Carlos-Francisco Méndez-Cruz / lcg-bioinfoI-bionlp

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Carlos-Francisco Méndez-Cruz
fbedd0ec 1 parent 29425de8

Training, crossvalidation and testing structural domain dataset

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...@@ -43,7 +43,7 @@ __author__ = 'CMendezC' ...@@ -43,7 +43,7 @@ __author__ = 'CMendezC'
43 43
44 # Execution: 44 # Execution:
45 45
46 -# python training-crossvalidation-testing-binding-thrombin.py 46 +# python training-crossvalidation-testing-dom.py
47 # --inputPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset 47 # --inputPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset
48 # --inputTrainingData trainData.txt 48 # --inputTrainingData trainData.txt
49 # --inputTrainingClasses trainClasses.txt 49 # --inputTrainingClasses trainClasses.txt
...@@ -60,7 +60,7 @@ __author__ = 'CMendezC' ...@@ -60,7 +60,7 @@ __author__ = 'CMendezC'
60 # --removeStopWords 60 # --removeStopWords
61 61
62 # source activate python3 62 # source activate python3
63 -# python training-crossvalidation-testing-binding-thrombin.py 63 +# python training-crossvalidation-testing-dom.py
64 # --inputPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset 64 # --inputPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset
65 # --inputTrainingData trainData.txt 65 # --inputTrainingData trainData.txt
66 # --inputTrainingClasses trainClasses.txt 66 # --inputTrainingClasses trainClasses.txt
...@@ -75,7 +75,7 @@ __author__ = 'CMendezC' ...@@ -75,7 +75,7 @@ __author__ = 'CMendezC'
75 # --kernel linear 75 # --kernel linear
76 # --reduction SVD200 76 # --reduction SVD200
77 # --removeStopWords 77 # --removeStopWords
78 -# python training-crossvalidation-testing-binding-thrombin.py --inputPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset --inputTrainingData trainData.txt --inputTrainingClasses trainClasses.txt --inputTestingData testData.txt --inputTestingClasses testClasses.txt --outputModelPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset/models --outputModelFile SVM-lineal-model.mod --outputReportPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset/reports --outputReportFile SVM-lineal.txt --classifier SVM --kernel linear 78 +# python training-crossvalidation-testing-dom.py --inputPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset --inputTrainingData trainData.txt --inputTrainingClasses trainClasses.txt --inputTestingData testData.txt --inputTestingClasses testClasses.txt --outputModelPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset/models --outputModelFile SVM-lineal-model.mod --outputReportPath /home/compu2/bionlp/lcg-bioinfoI-bionlp/clasificacion-automatica/structural-domain-dataset/reports --outputReportFile SVM-lineal.txt --classifier SVM --kernel linear
79 # --reduction SVD200 79 # --reduction SVD200
80 # --removeStopWords 80 # --removeStopWords
81 81
...@@ -85,7 +85,7 @@ __author__ = 'CMendezC' ...@@ -85,7 +85,7 @@ __author__ = 'CMendezC'
85 85
86 if __name__ == "__main__": 86 if __name__ == "__main__":
87 # Parameter definition 87 # Parameter definition
88 - parser = argparse.ArgumentParser(description='Training validation Binding Thrombin Dataset.') 88 + parser = argparse.ArgumentParser(description='Training validation structural domain dataset.')
89 parser.add_argument("--inputPath", dest="inputPath", 89 parser.add_argument("--inputPath", dest="inputPath",
90 help="Path to read input files", metavar="PATH") 90 help="Path to read input files", metavar="PATH")
91 parser.add_argument("--inputTrainingData", dest="inputTrainingData", 91 parser.add_argument("--inputTrainingData", dest="inputTrainingData",
...@@ -115,7 +115,7 @@ if __name__ == "__main__": ...@@ -115,7 +115,7 @@ if __name__ == "__main__":
115 parser.add_argument("--reduction", dest="reduction", 115 parser.add_argument("--reduction", dest="reduction",
116 help="Feature selection or dimensionality reduction", metavar="NAME", 116 help="Feature selection or dimensionality reduction", metavar="NAME",
117 choices=('SVD200', 'SVD300', 'CHI250', 'CHI2100'), default='SVD200') 117 choices=('SVD200', 'SVD300', 'CHI250', 'CHI2100'), default='SVD200')
118 - parser.add_option("--removeStopWords", default=False, 118 + parser.add_argument("--removeStopWords", default=False,
119 action="store_true", dest="removeStopWords", 119 action="store_true", dest="removeStopWords",
120 help="Remove stop words") 120 help="Remove stop words")
121 121
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