆fnr</Gtype> ChIP DNA from <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS

- agent: <Supp>DPD and rifampicin</Supp> PGCGROWTHCONDITIONS
- agent: <Supp>DPD</Supp> PGCGROWTHCONDITIONS
- agent: <Supp>Fe and rifampicin</Supp> PGCGROWTHCONDITIONS
- agent: <Supp>Fe</Supp> PGCGROWTHCONDITIONS
- <Air>Aerobic</Air> cultures PGCGROWTHCONDITIONS
- <Air>Anaerobic</Air> cultures PGCGROWTHCONDITIONS
- 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
- antibody: <Anti>9E10 Myc tag</Anti> antibody PGCGROWTHCONDITIONS
- antibody: <Anti>Affinity Purified FNR antibody</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>anti-FLAG mAb</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>Pre-cleared FNR antibody</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>Pre-cleared H-NS polyclonal antibody</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>Pre-cleared IHF polyclonal antibody</Anti> PGCGROWTHCONDITIONS
- antibody: <Anti>RNA Polymerase ß monoclonal antibody</Anti> from NeoClone (W0002) PGCGROWTHCONDITIONS
- At <OD>OD450  PGCGROWTHCONDITIONS
- 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
- 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
- carbon source: <Supp>acetate</Supp> PGCGROWTHCONDITIONS
- carbon source: <Supp>fructose</Supp> PGCGROWTHCONDITIONS
- carbon source: <Supp>glucose</Supp> PGCGROWTHCONDITIONS
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- chip antibody: <Anti>9E10 Myc tag</Anti> antibody PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-myc</Anti> PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-myc</Anti> (Santa Cruz Biotech, sc-28207) PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-RpoB</Anti> (Neoclone, WP002) PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-rpoB</Anti> (Santa Cruz Biotech, sc-56766) PGCGROWTHCONDITIONS
- chip antibody: <Anti>anti-RpoS</Anti> (neoclone, WP009) PGCGROWTHCONDITIONS
- chip antibody: <Anti>none</Anti> PGCGROWTHCONDITIONS
- chip antibody: <Anti>RNA polymerase subunit β</Anti> PGCGROWTHCONDITIONS
- chip antibody: <Anti>SeqA</Anti> PGCGROWTHCONDITIONS
- chip antibody: <Anti>σ32</Anti> PGCGROWTHCONDITIONS
- chip antibody: Custom <Anti>anti-Fur polyclonal antibody</Anti> PGCGROWTHCONDITIONS
- ChIP-exo reads were aligned to the <Gversion>NC_000913</Gversion> genome reference sequence using using bowtie v1.0.0 with parameters  -S PGCGROWTHCONDITIONS
- ChIP-exo reads were aligned to the <Gversion>NC_000913 </Gversion>genome reference sequence using using bowtie v1.0.0 with parameters  -S PGCGROWTHCONDITIONS
- culture condition: <Air>Aerobic</Air> cultures PGCGROWTHCONDITIONS
- culture condition: <Air>Anaerobic</Air> cultures PGCGROWTHCONDITIONS
- cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% acetate</Supp> PGCGROWTHCONDITIONS
- cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% fructose</Supp> PGCGROWTHCONDITIONS
- cultured in: <Med>M9 minimal media</Med> with <Supp>0.2% glucose</Supp> PGCGROWTHCONDITIONS
- Cultures grown in <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp> PGCGROWTHCONDITIONS
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- E. coli K-12 MG1655 WT, gadE, gadW and gadX mutant cells were grown to mid-log phase (OD600  PGCGROWTHCONDITIONS
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- 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
- Escherichia coli MG1655 K-12 <Gtype>dFNR (PK4854)</Gtype> PGCGROWTHCONDITIONS
- 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
- Genome_build: Escherichia coli MG1655 K-12 genome version <Gversion>U00096.2</Gversion> PGCGROWTHCONDITIONS
- Genome_build: <Gversion>ASM584v2</Gversion> PGCGROWTHCONDITIONS
- Genome_build: <Gversion>NC_000913.2</Gversion> PGCGROWTHCONDITIONS
- Genome_build: <Gversion>NC_000913</Gversion> PGCGROWTHCONDITIONS
- Genome_build: <Gversion>U00096.2</Gversion> (GenBank) PGCGROWTHCONDITIONS
- genotype: delta-<Gtype>cra Knock-out strain</Gtype> PGCGROWTHCONDITIONS
- genotype: delta-<Gtype>crp Knock-out strain</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>ArgR-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>gadE-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>gadW-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>gadX-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>Lrp-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>ompR-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>ompR deletion mutant</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>PurR-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>TrpR-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>wildtype</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>Wildtype</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
- genotype: <Gtype>ΔseqA</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>Combined input</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>cra-8myc-tagged</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta_cra</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-gadE</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-gadW</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-gadX</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>{delta}lacZ, {delta}tonB, {delta}feoA, {delta}zupT K12</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-oxyR</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-soxR</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>delta-soxS</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>{delta}tonB, {delta}feoA, {delta}zupT K12</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>fur-8myc</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>lacking the small RNA RyhB</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>lacking the transcription factor Fur and the small RNA RyhB</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>lacking the transcription factor Fur</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>oxyR-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>soxR-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>soxS-8myc</Gtype>-tagged PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>wild type</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>Wild-type</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
- genotype/variation: <Gtype>Δfur</Gtype> PGCGROWTHCONDITIONS
- genoype: <Gtype>dFNR</Gtype> PGCGROWTHCONDITIONS
- genoype: <Gtype>Wild-Type</Gtype> PGCGROWTHCONDITIONS
- growth condition: <Air>Aerobic</Air> PGCGROWTHCONDITIONS
- growth condition: <Air>anaerobic</Air> PGCGROWTHCONDITIONS
- growth condition: <Air>Anaerobic</Air> PGCGROWTHCONDITIONS
- growth condition: <Supp>16 µM IPTG</Supp> PGCGROWTHCONDITIONS
- growth condition: <Supp>4 µM IPTG</Supp> PGCGROWTHCONDITIONS
- growth condition: <Supp>8 µM IPTG</Supp> PGCGROWTHCONDITIONS
- growth condition: <Supp>Adenine</Supp> PGCGROWTHCONDITIONS
- growth condition: <Supp>glucose</Supp> PGCGROWTHCONDITIONS
- growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>10 µM FeSO4</Supp> PGCGROWTHCONDITIONS
- growth medium: <Med>MOPS minimal glucose media</Med> containing <Supp>1 µM FeSO4</Supp> PGCGROWTHCONDITIONS
- growth phase: <Phase>exponential</Phase> PGCGROWTHCONDITIONS
- growth phase: <Phase>mid-log</Phase> PGCGROWTHCONDITIONS
- growth phase: <Phase>mid-log phase</Phase> (<OD>OD600  PGCGROWTHCONDITIONS
- growth phase: <Phase>stationary</Phase> PGCGROWTHCONDITIONS
- <Gtype>∆fnr</Gtype> ChIP DNA from <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS
- <Gversion>ChIP-Seq</Gversion> PGCGROWTHCONDITIONS
- ip antibody: <Anti>affinity purified anti-Fur antibody</Anti> PGCGROWTHCONDITIONS
- library strategy: <Technique>ChIP-exo</Technique> PGCGROWTHCONDITIONS
- medium: <Med>LB</Med> PGCGROWTHCONDITIONS
- medium: <Med>M63</Med> PGCGROWTHCONDITIONS
- <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
- <Name>ArgR_Arginine_1</Name> PGCGROWTHCONDITIONS
- <Name>ArgR_Arginine_2</Name> PGCGROWTHCONDITIONS
- <Name>ArgR_NH4Cl_1</Name> PGCGROWTHCONDITIONS
- <Name>ArgR_NH4Cl_2</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadE pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadE pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadW pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadW pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadX pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo GadX pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo RpoS pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ChIP-exo RpoS pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>Cra acetate 1</Name> PGCGROWTHCONDITIONS
- <Name>Cra acetate 2</Name> PGCGROWTHCONDITIONS
- <Name>Cra fructose 1</Name> PGCGROWTHCONDITIONS
- <Name>Cra fructose 2</Name> PGCGROWTHCONDITIONS
- <Name>Cra glucose 1</Name> PGCGROWTHCONDITIONS
- <Name>Cra glucose 2</Name> PGCGROWTHCONDITIONS
- <Name>Crosslink</Name> PGCGROWTHCONDITIONS
- <Name>CsiR_ChIPSeq</Name> PGCGROWTHCONDITIONS
- <Name>CsiR_RNASeq</Name> PGCGROWTHCONDITIONS
- <Name>EC18n122 RpoH 10 min Time course 4</Name> PGCGROWTHCONDITIONS
- <Name>EC18n167 RpoH 0 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n168 RpoH 2.5 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n169 RpoH 5 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n170 RpoH 10 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n171 RpoH 20 min Time course 2</Name> PGCGROWTHCONDITIONS
- <Name>EC18n177 RpoH 0 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n178 RpoH 2.5 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n179 RpoH 5 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n180 RpoH 10 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n181 RpoH 20 min Time course 1</Name> PGCGROWTHCONDITIONS
- <Name>EC18n182 RpoH 0 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>EC18n183 RpoH 2.5 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>EC18n184 RpoH 5 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>EC18n185 RpoH 10 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>EC18n186 RpoH 20 min Time course 3</Name> PGCGROWTHCONDITIONS
- <Name>Ecoli_dFNR_rep1_anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>Ecoli_dFNR_rep2_anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>Ecoli_wild-type_rep1_anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>Ecoli_wild-type_rep2_anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>Escherichia coli str. K-12 substr. MG1655</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - Affinity Purified - A</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - Affinity Purified - B</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - A</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - B</Name> PGCGROWTHCONDITIONS
- <Name>FNR - Anaerobic - C</Name> PGCGROWTHCONDITIONS
- <Name>∆fnr - Anaeroibc</Name> PGCGROWTHCONDITIONS
- <Name>FNR - ∆hns∆stpA A</Name> PGCGROWTHCONDITIONS
- <Name>FNR - ∆hns∆stpA B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur Anaerobic [IP vs nput]</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Aerobic C</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic C</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic, Iron Deficient A</Name> PGCGROWTHCONDITIONS
- <Name>Fur IP ChIP-Seq Anaerobic, Iron Deficient B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur ∆ryhB Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>∆fur ∆ryhB Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>∆fur ∆ryhB Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>∆fur ∆ryhB Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Fur with DPD 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>Fur with DPD 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>Fur with Fe 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>Fur with Fe 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>HNS - Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>HNS - Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>HNS - Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>HNS - Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>IHF - Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>IHF - Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Input ChIP-Seq</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>LB 0.4 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B1 TEX neg L2 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B1 TEX pos L2 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX neg L2 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>LB 2.0 B2 TEX pos L2 HS2</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_Leu_1</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_Leu_2</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_Leu_3</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_NH4Cl_1</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_NH4Cl_2</Name> PGCGROWTHCONDITIONS
- <Name>Lrp_NH4Cl_3</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B1 TEX neg L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B1 TEX pos L1 GA</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B2 TEX neg L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B2 TEX neg L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B2 TEX pos L1 HS1</Name> PGCGROWTHCONDITIONS
- <Name>M63 0.4 B2 TEX pos L1 HS2</Name> PGCGROWTHCONDITIONS
- <Name>Nac_ChIPSeq</Name> PGCGROWTHCONDITIONS
- <Name>Nac_RNASeq</Name> PGCGROWTHCONDITIONS
- <Name>NsrR_Flagtag_rep1</Name> PGCGROWTHCONDITIONS
- <Name>NsrR_Flagtag_rep2</Name> PGCGROWTHCONDITIONS
- <Name>NsrR_Flagtag_rep3</Name> PGCGROWTHCONDITIONS
- <Name>NtrC_ChIPSeq</Name> PGCGROWTHCONDITIONS
- <Name>OmpR_ChIPSeq</Name> PGCGROWTHCONDITIONS
- <Name>OmpR NaCl 1</Name> PGCGROWTHCONDITIONS
- <Name>OmpR NaCl 2</Name> PGCGROWTHCONDITIONS
- <Name>OxyR PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>OxyR PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>pT7_ChIPSeq_1</Name> PGCGROWTHCONDITIONS
- <Name>pT7_ChIPSeq_2</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - A - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - A - 4 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - A - 8 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - B - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - B - 4 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - B - 8 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>Ptac::fnr - C - 16 µM IPTG</Name> PGCGROWTHCONDITIONS
- <Name>PurR_Adenine_1</Name> PGCGROWTHCONDITIONS
- <Name>PurR_Adenine_2</Name> PGCGROWTHCONDITIONS
- <Name>PurR_glucose_1</Name> PGCGROWTHCONDITIONS
- <Name>PurR_glucose_2</Name> PGCGROWTHCONDITIONS
- <Name>RNAP old rep1</Name> PGCGROWTHCONDITIONS
- <Name>RNAP old rep2</Name> PGCGROWTHCONDITIONS
- <Name>RpoB ∆cra 1</Name> PGCGROWTHCONDITIONS
- <Name>RpoB ∆cra 2</Name> PGCGROWTHCONDITIONS
- <Name>RpoB ∆crp 1</Name> PGCGROWTHCONDITIONS
- <Name>RpoB ∆crp 2</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with DPD 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with DPD 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with DPD and rifampicin 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with DPD and rifampicin 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with Fe 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with Fe 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with Fe and rifampicin 1 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB with Fe and rifampicin 2 (ChIP-exo)</Name> PGCGROWTHCONDITIONS
- <Name>RpoB WT 1</Name> PGCGROWTHCONDITIONS
- <Name>RpoB WT 2</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (0 min)</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (10 min)</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (20 min)</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (2.5 min)</Name> PGCGROWTHCONDITIONS
- <Name>RpoH induced (5 min)</Name> PGCGROWTHCONDITIONS
- <Name>∆ryhB Aerobic</Name> PGCGROWTHCONDITIONS
- <Name>∆ryhB Anaerobic</Name> PGCGROWTHCONDITIONS
- <Name>SeqA new deltaSeqA</Name> PGCGROWTHCONDITIONS
- <Name>SeqA new rep1</Name> PGCGROWTHCONDITIONS
- <Name>SeqA new rep2</Name> PGCGROWTHCONDITIONS
- <Name>SeqA old deltaSeqA</Name> PGCGROWTHCONDITIONS
- <Name>SeqA old rep1</Name> PGCGROWTHCONDITIONS
- <Name>SeqA old rep2</Name> PGCGROWTHCONDITIONS
- <Name>SoxR PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>SoxR PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>SoxS PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>SoxS PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>ß - Aerobic - A</Name> PGCGROWTHCONDITIONS
- <Name>ß - Aerobic - B</Name> PGCGROWTHCONDITIONS
- <Name>ß - Anaerobic - A</Name> PGCGROWTHCONDITIONS
- <Name>ß - Anaerobic - B</Name> PGCGROWTHCONDITIONS
- <Name>TrpR_glucose</Name> PGCGROWTHCONDITIONS
- <Name>TrpR_Trp</Name> PGCGROWTHCONDITIONS
- <Name>Wild-type Aerobic A</Name> PGCGROWTHCONDITIONS
- <Name>Wild-type Aerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Wild-type Anaerobic A</Name> PGCGROWTHCONDITIONS
- <Name>Wild-type Anaerobic B</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (0 min)</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (10 min)</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (20 min)</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (2.5 min)</Name> PGCGROWTHCONDITIONS
- <Name>Wild type control (5 min)</Name> PGCGROWTHCONDITIONS
- <Name>WT acetate 1</Name> PGCGROWTHCONDITIONS
- <Name>WT acetate 2</Name> PGCGROWTHCONDITIONS
- <Name>WT_ChIPSeq_1</Name> PGCGROWTHCONDITIONS
- <Name>WT_ChIPSeq_2</Name> PGCGROWTHCONDITIONS
- <Name>WT fructose 1</Name> PGCGROWTHCONDITIONS
- <Name>WT fructose 2</Name> PGCGROWTHCONDITIONS
- <Name>WT glucose 1</Name> PGCGROWTHCONDITIONS
- <Name>WT glucose 2</Name> PGCGROWTHCONDITIONS
- <Name>WT NaCl 1</Name> PGCGROWTHCONDITIONS
- <Name>WT NaCl 2</Name> PGCGROWTHCONDITIONS
- <Name>WT pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>WT pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>WT PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>WT PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>WT_RNASeq</Name> PGCGROWTHCONDITIONS
- <Name>WT with DPD 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>WT with DPD 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>WT with Fe 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>WT with Fe 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>Δcra acetate 1</Name> PGCGROWTHCONDITIONS
- <Name>Δcra acetate 2</Name> PGCGROWTHCONDITIONS
- <Name>Δcra fructose 1</Name> PGCGROWTHCONDITIONS
- <Name>Δcra fructose 2</Name> PGCGROWTHCONDITIONS
- <Name>Δcra glucose 1</Name> PGCGROWTHCONDITIONS
- <Name>Δcra glucose 2</Name> PGCGROWTHCONDITIONS
- <Name>Δfur with DPD 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>Δfur with DPD 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>Δfur with Fe 1 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>Δfur with Fe 2 (RNA-seq)</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadE pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadE pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadW pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadW pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadX pH5.5 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔgadX pH5.5 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔompR NaCl 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔompR NaCl 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔoxyR PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔoxyR PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔsoxR PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔsoxR PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>ΔsoxS PQ 1</Name> PGCGROWTHCONDITIONS
- <Name>ΔsoxS PQ 2</Name> PGCGROWTHCONDITIONS
- <Name>σ32 30°C rep1</Name> PGCGROWTHCONDITIONS
- <Name>σ32 30°C rep2</Name> PGCGROWTHCONDITIONS
- <Name>σ32 30°C short RNase</Name> PGCGROWTHCONDITIONS
- <Name>σ32 43°C rep1</Name> PGCGROWTHCONDITIONS
- <Name>σ32 43°C rep2</Name> PGCGROWTHCONDITIONS
- <Name>σ32 43°C short RNase</Name> PGCGROWTHCONDITIONS
- <Name>σ32 ChIP DNA, control</Name> PGCGROWTHCONDITIONS
- <Name>σ32 ChIP DNA, heat</Name> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli K-12</Orgn> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli</Orgn> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli</Orgn> str. <Strain>K-12</Strain> substr. <Substrain>MG1655star</Substrain> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli</Orgn> str. <Strain>K-12</Strain> substr. <Substrain>MG1655</Substrain> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli str. K-12 substr. MG1655</Orgn> PGCGROWTHCONDITIONS
- <Orgn>Escherichia coli str. K-12 substr. MG1655star</Orgn> PGCGROWTHCONDITIONS
- 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
- 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
- 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
- strain: <Gtype>∆hns/∆stpA</Gtype> PGCGROWTHCONDITIONS
- strain: <Gtype>PK4854</Gtype> PGCGROWTHCONDITIONS
- strain: <Gtype>PK8263</Gtype> PGCGROWTHCONDITIONS
- strain: MG1655 K-12 <Gtype>WT</Gtype> PGCGROWTHCONDITIONS
- strain: <Orgn>K-12 MG1655</Orgn> PGCGROWTHCONDITIONS
- strain: <Orgn>MG1655</Orgn> PGCGROWTHCONDITIONS
- strain: <Strain>K-12</Strain> PGCGROWTHCONDITIONS
- <Substrain>MG1655</Substrain> <Gtype>PhtpG::lacZ delta lacX74/pTG2 (vector carrying inducible Ptrc::rpoH)</Gtype> PGCGROWTHCONDITIONS
- <Substrain>MG1655</Substrain> <Gtype>PhtpG::lacZ delta lacX74/ptrc99A (control vector)</Gtype> PGCGROWTHCONDITIONS
- <Supp>acetate</Supp> PGCGROWTHCONDITIONS
- <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
- <Technique>ChIP-Seq</Technique> PGCGROWTHCONDITIONS
- <Technique>RNA-Seq</Technique> PGCGROWTHCONDITIONS
- 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
- 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
- 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
- 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
- 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
- treated with: <Supp>250 uM of paraquat</Supp> at <Phase>mid-log pahse</Phase> for <Supp>20 min</Supp> PGCGROWTHCONDITIONS
- treated with: <Supp>250 uM of paraquat</Supp> at <Phase>mid-log phase</Phase> for <Supp>20 min</Supp> PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented without <Supp>10 mM leucine</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented without <Supp>20 mg/L tryptophan</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented with <Supp>10 mM leucine</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal M9 medium</Med> supplemented with <Supp>20 mg/L tryptophan</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal W2 medium</Med> supplemented with <Supp>1g/L arginine</Supp>. PGCGROWTHCONDITIONS
- treatment: <Med>glucose (2 g/L) minimal W2 medium</Med> supplemented with <Supp>2g/L glutamine</Supp>. PGCGROWTHCONDITIONS

@@ -863,15 +863,131 @@
 100	At	at	IN	_	_	_
 101	<OD>	<od>	NN	_	_	_
 102	OD450	od450	NN	_	_	_
-103	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-104	A	a	NN	_	_	_
-105	total	total	NN	_	_	_
-106	of	of	IN	_	_	_
-107	six	six	CD	_	_	_
-108	samples	sample	NNS	_	_	_
-109	were	be	VBD	_	_	_
-110	analyzed	analyze	VBN	_	_	_
-111	.	.	.	_	_	_
+103	=	=	JJ	_	_	_
+104	0.3	0.3	CD	_	_	_
+105	</OD>	</od>	NN	_	_	_
+106	,	,	,	_	_	_
+107	cultures	culture	NNS	_	_	_
+108	induced	induce	VBN	_	_	_
+109	with	with	IN	_	_	_
+110	<Supp>	<supp>	NN	_	_	_
+111	1	1	CD	_	_	_
+112	mM	mm	NN	_	_	_
+113	IPTG	iptg	NN	_	_	_
+114	</Supp>	</supp>	NN	_	_	_
+115	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBD	_	_	_
+3	0	0	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+8	At	at	IN	_	_	_
+9	<OD>	<od>	NN	_	_	_
+10	OD450	od450	NN	_	_	_
+11	=	=	JJ	_	_	_
+12	0.3	0.3	CD	_	_	_
+13	</OD>	</od>	NN	_	_	_
+14	,	,	,	_	_	_
+15	cultures	culture	NNS	_	_	_
+16	induced	induce	VBN	_	_	_
+17	with	with	IN	_	_	_
+18	<Supp>	<supp>	NN	_	_	_
+19	1	1	CD	_	_	_
+20	mM	mm	NN	_	_	_
+21	IPTG	iptg	NN	_	_	_
+22	</Supp>	</supp>	NN	_	_	_
+23	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBD	_	_	_
+3	10	10	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+8	At	at	IN	_	_	_
+9	<OD>	<od>	NN	_	_	_
+10	OD450	od450	NN	_	_	_
+11	=	=	JJ	_	_	_
+12	0.3	0.3	CD	_	_	_
+13	</OD>	</od>	NN	_	_	_
+14	,	,	,	_	_	_
+15	cultures	culture	NNS	_	_	_
+16	induced	induce	VBN	_	_	_
+17	with	with	IN	_	_	_
+18	<Supp>	<supp>	NN	_	_	_
+19	1	1	CD	_	_	_
+20	mM	mm	NN	_	_	_
+21	IPTG	iptg	NN	_	_	_
+22	</Supp>	</supp>	NN	_	_	_
+23	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBN	_	_	_
+3	20	20	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+8	At	at	IN	_	_	_
+9	<OD>	<od>	NN	_	_	_
+10	OD450	od450	NN	_	_	_
+11	=	=	JJ	_	_	_
+12	0.3	0.3	CD	_	_	_
+13	</OD>	</od>	NN	_	_	_
+14	,	,	,	_	_	_
+15	cultures	culture	NNS	_	_	_
+16	induced	induce	VBN	_	_	_
+17	with	with	IN	_	_	_
+18	<Supp>	<supp>	NN	_	_	_
+19	1	1	CD	_	_	_
+20	mM	mm	NN	_	_	_
+21	IPTG	iptg	NN	_	_	_
+22	</Supp>	</supp>	NN	_	_	_
+23	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBN	_	_	_
+3	2.5	2.5	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+8	At	at	IN	_	_	_
+9	<OD>	<od>	NN	_	_	_
+10	OD450	od450	NN	_	_	_
+11	=	=	JJ	_	_	_
+12	0.3	0.3	CD	_	_	_
+13	</OD>	</od>	NN	_	_	_
+14	,	,	,	_	_	_
+15	cultures	culture	NNS	_	_	_
+16	induced	induce	VBN	_	_	_
+17	with	with	IN	_	_	_
+18	<Supp>	<supp>	NN	_	_	_
+19	1	1	CD	_	_	_
+20	mM	mm	NN	_	_	_
+21	IPTG	iptg	NN	_	_	_
+22	</Supp>	</supp>	NN	_	_	_
+23	.	.	.	_	_	_
+
+1	Cells	cell	NNS	_	_	_
+2	harvested	harvest	VBN	_	_	_
+3	5	5	CD	_	_	_
+4	min	min	NN	_	_	_
+5	after	after	IN	_	_	_
+6	induction	induction	NN	_	_	_
+7	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+8	A	a	NN	_	_	_
+9	total	total	NN	_	_	_
+10	of	of	IN	_	_	_
+11	six	six	CD	_	_	_
+12	samples	sample	NNS	_	_	_
+13	were	be	VBD	_	_	_
+14	analyzed	analyze	VBN	_	_	_
+15	.	.	.	_	_	_
 
 1	oxyR-8myc	oxyr-8myc	NN	_	_	_
 2	,	,	,	_	_	_
@@ -3594,67 +3710,142 @@
 23	-LRB-	-lrb-	-LRB-	_	_	_
 24	<OD>	<od>	NN	_	_	_
 25	OD600	od600	NN	_	_	_
-26	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-27	E.	e.	FW	_	_	_
-28	coli	coli	FW	_	_	_
-29	K-12	k-12	NN	_	_	_
-30	MG1655	mg1655	NN	_	_	_
-31	WT	wt	NN	_	_	_
-32	,	,	,	_	_	_
-33	gadE	gade	NN	_	_	_
-34	,	,	,	_	_	_
-35	gadW	gadw	NN	_	_	_
-36	and	and	CC	_	_	_
-37	gadX	gadx	NN	_	_	_
-38	mutant	mutant	JJ	_	_	_
-39	cells	cell	NNS	_	_	_
-40	were	be	VBD	_	_	_
-41	grown	grow	VBN	_	_	_
-42	to	to	TO	_	_	_
-43	mid-log	mid-log	JJ	_	_	_
-44	phase	phase	NN	_	_	_
-45	-LRB-	-lrb-	-LRB-	_	_	_
-46	OD600	od600	NN	_	_	_
-47	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-48	E.	e.	FW	_	_	_
-49	coli	coli	FW	_	_	_
-50	K-12	k-12	NN	_	_	_
-51	MG1655	mg1655	NN	_	_	_
-52	WT	wt	NN	_	_	_
-53	,	,	,	_	_	_
-54	ΔoxyR	δoxyr	NN	_	_	_
-55	,	,	,	_	_	_
-56	ΔsoxR	δsoxr	NN	_	_	_
-57	,	,	,	_	_	_
-58	and	and	CC	_	_	_
-59	ΔsoxS	δsoxs	NN	_	_	_
-60	were	be	VBD	_	_	_
-61	grown	grow	VBN	_	_	_
-62	to	to	TO	_	_	_
-63	mid-log	mid-log	JJ	_	_	_
-64	phase	phase	NN	_	_	_
-65	<Air>	<air>	NN	_	_	_
-66	aerobically	aerobically	RB	_	_	_
-67	</Air>	</air>	NN	_	_	_
-68	at	at	IN	_	_	_
-69	<Temp>	<temp>	NN	_	_	_
-70	37	37	CD	_	_	_
-71	°C	°c	NN	_	_	_
-72	</Temp>	</temp>	NN	_	_	_
-73	in	in	IN	_	_	_
-74	<Med>	<med>	NN	_	_	_
-75	M9	m9	NN	_	_	_
-76	minimal	minimal	JJ	_	_	_
-77	media	media	NNS	_	_	_
-78	</Med>	</med>	NN	_	_	_
-79	supplemented	supplement	VBN	_	_	_
-80	with	with	IN	_	_	_
-81	<Supp>	<supp>	NN	_	_	_
-82	0.2	0.2	CD	_	_	_
-83	%	%	NN	_	_	_
-84	glucose	glucose	NN	_	_	_
-85	</Supp>	</supp>	NN	_	_	_
-86	.	.	.	_	_	_
+26	=	=	JJ	_	_	_
+27	0.3	0.3	CD	_	_	_
+28	</OD>	</od>	NN	_	_	_
+29	-RRB-	-rrb-	-RRB-	_	_	_
+30	<Air>	<air>	NN	_	_	_
+31	aerobically	aerobically	RB	_	_	_
+32	</Air>	</air>	NN	_	_	_
+33	-LRB-	-lrb-	-LRB-	_	_	_
+34	<Agit>	<agit>	NN	_	_	_
+35	250	250	CD	_	_	_
+36	rpm	rpm	NN	_	_	_
+37	</Agit>	</agit>	NN	_	_	_
+38	-RRB-	-rrb-	-RRB-	_	_	_
+39	at	at	IN	_	_	_
+40	<Temp>	<temp>	NN	_	_	_
+41	37	37	CD	_	_	_
+42	°C	°c	NN	_	_	_
+43	</Temp>	</temp>	NN	_	_	_
+44	in	in	IN	_	_	_
+45	<Med>	<med>	NN	_	_	_
+46	M9	m9	NN	_	_	_
+47	minimal	minimal	JJ	_	_	_
+48	media	media	NNS	_	_	_
+49	</Med>	</med>	NN	_	_	_
+50	supplemented	supplement	VBN	_	_	_
+51	with	with	IN	_	_	_
+52	<Supp>	<supp>	NN	_	_	_
+53	0.2	0.2	CD	_	_	_
+54	%	%	NN	_	_	_
+55	glucose	glucose	NN	_	_	_
+56	</Supp>	</supp>	NN	_	_	_
+57	at	at	IN	_	_	_
+58	<pH>	<pH>	NNP	_	_	_
+59	pH	ph	NN	_	_	_
+60	5.5	5.5	CD	_	_	_
+61	</pH>	</ph>	NN	_	_	_
+62	.	.	.	_	_	_
+
+1	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+2	E.	E.	NNP	_	_	_
+3	coli	coli	NN	_	_	_
+4	K-12	k-12	NN	_	_	_
+5	MG1655	mg1655	NN	_	_	_
+6	WT	wt	NN	_	_	_
+7	,	,	,	_	_	_
+8	gadE	gade	NN	_	_	_
+9	,	,	,	_	_	_
+10	gadW	gadw	NN	_	_	_
+11	and	and	CC	_	_	_
+12	gadX	gadx	NN	_	_	_
+13	mutant	mutant	JJ	_	_	_
+14	cells	cell	NNS	_	_	_
+15	were	be	VBD	_	_	_
+16	grown	grow	VBN	_	_	_
+17	to	to	TO	_	_	_
+18	mid-log	mid-log	JJ	_	_	_
+19	phase	phase	NN	_	_	_
+20	-LRB-	-lrb-	-LRB-	_	_	_
+21	OD600	od600	NN	_	_	_
+22	=	=	JJ	_	_	_
+23	0.3	0.3	CD	_	_	_
+24	-RRB-	-rrb-	-RRB-	_	_	_
+25	<Air>	<air>	NN	_	_	_
+26	aerobically	aerobically	RB	_	_	_
+27	</Air>	</air>	NN	_	_	_
+28	-LRB-	-lrb-	-LRB-	_	_	_
+29	<Agit>	<agit>	NN	_	_	_
+30	250	250	CD	_	_	_
+31	rpm	rpm	NN	_	_	_
+32	</Agit>	</agit>	NN	_	_	_
+33	-RRB-	-rrb-	-RRB-	_	_	_
+34	at	at	IN	_	_	_
+35	<Temp>	<temp>	NN	_	_	_
+36	37	37	CD	_	_	_
+37	°C	°c	NN	_	_	_
+38	</Temp>	</temp>	NN	_	_	_
+39	in	in	IN	_	_	_
+40	<Med>	<med>	NN	_	_	_
+41	M9	m9	NN	_	_	_
+42	minimal	minimal	JJ	_	_	_
+43	media	media	NNS	_	_	_
+44	</Med>	</med>	NN	_	_	_
+45	supplemented	supplement	VBN	_	_	_
+46	with	with	IN	_	_	_
+47	<Supp>	<supp>	NN	_	_	_
+48	0.2	0.2	CD	_	_	_
+49	%	%	NN	_	_	_
+50	glucose	glucose	NN	_	_	_
+51	</Supp>	</supp>	NN	_	_	_
+52	at	at	IN	_	_	_
+53	<pH>	<pH>	NNP	_	_	_
+54	pH	ph	NN	_	_	_
+55	5.5	5.5	CD	_	_	_
+56	</pH>	</ph>	NN	_	_	_
+57	.	.	.	_	_	_
+
+1	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+2	E.	E.	NNP	_	_	_
+3	coli	coli	NN	_	_	_
+4	K-12	k-12	NN	_	_	_
+5	MG1655	mg1655	NN	_	_	_
+6	WT	wt	NN	_	_	_
+7	,	,	,	_	_	_
+8	ΔoxyR	δoxyr	NN	_	_	_
+9	,	,	,	_	_	_
+10	ΔsoxR	δsoxr	NN	_	_	_
+11	,	,	,	_	_	_
+12	and	and	CC	_	_	_
+13	ΔsoxS	δsoxs	NN	_	_	_
+14	were	be	VBD	_	_	_
+15	grown	grow	VBN	_	_	_
+16	to	to	TO	_	_	_
+17	mid-log	mid-log	JJ	_	_	_
+18	phase	phase	NN	_	_	_
+19	<Air>	<air>	NN	_	_	_
+20	aerobically	aerobically	RB	_	_	_
+21	</Air>	</air>	NN	_	_	_
+22	at	at	IN	_	_	_
+23	<Temp>	<temp>	NN	_	_	_
+24	37	37	CD	_	_	_
+25	°C	°c	NN	_	_	_
+26	</Temp>	</temp>	NN	_	_	_
+27	in	in	IN	_	_	_
+28	<Med>	<med>	NN	_	_	_
+29	M9	m9	NN	_	_	_
+30	minimal	minimal	JJ	_	_	_
+31	media	media	NNS	_	_	_
+32	</Med>	</med>	NN	_	_	_
+33	supplemented	supplement	VBN	_	_	_
+34	with	with	IN	_	_	_
+35	<Supp>	<supp>	NN	_	_	_
+36	0.2	0.2	CD	_	_	_
+37	%	%	NN	_	_	_
+38	glucose	glucose	NN	_	_	_
+39	</Supp>	</supp>	NN	_	_	_
+40	.	.	.	_	_	_
 
 1	Then	then	RB	_	_	_
 2	cells	cell	NNS	_	_	_
@@ -4688,1189 +4879,1193 @@
 706	-LRB-	-lrb-	-LRB-	_	_	_
 707	<OD>	<od>	NN	_	_	_
 708	OD600	od600	NN	_	_	_
-709	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-710	growth	growth	NN	_	_	_
-711	phase	phase	NN	_	_	_
-712	:	:	:	_	_	_
-713	<Phase>	<phase>	NN	_	_	_
-714	stationary	stationary	JJ	_	_	_
-715	</Phase>	</phase>	NN	_	_	_
-716	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-717	<Gtype>	<gtype>	NN	_	_	_
-718	∆	∆	CD	_	_	_
-719	fnr	fnr	NN	_	_	_
-720	</Gtype>	</gtype>	NN	_	_	_
-721	-	-	:	_	_	_
-722	<Air>	<air>	NN	_	_	_
-723	Anaeroibc	anaeroibc	NN	_	_	_
-724	</Air>	</air>	NN	_	_	_
-725	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-726	<Gtype>	<gtype>	NN	_	_	_
-727	∆	∆	CD	_	_	_
-728	fnr	fnr	NN	_	_	_
-729	</Gtype>	</gtype>	NN	_	_	_
-730	ChIP	chip	NN	_	_	_
-731	DNA	dna	NN	_	_	_
-732	from	from	IN	_	_	_
-733	<Gtype>	<gtype>	NN	_	_	_
-734	PK4854	pk4854	NN	_	_	_
-735	</Gtype>	</gtype>	NN	_	_	_
-736	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+709	=	=	JJ	_	_	_
+710	0.3	0.3	CD	_	_	_
+711	</OD>	</od>	NN	_	_	_
+712	-RRB-	-rrb-	-RRB-	_	_	_
+713	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+714	growth	growth	NN	_	_	_
+715	phase	phase	NN	_	_	_
+716	:	:	:	_	_	_
+717	<Phase>	<phase>	NN	_	_	_
+718	stationary	stationary	JJ	_	_	_
+719	</Phase>	</phase>	NN	_	_	_
+720	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+721	<Gtype>	<gtype>	NN	_	_	_
+722	∆	∆	CD	_	_	_
+723	fnr	fnr	NN	_	_	_
+724	</Gtype>	</gtype>	NN	_	_	_
+725	-	-	:	_	_	_
+726	<Air>	<air>	NN	_	_	_
+727	Anaeroibc	anaeroibc	NN	_	_	_
+728	</Air>	</air>	NN	_	_	_
+729	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+730	<Gtype>	<gtype>	NN	_	_	_
+731	∆	∆	CD	_	_	_
+732	fnr	fnr	NN	_	_	_
+733	</Gtype>	</gtype>	NN	_	_	_
+734	ChIP	chip	NN	_	_	_
+735	DNA	dna	NN	_	_	_
+736	from	from	IN	_	_	_
 737	<Gtype>	<gtype>	NN	_	_	_
-738	∆	∆	CD	_	_	_
-739	fur	fur	NN	_	_	_
-740	</Gtype>	</gtype>	NN	_	_	_
-741	<Air>	<air>	NN	_	_	_
-742	Aerobic	aerobic	JJ	_	_	_
-743	</Air>	</air>	NN	_	_	_
-744	A	a	DT	_	_	_
-745	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-746	<Gtype>	<gtype>	NN	_	_	_
-747	∆	∆	CD	_	_	_
-748	fur	fur	NN	_	_	_
-749	</Gtype>	</gtype>	NN	_	_	_
-750	<Air>	<air>	NN	_	_	_
-751	Aerobic	aerobic	JJ	_	_	_
-752	</Air>	</air>	NN	_	_	_
-753	B	b	NN	_	_	_
-754	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-755	<Gtype>	<gtype>	NN	_	_	_
-756	∆	∆	CD	_	_	_
-757	fur	fur	NN	_	_	_
-758	</Gtype>	</gtype>	NN	_	_	_
-759	<Air>	<air>	NN	_	_	_
-760	Anaerobic	anaerobic	JJ	_	_	_
-761	</Air>	</air>	NN	_	_	_
-762	A	a	DT	_	_	_
-763	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-764	<Gtype>	<gtype>	NN	_	_	_
-765	∆	∆	CD	_	_	_
-766	fur	fur	NN	_	_	_
-767	</Gtype>	</gtype>	NN	_	_	_
-768	<Air>	<air>	NN	_	_	_
-769	Anaerobic	anaerobic	JJ	_	_	_
-770	</Air>	</air>	NN	_	_	_
-771	B	b	NN	_	_	_
-772	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-773	<Gtype>	<gtype>	NN	_	_	_
-774	∆	∆	CD	_	_	_
-775	fur	fur	NN	_	_	_
-776	</Gtype>	</gtype>	NN	_	_	_
-777	<Air>	<air>	NN	_	_	_
-778	Anaerobic	anaerobic	JJ	_	_	_
-779	</Air>	</air>	NN	_	_	_
-780	-LSB-	-lsb-	-LRB-	_	_	_
-781	IP	IP	NNP	_	_	_
-782	vs	vs	CC	_	_	_
-783	nput	nput	NN	_	_	_
-784	-RSB-	-rsb-	-RRB-	_	_	_
-785	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-786	<Gtype>	<gtype>	NN	_	_	_
-787	∆	∆	CD	_	_	_
-788	fur	fur	NN	_	_	_
-789	∆	∆	CD	_	_	_
-790	ryhB	ryhb	NN	_	_	_
-791	</Gtype>	</gtype>	NN	_	_	_
-792	<Air>	<air>	NN	_	_	_
-793	Aerobic	aerobic	JJ	_	_	_
-794	</Air>	</air>	NN	_	_	_
-795	A	a	DT	_	_	_
-796	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-797	<Gtype>	<gtype>	NN	_	_	_
-798	∆	∆	CD	_	_	_
-799	fur	fur	NN	_	_	_
-800	∆	∆	CD	_	_	_
-801	ryhB	ryhb	NN	_	_	_
-802	</Gtype>	</gtype>	NN	_	_	_
-803	<Air>	<air>	NN	_	_	_
-804	Aerobic	aerobic	JJ	_	_	_
-805	</Air>	</air>	NN	_	_	_
-806	B	b	NN	_	_	_
-807	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-808	<Gtype>	<gtype>	NN	_	_	_
-809	∆	∆	CD	_	_	_
-810	fur	fur	NN	_	_	_
-811	∆	∆	CD	_	_	_
-812	ryhB	ryhb	NN	_	_	_
-813	</Gtype>	</gtype>	NN	_	_	_
-814	<Air>	<air>	NN	_	_	_
-815	Anaerobic	anaerobic	JJ	_	_	_
-816	</Air>	</air>	NN	_	_	_
-817	A	a	DT	_	_	_
-818	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-819	<Gtype>	<gtype>	NN	_	_	_
-820	∆	∆	CD	_	_	_
-821	fur	fur	NN	_	_	_
-822	∆	∆	CD	_	_	_
-823	ryhB	ryhb	NN	_	_	_
-824	</Gtype>	</gtype>	NN	_	_	_
-825	<Air>	<air>	NN	_	_	_
-826	Anaerobic	anaerobic	JJ	_	_	_
-827	</Air>	</air>	NN	_	_	_
-828	B	b	NN	_	_	_
-829	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-830	<Gtype>	<gtype>	NN	_	_	_
-831	NsrR	nsrr	NN	_	_	_
-832	_	_	CD	_	_	_
-833	Flagtag	flagtag	NN	_	_	_
-834	</Gtype>	</gtype>	NN	_	_	_
-835	_	_	CD	_	_	_
-836	rep1	rep1	NN	_	_	_
-837	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-838	<Gtype>	<gtype>	NN	_	_	_
-839	NsrR	nsrr	NN	_	_	_
-840	_	_	CD	_	_	_
-841	Flagtag	flagtag	NN	_	_	_
-842	</Gtype>	</gtype>	NN	_	_	_
-843	_	_	CD	_	_	_
-844	rep2	rep2	NN	_	_	_
-845	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-846	<Gtype>	<gtype>	NN	_	_	_
-847	NsrR	nsrr	NN	_	_	_
-848	_	_	CD	_	_	_
-849	Flagtag	flagtag	NN	_	_	_
-850	</Gtype>	</gtype>	NN	_	_	_
-851	_	_	CD	_	_	_
-852	rep3	rep3	NN	_	_	_
-853	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-854	<Gtype>	<gtype>	NN	_	_	_
-855	Ptac	ptac	NN	_	_	_
-856	:	:	:	_	_	_
-857	:	:	:	_	_	_
-858	fnr	fnr	NN	_	_	_
-859	</Gtype>	</gtype>	NN	_	_	_
-860	-	-	:	_	_	_
-861	A	a	NN	_	_	_
-862	-	-	:	_	_	_
-863	<Supp>	<supp>	NN	_	_	_
-864	16	16	CD	_	_	_
-865	µM	µm	NN	_	_	_
-866	IPTG	iptg	NN	_	_	_
-867	</Supp>	</supp>	NN	_	_	_
-868	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-869	<Gtype>	<gtype>	NN	_	_	_
-870	Ptac	ptac	NN	_	_	_
-871	:	:	:	_	_	_
-872	:	:	:	_	_	_
-873	fnr	fnr	NN	_	_	_
-874	</Gtype>	</gtype>	NN	_	_	_
-875	-	-	:	_	_	_
-876	A	a	NN	_	_	_
-877	-	-	:	_	_	_
-878	<Supp>	<supp>	NN	_	_	_
-879	4	4	CD	_	_	_
-880	µM	µm	NN	_	_	_
-881	IPTG	iptg	NN	_	_	_
-882	</Supp>	</supp>	NN	_	_	_
-883	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-884	<Gtype>	<gtype>	NN	_	_	_
-885	Ptac	ptac	NN	_	_	_
-886	:	:	:	_	_	_
-887	:	:	:	_	_	_
-888	fnr	fnr	NN	_	_	_
-889	</Gtype>	</gtype>	NN	_	_	_
-890	-	-	:	_	_	_
-891	A	a	NN	_	_	_
-892	-	-	:	_	_	_
-893	<Supp>	<supp>	NN	_	_	_
-894	8	8	CD	_	_	_
-895	µM	µm	NN	_	_	_
-896	IPTG	iptg	NN	_	_	_
-897	</Supp>	</supp>	NN	_	_	_
-898	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-899	<Gtype>	<gtype>	NN	_	_	_
-900	Ptac	ptac	NN	_	_	_
-901	:	:	:	_	_	_
-902	:	:	:	_	_	_
-903	fnr	fnr	NN	_	_	_
-904	</Gtype>	</gtype>	NN	_	_	_
-905	-	-	:	_	_	_
-906	B	b	NN	_	_	_
-907	-	-	:	_	_	_
-908	<Supp>	<supp>	NN	_	_	_
-909	16	16	CD	_	_	_
-910	µM	µm	NN	_	_	_
-911	IPTG	iptg	NN	_	_	_
-912	</Supp>	</supp>	NN	_	_	_
-913	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-914	<Gtype>	<gtype>	NN	_	_	_
-915	Ptac	ptac	NN	_	_	_
-916	:	:	:	_	_	_
-917	:	:	:	_	_	_
-918	fnr	fnr	NN	_	_	_
-919	</Gtype>	</gtype>	NN	_	_	_
-920	-	-	:	_	_	_
-921	B	b	NN	_	_	_
-922	-	-	:	_	_	_
-923	<Supp>	<supp>	NN	_	_	_
-924	4	4	CD	_	_	_
-925	µM	µm	NN	_	_	_
-926	IPTG	iptg	NN	_	_	_
-927	</Supp>	</supp>	NN	_	_	_
-928	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-929	<Gtype>	<gtype>	NN	_	_	_
-930	Ptac	ptac	NN	_	_	_
-931	:	:	:	_	_	_
-932	:	:	:	_	_	_
-933	fnr	fnr	NN	_	_	_
-934	</Gtype>	</gtype>	NN	_	_	_
-935	-	-	:	_	_	_
-936	B	b	NN	_	_	_
-937	-	-	:	_	_	_
-938	<Supp>	<supp>	NN	_	_	_
-939	8	8	CD	_	_	_
-940	µM	µm	NN	_	_	_
-941	IPTG	iptg	NN	_	_	_
-942	</Supp>	</supp>	NN	_	_	_
-943	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-944	<Gtype>	<gtype>	NN	_	_	_
-945	Ptac	ptac	NN	_	_	_
-946	:	:	:	_	_	_
-947	:	:	:	_	_	_
-948	fnr	fnr	NN	_	_	_
-949	</Gtype>	</gtype>	NN	_	_	_
-950	-	-	:	_	_	_
-951	C	c	NN	_	_	_
-952	-	-	:	_	_	_
-953	<Supp>	<supp>	NN	_	_	_
-954	16	16	CD	_	_	_
-955	µM	µm	NN	_	_	_
-956	IPTG	iptg	NN	_	_	_
-957	</Supp>	</supp>	NN	_	_	_
-958	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-959	<Gtype>	<gtype>	NN	_	_	_
-960	∆	∆	CD	_	_	_
-961	ryhB	ryhb	NN	_	_	_
-962	</Gtype>	</gtype>	NN	_	_	_
-963	<Air>	<air>	NN	_	_	_
-964	Aerobic	aerobic	JJ	_	_	_
-965	</Air>	</air>	NN	_	_	_
-966	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-967	<Gtype>	<gtype>	NN	_	_	_
-968	∆	∆	CD	_	_	_
-969	ryhB	ryhb	NN	_	_	_
-970	</Gtype>	</gtype>	NN	_	_	_
-971	<Air>	<air>	NN	_	_	_
-972	Anaerobic	anaerobic	JJ	_	_	_
-973	</Air>	</air>	NN	_	_	_
-974	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-975	<Gtype>	<gtype>	NN	_	_	_
-976	Wild-type	wild-type	JJ	_	_	_
-977	</Gtype>	</gtype>	NN	_	_	_
-978	<Air>	<air>	NN	_	_	_
-979	Aerobic	aerobic	JJ	_	_	_
-980	</Air>	</air>	NN	_	_	_
-981	A	a	DT	_	_	_
-982	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-983	<Gtype>	<gtype>	NN	_	_	_
-984	Wild-type	wild-type	JJ	_	_	_
-985	</Gtype>	</gtype>	NN	_	_	_
-986	<Air>	<air>	NN	_	_	_
-987	Aerobic	aerobic	JJ	_	_	_
-988	</Air>	</air>	NN	_	_	_
-989	B	b	NN	_	_	_
-990	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-991	<Gtype>	<gtype>	NN	_	_	_
-992	Wild-type	wild-type	JJ	_	_	_
-993	</Gtype>	</gtype>	NN	_	_	_
-994	<Air>	<air>	NN	_	_	_
-995	Anaerobic	anaerobic	JJ	_	_	_
-996	</Air>	</air>	NN	_	_	_
-997	A	a	DT	_	_	_
-998	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-999	<Gtype>	<gtype>	NN	_	_	_
-1000	Wild-type	wild-type	JJ	_	_	_
-1001	</Gtype>	</gtype>	NN	_	_	_
-1002	<Air>	<air>	NN	_	_	_
-1003	Anaerobic	anaerobic	JJ	_	_	_
-1004	</Air>	</air>	NN	_	_	_
-1005	B	b	NN	_	_	_
-1006	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1007	<Gtype>	<gtype>	NN	_	_	_
-1008	Wild	Wild	NNP	_	_	_
-1009	type	type	NN	_	_	_
-1010	</Gtype>	</gtype>	NN	_	_	_
-1011	control	control	NN	_	_	_
-1012	-LRB-	-lrb-	-LRB-	_	_	_
-1013	0	0	CD	_	_	_
-1014	min	min	NN	_	_	_
-1015	-RRB-	-rrb-	-RRB-	_	_	_
-1016	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1017	<Gtype>	<gtype>	NN	_	_	_
-1018	Wild	Wild	NNP	_	_	_
-1019	type	type	NN	_	_	_
-1020	</Gtype>	</gtype>	NN	_	_	_
-1021	control	control	NN	_	_	_
-1022	-LRB-	-lrb-	-LRB-	_	_	_
-1023	10	10	CD	_	_	_
-1024	min	min	NN	_	_	_
-1025	-RRB-	-rrb-	-RRB-	_	_	_
-1026	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1027	<Gtype>	<gtype>	NN	_	_	_
-1028	Wild	Wild	NNP	_	_	_
-1029	type	type	NN	_	_	_
-1030	</Gtype>	</gtype>	NN	_	_	_
-1031	control	control	NN	_	_	_
-1032	-LRB-	-lrb-	-LRB-	_	_	_
-1033	20	20	CD	_	_	_
-1034	min	min	NN	_	_	_
-1035	-RRB-	-rrb-	-RRB-	_	_	_
-1036	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1037	<Gtype>	<gtype>	NN	_	_	_
-1038	Wild	Wild	NNP	_	_	_
-1039	type	type	NN	_	_	_
-1040	</Gtype>	</gtype>	NN	_	_	_
-1041	control	control	NN	_	_	_
-1042	-LRB-	-lrb-	-LRB-	_	_	_
-1043	2.5	2.5	CD	_	_	_
-1044	min	min	NN	_	_	_
-1045	-RRB-	-rrb-	-RRB-	_	_	_
-1046	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1047	<Gtype>	<gtype>	NN	_	_	_
-1048	Wild	Wild	NNP	_	_	_
-1049	type	type	NN	_	_	_
-1050	</Gtype>	</gtype>	NN	_	_	_
-1051	control	control	NN	_	_	_
-1052	-LRB-	-lrb-	-LRB-	_	_	_
-1053	5	5	CD	_	_	_
-1054	min	min	NN	_	_	_
-1055	-RRB-	-rrb-	-RRB-	_	_	_
-1056	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1057	<Gtype>	<gtype>	NN	_	_	_
-1058	WT	wt	JJ	_	_	_
-1059	</Gtype>	</gtype>	NN	_	_	_
-1060	<pH>	<ph>	NN	_	_	_
-1061	pH5	ph5	NN	_	_	_
-1062	.5	.5	CD	_	_	_
-1063	</pH>	</ph>	NN	_	_	_
-1064	1	1	CD	_	_	_
-1065	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1066	<Gtype>	<gtype>	NN	_	_	_
-1067	WT	wt	JJ	_	_	_
-1068	</Gtype>	</gtype>	NN	_	_	_
-1069	<pH>	<ph>	NN	_	_	_
-1070	pH5	ph5	NN	_	_	_
-1071	.5	.5	CD	_	_	_
-1072	</pH>	</ph>	NN	_	_	_
-1073	2	2	CD	_	_	_
-1074	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1075	<Gtype>	<gtype>	NN	_	_	_
-1076	WT	wt	JJ	_	_	_
-1077	</Gtype>	</gtype>	NN	_	_	_
-1078	<Supp>	<supp>	NN	_	_	_
-1079	acetate	acetate	NN	_	_	_
-1080	</Supp>	</supp>	NN	_	_	_
-1081	1	1	CD	_	_	_
-1082	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1083	<Gtype>	<gtype>	NN	_	_	_
-1084	WT	wt	JJ	_	_	_
-1085	</Gtype>	</gtype>	NN	_	_	_
-1086	<Supp>	<supp>	NN	_	_	_
-1087	acetate	acetate	NN	_	_	_
-1088	</Supp>	</supp>	NN	_	_	_
-1089	2	2	CD	_	_	_
-1090	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1091	<Gtype>	<gtype>	NN	_	_	_
-1092	WT	wt	JJ	_	_	_
-1093	</Gtype>	</gtype>	NN	_	_	_
-1094	<Supp>	<supp>	NN	_	_	_
-1095	fructose	fructose	NN	_	_	_
-1096	</Supp>	</supp>	NN	_	_	_
-1097	1	1	CD	_	_	_
-1098	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1099	<Gtype>	<gtype>	NN	_	_	_
-1100	WT	wt	JJ	_	_	_
-1101	</Gtype>	</gtype>	NN	_	_	_
-1102	<Supp>	<supp>	NN	_	_	_
-1103	fructose	fructose	NN	_	_	_
-1104	</Supp>	</supp>	NN	_	_	_
-1105	2	2	CD	_	_	_
-1106	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1107	<Gtype>	<gtype>	NN	_	_	_
-1108	WT	wt	JJ	_	_	_
-1109	</Gtype>	</gtype>	NN	_	_	_
-1110	<Supp>	<supp>	NN	_	_	_
-1111	glucose	glucose	NN	_	_	_
-1112	</Supp>	</supp>	NN	_	_	_
-1113	1	1	CD	_	_	_
-1114	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1115	<Gtype>	<gtype>	NN	_	_	_
-1116	WT	wt	JJ	_	_	_
-1117	</Gtype>	</gtype>	NN	_	_	_
-1118	<Supp>	<supp>	NN	_	_	_
-1119	glucose	glucose	NN	_	_	_
-1120	</Supp>	</supp>	NN	_	_	_
-1121	2	2	CD	_	_	_
-1122	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1123	<Gtype>	<gtype>	NN	_	_	_
-1124	WT	wt	JJ	_	_	_
-1125	</Gtype>	</gtype>	NN	_	_	_
-1126	<Supp>	<supp>	NN	_	_	_
-1127	NaCl	nacl	NN	_	_	_
-1128	</Supp>	</supp>	NN	_	_	_
-1129	1	1	CD	_	_	_
-1130	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1131	<Gtype>	<gtype>	NN	_	_	_
-1132	WT	wt	JJ	_	_	_
-1133	</Gtype>	</gtype>	NN	_	_	_
-1134	<Supp>	<supp>	NN	_	_	_
-1135	NaCl	nacl	NN	_	_	_
-1136	</Supp>	</supp>	NN	_	_	_
-1137	2	2	CD	_	_	_
-1138	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1139	<Gtype>	<gtype>	NN	_	_	_
-1140	WT	wt	JJ	_	_	_
-1141	</Gtype>	</gtype>	NN	_	_	_
-1142	<Supp>	<supp>	NN	_	_	_
-1143	PQ	pq	NN	_	_	_
-1144	</Supp>	</supp>	NN	_	_	_
-1145	1	1	CD	_	_	_
-1146	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1147	<Gtype>	<gtype>	NN	_	_	_
-1148	WT	wt	JJ	_	_	_
-1149	</Gtype>	</gtype>	NN	_	_	_
-1150	<Supp>	<supp>	NN	_	_	_
-1151	PQ	pq	NN	_	_	_
-1152	</Supp>	</supp>	NN	_	_	_
-1153	2	2	CD	_	_	_
-1154	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1155	<Gtype>	<gtype>	NN	_	_	_
-1156	WT	wt	JJ	_	_	_
-1157	</Gtype>	</gtype>	NN	_	_	_
-1158	_	_	NN	_	_	_
-1159	<Technique>	<technique>	NN	_	_	_
-1160	ChIPSeq	chipseq	NN	_	_	_
-1161	</Technique>	</technique>	NN	_	_	_
+738	PK4854	pk4854	NN	_	_	_
+739	</Gtype>	</gtype>	NN	_	_	_
+740	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+741	<Gtype>	<gtype>	NN	_	_	_
+742	∆	∆	CD	_	_	_
+743	fur	fur	NN	_	_	_
+744	</Gtype>	</gtype>	NN	_	_	_
+745	<Air>	<air>	NN	_	_	_
+746	Aerobic	aerobic	JJ	_	_	_
+747	</Air>	</air>	NN	_	_	_
+748	A	a	DT	_	_	_
+749	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+750	<Gtype>	<gtype>	NN	_	_	_
+751	∆	∆	CD	_	_	_
+752	fur	fur	NN	_	_	_
+753	</Gtype>	</gtype>	NN	_	_	_
+754	<Air>	<air>	NN	_	_	_
+755	Aerobic	aerobic	JJ	_	_	_
+756	</Air>	</air>	NN	_	_	_
+757	B	b	NN	_	_	_
+758	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+759	<Gtype>	<gtype>	NN	_	_	_
+760	∆	∆	CD	_	_	_
+761	fur	fur	NN	_	_	_
+762	</Gtype>	</gtype>	NN	_	_	_
+763	<Air>	<air>	NN	_	_	_
+764	Anaerobic	anaerobic	JJ	_	_	_
+765	</Air>	</air>	NN	_	_	_
+766	A	a	DT	_	_	_
+767	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+768	<Gtype>	<gtype>	NN	_	_	_
+769	∆	∆	CD	_	_	_
+770	fur	fur	NN	_	_	_
+771	</Gtype>	</gtype>	NN	_	_	_
+772	<Air>	<air>	NN	_	_	_
+773	Anaerobic	anaerobic	JJ	_	_	_
+774	</Air>	</air>	NN	_	_	_
+775	B	b	NN	_	_	_
+776	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+777	<Gtype>	<gtype>	NN	_	_	_
+778	∆	∆	CD	_	_	_
+779	fur	fur	NN	_	_	_
+780	</Gtype>	</gtype>	NN	_	_	_
+781	<Air>	<air>	NN	_	_	_
+782	Anaerobic	anaerobic	JJ	_	_	_
+783	</Air>	</air>	NN	_	_	_
+784	-LSB-	-lsb-	-LRB-	_	_	_
+785	IP	IP	NNP	_	_	_
+786	vs	vs	CC	_	_	_
+787	nput	nput	NN	_	_	_
+788	-RSB-	-rsb-	-RRB-	_	_	_
+789	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+790	<Gtype>	<gtype>	NN	_	_	_
+791	∆	∆	CD	_	_	_
+792	fur	fur	NN	_	_	_
+793	∆	∆	CD	_	_	_
+794	ryhB	ryhb	NN	_	_	_
+795	</Gtype>	</gtype>	NN	_	_	_
+796	<Air>	<air>	NN	_	_	_
+797	Aerobic	aerobic	JJ	_	_	_
+798	</Air>	</air>	NN	_	_	_
+799	A	a	DT	_	_	_
+800	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+801	<Gtype>	<gtype>	NN	_	_	_
+802	∆	∆	CD	_	_	_
+803	fur	fur	NN	_	_	_
+804	∆	∆	CD	_	_	_
+805	ryhB	ryhb	NN	_	_	_
+806	</Gtype>	</gtype>	NN	_	_	_
+807	<Air>	<air>	NN	_	_	_
+808	Aerobic	aerobic	JJ	_	_	_
+809	</Air>	</air>	NN	_	_	_
+810	B	b	NN	_	_	_
+811	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+812	<Gtype>	<gtype>	NN	_	_	_
+813	∆	∆	CD	_	_	_
+814	fur	fur	NN	_	_	_
+815	∆	∆	CD	_	_	_
+816	ryhB	ryhb	NN	_	_	_
+817	</Gtype>	</gtype>	NN	_	_	_
+818	<Air>	<air>	NN	_	_	_
+819	Anaerobic	anaerobic	JJ	_	_	_
+820	</Air>	</air>	NN	_	_	_
+821	A	a	DT	_	_	_
+822	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+823	<Gtype>	<gtype>	NN	_	_	_
+824	∆	∆	CD	_	_	_
+825	fur	fur	NN	_	_	_
+826	∆	∆	CD	_	_	_
+827	ryhB	ryhb	NN	_	_	_
+828	</Gtype>	</gtype>	NN	_	_	_
+829	<Air>	<air>	NN	_	_	_
+830	Anaerobic	anaerobic	JJ	_	_	_
+831	</Air>	</air>	NN	_	_	_
+832	B	b	NN	_	_	_
+833	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+834	<Gtype>	<gtype>	NN	_	_	_
+835	NsrR	nsrr	NN	_	_	_
+836	_	_	CD	_	_	_
+837	Flagtag	flagtag	NN	_	_	_
+838	</Gtype>	</gtype>	NN	_	_	_
+839	_	_	CD	_	_	_
+840	rep1	rep1	NN	_	_	_
+841	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+842	<Gtype>	<gtype>	NN	_	_	_
+843	NsrR	nsrr	NN	_	_	_
+844	_	_	CD	_	_	_
+845	Flagtag	flagtag	NN	_	_	_
+846	</Gtype>	</gtype>	NN	_	_	_
+847	_	_	CD	_	_	_
+848	rep2	rep2	NN	_	_	_
+849	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+850	<Gtype>	<gtype>	NN	_	_	_
+851	NsrR	nsrr	NN	_	_	_
+852	_	_	CD	_	_	_
+853	Flagtag	flagtag	NN	_	_	_
+854	</Gtype>	</gtype>	NN	_	_	_
+855	_	_	CD	_	_	_
+856	rep3	rep3	NN	_	_	_
+857	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+858	<Gtype>	<gtype>	NN	_	_	_
+859	Ptac	ptac	NN	_	_	_
+860	:	:	:	_	_	_
+861	:	:	:	_	_	_
+862	fnr	fnr	NN	_	_	_
+863	</Gtype>	</gtype>	NN	_	_	_
+864	-	-	:	_	_	_
+865	A	a	NN	_	_	_
+866	-	-	:	_	_	_
+867	<Supp>	<supp>	NN	_	_	_
+868	16	16	CD	_	_	_
+869	µM	µm	NN	_	_	_
+870	IPTG	iptg	NN	_	_	_
+871	</Supp>	</supp>	NN	_	_	_
+872	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+873	<Gtype>	<gtype>	NN	_	_	_
+874	Ptac	ptac	NN	_	_	_
+875	:	:	:	_	_	_
+876	:	:	:	_	_	_
+877	fnr	fnr	NN	_	_	_
+878	</Gtype>	</gtype>	NN	_	_	_
+879	-	-	:	_	_	_
+880	A	a	NN	_	_	_
+881	-	-	:	_	_	_
+882	<Supp>	<supp>	NN	_	_	_
+883	4	4	CD	_	_	_
+884	µM	µm	NN	_	_	_
+885	IPTG	iptg	NN	_	_	_
+886	</Supp>	</supp>	NN	_	_	_
+887	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+888	<Gtype>	<gtype>	NN	_	_	_
+889	Ptac	ptac	NN	_	_	_
+890	:	:	:	_	_	_
+891	:	:	:	_	_	_
+892	fnr	fnr	NN	_	_	_
+893	</Gtype>	</gtype>	NN	_	_	_
+894	-	-	:	_	_	_
+895	A	a	NN	_	_	_
+896	-	-	:	_	_	_
+897	<Supp>	<supp>	NN	_	_	_
+898	8	8	CD	_	_	_
+899	µM	µm	NN	_	_	_
+900	IPTG	iptg	NN	_	_	_
+901	</Supp>	</supp>	NN	_	_	_
+902	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+903	<Gtype>	<gtype>	NN	_	_	_
+904	Ptac	ptac	NN	_	_	_
+905	:	:	:	_	_	_
+906	:	:	:	_	_	_
+907	fnr	fnr	NN	_	_	_
+908	</Gtype>	</gtype>	NN	_	_	_
+909	-	-	:	_	_	_
+910	B	b	NN	_	_	_
+911	-	-	:	_	_	_
+912	<Supp>	<supp>	NN	_	_	_
+913	16	16	CD	_	_	_
+914	µM	µm	NN	_	_	_
+915	IPTG	iptg	NN	_	_	_
+916	</Supp>	</supp>	NN	_	_	_
+917	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+918	<Gtype>	<gtype>	NN	_	_	_
+919	Ptac	ptac	NN	_	_	_
+920	:	:	:	_	_	_
+921	:	:	:	_	_	_
+922	fnr	fnr	NN	_	_	_
+923	</Gtype>	</gtype>	NN	_	_	_
+924	-	-	:	_	_	_
+925	B	b	NN	_	_	_
+926	-	-	:	_	_	_
+927	<Supp>	<supp>	NN	_	_	_
+928	4	4	CD	_	_	_
+929	µM	µm	NN	_	_	_
+930	IPTG	iptg	NN	_	_	_
+931	</Supp>	</supp>	NN	_	_	_
+932	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+933	<Gtype>	<gtype>	NN	_	_	_
+934	Ptac	ptac	NN	_	_	_
+935	:	:	:	_	_	_
+936	:	:	:	_	_	_
+937	fnr	fnr	NN	_	_	_
+938	</Gtype>	</gtype>	NN	_	_	_
+939	-	-	:	_	_	_
+940	B	b	NN	_	_	_
+941	-	-	:	_	_	_
+942	<Supp>	<supp>	NN	_	_	_
+943	8	8	CD	_	_	_
+944	µM	µm	NN	_	_	_
+945	IPTG	iptg	NN	_	_	_
+946	</Supp>	</supp>	NN	_	_	_
+947	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+948	<Gtype>	<gtype>	NN	_	_	_
+949	Ptac	ptac	NN	_	_	_
+950	:	:	:	_	_	_
+951	:	:	:	_	_	_
+952	fnr	fnr	NN	_	_	_
+953	</Gtype>	</gtype>	NN	_	_	_
+954	-	-	:	_	_	_
+955	C	c	NN	_	_	_
+956	-	-	:	_	_	_
+957	<Supp>	<supp>	NN	_	_	_
+958	16	16	CD	_	_	_
+959	µM	µm	NN	_	_	_
+960	IPTG	iptg	NN	_	_	_
+961	</Supp>	</supp>	NN	_	_	_
+962	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+963	<Gtype>	<gtype>	NN	_	_	_
+964	∆	∆	CD	_	_	_
+965	ryhB	ryhb	NN	_	_	_
+966	</Gtype>	</gtype>	NN	_	_	_
+967	<Air>	<air>	NN	_	_	_
+968	Aerobic	aerobic	JJ	_	_	_
+969	</Air>	</air>	NN	_	_	_
+970	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+971	<Gtype>	<gtype>	NN	_	_	_
+972	∆	∆	CD	_	_	_
+973	ryhB	ryhb	NN	_	_	_
+974	</Gtype>	</gtype>	NN	_	_	_
+975	<Air>	<air>	NN	_	_	_
+976	Anaerobic	anaerobic	JJ	_	_	_
+977	</Air>	</air>	NN	_	_	_
+978	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+979	<Gtype>	<gtype>	NN	_	_	_
+980	Wild-type	wild-type	JJ	_	_	_
+981	</Gtype>	</gtype>	NN	_	_	_
+982	<Air>	<air>	NN	_	_	_
+983	Aerobic	aerobic	JJ	_	_	_
+984	</Air>	</air>	NN	_	_	_
+985	A	a	DT	_	_	_
+986	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+987	<Gtype>	<gtype>	NN	_	_	_
+988	Wild-type	wild-type	JJ	_	_	_
+989	</Gtype>	</gtype>	NN	_	_	_
+990	<Air>	<air>	NN	_	_	_
+991	Aerobic	aerobic	JJ	_	_	_
+992	</Air>	</air>	NN	_	_	_
+993	B	b	NN	_	_	_
+994	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+995	<Gtype>	<gtype>	NN	_	_	_
+996	Wild-type	wild-type	JJ	_	_	_
+997	</Gtype>	</gtype>	NN	_	_	_
+998	<Air>	<air>	NN	_	_	_
+999	Anaerobic	anaerobic	JJ	_	_	_
+1000	</Air>	</air>	NN	_	_	_
+1001	A	a	DT	_	_	_
+1002	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1003	<Gtype>	<gtype>	NN	_	_	_
+1004	Wild-type	wild-type	JJ	_	_	_
+1005	</Gtype>	</gtype>	NN	_	_	_
+1006	<Air>	<air>	NN	_	_	_
+1007	Anaerobic	anaerobic	JJ	_	_	_
+1008	</Air>	</air>	NN	_	_	_
+1009	B	b	NN	_	_	_
+1010	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1011	<Gtype>	<gtype>	NN	_	_	_
+1012	Wild	Wild	NNP	_	_	_
+1013	type	type	NN	_	_	_
+1014	</Gtype>	</gtype>	NN	_	_	_
+1015	control	control	NN	_	_	_
+1016	-LRB-	-lrb-	-LRB-	_	_	_
+1017	0	0	CD	_	_	_
+1018	min	min	NN	_	_	_
+1019	-RRB-	-rrb-	-RRB-	_	_	_
+1020	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1021	<Gtype>	<gtype>	NN	_	_	_
+1022	Wild	Wild	NNP	_	_	_
+1023	type	type	NN	_	_	_
+1024	</Gtype>	</gtype>	NN	_	_	_
+1025	control	control	NN	_	_	_
+1026	-LRB-	-lrb-	-LRB-	_	_	_
+1027	10	10	CD	_	_	_
+1028	min	min	NN	_	_	_
+1029	-RRB-	-rrb-	-RRB-	_	_	_
+1030	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1031	<Gtype>	<gtype>	NN	_	_	_
+1032	Wild	Wild	NNP	_	_	_
+1033	type	type	NN	_	_	_
+1034	</Gtype>	</gtype>	NN	_	_	_
+1035	control	control	NN	_	_	_
+1036	-LRB-	-lrb-	-LRB-	_	_	_
+1037	20	20	CD	_	_	_
+1038	min	min	NN	_	_	_
+1039	-RRB-	-rrb-	-RRB-	_	_	_
+1040	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1041	<Gtype>	<gtype>	NN	_	_	_
+1042	Wild	Wild	NNP	_	_	_
+1043	type	type	NN	_	_	_
+1044	</Gtype>	</gtype>	NN	_	_	_
+1045	control	control	NN	_	_	_
+1046	-LRB-	-lrb-	-LRB-	_	_	_
+1047	2.5	2.5	CD	_	_	_
+1048	min	min	NN	_	_	_
+1049	-RRB-	-rrb-	-RRB-	_	_	_
+1050	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1051	<Gtype>	<gtype>	NN	_	_	_
+1052	Wild	Wild	NNP	_	_	_
+1053	type	type	NN	_	_	_
+1054	</Gtype>	</gtype>	NN	_	_	_
+1055	control	control	NN	_	_	_
+1056	-LRB-	-lrb-	-LRB-	_	_	_
+1057	5	5	CD	_	_	_
+1058	min	min	NN	_	_	_
+1059	-RRB-	-rrb-	-RRB-	_	_	_
+1060	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1061	<Gtype>	<gtype>	NN	_	_	_
+1062	WT	wt	JJ	_	_	_
+1063	</Gtype>	</gtype>	NN	_	_	_
+1064	<pH>	<ph>	NN	_	_	_
+1065	pH5	ph5	NN	_	_	_
+1066	.5	.5	CD	_	_	_
+1067	</pH>	</ph>	NN	_	_	_
+1068	1	1	CD	_	_	_
+1069	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1070	<Gtype>	<gtype>	NN	_	_	_
+1071	WT	wt	JJ	_	_	_
+1072	</Gtype>	</gtype>	NN	_	_	_
+1073	<pH>	<ph>	NN	_	_	_
+1074	pH5	ph5	NN	_	_	_
+1075	.5	.5	CD	_	_	_
+1076	</pH>	</ph>	NN	_	_	_
+1077	2	2	CD	_	_	_
+1078	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1079	<Gtype>	<gtype>	NN	_	_	_
+1080	WT	wt	JJ	_	_	_
+1081	</Gtype>	</gtype>	NN	_	_	_
+1082	<Supp>	<supp>	NN	_	_	_
+1083	acetate	acetate	NN	_	_	_
+1084	</Supp>	</supp>	NN	_	_	_
+1085	1	1	CD	_	_	_
+1086	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1087	<Gtype>	<gtype>	NN	_	_	_
+1088	WT	wt	JJ	_	_	_
+1089	</Gtype>	</gtype>	NN	_	_	_
+1090	<Supp>	<supp>	NN	_	_	_
+1091	acetate	acetate	NN	_	_	_
+1092	</Supp>	</supp>	NN	_	_	_
+1093	2	2	CD	_	_	_
+1094	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1095	<Gtype>	<gtype>	NN	_	_	_
+1096	WT	wt	JJ	_	_	_
+1097	</Gtype>	</gtype>	NN	_	_	_
+1098	<Supp>	<supp>	NN	_	_	_
+1099	fructose	fructose	NN	_	_	_
+1100	</Supp>	</supp>	NN	_	_	_
+1101	1	1	CD	_	_	_
+1102	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1103	<Gtype>	<gtype>	NN	_	_	_
+1104	WT	wt	JJ	_	_	_
+1105	</Gtype>	</gtype>	NN	_	_	_
+1106	<Supp>	<supp>	NN	_	_	_
+1107	fructose	fructose	NN	_	_	_
+1108	</Supp>	</supp>	NN	_	_	_
+1109	2	2	CD	_	_	_
+1110	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1111	<Gtype>	<gtype>	NN	_	_	_
+1112	WT	wt	JJ	_	_	_
+1113	</Gtype>	</gtype>	NN	_	_	_
+1114	<Supp>	<supp>	NN	_	_	_
+1115	glucose	glucose	NN	_	_	_
+1116	</Supp>	</supp>	NN	_	_	_
+1117	1	1	CD	_	_	_
+1118	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1119	<Gtype>	<gtype>	NN	_	_	_
+1120	WT	wt	JJ	_	_	_
+1121	</Gtype>	</gtype>	NN	_	_	_
+1122	<Supp>	<supp>	NN	_	_	_
+1123	glucose	glucose	NN	_	_	_
+1124	</Supp>	</supp>	NN	_	_	_
+1125	2	2	CD	_	_	_
+1126	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1127	<Gtype>	<gtype>	NN	_	_	_
+1128	WT	wt	JJ	_	_	_
+1129	</Gtype>	</gtype>	NN	_	_	_
+1130	<Supp>	<supp>	NN	_	_	_
+1131	NaCl	nacl	NN	_	_	_
+1132	</Supp>	</supp>	NN	_	_	_
+1133	1	1	CD	_	_	_
+1134	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1135	<Gtype>	<gtype>	NN	_	_	_
+1136	WT	wt	JJ	_	_	_
+1137	</Gtype>	</gtype>	NN	_	_	_
+1138	<Supp>	<supp>	NN	_	_	_
+1139	NaCl	nacl	NN	_	_	_
+1140	</Supp>	</supp>	NN	_	_	_
+1141	2	2	CD	_	_	_
+1142	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1143	<Gtype>	<gtype>	NN	_	_	_
+1144	WT	wt	JJ	_	_	_
+1145	</Gtype>	</gtype>	NN	_	_	_
+1146	<Supp>	<supp>	NN	_	_	_
+1147	PQ	pq	NN	_	_	_
+1148	</Supp>	</supp>	NN	_	_	_
+1149	1	1	CD	_	_	_
+1150	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1151	<Gtype>	<gtype>	NN	_	_	_
+1152	WT	wt	JJ	_	_	_
+1153	</Gtype>	</gtype>	NN	_	_	_
+1154	<Supp>	<supp>	NN	_	_	_
+1155	PQ	pq	NN	_	_	_
+1156	</Supp>	</supp>	NN	_	_	_
+1157	2	2	CD	_	_	_
+1158	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1159	<Gtype>	<gtype>	NN	_	_	_
+1160	WT	wt	JJ	_	_	_
+1161	</Gtype>	</gtype>	NN	_	_	_
 1162	_	_	NN	_	_	_
-1163	1	1	CD	_	_	_
-1164	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1165	<Gtype>	<gtype>	NN	_	_	_
-1166	WT	wt	JJ	_	_	_
-1167	</Gtype>	</gtype>	NN	_	_	_
-1168	_	_	NN	_	_	_
-1169	<Technique>	<technique>	NN	_	_	_
-1170	ChIPSeq	chipseq	NN	_	_	_
-1171	</Technique>	</technique>	NN	_	_	_
+1163	<Technique>	<technique>	NN	_	_	_
+1164	ChIPSeq	chipseq	NN	_	_	_
+1165	</Technique>	</technique>	NN	_	_	_
+1166	_	_	NN	_	_	_
+1167	1	1	CD	_	_	_
+1168	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1169	<Gtype>	<gtype>	NN	_	_	_
+1170	WT	wt	JJ	_	_	_
+1171	</Gtype>	</gtype>	NN	_	_	_
 1172	_	_	NN	_	_	_
-1173	2	2	CD	_	_	_
-1174	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1175	<Gtype>	<gtype>	NN	_	_	_
-1176	WT	wt	JJ	_	_	_
-1177	</Gtype>	</gtype>	NN	_	_	_
-1178	_	_	NN	_	_	_
-1179	<Technique>	<technique>	NN	_	_	_
-1180	RNASeq	rnaseq	NN	_	_	_
-1181	</Technique>	</technique>	NN	_	_	_
-1182	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1183	<Gtype>	<gtype>	NN	_	_	_
-1184	WT	wt	JJ	_	_	_
-1185	</Gtype>	</gtype>	NN	_	_	_
-1186	with	with	IN	_	_	_
-1187	<Supp>	<supp>	NN	_	_	_
-1188	DPD	dpd	NN	_	_	_
-1189	</Supp>	</supp>	NN	_	_	_
-1190	1	1	CD	_	_	_
-1191	<Technique>	<technique>	NN	_	_	_
-1192	-LRB-	-lrb-	-LRB-	_	_	_
-1193	RNA-seq	rna-seq	NN	_	_	_
-1194	-RRB-	-rrb-	-RRB-	_	_	_
-1195	</Technique>	</technique>	NN	_	_	_
-1196	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1197	<Gtype>	<gtype>	NN	_	_	_
-1198	WT	wt	JJ	_	_	_
-1199	</Gtype>	</gtype>	NN	_	_	_
-1200	with	with	IN	_	_	_
-1201	<Supp>	<supp>	NN	_	_	_
-1202	DPD	dpd	NN	_	_	_
-1203	</Supp>	</supp>	NN	_	_	_
-1204	2	2	CD	_	_	_
-1205	<Technique>	<technique>	NN	_	_	_
-1206	-LRB-	-lrb-	-LRB-	_	_	_
-1207	RNA-seq	rna-seq	NN	_	_	_
-1208	-RRB-	-rrb-	-RRB-	_	_	_
-1209	</Technique>	</technique>	NN	_	_	_
-1210	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1211	<Gtype>	<gtype>	NN	_	_	_
-1212	WT	wt	JJ	_	_	_
-1213	</Gtype>	</gtype>	NN	_	_	_
-1214	with	with	IN	_	_	_
-1215	<Supp>	<supp>	NN	_	_	_
-1216	Fe	Fe	NNP	_	_	_
-1217	</Supp>	</Supp>	NNP	_	_	_
-1218	1	1	CD	_	_	_
-1219	<Technique>	<technique>	NN	_	_	_
-1220	-LRB-	-lrb-	-LRB-	_	_	_
-1221	RNA-seq	rna-seq	NN	_	_	_
-1222	-RRB-	-rrb-	-RRB-	_	_	_
-1223	</Technique>	</technique>	NN	_	_	_
-1224	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1225	<Gtype>	<gtype>	NN	_	_	_
-1226	WT	wt	JJ	_	_	_
-1227	</Gtype>	</gtype>	NN	_	_	_
-1228	with	with	IN	_	_	_
-1229	<Supp>	<supp>	NN	_	_	_
-1230	Fe	Fe	NNP	_	_	_
-1231	</Supp>	</Supp>	NNP	_	_	_
-1232	2	2	CD	_	_	_
-1233	<Technique>	<technique>	NN	_	_	_
-1234	-LRB-	-lrb-	-LRB-	_	_	_
-1235	RNA-seq	rna-seq	NN	_	_	_
-1236	-RRB-	-rrb-	-RRB-	_	_	_
-1237	</Technique>	</technique>	NN	_	_	_
-1238	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1239	<Gtype>	<gtype>	NN	_	_	_
-1240	Δcra	δcra	NN	_	_	_
-1241	</Gtype>	</gtype>	NN	_	_	_
-1242	<Supp>	<supp>	NN	_	_	_
-1243	acetate	acetate	NN	_	_	_
-1244	</Supp>	</supp>	NN	_	_	_
-1245	1	1	CD	_	_	_
-1246	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1247	<Gtype>	<gtype>	NN	_	_	_
-1248	Δcra	δcra	NN	_	_	_
-1249	</Gtype>	</gtype>	NN	_	_	_
-1250	<Supp>	<supp>	NN	_	_	_
-1251	acetate	acetate	NN	_	_	_
-1252	</Supp>	</supp>	NN	_	_	_
-1253	2	2	CD	_	_	_
-1254	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1255	<Gtype>	<gtype>	NN	_	_	_
-1256	Δcra	δcra	NN	_	_	_
-1257	</Gtype>	</gtype>	NN	_	_	_
-1258	<Supp>	<supp>	NN	_	_	_
-1259	fructose	fructose	NN	_	_	_
-1260	</Supp>	</supp>	NN	_	_	_
-1261	1	1	CD	_	_	_
-1262	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1263	<Gtype>	<gtype>	NN	_	_	_
-1264	Δcra	δcra	NN	_	_	_
-1265	</Gtype>	</gtype>	NN	_	_	_
-1266	<Supp>	<supp>	NN	_	_	_
-1267	fructose	fructose	NN	_	_	_
-1268	</Supp>	</supp>	NN	_	_	_
-1269	2	2	CD	_	_	_
-1270	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1271	<Gtype>	<gtype>	NN	_	_	_
-1272	Δcra	δcra	NN	_	_	_
-1273	</Gtype>	</gtype>	NN	_	_	_
-1274	<Supp>	<supp>	NN	_	_	_
-1275	glucose	glucose	NN	_	_	_
-1276	</Supp>	</supp>	NN	_	_	_
-1277	1	1	CD	_	_	_
-1278	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1279	<Gtype>	<gtype>	NN	_	_	_
-1280	Δcra	δcra	NN	_	_	_
-1281	</Gtype>	</gtype>	NN	_	_	_
-1282	<Supp>	<supp>	NN	_	_	_
-1283	glucose	glucose	NN	_	_	_
-1284	</Supp>	</supp>	NN	_	_	_
-1285	2	2	CD	_	_	_
-1286	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1287	<Gtype>	<gtype>	NN	_	_	_
-1288	Δfur	δfur	NN	_	_	_
-1289	</Gtype>	</gtype>	NN	_	_	_
-1290	with	with	IN	_	_	_
-1291	<Supp>	<supp>	NN	_	_	_
-1292	DPD	dpd	NN	_	_	_
-1293	</Supp>	</supp>	NN	_	_	_
-1294	1	1	CD	_	_	_
-1295	<Technique>	<technique>	NN	_	_	_
-1296	-LRB-	-lrb-	-LRB-	_	_	_
-1297	RNA-seq	rna-seq	NN	_	_	_
-1298	-RRB-	-rrb-	-RRB-	_	_	_
-1299	</Technique>	</technique>	NN	_	_	_
-1300	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1301	<Gtype>	<gtype>	NN	_	_	_
-1302	Δfur	δfur	NN	_	_	_
-1303	</Gtype>	</gtype>	NN	_	_	_
-1304	with	with	IN	_	_	_
-1305	<Supp>	<supp>	NN	_	_	_
-1306	DPD	dpd	NN	_	_	_
-1307	</Supp>	</supp>	NN	_	_	_
-1308	2	2	CD	_	_	_
-1309	<Technique>	<technique>	NN	_	_	_
-1310	-LRB-	-lrb-	-LRB-	_	_	_
-1311	RNA-seq	rna-seq	NN	_	_	_
-1312	-RRB-	-rrb-	-RRB-	_	_	_
-1313	</Technique>	</technique>	NN	_	_	_
-1314	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1315	<Gtype>	<gtype>	NN	_	_	_
-1316	Δfur	δfur	NN	_	_	_
-1317	</Gtype>	</gtype>	NN	_	_	_
-1318	with	with	IN	_	_	_
-1319	<Supp>	<supp>	NN	_	_	_
-1320	Fe	Fe	NNP	_	_	_
-1321	</Supp>	</Supp>	NNP	_	_	_
-1322	1	1	CD	_	_	_
-1323	<Technique>	<technique>	NN	_	_	_
-1324	-LRB-	-lrb-	-LRB-	_	_	_
-1325	RNA-seq	rna-seq	NN	_	_	_
-1326	-RRB-	-rrb-	-RRB-	_	_	_
-1327	</Technique>	</technique>	NN	_	_	_
-1328	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1329	<Gtype>	<gtype>	NN	_	_	_
-1330	Δfur	δfur	NN	_	_	_
-1331	</Gtype>	</gtype>	NN	_	_	_
-1332	with	with	IN	_	_	_
-1333	<Supp>	<supp>	NN	_	_	_
-1334	Fe	Fe	NNP	_	_	_
-1335	</Supp>	</Supp>	NNP	_	_	_
-1336	2	2	CD	_	_	_
-1337	<Technique>	<technique>	NN	_	_	_
-1338	-LRB-	-lrb-	-LRB-	_	_	_
-1339	RNA-seq	rna-seq	NN	_	_	_
-1340	-RRB-	-rrb-	-RRB-	_	_	_
-1341	</Technique>	</technique>	NN	_	_	_
-1342	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1343	<Gtype>	<gtype>	NN	_	_	_
-1344	ΔgadE	δgade	NN	_	_	_
-1345	</Gtype>	</gtype>	NN	_	_	_
-1346	<pH>	<ph>	NN	_	_	_
-1347	pH5	ph5	NN	_	_	_
-1348	.5	.5	CD	_	_	_
-1349	</pH>	</ph>	NN	_	_	_
-1350	1	1	CD	_	_	_
-1351	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1352	<Gtype>	<gtype>	NN	_	_	_
-1353	ΔgadE	δgade	NN	_	_	_
-1354	</Gtype>	</gtype>	NN	_	_	_
-1355	<pH>	<ph>	NN	_	_	_
-1356	pH5	ph5	NN	_	_	_
-1357	.5	.5	CD	_	_	_
-1358	</pH>	</ph>	NN	_	_	_
-1359	2	2	CD	_	_	_
-1360	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1361	<Gtype>	<gtype>	NN	_	_	_
-1362	ΔgadW	δgadw	NN	_	_	_
-1363	</Gtype>	</gtype>	NN	_	_	_
-1364	<pH>	<ph>	NN	_	_	_
-1365	pH5	ph5	NN	_	_	_
-1366	.5	.5	CD	_	_	_
-1367	</pH>	</ph>	NN	_	_	_
-1368	1	1	CD	_	_	_
-1369	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1370	<Gtype>	<gtype>	NN	_	_	_
-1371	ΔgadW	δgadw	NN	_	_	_
-1372	</Gtype>	</gtype>	NN	_	_	_
-1373	<pH>	<ph>	NN	_	_	_
-1374	pH5	ph5	NN	_	_	_
-1375	.5	.5	CD	_	_	_
-1376	</pH>	</ph>	NN	_	_	_
-1377	2	2	CD	_	_	_
-1378	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1379	<Gtype>	<gtype>	NN	_	_	_
-1380	ΔgadX	δgadx	NN	_	_	_
-1381	</Gtype>	</gtype>	NN	_	_	_
-1382	<pH>	<ph>	NN	_	_	_
-1383	pH5	ph5	NN	_	_	_
-1384	.5	.5	CD	_	_	_
-1385	</pH>	</ph>	NN	_	_	_
-1386	1	1	CD	_	_	_
-1387	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1388	<Gtype>	<gtype>	NN	_	_	_
-1389	ΔgadX	δgadx	NN	_	_	_
-1390	</Gtype>	</gtype>	NN	_	_	_
-1391	<pH>	<ph>	NN	_	_	_
-1392	pH5	ph5	NN	_	_	_
-1393	.5	.5	CD	_	_	_
-1394	</pH>	</ph>	NN	_	_	_
-1395	2	2	CD	_	_	_
-1396	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1397	<Gtype>	<gtype>	NN	_	_	_
-1398	ΔompR	δompr	NN	_	_	_
-1399	</Gtype>	</gtype>	NN	_	_	_
-1400	<Supp>	<supp>	NN	_	_	_
-1401	NaCl	nacl	NN	_	_	_
-1402	</Supp>	</supp>	NN	_	_	_
-1403	1	1	CD	_	_	_
-1404	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1405	<Gtype>	<gtype>	NN	_	_	_
-1406	ΔompR	δompr	NN	_	_	_
-1407	</Gtype>	</gtype>	NN	_	_	_
-1408	<Supp>	<supp>	NN	_	_	_
-1409	NaCl	nacl	NN	_	_	_
-1410	</Supp>	</supp>	NN	_	_	_
-1411	2	2	CD	_	_	_
-1412	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1413	<Gtype>	<gtype>	NN	_	_	_
-1414	ΔoxyR	δoxyr	NN	_	_	_
-1415	</Gtype>	</gtype>	NN	_	_	_
-1416	<Supp>	<supp>	NN	_	_	_
-1417	PQ	pq	NN	_	_	_
-1418	</Supp>	</supp>	NN	_	_	_
-1419	1	1	CD	_	_	_
-1420	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1421	<Gtype>	<gtype>	NN	_	_	_
-1422	ΔoxyR	δoxyr	NN	_	_	_
-1423	</Gtype>	</gtype>	NN	_	_	_
-1424	<Supp>	<supp>	NN	_	_	_
-1425	PQ	pq	NN	_	_	_
-1426	</Supp>	</supp>	NN	_	_	_
-1427	2	2	CD	_	_	_
-1428	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1429	<Gtype>	<gtype>	NN	_	_	_
-1430	ΔsoxR	δsoxr	NN	_	_	_
-1431	</Gtype>	</gtype>	NN	_	_	_
-1432	<Supp>	<supp>	NN	_	_	_
-1433	PQ	pq	NN	_	_	_
-1434	</Supp>	</supp>	NN	_	_	_
-1435	1	1	CD	_	_	_
-1436	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1437	<Gtype>	<gtype>	NN	_	_	_
-1438	ΔsoxR	δsoxr	NN	_	_	_
-1439	</Gtype>	</gtype>	NN	_	_	_
-1440	<Supp>	<supp>	NN	_	_	_
-1441	PQ	pq	NN	_	_	_
-1442	</Supp>	</supp>	NN	_	_	_
-1443	2	2	CD	_	_	_
-1444	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1445	<Gtype>	<gtype>	NN	_	_	_
-1446	ΔsoxS	δsoxs	NN	_	_	_
-1447	</Gtype>	</gtype>	NN	_	_	_
-1448	<Supp>	<supp>	NN	_	_	_
-1449	PQ	pq	NN	_	_	_
-1450	</Supp>	</supp>	NN	_	_	_
-1451	1	1	CD	_	_	_
-1452	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1453	<Gtype>	<gtype>	NN	_	_	_
-1454	ΔsoxS	δsoxs	NN	_	_	_
-1455	</Gtype>	</gtype>	NN	_	_	_
-1456	<Supp>	<supp>	NN	_	_	_
-1457	PQ	pq	NN	_	_	_
-1458	</Supp>	</supp>	NN	_	_	_
-1459	2	2	CD	_	_	_
-1460	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1461	<Gversion>	<gversion>	NN	_	_	_
-1462	ChIP-Seq	chip-seq	NN	_	_	_
-1463	</Gversion>	</gversion>	NN	_	_	_
+1173	<Technique>	<technique>	NN	_	_	_
+1174	ChIPSeq	chipseq	NN	_	_	_
+1175	</Technique>	</technique>	NN	_	_	_
+1176	_	_	NN	_	_	_
+1177	2	2	CD	_	_	_
+1178	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1179	<Gtype>	<gtype>	NN	_	_	_
+1180	WT	wt	JJ	_	_	_
+1181	</Gtype>	</gtype>	NN	_	_	_
+1182	_	_	NN	_	_	_
+1183	<Technique>	<technique>	NN	_	_	_
+1184	RNASeq	rnaseq	NN	_	_	_
+1185	</Technique>	</technique>	NN	_	_	_
+1186	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1187	<Gtype>	<gtype>	NN	_	_	_
+1188	WT	wt	JJ	_	_	_
+1189	</Gtype>	</gtype>	NN	_	_	_
+1190	with	with	IN	_	_	_
+1191	<Supp>	<supp>	NN	_	_	_
+1192	DPD	dpd	NN	_	_	_
+1193	</Supp>	</supp>	NN	_	_	_
+1194	1	1	CD	_	_	_
+1195	<Technique>	<technique>	NN	_	_	_
+1196	-LRB-	-lrb-	-LRB-	_	_	_
+1197	RNA-seq	rna-seq	NN	_	_	_
+1198	-RRB-	-rrb-	-RRB-	_	_	_
+1199	</Technique>	</technique>	NN	_	_	_
+1200	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1201	<Gtype>	<gtype>	NN	_	_	_
+1202	WT	wt	JJ	_	_	_
+1203	</Gtype>	</gtype>	NN	_	_	_
+1204	with	with	IN	_	_	_
+1205	<Supp>	<supp>	NN	_	_	_
+1206	DPD	dpd	NN	_	_	_
+1207	</Supp>	</supp>	NN	_	_	_
+1208	2	2	CD	_	_	_
+1209	<Technique>	<technique>	NN	_	_	_
+1210	-LRB-	-lrb-	-LRB-	_	_	_
+1211	RNA-seq	rna-seq	NN	_	_	_
+1212	-RRB-	-rrb-	-RRB-	_	_	_
+1213	</Technique>	</technique>	NN	_	_	_
+1214	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1215	<Gtype>	<gtype>	NN	_	_	_
+1216	WT	wt	JJ	_	_	_
+1217	</Gtype>	</gtype>	NN	_	_	_
+1218	with	with	IN	_	_	_
+1219	<Supp>	<supp>	NN	_	_	_
+1220	Fe	Fe	NNP	_	_	_
+1221	</Supp>	</Supp>	NNP	_	_	_
+1222	1	1	CD	_	_	_
+1223	<Technique>	<technique>	NN	_	_	_
+1224	-LRB-	-lrb-	-LRB-	_	_	_
+1225	RNA-seq	rna-seq	NN	_	_	_
+1226	-RRB-	-rrb-	-RRB-	_	_	_
+1227	</Technique>	</technique>	NN	_	_	_
+1228	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1229	<Gtype>	<gtype>	NN	_	_	_
+1230	WT	wt	JJ	_	_	_
+1231	</Gtype>	</gtype>	NN	_	_	_
+1232	with	with	IN	_	_	_
+1233	<Supp>	<supp>	NN	_	_	_
+1234	Fe	Fe	NNP	_	_	_
+1235	</Supp>	</Supp>	NNP	_	_	_
+1236	2	2	CD	_	_	_
+1237	<Technique>	<technique>	NN	_	_	_
+1238	-LRB-	-lrb-	-LRB-	_	_	_
+1239	RNA-seq	rna-seq	NN	_	_	_
+1240	-RRB-	-rrb-	-RRB-	_	_	_
+1241	</Technique>	</technique>	NN	_	_	_
+1242	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1243	<Gtype>	<gtype>	NN	_	_	_
+1244	Δcra	δcra	NN	_	_	_
+1245	</Gtype>	</gtype>	NN	_	_	_
+1246	<Supp>	<supp>	NN	_	_	_
+1247	acetate	acetate	NN	_	_	_
+1248	</Supp>	</supp>	NN	_	_	_
+1249	1	1	CD	_	_	_
+1250	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1251	<Gtype>	<gtype>	NN	_	_	_
+1252	Δcra	δcra	NN	_	_	_
+1253	</Gtype>	</gtype>	NN	_	_	_
+1254	<Supp>	<supp>	NN	_	_	_
+1255	acetate	acetate	NN	_	_	_
+1256	</Supp>	</supp>	NN	_	_	_
+1257	2	2	CD	_	_	_
+1258	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1259	<Gtype>	<gtype>	NN	_	_	_
+1260	Δcra	δcra	NN	_	_	_
+1261	</Gtype>	</gtype>	NN	_	_	_
+1262	<Supp>	<supp>	NN	_	_	_
+1263	fructose	fructose	NN	_	_	_
+1264	</Supp>	</supp>	NN	_	_	_
+1265	1	1	CD	_	_	_
+1266	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1267	<Gtype>	<gtype>	NN	_	_	_
+1268	Δcra	δcra	NN	_	_	_
+1269	</Gtype>	</gtype>	NN	_	_	_
+1270	<Supp>	<supp>	NN	_	_	_
+1271	fructose	fructose	NN	_	_	_
+1272	</Supp>	</supp>	NN	_	_	_
+1273	2	2	CD	_	_	_
+1274	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1275	<Gtype>	<gtype>	NN	_	_	_
+1276	Δcra	δcra	NN	_	_	_
+1277	</Gtype>	</gtype>	NN	_	_	_
+1278	<Supp>	<supp>	NN	_	_	_
+1279	glucose	glucose	NN	_	_	_
+1280	</Supp>	</supp>	NN	_	_	_
+1281	1	1	CD	_	_	_
+1282	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1283	<Gtype>	<gtype>	NN	_	_	_
+1284	Δcra	δcra	NN	_	_	_
+1285	</Gtype>	</gtype>	NN	_	_	_
+1286	<Supp>	<supp>	NN	_	_	_
+1287	glucose	glucose	NN	_	_	_
+1288	</Supp>	</supp>	NN	_	_	_
+1289	2	2	CD	_	_	_
+1290	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1291	<Gtype>	<gtype>	NN	_	_	_
+1292	Δfur	δfur	NN	_	_	_
+1293	</Gtype>	</gtype>	NN	_	_	_
+1294	with	with	IN	_	_	_
+1295	<Supp>	<supp>	NN	_	_	_
+1296	DPD	dpd	NN	_	_	_
+1297	</Supp>	</supp>	NN	_	_	_
+1298	1	1	CD	_	_	_
+1299	<Technique>	<technique>	NN	_	_	_
+1300	-LRB-	-lrb-	-LRB-	_	_	_
+1301	RNA-seq	rna-seq	NN	_	_	_
+1302	-RRB-	-rrb-	-RRB-	_	_	_
+1303	</Technique>	</technique>	NN	_	_	_
+1304	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1305	<Gtype>	<gtype>	NN	_	_	_
+1306	Δfur	δfur	NN	_	_	_
+1307	</Gtype>	</gtype>	NN	_	_	_
+1308	with	with	IN	_	_	_
+1309	<Supp>	<supp>	NN	_	_	_
+1310	DPD	dpd	NN	_	_	_
+1311	</Supp>	</supp>	NN	_	_	_
+1312	2	2	CD	_	_	_
+1313	<Technique>	<technique>	NN	_	_	_
+1314	-LRB-	-lrb-	-LRB-	_	_	_
+1315	RNA-seq	rna-seq	NN	_	_	_
+1316	-RRB-	-rrb-	-RRB-	_	_	_
+1317	</Technique>	</technique>	NN	_	_	_
+1318	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1319	<Gtype>	<gtype>	NN	_	_	_
+1320	Δfur	δfur	NN	_	_	_
+1321	</Gtype>	</gtype>	NN	_	_	_
+1322	with	with	IN	_	_	_
+1323	<Supp>	<supp>	NN	_	_	_
+1324	Fe	Fe	NNP	_	_	_
+1325	</Supp>	</Supp>	NNP	_	_	_
+1326	1	1	CD	_	_	_
+1327	<Technique>	<technique>	NN	_	_	_
+1328	-LRB-	-lrb-	-LRB-	_	_	_
+1329	RNA-seq	rna-seq	NN	_	_	_
+1330	-RRB-	-rrb-	-RRB-	_	_	_
+1331	</Technique>	</technique>	NN	_	_	_
+1332	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1333	<Gtype>	<gtype>	NN	_	_	_
+1334	Δfur	δfur	NN	_	_	_
+1335	</Gtype>	</gtype>	NN	_	_	_
+1336	with	with	IN	_	_	_
+1337	<Supp>	<supp>	NN	_	_	_
+1338	Fe	Fe	NNP	_	_	_
+1339	</Supp>	</Supp>	NNP	_	_	_
+1340	2	2	CD	_	_	_
+1341	<Technique>	<technique>	NN	_	_	_
+1342	-LRB-	-lrb-	-LRB-	_	_	_
+1343	RNA-seq	rna-seq	NN	_	_	_
+1344	-RRB-	-rrb-	-RRB-	_	_	_
+1345	</Technique>	</technique>	NN	_	_	_
+1346	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1347	<Gtype>	<gtype>	NN	_	_	_
+1348	ΔgadE	δgade	NN	_	_	_
+1349	</Gtype>	</gtype>	NN	_	_	_
+1350	<pH>	<ph>	NN	_	_	_
+1351	pH5	ph5	NN	_	_	_
+1352	.5	.5	CD	_	_	_
+1353	</pH>	</ph>	NN	_	_	_
+1354	1	1	CD	_	_	_
+1355	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1356	<Gtype>	<gtype>	NN	_	_	_
+1357	ΔgadE	δgade	NN	_	_	_
+1358	</Gtype>	</gtype>	NN	_	_	_
+1359	<pH>	<ph>	NN	_	_	_
+1360	pH5	ph5	NN	_	_	_
+1361	.5	.5	CD	_	_	_
+1362	</pH>	</ph>	NN	_	_	_
+1363	2	2	CD	_	_	_
+1364	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1365	<Gtype>	<gtype>	NN	_	_	_
+1366	ΔgadW	δgadw	NN	_	_	_
+1367	</Gtype>	</gtype>	NN	_	_	_
+1368	<pH>	<ph>	NN	_	_	_
+1369	pH5	ph5	NN	_	_	_
+1370	.5	.5	CD	_	_	_
+1371	</pH>	</ph>	NN	_	_	_
+1372	1	1	CD	_	_	_
+1373	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1374	<Gtype>	<gtype>	NN	_	_	_
+1375	ΔgadW	δgadw	NN	_	_	_
+1376	</Gtype>	</gtype>	NN	_	_	_
+1377	<pH>	<ph>	NN	_	_	_
+1378	pH5	ph5	NN	_	_	_
+1379	.5	.5	CD	_	_	_
+1380	</pH>	</ph>	NN	_	_	_
+1381	2	2	CD	_	_	_
+1382	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1383	<Gtype>	<gtype>	NN	_	_	_
+1384	ΔgadX	δgadx	NN	_	_	_
+1385	</Gtype>	</gtype>	NN	_	_	_
+1386	<pH>	<ph>	NN	_	_	_
+1387	pH5	ph5	NN	_	_	_
+1388	.5	.5	CD	_	_	_
+1389	</pH>	</ph>	NN	_	_	_
+1390	1	1	CD	_	_	_
+1391	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1392	<Gtype>	<gtype>	NN	_	_	_
+1393	ΔgadX	δgadx	NN	_	_	_
+1394	</Gtype>	</gtype>	NN	_	_	_
+1395	<pH>	<ph>	NN	_	_	_
+1396	pH5	ph5	NN	_	_	_
+1397	.5	.5	CD	_	_	_
+1398	</pH>	</ph>	NN	_	_	_
+1399	2	2	CD	_	_	_
+1400	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1401	<Gtype>	<gtype>	NN	_	_	_
+1402	ΔompR	δompr	NN	_	_	_
+1403	</Gtype>	</gtype>	NN	_	_	_
+1404	<Supp>	<supp>	NN	_	_	_
+1405	NaCl	nacl	NN	_	_	_
+1406	</Supp>	</supp>	NN	_	_	_
+1407	1	1	CD	_	_	_
+1408	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1409	<Gtype>	<gtype>	NN	_	_	_
+1410	ΔompR	δompr	NN	_	_	_
+1411	</Gtype>	</gtype>	NN	_	_	_
+1412	<Supp>	<supp>	NN	_	_	_
+1413	NaCl	nacl	NN	_	_	_
+1414	</Supp>	</supp>	NN	_	_	_
+1415	2	2	CD	_	_	_
+1416	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1417	<Gtype>	<gtype>	NN	_	_	_
+1418	ΔoxyR	δoxyr	NN	_	_	_
+1419	</Gtype>	</gtype>	NN	_	_	_
+1420	<Supp>	<supp>	NN	_	_	_
+1421	PQ	pq	NN	_	_	_
+1422	</Supp>	</supp>	NN	_	_	_
+1423	1	1	CD	_	_	_
+1424	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1425	<Gtype>	<gtype>	NN	_	_	_
+1426	ΔoxyR	δoxyr	NN	_	_	_
+1427	</Gtype>	</gtype>	NN	_	_	_
+1428	<Supp>	<supp>	NN	_	_	_
+1429	PQ	pq	NN	_	_	_
+1430	</Supp>	</supp>	NN	_	_	_
+1431	2	2	CD	_	_	_
+1432	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1433	<Gtype>	<gtype>	NN	_	_	_
+1434	ΔsoxR	δsoxr	NN	_	_	_
+1435	</Gtype>	</gtype>	NN	_	_	_
+1436	<Supp>	<supp>	NN	_	_	_
+1437	PQ	pq	NN	_	_	_
+1438	</Supp>	</supp>	NN	_	_	_
+1439	1	1	CD	_	_	_
+1440	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1441	<Gtype>	<gtype>	NN	_	_	_
+1442	ΔsoxR	δsoxr	NN	_	_	_
+1443	</Gtype>	</gtype>	NN	_	_	_
+1444	<Supp>	<supp>	NN	_	_	_
+1445	PQ	pq	NN	_	_	_
+1446	</Supp>	</supp>	NN	_	_	_
+1447	2	2	CD	_	_	_
+1448	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1449	<Gtype>	<gtype>	NN	_	_	_
+1450	ΔsoxS	δsoxs	NN	_	_	_
+1451	</Gtype>	</gtype>	NN	_	_	_
+1452	<Supp>	<supp>	NN	_	_	_
+1453	PQ	pq	NN	_	_	_
+1454	</Supp>	</supp>	NN	_	_	_
+1455	1	1	CD	_	_	_
+1456	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1457	<Gtype>	<gtype>	NN	_	_	_
+1458	ΔsoxS	δsoxs	NN	_	_	_
+1459	</Gtype>	</gtype>	NN	_	_	_
+1460	<Supp>	<supp>	NN	_	_	_
+1461	PQ	pq	NN	_	_	_
+1462	</Supp>	</supp>	NN	_	_	_
+1463	2	2	CD	_	_	_
 1464	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1465	HNS	hns	SYM	_	_	_
-1466	-	-	:	_	_	_
-1467	<Air>	<air>	NN	_	_	_
-1468	Aerobic	aerobic	JJ	_	_	_
-1469	</Air>	</air>	NN	_	_	_
-1470	A	a	DT	_	_	_
-1471	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
-1472	HNS	hns	SYM	_	_	_
-1473	-	-	:	_	_	_
-1474	<Air>	<air>	NN	_	_	_
-1475	Aerobic	aerobic	JJ	_	_	_
-1476	</Air>	</air>	NN	_	_	_
-1477	B	b	NN	_	_	_
-1478	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1479	HNS	hns	SYM	_	_	_
-1480	-	-	:	_	_	_
-1481	<Air>	<air>	NN	_	_	_
-1482	Anaerobic	anaerobic	JJ	_	_	_
-1483	</Air>	</air>	NN	_	_	_
-1484	A	a	DT	_	_	_
-1485	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
-1486	HNS	hns	SYM	_	_	_
-1487	-	-	:	_	_	_
-1488	<Air>	<air>	NN	_	_	_
-1489	Anaerobic	anaerobic	JJ	_	_	_
-1490	</Air>	</air>	NN	_	_	_
-1491	B	b	NN	_	_	_
-1492	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1493	IHF	ihf	SYM	_	_	_
-1494	-	-	:	_	_	_
-1495	<Air>	<air>	NN	_	_	_
-1496	Anaerobic	anaerobic	JJ	_	_	_
-1497	</Air>	</air>	NN	_	_	_
-1498	A	a	DT	_	_	_
-1499	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
-1500	IHF	ihf	SYM	_	_	_
-1501	-	-	:	_	_	_
-1502	<Air>	<air>	NN	_	_	_
-1503	Anaerobic	anaerobic	JJ	_	_	_
-1504	</Air>	</air>	NN	_	_	_
-1505	B	b	NN	_	_	_
-1506	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1507	Input	input	NN	_	_	_
-1508	<Technique>	<technique>	NN	_	_	_
-1509	ChIP-Seq	chip-seq	NN	_	_	_
-1510	</Technique>	</technique>	NN	_	_	_
-1511	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1512	ip	ip	NN	_	_	_
-1513	antibody	antibody	NN	_	_	_
-1514	:	:	:	_	_	_
-1515	<Anti>	<anti>	NN	_	_	_
-1516	affinity	affinity	NN	_	_	_
-1517	purified	purify	VBN	_	_	_
-1518	anti-Fur	anti-fur	JJ	_	_	_
-1519	antibody	antibody	NN	_	_	_
-1520	</Anti>	</anti>	NN	_	_	_
-1521	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1522	library	library	NN	_	_	_
-1523	strategy	strategy	NN	_	_	_
-1524	:	:	:	_	_	_
-1525	<Technique>	<technique>	NN	_	_	_
-1526	ChIP-exo	ChIP-exo	NNP	_	_	_
-1527	</Technique>	</Technique>	NNP	_	_	_
-1528	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1529	Lrp	Lrp	NNP	_	_	_
-1530	_	_	SYM	_	_	_
-1531	<Supp>	<Supp>	NNP	_	_	_
-1532	Leu	Leu	NNP	_	_	_
-1533	</Supp>	</Supp>	NNP	_	_	_
+1465	<Gversion>	<gversion>	NN	_	_	_
+1466	ChIP-Seq	chip-seq	NN	_	_	_
+1467	</Gversion>	</gversion>	NN	_	_	_
+1468	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1469	HNS	hns	SYM	_	_	_
+1470	-	-	:	_	_	_
+1471	<Air>	<air>	NN	_	_	_
+1472	Aerobic	aerobic	JJ	_	_	_
+1473	</Air>	</air>	NN	_	_	_
+1474	A	a	DT	_	_	_
+1475	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
+1476	HNS	hns	SYM	_	_	_
+1477	-	-	:	_	_	_
+1478	<Air>	<air>	NN	_	_	_
+1479	Aerobic	aerobic	JJ	_	_	_
+1480	</Air>	</air>	NN	_	_	_
+1481	B	b	NN	_	_	_
+1482	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1483	HNS	hns	SYM	_	_	_
+1484	-	-	:	_	_	_
+1485	<Air>	<air>	NN	_	_	_
+1486	Anaerobic	anaerobic	JJ	_	_	_
+1487	</Air>	</air>	NN	_	_	_
+1488	A	a	DT	_	_	_
+1489	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
+1490	HNS	hns	SYM	_	_	_
+1491	-	-	:	_	_	_
+1492	<Air>	<air>	NN	_	_	_
+1493	Anaerobic	anaerobic	JJ	_	_	_
+1494	</Air>	</air>	NN	_	_	_
+1495	B	b	NN	_	_	_
+1496	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1497	IHF	ihf	SYM	_	_	_
+1498	-	-	:	_	_	_
+1499	<Air>	<air>	NN	_	_	_
+1500	Anaerobic	anaerobic	JJ	_	_	_
+1501	</Air>	</air>	NN	_	_	_
+1502	A	a	DT	_	_	_
+1503	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNPS	_	_	_
+1504	IHF	ihf	SYM	_	_	_
+1505	-	-	:	_	_	_
+1506	<Air>	<air>	NN	_	_	_
+1507	Anaerobic	anaerobic	JJ	_	_	_
+1508	</Air>	</air>	NN	_	_	_
+1509	B	b	NN	_	_	_
+1510	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1511	Input	input	NN	_	_	_
+1512	<Technique>	<technique>	NN	_	_	_
+1513	ChIP-Seq	chip-seq	NN	_	_	_
+1514	</Technique>	</technique>	NN	_	_	_
+1515	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1516	ip	ip	NN	_	_	_
+1517	antibody	antibody	NN	_	_	_
+1518	:	:	:	_	_	_
+1519	<Anti>	<anti>	NN	_	_	_
+1520	affinity	affinity	NN	_	_	_
+1521	purified	purify	VBN	_	_	_
+1522	anti-Fur	anti-fur	JJ	_	_	_
+1523	antibody	antibody	NN	_	_	_
+1524	</Anti>	</anti>	NN	_	_	_
+1525	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1526	library	library	NN	_	_	_
+1527	strategy	strategy	NN	_	_	_
+1528	:	:	:	_	_	_
+1529	<Technique>	<technique>	NN	_	_	_
+1530	ChIP-exo	ChIP-exo	NNP	_	_	_
+1531	</Technique>	</Technique>	NNP	_	_	_
+1532	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1533	Lrp	Lrp	NNP	_	_	_
 1534	_	_	SYM	_	_	_
-1535	1	1	CD	_	_	_
-1536	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1537	Lrp	Lrp	NNP	_	_	_
+1535	<Supp>	<Supp>	NNP	_	_	_
+1536	Leu	Leu	NNP	_	_	_
+1537	</Supp>	</Supp>	NNP	_	_	_
 1538	_	_	SYM	_	_	_
-1539	<Supp>	<Supp>	NNP	_	_	_
-1540	Leu	Leu	NNP	_	_	_
-1541	</Supp>	</Supp>	NNP	_	_	_
-1542	_	_	NN	_	_	_
-1543	2	2	CD	_	_	_
-1544	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1545	Lrp	Lrp	NNP	_	_	_
-1546	_	_	SYM	_	_	_
-1547	<Supp>	<Supp>	NNP	_	_	_
-1548	Leu	Leu	NNP	_	_	_
-1549	</Supp>	</Supp>	NNP	_	_	_
+1539	1	1	CD	_	_	_
+1540	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1541	Lrp	Lrp	NNP	_	_	_
+1542	_	_	SYM	_	_	_
+1543	<Supp>	<Supp>	NNP	_	_	_
+1544	Leu	Leu	NNP	_	_	_
+1545	</Supp>	</Supp>	NNP	_	_	_
+1546	_	_	NN	_	_	_
+1547	2	2	CD	_	_	_
+1548	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1549	Lrp	Lrp	NNP	_	_	_
 1550	_	_	SYM	_	_	_
-1551	3	3	CD	_	_	_
-1552	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1553	Lrp	Lrp	NNP	_	_	_
+1551	<Supp>	<Supp>	NNP	_	_	_
+1552	Leu	Leu	NNP	_	_	_
+1553	</Supp>	</Supp>	NNP	_	_	_
 1554	_	_	SYM	_	_	_
-1555	<Supp>	<supp>	NN	_	_	_
-1556	NH4Cl	nh4cl	NN	_	_	_
-1557	</Supp>	</supp>	NN	_	_	_
-1558	_	_	NN	_	_	_
-1559	1	1	CD	_	_	_
-1560	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1561	Lrp	Lrp	NNP	_	_	_
-1562	_	_	SYM	_	_	_
-1563	<Supp>	<supp>	NN	_	_	_
-1564	NH4Cl	nh4cl	NN	_	_	_
-1565	</Supp>	</supp>	NN	_	_	_
-1566	_	_	NN	_	_	_
-1567	2	2	CD	_	_	_
-1568	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
-1569	Lrp	lrp	NN	_	_	_
-1570	_	_	CD	_	_	_
-1571	<Supp>	<supp>	NN	_	_	_
-1572	NH4Cl	nh4cl	NN	_	_	_
-1573	</Supp>	</supp>	NN	_	_	_
+1555	3	3	CD	_	_	_
+1556	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1557	Lrp	Lrp	NNP	_	_	_
+1558	_	_	SYM	_	_	_
+1559	<Supp>	<supp>	NN	_	_	_
+1560	NH4Cl	nh4cl	NN	_	_	_
+1561	</Supp>	</supp>	NN	_	_	_
+1562	_	_	NN	_	_	_
+1563	1	1	CD	_	_	_
+1564	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1565	Lrp	Lrp	NNP	_	_	_
+1566	_	_	SYM	_	_	_
+1567	<Supp>	<supp>	NN	_	_	_
+1568	NH4Cl	nh4cl	NN	_	_	_
+1569	</Supp>	</supp>	NN	_	_	_
+1570	_	_	NN	_	_	_
+1571	2	2	CD	_	_	_
+1572	PGCGROWTHCONDITIONS	pgcgrowthcondition	NNS	_	_	_
+1573	Lrp	lrp	NN	_	_	_
 1574	_	_	CD	_	_	_
-1575	3	3	CD	_	_	_
-1576	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1577	medium	medium	NN	_	_	_
-1578	:	:	:	_	_	_
-1579	<Med>	<Med>	NNP	_	_	_
-1580	LB	LB	NNP	_	_	_
-1581	</Med>	</Med>	NNP	_	_	_
-1582	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1583	medium	medium	NN	_	_	_
-1584	:	:	:	_	_	_
-1585	<Med>	<med>	NN	_	_	_
-1586	M63	m63	NN	_	_	_
-1587	</Med>	</med>	NN	_	_	_
-1588	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1575	<Supp>	<supp>	NN	_	_	_
+1576	NH4Cl	nh4cl	NN	_	_	_
+1577	</Supp>	</supp>	NN	_	_	_
+1578	_	_	CD	_	_	_
+1579	3	3	CD	_	_	_
+1580	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1581	medium	medium	NN	_	_	_
+1582	:	:	:	_	_	_
+1583	<Med>	<Med>	NNP	_	_	_
+1584	LB	LB	NNP	_	_	_
+1585	</Med>	</Med>	NNP	_	_	_
+1586	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1587	medium	medium	NN	_	_	_
+1588	:	:	:	_	_	_
 1589	<Med>	<med>	NN	_	_	_
-1590	LB	lb	NN	_	_	_
+1590	M63	m63	NN	_	_	_
 1591	</Med>	</med>	NN	_	_	_
-1592	0.4	0.4	CD	_	_	_
-1593	B1	b1	NN	_	_	_
-1594	TEX	tex	NN	_	_	_
-1595	neg	neg	NN	_	_	_
-1596	L1	l1	NN	_	_	_
-1597	GA	ga	NN	_	_	_
-1598	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1599	<Med>	<med>	NN	_	_	_
-1600	LB	lb	NN	_	_	_
-1601	</Med>	</med>	NN	_	_	_
-1602	0.4	0.4	CD	_	_	_
-1603	B1	b1	NN	_	_	_
-1604	TEX	TEX	NNP	_	_	_
-1605	pos	po	VBZ	_	_	_
-1606	L1	l1	NN	_	_	_
-1607	GA	ga	NN	_	_	_
-1608	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1609	<Med>	<med>	NN	_	_	_
-1610	LB	lb	NN	_	_	_
-1611	</Med>	</med>	NN	_	_	_
-1612	0.4	0.4	CD	_	_	_
-1613	B2	b2	NN	_	_	_
-1614	TEX	TEX	NNP	_	_	_
-1615	neg	neg	NNP	_	_	_
-1616	L1	l1	NN	_	_	_
-1617	HS1	hs1	NN	_	_	_
-1618	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1619	<Med>	<med>	NN	_	_	_
-1620	LB	lb	NN	_	_	_
-1621	</Med>	</med>	NN	_	_	_
-1622	0.4	0.4	CD	_	_	_
-1623	B2	b2	NN	_	_	_
-1624	TEX	TEX	NNP	_	_	_
-1625	neg	neg	NNP	_	_	_
-1626	L1	l1	NN	_	_	_
-1627	HS2	hs2	NN	_	_	_
-1628	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1629	<Med>	<med>	NN	_	_	_
-1630	LB	lb	NN	_	_	_
-1631	</Med>	</med>	NN	_	_	_
-1632	0.4	0.4	CD	_	_	_
-1633	B2	b2	NN	_	_	_
-1634	TEX	TEX	NNP	_	_	_
-1635	pos	po	VBZ	_	_	_
-1636	L1	l1	NN	_	_	_
-1637	HS1	hs1	NN	_	_	_
-1638	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1639	<Med>	<med>	NN	_	_	_
-1640	LB	lb	NN	_	_	_
-1641	</Med>	</med>	NN	_	_	_
-1642	0.4	0.4	CD	_	_	_
-1643	B2	b2	NN	_	_	_
-1644	TEX	TEX	NNP	_	_	_
-1645	pos	po	VBZ	_	_	_
-1646	L1	l1	NN	_	_	_
-1647	HS2	hs2	NN	_	_	_
-1648	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1649	<Med>	<med>	NN	_	_	_
-1650	LB	lb	NN	_	_	_
-1651	</Med>	</med>	NN	_	_	_
-1652	2.0	2.0	CD	_	_	_
-1653	B1	b1	NN	_	_	_
-1654	TEX	tex	NN	_	_	_
-1655	neg	neg	NN	_	_	_
-1656	L1	l1	NN	_	_	_
-1657	GA	ga	NN	_	_	_
-1658	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1659	<Med>	<med>	NN	_	_	_
-1660	LB	lb	NN	_	_	_
-1661	</Med>	</med>	NN	_	_	_
-1662	2.0	2.0	CD	_	_	_
-1663	B1	b1	NN	_	_	_
-1664	TEX	TEX	NNP	_	_	_
-1665	neg	neg	NNP	_	_	_
-1666	L2	l2	NN	_	_	_
-1667	HS2	hs2	NN	_	_	_
-1668	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1669	<Med>	<med>	NN	_	_	_
-1670	LB	lb	NN	_	_	_
-1671	</Med>	</med>	NN	_	_	_
-1672	2.0	2.0	CD	_	_	_
-1673	B1	b1	NN	_	_	_
-1674	TEX	TEX	NNP	_	_	_
-1675	pos	po	VBZ	_	_	_
-1676	L1	l1	NN	_	_	_
-1677	GA	ga	NN	_	_	_
-1678	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1679	<Med>	<med>	NN	_	_	_
-1680	LB	lb	NN	_	_	_
-1681	</Med>	</med>	NN	_	_	_
-1682	2.0	2.0	CD	_	_	_
-1683	B1	b1	NN	_	_	_
-1684	TEX	TEX	NNP	_	_	_
-1685	pos	po	VBZ	_	_	_
-1686	L2	l2	NN	_	_	_
-1687	HS2	hs2	NN	_	_	_
-1688	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1689	<Med>	<med>	NN	_	_	_
-1690	LB	lb	NN	_	_	_
-1691	</Med>	</med>	NN	_	_	_
-1692	2.0	2.0	CD	_	_	_
-1693	B2	b2	NN	_	_	_
-1694	TEX	TEX	NNP	_	_	_
-1695	neg	neg	NNP	_	_	_
-1696	L1	l1	NN	_	_	_
-1697	HS1	hs1	NN	_	_	_
-1698	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1699	<Med>	<med>	NN	_	_	_
-1700	LB	lb	NN	_	_	_
-1701	</Med>	</med>	NN	_	_	_
-1702	2.0	2.0	CD	_	_	_
-1703	B2	b2	NN	_	_	_
-1704	TEX	TEX	NNP	_	_	_
-1705	neg	neg	NNP	_	_	_
-1706	L1	l1	NN	_	_	_
-1707	HS2	hs2	NN	_	_	_
-1708	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1709	<Med>	<med>	NN	_	_	_
-1710	LB	lb	NN	_	_	_
-1711	</Med>	</med>	NN	_	_	_
-1712	2.0	2.0	CD	_	_	_
-1713	B2	b2	NN	_	_	_
-1714	TEX	TEX	NNP	_	_	_
-1715	neg	neg	NNP	_	_	_
-1716	L2	l2	NN	_	_	_
-1717	HS2	hs2	NN	_	_	_
-1718	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1719	<Med>	<med>	NN	_	_	_
-1720	LB	lb	NN	_	_	_
-1721	</Med>	</med>	NN	_	_	_
-1722	2.0	2.0	CD	_	_	_
-1723	B2	b2	NN	_	_	_
-1724	TEX	TEX	NNP	_	_	_
-1725	pos	po	VBZ	_	_	_
-1726	L1	l1	NN	_	_	_
-1727	HS1	hs1	NN	_	_	_
-1728	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1729	<Med>	<med>	NN	_	_	_
-1730	LB	lb	NN	_	_	_
-1731	</Med>	</med>	NN	_	_	_
-1732	2.0	2.0	CD	_	_	_
-1733	B2	b2	NN	_	_	_
-1734	TEX	TEX	NNP	_	_	_
-1735	pos	po	VBZ	_	_	_
-1736	L1	l1	NN	_	_	_
-1737	HS2	hs2	NN	_	_	_
-1738	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1739	<Med>	<med>	NN	_	_	_
-1740	LB	lb	NN	_	_	_
-1741	</Med>	</med>	NN	_	_	_
-1742	2.0	2.0	CD	_	_	_
-1743	B2	b2	NN	_	_	_
-1744	TEX	TEX	NNP	_	_	_
-1745	pos	po	VBZ	_	_	_
-1746	L2	l2	NN	_	_	_
-1747	HS2	hs2	NN	_	_	_
-1748	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1749	<Med>	<med>	NN	_	_	_
-1750	M63	m63	NN	_	_	_
-1751	</Med>	</med>	NN	_	_	_
-1752	0.4	0.4	CD	_	_	_
-1753	B1	b1	NN	_	_	_
-1754	TEX	tex	NN	_	_	_
-1755	neg	neg	NN	_	_	_
-1756	L1	l1	NN	_	_	_
-1757	GA	ga	NN	_	_	_
-1758	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1759	<Med>	<med>	NN	_	_	_
-1760	M63	m63	NN	_	_	_
-1761	</Med>	</med>	NN	_	_	_
-1762	0.4	0.4	CD	_	_	_
-1763	B1	b1	NN	_	_	_
-1764	TEX	TEX	NNP	_	_	_
-1765	pos	po	VBZ	_	_	_
-1766	L1	l1	NN	_	_	_
-1767	GA	ga	NN	_	_	_
-1768	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1769	<Med>	<med>	NN	_	_	_
-1770	M63	m63	NN	_	_	_
-1771	</Med>	</med>	NN	_	_	_
-1772	0.4	0.4	CD	_	_	_
-1773	B2	b2	NN	_	_	_
-1774	TEX	TEX	NNP	_	_	_
-1775	neg	neg	NNP	_	_	_
-1776	L1	l1	NN	_	_	_
-1777	HS1	hs1	NN	_	_	_
-1778	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1779	<Med>	<med>	NN	_	_	_
-1780	M63	m63	NN	_	_	_
-1781	</Med>	</med>	NN	_	_	_
-1782	0.4	0.4	CD	_	_	_
-1783	B2	b2	NN	_	_	_
-1784	TEX	TEX	NNP	_	_	_
-1785	neg	neg	NNP	_	_	_
-1786	L1	l1	NN	_	_	_
-1787	HS2	hs2	NN	_	_	_
-1788	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1789	<Med>	<med>	NN	_	_	_
-1790	M63	m63	NN	_	_	_
-1791	</Med>	</med>	NN	_	_	_
-1792	0.4	0.4	CD	_	_	_
-1793	B2	b2	NN	_	_	_
-1794	TEX	TEX	NNP	_	_	_
-1795	pos	po	VBZ	_	_	_
-1796	L1	l1	NN	_	_	_
-1797	HS1	hs1	NN	_	_	_
-1798	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1799	<Med>	<med>	NN	_	_	_
-1800	M63	m63	NN	_	_	_
-1801	</Med>	</med>	NN	_	_	_
-1802	0.4	0.4	CD	_	_	_
-1803	B2	b2	NN	_	_	_
-1804	TEX	TEX	NNP	_	_	_
-1805	pos	po	VBZ	_	_	_
-1806	L1	l1	NN	_	_	_
-1807	HS2	hs2	NN	_	_	_
-1808	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1809	<Med>	<med>	NN	_	_	_
-1810	M9	m9	NN	_	_	_
-1811	minimal	minimal	JJ	_	_	_
-1812	complete	complete	JJ	_	_	_
-1813	media	media	NNS	_	_	_
-1814	</Med>	</med>	NN	_	_	_
-1815	,	,	,	_	_	_
-1816	cultures	culture	NNS	_	_	_
-1817	grown	grow	VBN	_	_	_
-1818	<Air>	<air>	NN	_	_	_
-1819	aerobically	aerobically	RB	_	_	_
-1820	</Air>	</Air>	NNP	_	_	_
-1821	at	at	IN	_	_	_
-1822	<Temp>	<Temp>	NNP	_	_	_
-1823	30	30	CD	_	_	_
-1824	degrees	degree	NNS	_	_	_
-1825	C	c	NN	_	_	_
-1826	</Temp>	</temp>	NN	_	_	_
-1827	in	in	IN	_	_	_
-1828	a	a	DT	_	_	_
-1829	<Agit>	<agit>	NN	_	_	_
-1830	gyratory	gyratory	JJ	_	_	_
-1831	water	water	NN	_	_	_
-1832	bath	bath	NN	_	_	_
-1833	shaking	shake	VBG	_	_	_
-1834	at	at	IN	_	_	_
-1835	240	240	CD	_	_	_
-1836	rpm	rpm	NN	_	_	_
-1837	</Agit>	</agit>	NN	_	_	_
-1838	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1839	Nac	Nac	NNP	_	_	_
-1840	_	_	NNP	_	_	_
-1841	<Technique>	<Technique>	NNP	_	_	_
-1842	ChIPSeq	ChIPSeq	NNP	_	_	_
-1843	</Technique>	</Technique>	NNP	_	_	_
-1844	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
-1845	Nac	Nac	NNP	_	_	_
-1846	_	_	SYM	_	_	_
-1847	<Technique>	<technique>	NN	_	_	_
-1848	RNASeq	rnaseq	NN	_	_	_
-1849	</Technique>	</technique>	NN	_	_	_
-1850	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1851	NtrC	ntrc	NN	_	_	_
-1852	_	_	CD	_	_	_
-1853	<Technique>	<technique>	NN	_	_	_
-1854	ChIPSeq	chipseq	NN	_	_	_
-1855	</Technique>	</technique>	NN	_	_	_
-1856	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1857	OmpR	ompr	NN	_	_	_
-1858	<Supp>	<supp>	NN	_	_	_
-1859	NaCl	nacl	NN	_	_	_
-1860	</Supp>	</supp>	NN	_	_	_
-1861	1	1	CD	_	_	_
-1862	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1863	OmpR	ompr	NN	_	_	_
-1864	<Supp>	<supp>	NN	_	_	_
-1865	NaCl	nacl	NN	_	_	_
-1866	</Supp>	</supp>	NN	_	_	_
-1867	2	2	CD	_	_	_
-1868	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1869	OmpR	ompr	NN	_	_	_
-1870	_	_	CD	_	_	_
-1871	<Technique>	<technique>	NN	_	_	_
-1872	ChIPSeq	chipseq	NN	_	_	_
-1873	</Technique>	</technique>	NN	_	_	_
-1874	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1875	<Orgn>	<orgn>	NN	_	_	_
-1876	Escherichia	escherichia	FW	_	_	_
-1877	coli	coli	FW	_	_	_
-1878	K-12	k-12	NN	_	_	_
-1879	</Orgn>	</orgn>	NN	_	_	_
-1880	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1881	<Orgn>	<orgn>	NN	_	_	_
-1882	Escherichia	escherichia	FW	_	_	_
-1883	coli	coli	FW	_	_	_
-1884	</Orgn>	</orgn>	NN	_	_	_
-1885	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
-1886	<Orgn>	<orgn>	NN	_	_	_
-1887	Escherichia	escherichia	FW	_	_	_
-1888	coli	coli	FW	_	_	_
-1889	</Orgn>	</orgn>	NN	_	_	_
-1890	str	str	NN	_	_	_
-1891	.	.	.	_	_	_
+1592	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1593	<Med>	<med>	NN	_	_	_
+1594	LB	lb	NN	_	_	_
+1595	</Med>	</med>	NN	_	_	_
+1596	0.4	0.4	CD	_	_	_
+1597	B1	b1	NN	_	_	_
+1598	TEX	tex	NN	_	_	_
+1599	neg	neg	NN	_	_	_
+1600	L1	l1	NN	_	_	_
+1601	GA	ga	NN	_	_	_
+1602	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1603	<Med>	<med>	NN	_	_	_
+1604	LB	lb	NN	_	_	_
+1605	</Med>	</med>	NN	_	_	_
+1606	0.4	0.4	CD	_	_	_
+1607	B1	b1	NN	_	_	_
+1608	TEX	TEX	NNP	_	_	_
+1609	pos	po	VBZ	_	_	_
+1610	L1	l1	NN	_	_	_
+1611	GA	ga	NN	_	_	_
+1612	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1613	<Med>	<med>	NN	_	_	_
+1614	LB	lb	NN	_	_	_
+1615	</Med>	</med>	NN	_	_	_
+1616	0.4	0.4	CD	_	_	_
+1617	B2	b2	NN	_	_	_
+1618	TEX	TEX	NNP	_	_	_
+1619	neg	neg	NNP	_	_	_
+1620	L1	l1	NN	_	_	_
+1621	HS1	hs1	NN	_	_	_
+1622	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1623	<Med>	<med>	NN	_	_	_
+1624	LB	lb	NN	_	_	_
+1625	</Med>	</med>	NN	_	_	_
+1626	0.4	0.4	CD	_	_	_
+1627	B2	b2	NN	_	_	_
+1628	TEX	TEX	NNP	_	_	_
+1629	neg	neg	NNP	_	_	_
+1630	L1	l1	NN	_	_	_
+1631	HS2	hs2	NN	_	_	_
+1632	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1633	<Med>	<med>	NN	_	_	_
+1634	LB	lb	NN	_	_	_
+1635	</Med>	</med>	NN	_	_	_
+1636	0.4	0.4	CD	_	_	_
+1637	B2	b2	NN	_	_	_
+1638	TEX	TEX	NNP	_	_	_
+1639	pos	po	VBZ	_	_	_
+1640	L1	l1	NN	_	_	_
+1641	HS1	hs1	NN	_	_	_
+1642	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1643	<Med>	<med>	NN	_	_	_
+1644	LB	lb	NN	_	_	_
+1645	</Med>	</med>	NN	_	_	_
+1646	0.4	0.4	CD	_	_	_
+1647	B2	b2	NN	_	_	_
+1648	TEX	TEX	NNP	_	_	_
+1649	pos	po	VBZ	_	_	_
+1650	L1	l1	NN	_	_	_
+1651	HS2	hs2	NN	_	_	_
+1652	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1653	<Med>	<med>	NN	_	_	_
+1654	LB	lb	NN	_	_	_
+1655	</Med>	</med>	NN	_	_	_
+1656	2.0	2.0	CD	_	_	_
+1657	B1	b1	NN	_	_	_
+1658	TEX	tex	NN	_	_	_
+1659	neg	neg	NN	_	_	_
+1660	L1	l1	NN	_	_	_
+1661	GA	ga	NN	_	_	_
+1662	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1663	<Med>	<med>	NN	_	_	_
+1664	LB	lb	NN	_	_	_
+1665	</Med>	</med>	NN	_	_	_
+1666	2.0	2.0	CD	_	_	_
+1667	B1	b1	NN	_	_	_
+1668	TEX	TEX	NNP	_	_	_
+1669	neg	neg	NNP	_	_	_
+1670	L2	l2	NN	_	_	_
+1671	HS2	hs2	NN	_	_	_
+1672	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1673	<Med>	<med>	NN	_	_	_
+1674	LB	lb	NN	_	_	_
+1675	</Med>	</med>	NN	_	_	_
+1676	2.0	2.0	CD	_	_	_
+1677	B1	b1	NN	_	_	_
+1678	TEX	TEX	NNP	_	_	_
+1679	pos	po	VBZ	_	_	_
+1680	L1	l1	NN	_	_	_
+1681	GA	ga	NN	_	_	_
+1682	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1683	<Med>	<med>	NN	_	_	_
+1684	LB	lb	NN	_	_	_
+1685	</Med>	</med>	NN	_	_	_
+1686	2.0	2.0	CD	_	_	_
+1687	B1	b1	NN	_	_	_
+1688	TEX	TEX	NNP	_	_	_
+1689	pos	po	VBZ	_	_	_
+1690	L2	l2	NN	_	_	_
+1691	HS2	hs2	NN	_	_	_
+1692	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1693	<Med>	<med>	NN	_	_	_
+1694	LB	lb	NN	_	_	_
+1695	</Med>	</med>	NN	_	_	_
+1696	2.0	2.0	CD	_	_	_
+1697	B2	b2	NN	_	_	_
+1698	TEX	TEX	NNP	_	_	_
+1699	neg	neg	NNP	_	_	_
+1700	L1	l1	NN	_	_	_
+1701	HS1	hs1	NN	_	_	_
+1702	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1703	<Med>	<med>	NN	_	_	_
+1704	LB	lb	NN	_	_	_
+1705	</Med>	</med>	NN	_	_	_
+1706	2.0	2.0	CD	_	_	_
+1707	B2	b2	NN	_	_	_
+1708	TEX	TEX	NNP	_	_	_
+1709	neg	neg	NNP	_	_	_
+1710	L1	l1	NN	_	_	_
+1711	HS2	hs2	NN	_	_	_
+1712	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1713	<Med>	<med>	NN	_	_	_
+1714	LB	lb	NN	_	_	_
+1715	</Med>	</med>	NN	_	_	_
+1716	2.0	2.0	CD	_	_	_
+1717	B2	b2	NN	_	_	_
+1718	TEX	TEX	NNP	_	_	_
+1719	neg	neg	NNP	_	_	_
+1720	L2	l2	NN	_	_	_
+1721	HS2	hs2	NN	_	_	_
+1722	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1723	<Med>	<med>	NN	_	_	_
+1724	LB	lb	NN	_	_	_
+1725	</Med>	</med>	NN	_	_	_
+1726	2.0	2.0	CD	_	_	_
+1727	B2	b2	NN	_	_	_
+1728	TEX	TEX	NNP	_	_	_
+1729	pos	po	VBZ	_	_	_
+1730	L1	l1	NN	_	_	_
+1731	HS1	hs1	NN	_	_	_
+1732	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1733	<Med>	<med>	NN	_	_	_
+1734	LB	lb	NN	_	_	_
+1735	</Med>	</med>	NN	_	_	_
+1736	2.0	2.0	CD	_	_	_
+1737	B2	b2	NN	_	_	_
+1738	TEX	TEX	NNP	_	_	_
+1739	pos	po	VBZ	_	_	_
+1740	L1	l1	NN	_	_	_
+1741	HS2	hs2	NN	_	_	_
+1742	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1743	<Med>	<med>	NN	_	_	_
+1744	LB	lb	NN	_	_	_
+1745	</Med>	</med>	NN	_	_	_
+1746	2.0	2.0	CD	_	_	_
+1747	B2	b2	NN	_	_	_
+1748	TEX	TEX	NNP	_	_	_
+1749	pos	po	VBZ	_	_	_
+1750	L2	l2	NN	_	_	_
+1751	HS2	hs2	NN	_	_	_
+1752	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1753	<Med>	<med>	NN	_	_	_
+1754	M63	m63	NN	_	_	_
+1755	</Med>	</med>	NN	_	_	_
+1756	0.4	0.4	CD	_	_	_
+1757	B1	b1	NN	_	_	_
+1758	TEX	tex	NN	_	_	_
+1759	neg	neg	NN	_	_	_
+1760	L1	l1	NN	_	_	_
+1761	GA	ga	NN	_	_	_
+1762	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1763	<Med>	<med>	NN	_	_	_
+1764	M63	m63	NN	_	_	_
+1765	</Med>	</med>	NN	_	_	_
+1766	0.4	0.4	CD	_	_	_
+1767	B1	b1	NN	_	_	_
+1768	TEX	TEX	NNP	_	_	_
+1769	pos	po	VBZ	_	_	_
+1770	L1	l1	NN	_	_	_
+1771	GA	ga	NN	_	_	_
+1772	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1773	<Med>	<med>	NN	_	_	_
+1774	M63	m63	NN	_	_	_
+1775	</Med>	</med>	NN	_	_	_
+1776	0.4	0.4	CD	_	_	_
+1777	B2	b2	NN	_	_	_
+1778	TEX	TEX	NNP	_	_	_
+1779	neg	neg	NNP	_	_	_
+1780	L1	l1	NN	_	_	_
+1781	HS1	hs1	NN	_	_	_
+1782	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1783	<Med>	<med>	NN	_	_	_
+1784	M63	m63	NN	_	_	_
+1785	</Med>	</med>	NN	_	_	_
+1786	0.4	0.4	CD	_	_	_
+1787	B2	b2	NN	_	_	_
+1788	TEX	TEX	NNP	_	_	_
+1789	neg	neg	NNP	_	_	_
+1790	L1	l1	NN	_	_	_
+1791	HS2	hs2	NN	_	_	_
+1792	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1793	<Med>	<med>	NN	_	_	_
+1794	M63	m63	NN	_	_	_
+1795	</Med>	</med>	NN	_	_	_
+1796	0.4	0.4	CD	_	_	_
+1797	B2	b2	NN	_	_	_
+1798	TEX	TEX	NNP	_	_	_
+1799	pos	po	VBZ	_	_	_
+1800	L1	l1	NN	_	_	_
+1801	HS1	hs1	NN	_	_	_
+1802	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1803	<Med>	<med>	NN	_	_	_
+1804	M63	m63	NN	_	_	_
+1805	</Med>	</med>	NN	_	_	_
+1806	0.4	0.4	CD	_	_	_
+1807	B2	b2	NN	_	_	_
+1808	TEX	TEX	NNP	_	_	_
+1809	pos	po	VBZ	_	_	_
+1810	L1	l1	NN	_	_	_
+1811	HS2	hs2	NN	_	_	_
+1812	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1813	<Med>	<med>	NN	_	_	_
+1814	M9	m9	NN	_	_	_
+1815	minimal	minimal	JJ	_	_	_
+1816	complete	complete	JJ	_	_	_
+1817	media	media	NNS	_	_	_
+1818	</Med>	</med>	NN	_	_	_
+1819	,	,	,	_	_	_
+1820	cultures	culture	NNS	_	_	_
+1821	grown	grow	VBN	_	_	_
+1822	<Air>	<air>	NN	_	_	_
+1823	aerobically	aerobically	RB	_	_	_
+1824	</Air>	</Air>	NNP	_	_	_
+1825	at	at	IN	_	_	_
+1826	<Temp>	<Temp>	NNP	_	_	_
+1827	30	30	CD	_	_	_
+1828	degrees	degree	NNS	_	_	_
+1829	C	c	NN	_	_	_
+1830	</Temp>	</temp>	NN	_	_	_
+1831	in	in	IN	_	_	_
+1832	a	a	DT	_	_	_
+1833	<Agit>	<agit>	NN	_	_	_
+1834	gyratory	gyratory	JJ	_	_	_
+1835	water	water	NN	_	_	_
+1836	bath	bath	NN	_	_	_
+1837	shaking	shake	VBG	_	_	_
+1838	at	at	IN	_	_	_
+1839	240	240	CD	_	_	_
+1840	rpm	rpm	NN	_	_	_
+1841	</Agit>	</agit>	NN	_	_	_
+1842	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1843	Nac	Nac	NNP	_	_	_
+1844	_	_	NNP	_	_	_
+1845	<Technique>	<Technique>	NNP	_	_	_
+1846	ChIPSeq	ChIPSeq	NNP	_	_	_
+1847	</Technique>	</Technique>	NNP	_	_	_
+1848	PGCGROWTHCONDITIONS	PGCGROWTHCONDITIONS	NNP	_	_	_
+1849	Nac	Nac	NNP	_	_	_
+1850	_	_	SYM	_	_	_
+1851	<Technique>	<technique>	NN	_	_	_
+1852	RNASeq	rnaseq	NN	_	_	_
+1853	</Technique>	</technique>	NN	_	_	_
+1854	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1855	NtrC	ntrc	NN	_	_	_
+1856	_	_	CD	_	_	_
+1857	<Technique>	<technique>	NN	_	_	_
+1858	ChIPSeq	chipseq	NN	_	_	_
+1859	</Technique>	</technique>	NN	_	_	_
+1860	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1861	OmpR	ompr	NN	_	_	_
+1862	<Supp>	<supp>	NN	_	_	_
+1863	NaCl	nacl	NN	_	_	_
+1864	</Supp>	</supp>	NN	_	_	_
+1865	1	1	CD	_	_	_
+1866	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1867	OmpR	ompr	NN	_	_	_
+1868	<Supp>	<supp>	NN	_	_	_
+1869	NaCl	nacl	NN	_	_	_
+1870	</Supp>	</supp>	NN	_	_	_
+1871	2	2	CD	_	_	_
+1872	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1873	OmpR	ompr	NN	_	_	_
+1874	_	_	CD	_	_	_
+1875	<Technique>	<technique>	NN	_	_	_
+1876	ChIPSeq	chipseq	NN	_	_	_
+1877	</Technique>	</technique>	NN	_	_	_
+1878	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1879	<Orgn>	<orgn>	NN	_	_	_
+1880	Escherichia	escherichia	FW	_	_	_
+1881	coli	coli	FW	_	_	_
+1882	K-12	k-12	NN	_	_	_
+1883	</Orgn>	</orgn>	NN	_	_	_
+1884	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1885	<Orgn>	<orgn>	NN	_	_	_
+1886	Escherichia	escherichia	FW	_	_	_
+1887	coli	coli	FW	_	_	_
+1888	</Orgn>	</orgn>	NN	_	_	_
+1889	PGCGROWTHCONDITIONS	pgcgrowthconditions	NN	_	_	_
+1890	<Orgn>	<orgn>	NN	_	_	_
+1891	Escherichia	escherichia	FW	_	_	_
+1892	coli	coli	FW	_	_	_
+1893	</Orgn>	</orgn>	NN	_	_	_
+1894	str	str	NN	_	_	_
+1895	.	.	.	_	_	_
 
 1	<Strain>	<strain>	NN	_	_	_
 2	K-12	k-12	NN	_	_	_