diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/run.py b/multiview_platform/MonoMultiViewClassifiers/Monoview/run.py deleted file mode 100644 index ece77c707c0bf821797f72f106591ddf4178f4fe..0000000000000000000000000000000000000000 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/run.py +++ /dev/null @@ -1,8 +0,0 @@ -# coding=utf-8 -import os - -os.system( - 'python ExecClassifMonoView.py -log --name MultiOmicDataset --type hdf5 --feat RNASeq --pathF /home/doob/Téléchargements/Data_multi_omics/ --CL_type DecisionTree --CL_CV 5 --CL_Cores 4 --CL_split 0.5') -# /donnees/pj_bdd_bbauvin/Data_multi_omics/ -# MiRNA_ RNASeq Clinic -# diff --git a/multiview_platform/MonoMultiViewClassifiers/Multiview/__init__.py b/multiview_platform/MonoMultiViewClassifiers/Multiview/__init__.py deleted file mode 100644 index 6a2b51c51ee6325f13ce99782867eab995d167a6..0000000000000000000000000000000000000000 --- a/multiview_platform/MonoMultiViewClassifiers/Multiview/__init__.py +++ /dev/null @@ -1,5 +0,0 @@ -# # from Code.MonoMultiViewClassifiers.MultiviewClassifiers import Fusion, Mumbo -# from . import ExecMultiview -# # from . import Mumbo -# -# __all__ = ['Fusion', 'Mumbo'] diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/__init__.py b/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/__init__.py deleted file mode 100644 index c3bcc032d7f2b718168b92493760a0692cba5e3d..0000000000000000000000000000000000000000 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/__init__.py +++ /dev/null @@ -1 +0,0 @@ -from . import DifficultyFusionModule, analyzeResults \ No newline at end of file diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatLateFusion/analyzeResults.py b/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatLateFusion/analyzeResults.py deleted file mode 100644 index af44a6fb415aa97cd62c1a52d10dbca3baf3041b..0000000000000000000000000000000000000000 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatLateFusion/analyzeResults.py +++ /dev/null @@ -1,21 +0,0 @@ -from ...Multiview import analyzeResults - -# Author-Info -__author__ = "Baptiste Bauvin" -__status__ = "Prototype" # Production, Development, Prototype - - -def execute(classifier, trainLabels, - testLabels, DATASET, - classificationKWARGS, classificationIndices, - LABELS_DICTIONARY, views, nbCores, times, - name, KFolds, - hyperParamSearch, nIter, metrics, - viewsIndices, randomState, labels, classifierModule): - return analyzeResults.execute(classifier, trainLabels, - testLabels, DATASET, - classificationKWARGS, classificationIndices, - LABELS_DICTIONARY, views, nbCores, times, - name, KFolds, - hyperParamSearch, nIter, metrics, - viewsIndices, randomState, labels, classifierModule) \ No newline at end of file diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatSCMLateFusion/analyzeResults.py b/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatSCMLateFusion/analyzeResults.py deleted file mode 100644 index af44a6fb415aa97cd62c1a52d10dbca3baf3041b..0000000000000000000000000000000000000000 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatSCMLateFusion/analyzeResults.py +++ /dev/null @@ -1,21 +0,0 @@ -from ...Multiview import analyzeResults - -# Author-Info -__author__ = "Baptiste Bauvin" -__status__ = "Prototype" # Production, Development, Prototype - - -def execute(classifier, trainLabels, - testLabels, DATASET, - classificationKWARGS, classificationIndices, - LABELS_DICTIONARY, views, nbCores, times, - name, KFolds, - hyperParamSearch, nIter, metrics, - viewsIndices, randomState, labels, classifierModule): - return analyzeResults.execute(classifier, trainLabels, - testLabels, DATASET, - classificationKWARGS, classificationIndices, - LABELS_DICTIONARY, views, nbCores, times, - name, KFolds, - hyperParamSearch, nIter, metrics, - viewsIndices, randomState, labels, classifierModule) \ No newline at end of file diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/PseudoCQFusion/analyzeResults.py b/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/PseudoCQFusion/analyzeResults.py deleted file mode 100644 index af44a6fb415aa97cd62c1a52d10dbca3baf3041b..0000000000000000000000000000000000000000 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/PseudoCQFusion/analyzeResults.py +++ /dev/null @@ -1,21 +0,0 @@ -from ...Multiview import analyzeResults - -# Author-Info -__author__ = "Baptiste Bauvin" -__status__ = "Prototype" # Production, Development, Prototype - - -def execute(classifier, trainLabels, - testLabels, DATASET, - classificationKWARGS, classificationIndices, - LABELS_DICTIONARY, views, nbCores, times, - name, KFolds, - hyperParamSearch, nIter, metrics, - viewsIndices, randomState, labels, classifierModule): - return analyzeResults.execute(classifier, trainLabels, - testLabels, DATASET, - classificationKWARGS, classificationIndices, - LABELS_DICTIONARY, views, nbCores, times, - name, KFolds, - hyperParamSearch, nIter, metrics, - viewsIndices, randomState, labels, classifierModule) \ No newline at end of file diff --git a/multiview_platform/MonoMultiViewClassifiers/__init__.py b/multiview_platform/MonoMultiViewClassifiers/__init__.py deleted file mode 100644 index cf3772451d0cd072bd85c63925d798f94df00e1b..0000000000000000000000000000000000000000 --- a/multiview_platform/MonoMultiViewClassifiers/__init__.py +++ /dev/null @@ -1,4 +0,0 @@ -from . import ExecClassif, ResultAnalysis, Metrics, MonoviewClassifiers, \ - Monoview, Multiview, utils, MultiviewClassifiers - -__all__ = ['Metrics', 'Monoview', 'MonoviewClassifiers', 'Multiview', 'utils'] diff --git a/multiview_platform/MonoMultiViewClassifiers/utils/__init__.py b/multiview_platform/MonoMultiViewClassifiers/utils/__init__.py deleted file mode 100644 index 842d824c6b28acf620ca3b31f973f2a924bd9415..0000000000000000000000000000000000000000 --- a/multiview_platform/MonoMultiViewClassifiers/utils/__init__.py +++ /dev/null @@ -1 +0,0 @@ -from . import Dataset, execution, HyperParameterSearch, Transformations diff --git a/multiview_platform/__init__.py b/multiview_platform/__init__.py index c41ea4a1af1c65845cc047a3626723ef53833812..f91d950e4c0743ea01764c2d899fb6a4c0966e09 100644 --- a/multiview_platform/__init__.py +++ b/multiview_platform/__init__.py @@ -2,4 +2,4 @@ __version__ = "0.0.0.0" -from . import MonoMultiViewClassifiers, Tests, Exec, Versions +from . import mono_multi_view_classifiers, tests, execute, versions diff --git a/multiview_platform/Exec.py b/multiview_platform/execute.py similarity index 100% rename from multiview_platform/Exec.py rename to multiview_platform/execute.py diff --git a/multiview_platform/mono_multi_view_classifiers/__init__.py b/multiview_platform/mono_multi_view_classifiers/__init__.py new file mode 100644 index 0000000000000000000000000000000000000000..bc67607717be8c5dbd47cebdb5b9d31ede486341 --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/__init__.py @@ -0,0 +1,4 @@ +from . import exec_classif, result_analysis, metrics, monoview_classifiers, \ + monoview, multiview, utils, multiview_classifiers + +__all__ = ['Metrics', 'Monoview', 'MonoviewClassifiers', 'Multiview', 'utils'] diff --git a/multiview_platform/MonoMultiViewClassifiers/ExecClassif.py b/multiview_platform/mono_multi_view_classifiers/exec_classif.py similarity index 88% rename from multiview_platform/MonoMultiViewClassifiers/ExecClassif.py rename to multiview_platform/mono_multi_view_classifiers/exec_classif.py index fb3c7605d8938b7bc27c439cdc484f8ec35206c0..464756e1016deffbd7fb4ae9ec1ddb4539f1cffa 100644 --- a/multiview_platform/MonoMultiViewClassifiers/ExecClassif.py +++ b/multiview_platform/mono_multi_view_classifiers/exec_classif.py @@ -15,14 +15,14 @@ matplotlib.use( 'Agg') # Anti-Grain Geometry C++ library to make a raster (pixel) image of the figure # Import own modules -from . import MonoviewClassifiers -from . import MultiviewClassifiers -from .Multiview.ExecMultiview import ExecMultiview, ExecMultiview_multicore -from .Monoview.ExecClassifMonoView import ExecMonoview, ExecMonoview_multicore -from .utils import GetMultiviewDb as DB -from .ResultAnalysis import \ +from . import monoview_classifiers +from . import multiview_classifiers +from .multiview.exec_multiview import ExecMultiview, ExecMultiview_multicore +from .monoview.exec_classif_mono_view import ExecMonoview, ExecMonoview_multicore +from .utils import get_multiview_db as DB +from .result_analysis import \ getResults, plot_results_noise # resultAnalysis, analyzeLabels, analyzeIterResults, analyzeIterLabels, genNamesFromRes, -from .utils import execution, Dataset, Multiclass +from .utils import execution, dataset, multiclass # Author-Info __author__ = "Baptiste Bauvin" @@ -53,30 +53,30 @@ def initBenchmark(CL_type, monoviewAlgos, multiviewAlgos, args): benchmark : Dictionary of dictionaries Dictionary resuming which mono- and multiview algorithms which will be used in the benchmark. """ - benchmark = {"Monoview": {}, "Multiview": {}} + benchmark = {"monoview": {}, "multiview": {}} allMultiviewPackages = [name for _, name, isPackage in pkgutil.iter_modules( - ['./MonoMultiViewClassifiers/MultiviewClassifiers/']) if isPackage] + ['./mono_multi_view_classifiers/multiview_classifiers/']) if isPackage] - if "Monoview" in CL_type: + if "monoview" in CL_type: if monoviewAlgos == ['']: - benchmark["Monoview"] = [name for _, name, isPackage in + benchmark["monoview"] = [name for _, name, isPackage in pkgutil.iter_modules([ - "./MonoMultiViewClassifiers/MonoviewClassifiers"]) + "./mono_multi_view_classifiers/monoview_classifiers"]) if not isPackage] else: - benchmark["Monoview"] = monoviewAlgos + benchmark["monoview"] = monoviewAlgos - if "Multiview" in CL_type: - benchmark["Multiview"] = {} + if "multiview" in CL_type: + benchmark["multiview"] = {} if multiviewAlgos == [""]: algosMutliview = allMultiviewPackages else: algosMutliview = multiviewAlgos for multiviewPackageName in allMultiviewPackages: if multiviewPackageName in algosMutliview: - multiviewPackage = getattr(MultiviewClassifiers, + multiviewPackage = getattr(multiview_classifiers, multiviewPackageName) multiviewModule = getattr(multiviewPackage, multiviewPackageName + "Module") @@ -85,14 +85,14 @@ def initBenchmark(CL_type, monoviewAlgos, multiviewAlgos, args): if CL_type == ["Benchmark"]: allMonoviewAlgos = [name for _, name, isPackage in pkgutil.iter_modules([ - './MonoMultiViewClassifiers/MonoviewClassifiers']) + './mono_multi_view_classifiers/monoview_classifiers']) if (not isPackage) and name not in ["framework"]] - benchmark["Monoview"] = allMonoviewAlgos - benchmark["Multiview"] = dict( + benchmark["monoview"] = allMonoviewAlgos + benchmark["multiview"] = dict( (multiviewPackageName, "_") for multiviewPackageName in allMultiviewPackages) for multiviewPackageName in allMultiviewPackages: - multiviewPackage = getattr(MultiviewClassifiers, + multiviewPackage = getattr(multiview_classifiers, multiviewPackageName) multiviewModule = getattr(multiviewPackage, multiviewPackageName + "Module") @@ -153,20 +153,20 @@ def initMonoviewExps(benchmark, viewsDictionary, nbClass, kwargsInit): benchmark : Dictionary of dictionaries Dictionary resuming which mono- and multiview algorithms which will be used in the benchmark. """ - argumentDictionaries = {"Monoview": [], "Multiview": []} - if benchmark["Monoview"]: - argumentDictionaries["Monoview"] = [] + argumentDictionaries = {"monoview": [], "multiview": []} + if benchmark["monoview"]: + argumentDictionaries["monoview"] = [] for viewName, viewIndex in viewsDictionary.items(): - for classifier in benchmark["Monoview"]: + for classifier in benchmark["monoview"]: if multiple_args(classifier, kwargsInit): - argumentDictionaries["Monoview"] += gen_multiple_args_dictionnaries(nbClass, kwargsInit, classifier, viewName, viewIndex) + argumentDictionaries["monoview"] += gen_multiple_args_dictionnaries(nbClass, kwargsInit, classifier, viewName, viewIndex) else: arguments = { "args": {classifier + "KWARGS": dict((key, value[0]) for key, value in kwargsInit[ classifier + "KWARGSInit"].items()), "feat": viewName, "CL_type": classifier, "nbClass": nbClass}, "viewIndex": viewIndex} - argumentDictionaries["Monoview"].append(arguments) + argumentDictionaries["monoview"].append(arguments) return argumentDictionaries def multiple_args(classifier, kwargsInit): @@ -228,24 +228,24 @@ def initMonoviewKWARGS(args, classifiersNames): For example, for Adaboost, the KWARGS will be `{"n_estimators":<value>, "base_estimator":<value>}`""" - logging.debug("Start:\t Initializing Monoview classifiers arguments") + logging.debug("Start:\t Initializing monoview classifiers arguments") monoviewKWARGS = {} for classifiersName in classifiersNames: try: - classifierModule = getattr(MonoviewClassifiers, classifiersName) + classifierModule = getattr(monoview_classifiers, classifiersName) except AttributeError: raise AttributeError( - classifiersName + " is not implemented in MonoviewClassifiers, " - "please specify the name of the file in MonoviewClassifiers") + classifiersName + " is not implemented in monoview_classifiers, " + "please specify the name of the file in monoview_classifiers") monoviewKWARGS[ classifiersName + "KWARGSInit"] = classifierModule.formatCmdArgs( args) - logging.debug("Done:\t Initializing Monoview classifiers arguments") + logging.debug("Done:\t Initializing monoview classifiers arguments") return monoviewKWARGS def initKWARGSFunc(args, benchmark): - monoviewKWARGS = initMonoviewKWARGS(args, benchmark["Monoview"]) + monoviewKWARGS = initMonoviewKWARGS(args, benchmark["monoview"]) return monoviewKWARGS @@ -253,11 +253,11 @@ def initMultiviewArguments(args, benchmark, views, viewsIndices, argumentDictionaries, randomState, directory, resultsMonoview, classificationIndices): """Used to add each monoview exeperience args to the list of monoview experiences args""" - logging.debug("Start:\t Initializing Multiview classifiers arguments") + logging.debug("Start:\t Initializing multiview classifiers arguments") multiviewArguments = [] - if "Multiview" in benchmark: - for multiviewAlgoName in benchmark["Multiview"]: - multiviewPackage = getattr(MultiviewClassifiers, multiviewAlgoName) + if "multiview" in benchmark: + for multiviewAlgoName in benchmark["multiview"]: + multiviewPackage = getattr(multiview_classifiers, multiviewAlgoName) mutliviewModule = getattr(multiviewPackage, multiviewAlgoName + "Module") @@ -267,8 +267,8 @@ def initMultiviewArguments(args, benchmark, views, viewsIndices, directory, resultsMonoview, classificationIndices) - argumentDictionaries["Multiview"] = multiviewArguments - logging.debug("Start:\t Initializing Multiview classifiers arguments") + argumentDictionaries["multiview"] = multiviewArguments + logging.debug("Start:\t Initializing multiview classifiers arguments") return argumentDictionaries @@ -334,7 +334,7 @@ def execOneBenchmark(coreIndex=-1, LABELS_DICTIONARY=None, directory=None, classificationIndices, labels, LABELS_DICTIONARY, kFolds) - logging.debug("Start:\t Monoview benchmark") + logging.debug("Start:\t monoview benchmark") resultsMonoview += [ ExecMonoview_multicore(directory, args.name, labelsNames, classificationIndices, kFolds, @@ -343,19 +343,19 @@ def execOneBenchmark(coreIndex=-1, LABELS_DICTIONARY=None, directory=None, hyperParamSearch=hyperParamSearch, metrics=metrics, nIter=args.CL_HPS_iter, **argument) - for argument in argumentDictionaries["Monoview"]] - logging.debug("Done:\t Monoview benchmark") + for argument in argumentDictionaries["monoview"]] + logging.debug("Done:\t monoview benchmark") - logging.debug("Start:\t Multiview arguments initialization") + logging.debug("Start:\t multiview arguments initialization") argumentDictionaries = initMultiviewArguments(args, benchmark, views, viewsIndices, argumentDictionaries, randomState, directory, resultsMonoview, classificationIndices) - logging.debug("Done:\t Multiview arguments initialization") + logging.debug("Done:\t multiview arguments initialization") - logging.debug("Start:\t Multiview benchmark") + logging.debug("Start:\t multiview benchmark") resultsMultiview = [ ExecMultiview_multicore(directory, coreIndex, args.name, classificationIndices, kFolds, args.type, @@ -363,8 +363,8 @@ def execOneBenchmark(coreIndex=-1, LABELS_DICTIONARY=None, directory=None, labels, hyperParamSearch=hyperParamSearch, metrics=metrics, nIter=args.CL_HPS_iter, **arguments) - for arguments in argumentDictionaries["Multiview"]] - logging.debug("Done:\t Multiview benchmark") + for arguments in argumentDictionaries["multiview"]] + logging.debug("Done:\t multiview benchmark") return [flag, resultsMonoview + resultsMultiview] @@ -387,8 +387,8 @@ def execOneBenchmark_multicore(nbCores=-1, LABELS_DICTIONARY=None, classificationIndices, labels, LABELS_DICTIONARY, kFolds) - logging.debug("Start:\t Monoview benchmark") - nbExperiments = len(argumentDictionaries["Monoview"]) + logging.debug("Start:\t monoview benchmark") + nbExperiments = len(argumentDictionaries["monoview"]) nbMulticoreToDo = int(math.ceil(float(nbExperiments) / nbCores)) for stepIndex in range(nbMulticoreToDo): resultsMonoview += (Parallel(n_jobs=nbCores)( @@ -399,24 +399,24 @@ def execOneBenchmark_multicore(nbCores=-1, LABELS_DICTIONARY=None, hyperParamSearch=hyperParamSearch, metrics=metrics, nIter=args.CL_HPS_iter, - **argumentDictionaries["Monoview"][ + **argumentDictionaries["monoview"][ coreIndex + stepIndex * nbCores]) for coreIndex in range(min(nbCores, nbExperiments - stepIndex * nbCores)))) - logging.debug("Done:\t Monoview benchmark") + logging.debug("Done:\t monoview benchmark") - logging.debug("Start:\t Multiview arguments initialization") + logging.debug("Start:\t multiview arguments initialization") argumentDictionaries = initMultiviewArguments(args, benchmark, views, viewsIndices, argumentDictionaries, randomState, directory, resultsMonoview, classificationIndices) - logging.debug("Done:\t Multiview arguments initialization") + logging.debug("Done:\t multiview arguments initialization") - logging.debug("Start:\t Multiview benchmark") + logging.debug("Start:\t multiview benchmark") resultsMultiview = [] - nbExperiments = len(argumentDictionaries["Multiview"]) + nbExperiments = len(argumentDictionaries["multiview"]) nbMulticoreToDo = int(math.ceil(float(nbExperiments) / nbCores)) for stepIndex in range(nbMulticoreToDo): resultsMultiview += Parallel(n_jobs=nbCores)( @@ -429,11 +429,11 @@ def execOneBenchmark_multicore(nbCores=-1, LABELS_DICTIONARY=None, metrics=metrics, nIter=args.CL_HPS_iter, ** - argumentDictionaries["Multiview"][ + argumentDictionaries["multiview"][ stepIndex * nbCores + coreIndex]) for coreIndex in range(min(nbCores, nbExperiments - stepIndex * nbCores))) - logging.debug("Done:\t Multiview benchmark") + logging.debug("Done:\t multiview benchmark") return [flag, resultsMonoview + resultsMultiview] @@ -452,8 +452,8 @@ def execOneBenchmarkMonoCore(DATASET=None, LABELS_DICTIONARY=None, resultsMonoview, labelsNames = benchmarkInit(directory, classificationIndices, labels, LABELS_DICTIONARY, kFolds) - logging.debug("Start:\t Monoview benchmark") - for arguments in argumentDictionaries["Monoview"]: + logging.debug("Start:\t monoview benchmark") + for arguments in argumentDictionaries["monoview"]: X = DATASET.get("View" + str(arguments["viewIndex"])) Y = labels resultsMonoview += [ @@ -462,9 +462,9 @@ def execOneBenchmarkMonoCore(DATASET=None, LABELS_DICTIONARY=None, 1, args.type, args.pathF, randomState, hyperParamSearch=hyperParamSearch, metrics=metrics, nIter=args.CL_HPS_iter, **arguments)] - logging.debug("Done:\t Monoview benchmark") + logging.debug("Done:\t monoview benchmark") - logging.debug("Start:\t Multiview arguments initialization") + logging.debug("Start:\t multiview arguments initialization") argumentDictionaries = initMultiviewArguments(args, benchmark, views, viewsIndices, @@ -472,18 +472,18 @@ def execOneBenchmarkMonoCore(DATASET=None, LABELS_DICTIONARY=None, randomState, directory, resultsMonoview, classificationIndices) - logging.debug("Done:\t Multiview arguments initialization") + logging.debug("Done:\t multiview arguments initialization") - logging.debug("Start:\t Multiview benchmark") + logging.debug("Start:\t multiview benchmark") resultsMultiview = [] - for arguments in argumentDictionaries["Multiview"]: + for arguments in argumentDictionaries["multiview"]: resultsMultiview += [ ExecMultiview(directory, DATASET, args.name, classificationIndices, kFolds, 1, args.type, args.pathF, LABELS_DICTIONARY, randomState, labels, hyperParamSearch=hyperParamSearch, metrics=metrics, nIter=args.CL_HPS_iter, **arguments)] - logging.debug("Done:\t Multiview benchmark") + logging.debug("Done:\t multiview benchmark") return [flag, resultsMonoview + resultsMultiview] @@ -519,7 +519,7 @@ def execBenchmark(nbCores, statsIter, nbMulticlass, indices for the biclass training set, the ones for the biclass testing set and the ones for the multiclass testing set. metrics : list of lists - Metrics that will be used to evaluate the algorithms performance. + metrics that will be used to evaluate the algorithms performance. labelsDictionary : dictionary Dictionary mapping labels indices to labels names. nbLabels : int @@ -618,13 +618,13 @@ def execClassif(arguments): splits = execution.genSplits(DATASET.get("Labels").value, args.CL_split, statsIterRandomStates) - multiclassLabels, labelsCombinations, indicesMulticlass = Multiclass.genMulticlassLabels( + multiclassLabels, labelsCombinations, indicesMulticlass = multiclass.genMulticlassLabels( DATASET.get("Labels").value, multiclassMethod, splits) kFolds = execution.genKFolds(statsIter, args.CL_nbFolds, statsIterRandomStates) - datasetFiles = Dataset.initMultipleDatasets(args.pathF, args.name, nbCores) + datasetFiles = dataset.initMultipleDatasets(args.pathF, args.name, nbCores) # if not views: # raise ValueError("Empty views list, modify selected views to match dataset " + args.views) @@ -638,7 +638,7 @@ def execClassif(arguments): if metrics == [[""]]: metricsNames = [name for _, name, isPackage in pkgutil.iter_modules( - ['./MonoMultiViewClassifiers/Metrics']) if + ['./mono_multi_view_classifiers/metrics']) if not isPackage and name not in ["framework", "log_loss", "matthews_corrcoef", "roc_auc_score"]] diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/__init__.py b/multiview_platform/mono_multi_view_classifiers/metrics/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/__init__.py rename to multiview_platform/mono_multi_view_classifiers/metrics/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/accuracy_score.py b/multiview_platform/mono_multi_view_classifiers/metrics/accuracy_score.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/accuracy_score.py rename to multiview_platform/mono_multi_view_classifiers/metrics/accuracy_score.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/f1_score.py b/multiview_platform/mono_multi_view_classifiers/metrics/f1_score.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/f1_score.py rename to multiview_platform/mono_multi_view_classifiers/metrics/f1_score.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/fbeta_score.py b/multiview_platform/mono_multi_view_classifiers/metrics/fbeta_score.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/fbeta_score.py rename to multiview_platform/mono_multi_view_classifiers/metrics/fbeta_score.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/framework.py b/multiview_platform/mono_multi_view_classifiers/metrics/framework.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/framework.py rename to multiview_platform/mono_multi_view_classifiers/metrics/framework.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/generic_score.py b/multiview_platform/mono_multi_view_classifiers/metrics/generic_score.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/generic_score.py rename to multiview_platform/mono_multi_view_classifiers/metrics/generic_score.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/hamming_loss.py b/multiview_platform/mono_multi_view_classifiers/metrics/hamming_loss.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/hamming_loss.py rename to multiview_platform/mono_multi_view_classifiers/metrics/hamming_loss.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/jaccard_similarity_score.py b/multiview_platform/mono_multi_view_classifiers/metrics/jaccard_similarity_score.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/jaccard_similarity_score.py rename to multiview_platform/mono_multi_view_classifiers/metrics/jaccard_similarity_score.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/log_loss.py b/multiview_platform/mono_multi_view_classifiers/metrics/log_loss.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/log_loss.py rename to multiview_platform/mono_multi_view_classifiers/metrics/log_loss.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/matthews_corrcoef.py b/multiview_platform/mono_multi_view_classifiers/metrics/matthews_corrcoef.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/matthews_corrcoef.py rename to multiview_platform/mono_multi_view_classifiers/metrics/matthews_corrcoef.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/precision_score.py b/multiview_platform/mono_multi_view_classifiers/metrics/precision_score.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/precision_score.py rename to multiview_platform/mono_multi_view_classifiers/metrics/precision_score.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/recall_score.py b/multiview_platform/mono_multi_view_classifiers/metrics/recall_score.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/recall_score.py rename to multiview_platform/mono_multi_view_classifiers/metrics/recall_score.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/roc_auc_score.py b/multiview_platform/mono_multi_view_classifiers/metrics/roc_auc_score.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/roc_auc_score.py rename to multiview_platform/mono_multi_view_classifiers/metrics/roc_auc_score.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Metrics/zero_one_loss.py b/multiview_platform/mono_multi_view_classifiers/metrics/zero_one_loss.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Metrics/zero_one_loss.py rename to multiview_platform/mono_multi_view_classifiers/metrics/zero_one_loss.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/__init__.py b/multiview_platform/mono_multi_view_classifiers/monoview/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/__init__.py rename to multiview_platform/mono_multi_view_classifiers/monoview/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/BoostUtils.py b/multiview_platform/mono_multi_view_classifiers/monoview/additions/BoostUtils.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/BoostUtils.py rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/BoostUtils.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CBBoostUtils.py b/multiview_platform/mono_multi_view_classifiers/monoview/additions/CBBoostUtils.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CBBoostUtils.py rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/CBBoostUtils.py index 38b3ab8740f4068e0478eafcb69932cdd55ec3a3..10137028b9ff226010f0304f3413249a82a005c5 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CBBoostUtils.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/additions/CBBoostUtils.py @@ -10,8 +10,8 @@ from sklearn.utils.validation import check_is_fitted from .BoostUtils import StumpsClassifiersGenerator, sign, BaseBoost, \ getInterpretBase, get_accuracy_graph, TreeClassifiersGenerator -from ..MonoviewUtils import change_label_to_minus -from ... import Metrics +from ..monoview_utils import change_label_to_minus +from ... import metrics # Used for CBBoost @@ -20,7 +20,7 @@ class CBBoostClassifier(BaseEstimator, ClassifierMixin, BaseBoost): def __init__(self, n_max_iterations=100, estimators_generator="Stumps", random_state=42, self_complemented=True, twice_the_same=True, random_start=False, n_stumps=1, c_bound_sol=True, - plotted_metric=Metrics.zero_one_loss, save_train_data=False, + plotted_metric=metrics.zero_one_loss, save_train_data=False, test_graph=True, mincq_tracking=False): super(CBBoostClassifier, self).__init__() r""" @@ -205,7 +205,7 @@ class CBBoostClassifier(BaseEstimator, ClassifierMixin, BaseBoost): # Used to compute the optimal c-bound distribution on the chose set if self.mincq_tracking: - from ...MonoviewClassifiers.MinCQ import MinCqLearner + from ...monoview_classifiers.min_cq import MinCqLearner mincq = MinCqLearner(10e-3, "stumps", n_stumps_per_attribute=1, self_complemented=False) training_set = self.classification_matrix[:, self.chosen_columns_] diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CGDescUtils.py b/multiview_platform/mono_multi_view_classifiers/monoview/additions/CGDescUtils.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CGDescUtils.py rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/CGDescUtils.py index 3916a4b2b8c17483acbd08f747d9d45be6fbb0e4..80b68a4f57d316d8b46ebb825c1a2e871aa413fc 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CGDescUtils.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/additions/CGDescUtils.py @@ -10,8 +10,8 @@ from sklearn.utils.validation import check_is_fitted from .BoostUtils import StumpsClassifiersGenerator, sign, BaseBoost, \ getInterpretBase, get_accuracy_graph, TreeClassifiersGenerator -from ..MonoviewUtils import change_label_to_minus -from ... import Metrics +from ..monoview_utils import change_label_to_minus +from ... import metrics # Used for QarBoost and CGreed @@ -21,7 +21,7 @@ class ColumnGenerationClassifierQar(BaseEstimator, ClassifierMixin, BaseBoost): random_state=42, self_complemented=True, twice_the_same=False, c_bound_choice=True, random_start=True, n_stumps=1, use_r=True, c_bound_sol=True, - plotted_metric=Metrics.zero_one_loss, save_train_data=True, + plotted_metric=metrics.zero_one_loss, save_train_data=True, test_graph=True, mincq_tracking=False): super(ColumnGenerationClassifierQar, self).__init__() r""" @@ -223,7 +223,7 @@ class ColumnGenerationClassifierQar(BaseEstimator, ClassifierMixin, BaseBoost): self.train_metrics.append(train_metric) self.bounds.append(bound) if self.mincq_tracking: # Used to compute the optimal c-bound distribution on the chose set - from ...MonoviewClassifiers.MinCQ import MinCqLearner + from ...monoview_classifiers.min_cq import MinCqLearner mincq = MinCqLearner(10e-3, "stumps", n_stumps_per_attribute=1, self_complemented=False) training_set = self.classification_matrix[:, self.chosen_columns_] diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CQBoostUtils.py b/multiview_platform/mono_multi_view_classifiers/monoview/additions/CQBoostUtils.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CQBoostUtils.py rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/CQBoostUtils.py index 6af59377abf2b927f3a2a8d1f77bad34724c914b..06e2175d63d1199c5926cf308bf91600158c29ac 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/CQBoostUtils.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/additions/CQBoostUtils.py @@ -12,7 +12,7 @@ from sklearn.utils.validation import check_is_fitted from .BoostUtils import StumpsClassifiersGenerator, ConvexProgram, sign, \ BaseBoost, TreeClassifiersGenerator -from ... import Metrics +from ... import metrics class ColumnGenerationClassifier(BaseEstimator, ClassifierMixin, BaseBoost): @@ -26,7 +26,7 @@ class ColumnGenerationClassifier(BaseEstimator, ClassifierMixin, BaseBoost): self.dual_constraint_rhs = dual_constraint_rhs self.mu = mu self.train_time = 0 - self.plotted_metric = Metrics.zero_one_loss + self.plotted_metric = metrics.zero_one_loss self.random_state = random_state def fit(self, X, y): diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/MinCQUtils.py b/multiview_platform/mono_multi_view_classifiers/monoview/additions/MinCQUtils.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/MinCQUtils.py rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/MinCQUtils.py index 043e095cdc448d1c312ee0dfc234aea5276ba502..d38c9ce10129c69a678abf2524c677b1d9562b26 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/MinCQUtils.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/additions/MinCQUtils.py @@ -18,7 +18,7 @@ from sklearn.utils.graph import graph_laplacian from sklearn.utils.validation import check_X_y from .BoostUtils import ConvexProgram -from ..MonoviewUtils import change_label_to_zero, change_label_to_minus +from ..monoview_utils import change_label_to_zero, change_label_to_minus class MinCqClassifier(VotingClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/PregenUtils.py b/multiview_platform/mono_multi_view_classifiers/monoview/additions/PregenUtils.py similarity index 94% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/PregenUtils.py rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/PregenUtils.py index 8e0d327205036ed3fbbfa030e6a455704f6721bc..79b30c5627fcf353d6b3b0fda4cee78181e4e026 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/PregenUtils.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/additions/PregenUtils.py @@ -1,6 +1,6 @@ from .BoostUtils import StumpsClassifiersGenerator, BaseBoost, \ TreeClassifiersGenerator -from ..MonoviewUtils import change_label_to_minus +from ..monoview_utils import change_label_to_minus class PregenClassifier(BaseBoost): diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/SVCClassifier.py b/multiview_platform/mono_multi_view_classifiers/monoview/additions/SVCClassifier.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/SVCClassifier.py rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/SVCClassifier.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/__init__.py b/multiview_platform/mono_multi_view_classifiers/monoview/additions/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/__init__.py rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/_custom_criterion.pxd b/multiview_platform/mono_multi_view_classifiers/monoview/additions/_custom_criterion.pxd similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/_custom_criterion.pxd rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/_custom_criterion.pxd diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/_custom_criterion.pyx b/multiview_platform/mono_multi_view_classifiers/monoview/additions/_custom_criterion.pyx similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/_custom_criterion.pyx rename to multiview_platform/mono_multi_view_classifiers/monoview/additions/_custom_criterion.pyx diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/analyzeResult.py b/multiview_platform/mono_multi_view_classifiers/monoview/analyzeResult.py similarity index 94% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/analyzeResult.py rename to multiview_platform/mono_multi_view_classifiers/monoview/analyzeResult.py index e293bfc97e898981431d2a982ee80909138d13be..9e6a5db61ddbaf10b31a4dcbadc29c27b44629b3 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/analyzeResult.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/analyzeResult.py @@ -1,6 +1,6 @@ from datetime import timedelta as hms -from .. import Metrics +from .. import metrics def getDBConfigString(name, feat, classificationIndices, shape, @@ -32,7 +32,7 @@ def getClassifierConfigString(gridSearch, nbCores, nIter, clKWARGS, classifier, def getMetricScore(metric, y_train, y_train_pred, y_test, y_test_pred): - metricModule = getattr(Metrics, metric[0]) + metricModule = getattr(metrics, metric[0]) if metric[1] is not None: metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metric[1])) @@ -53,7 +53,7 @@ def execute(name, learningRate, KFolds, nbCores, gridSearch, metrics, nIter, shape, y_train, y_train_pred, y_test, y_test_pred, time, randomState, classifier, directory): metricsScores = {} - metricModule = getattr(Metrics, metrics[0][0]) + metricModule = getattr(metrics, metrics[0][0]) trainScore = metricModule.score(y_train, y_train_pred) testScore = metricModule.score(y_test, y_test_pred) stringAnalysis = "Classification on " + name + " database for " + feat + " with " + CL_type + ".\n\n" @@ -76,8 +76,8 @@ def execute(name, learningRate, KFolds, nbCores, gridSearch, metrics, nIter, # metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metric[1])) # else: # metricKWARGS = {} - # metricsScores[metric[0]] = [getattr(Metrics, metric[0]).score(y_train, y_train_pred), - # getattr(Metrics, metric[0]).score(y_test, y_test_pred)] + # metricsScores[metric[0]] = [getattr(metrics, metric[0]).score(y_train, y_train_pred), + # getattr(metrics, metric[0]).score(y_test, y_test_pred)] stringAnalysis += "\n\n Classification took " + str(hms(seconds=int(time))) stringAnalysis += "\n\n Classifier Interpretation : \n" stringAnalysis += classifierIntepretString diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/ExecClassifMonoView.py b/multiview_platform/mono_multi_view_classifiers/monoview/exec_classif_mono_view.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/ExecClassifMonoView.py rename to multiview_platform/mono_multi_view_classifiers/monoview/exec_classif_mono_view.py index 0e6890857c8e9b56801acf2d759f1f9ccb00bb32..b38a276f6420eca9a64120d9cc07fe455b754e10 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/ExecClassifMonoView.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/exec_classif_mono_view.py @@ -12,11 +12,11 @@ import h5py # Import 3rd party modules import numpy as np # for reading CSV-files and Series -from . import MonoviewUtils +from . import monoview_utils from .analyzeResult import execute # Import own modules -from .. import MonoviewClassifiers -from ..utils.Dataset import getValue, extractSubset +from .. import monoview_classifiers +from ..utils.dataset import getValue, extractSubset # Author-Info __author__ = "Nikolas Huelsmann, Baptiste BAUVIN" @@ -77,7 +77,7 @@ def ExecMonoview(directory, X, Y, name, labelsNames, classificationIndices, logging.debug("Start:\t Generate classifier args") classifierModuleName = CL_type.split("_")[0] - classifierModule = getattr(MonoviewClassifiers, classifierModuleName) + classifierModule = getattr(monoview_classifiers, classifierModuleName) clKWARGS, testFoldsPreds = getHPs(classifierModule, hyperParamSearch, nIter, CL_type, X_train, y_train, randomState, outputFileName, @@ -108,7 +108,7 @@ def ExecMonoview(directory, X, Y, name, labelsNames, classificationIndices, logging.debug( "Info:\t Time for training and predicting: " + str(t_end) + "[s]") - logging.debug("Start:\t Getting Results") + logging.debug("Start:\t Getting results") stringAnalysis, \ imagesAnalysis, \ metricsScores = execute(name, classificationIndices, KFolds, nbCores, @@ -117,19 +117,19 @@ def ExecMonoview(directory, X, Y, name, labelsNames, classificationIndices, y_train, y_train_pred, y_test, y_test_pred, t_end, randomState, classifier, outputFileName) # cl_desc = [value for key, value in sorted(clKWARGS.items())] - logging.debug("Done:\t Getting Results") + logging.debug("Done:\t Getting results") logging.debug("Start:\t Saving preds") saveResults(stringAnalysis, outputFileName, full_labels_pred, y_train_pred, y_train, imagesAnalysis, y_test) - logging.info("Done:\t Saving Results") + logging.info("Done:\t Saving results") viewIndex = args["viewIndex"] if testFoldsPreds is None: testFoldsPreds = y_train_pred - return MonoviewUtils.MonoviewResult(viewIndex, CL_type, feat, metricsScores, - full_labels_pred, clKWARGS, - y_test_multiclass_pred, testFoldsPreds) + return monoview_utils.MonoviewResult(viewIndex, CL_type, feat, metricsScores, + full_labels_pred, clKWARGS, + y_test_multiclass_pred, testFoldsPreds) # return viewIndex, [CL_type, feat, metricsScores, full_labels_pred, clKWARGS, y_test_multiclass_pred, testFoldsPreds] @@ -150,7 +150,7 @@ def initConstants(args, X, classificationIndices, labelsNames, name, directory): labelsString = "-".join(labelsNames) CL_type_string = CL_type timestr = time.strftime("%Y_%m_%d-%H_%M_%S") - outputFileName = directory + CL_type_string + "/" + feat + "/" + timestr + "-Results-" + CL_type_string + "-" + labelsString + \ + outputFileName = directory + CL_type_string + "/" + feat + "/" + timestr + "-results-" + CL_type_string + "-" + labelsString + \ '-learnRate_{0:.2f}'.format( learningRate) + '-' + name + "-" + feat + "-" if not os.path.exists(os.path.dirname(outputFileName)): @@ -182,7 +182,7 @@ def getHPs(classifierModule, hyperParamSearch, nIter, CL_type, X_train, y_train, logging.debug( "Start:\t " + hyperParamSearch + " best settings with " + str( nIter) + " iterations for " + CL_type) - classifierHPSearch = getattr(MonoviewUtils, hyperParamSearch) + classifierHPSearch = getattr(monoview_utils, hyperParamSearch) clKWARGS, testFoldsPreds = classifierHPSearch(X_train, y_train, randomState, outputFileName, @@ -237,7 +237,7 @@ if __name__ == '__main__': import argparse import pickle - from ..utils import Dataset + from ..utils import dataset parser = argparse.ArgumentParser( description='This methods is used to execute a multiclass classification with one single view. ', @@ -315,7 +315,7 @@ if __name__ == '__main__': databaseType = None # Extract the data using MPI - X, Y = Dataset.getMonoviewShared(path, name, viewName) + X, Y = dataset.getMonoviewShared(path, name, viewName) # Init log logFileName = time.strftime( diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/ExecPlot.py b/multiview_platform/mono_multi_view_classifiers/monoview/exec_plot.py similarity index 90% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/ExecPlot.py rename to multiview_platform/mono_multi_view_classifiers/monoview/exec_plot.py index 6be38474597c5a084e905b2a0afd91c9a56cc66b..b09645cb886cd358db578d27c7f412f1331a0530 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/ExecPlot.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/exec_plot.py @@ -33,7 +33,7 @@ # args.param = "HSV_V_Bins" # args.show = False # df_feat_res = pd.DataFrame.from_csv( -# path="D:\\BitBucket\\multiview-machine-learning-omis\\Results\\Hydra\\2016_03_23-FPO-Caltech-HSV-HSV_V_Bins.csv", +# path="D:\\BitBucket\\multiview-machine-learning-omis\\results\\Hydra\\2016_03_23-FPO-Caltech-HSV-HSV_V_Bins.csv", # sep=';') # # # Get data from result to show results in plot @@ -66,7 +66,7 @@ # # Description of Feature # feat_desc = df_feat_res.a_feat_desc.values # -# dir = os.path.dirname(os.path.abspath(__file__)) + "/Results-FeatParaOpt/" +# dir = os.path.dirname(os.path.abspath(__file__)) + "/results-FeatParaOpt/" # # filename = datetime.datetime.now().strftime("%Y_%m_%d") + "-FPO-" + args.name + "-" + args.feature + "-" + args.param # # ExportResults.exportPandasToCSV(df_feat_res, directory, filename) # @@ -77,13 +77,13 @@ # store = True # # fileName = datetime.datetime.now().strftime("%Y_%m_%d") + "-FPO-" + args.name + "-" + args.feature + "-" + args.param -# # Show Results for Calculation +# # Show results for Calculation # ExportResults.showScoreTime(dir, fileName + "-TotalTime", store, score, tot_time, rangeX, args.param, feat_desc, -# cl_desc, 'Results for Parameter Optimisation - DB:' + args.name + ' Feat:' + args.feature, +# cl_desc, 'results for Parameter Optimisation - DB:' + args.name + ' Feat:' + args.feature, # 'Precision', 'Total Time (Feature Extraction+Classification)\n [s]') # ExportResults.showScoreTime(dir, fileName + "-FeatExtTime", store, score, feat_time, rangeX, args.param, feat_desc, -# cl_desc, 'Results for Parameter Optimisation - DB:' + args.name + ' Feat:' + args.feature, +# cl_desc, 'results for Parameter Optimisation - DB:' + args.name + ' Feat:' + args.feature, # 'Precision', 'Feature Extraction Time\n [s]') # ExportResults.showScoreTime(dir, fileName + "-ClassTime", store, score, cl_time, rangeX, args.param, feat_desc, cl_desc, -# 'Results for Parameter Optimisation - DB:' + args.name + ' Feat:' + args.feature, +# 'results for Parameter Optimisation - DB:' + args.name + ' Feat:' + args.feature, # 'Precision', 'Classification Time\n [s]') diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/ExportResults.py b/multiview_platform/mono_multi_view_classifiers/monoview/export_results.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/ExportResults.py rename to multiview_platform/mono_multi_view_classifiers/monoview/export_results.py index 086080ee0cb61a7731a533035497a5284b159bdb..b2d969b3c0f30063086c5004bf301e5c35c6b7cb 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/ExportResults.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/export_results.py @@ -169,7 +169,7 @@ def showResults(directory, filename, db, feat, score): plt.xlabel('ClassLabels') plt.ylabel('Precision in %') plt.title( - 'Results of ' + feat + '-Classification\n for ' + db + ' Database') + 'results of ' + feat + '-Classification\n for ' + db + ' Database') plt.axis([0, len(score), 0, 100]) plt.xticks(range(0, len(score), 5)) diff --git a/multiview_platform/MonoMultiViewClassifiers/Monoview/MonoviewUtils.py b/multiview_platform/mono_multi_view_classifiers/monoview/monoview_utils.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/Monoview/MonoviewUtils.py rename to multiview_platform/mono_multi_view_classifiers/monoview/monoview_utils.py index 1d6c41290cc0ec639707df8309953712c36e8b7f..eb36869cea3caa709d51a87bc71198fc8b37665c 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Monoview/MonoviewUtils.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview/monoview_utils.py @@ -6,8 +6,8 @@ from matplotlib.ticker import FuncFormatter from scipy.stats import uniform, randint from sklearn.model_selection import RandomizedSearchCV -from .. import Metrics -from ..utils import HyperParameterSearch +from .. import metrics +from ..utils import hyper_parameter_search # Author-Info __author__ = "Nikolas Huelsmann, Baptiste Bauvin" @@ -25,7 +25,7 @@ def randomizedSearch(X_train, y_train, randomState, outputFileName, **classifier_KWARGS) params_dict = estimator.genDistribs() if params_dict: - metricModule = getattr(Metrics, metric[0]) + metricModule = getattr(metrics, metric[0]) if metric[1] is not None: metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metric[1])) @@ -51,7 +51,7 @@ def randomizedSearch(X_train, y_train, randomState, outputFileName, scoresArray = detector.cv_results_['mean_test_score'] params = estimator.genParamsFromDetector(detector) - HyperParameterSearch.genHeatMaps(params, scoresArray, outputFileName) + hyper_parameter_search.genHeatMaps(params, scoresArray, outputFileName) best_estimator = detector.best_estimator_ else: best_estimator = estimator diff --git a/multiview_platform/mono_multi_view_classifiers/monoview/run.py b/multiview_platform/mono_multi_view_classifiers/monoview/run.py new file mode 100644 index 0000000000000000000000000000000000000000..106adb046126d9ecb43987da80aefd9f3c66ca3d --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/monoview/run.py @@ -0,0 +1,8 @@ +# coding=utf-8 +import os + +os.system( + 'python exec_classif_mono_view.py -log --name MultiOmicDataset --type hdf5 --feat RNASeq --pathF /home/doob/Téléchargements/Data_multi_omics/ --CL_type DecisionTree --CL_CV 5 --CL_Cores 4 --CL_split 0.5') +# /donnees/pj_bdd_bbauvin/Data_multi_omics/ +# MiRNA_ RNASeq Clinic +# diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/__init__.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/__init__.py similarity index 90% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/__init__.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/__init__.py index be5528d2219a00afdbe16ac9ba088a91306f75be..db257abe4c0afa79fa5166cdd037070aecc6a29e 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/__init__.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/__init__.py @@ -8,7 +8,7 @@ del module del os """ -To be able to add a Monoview Classifier to the benchmark, one has to : +To be able to add a monoview Classifier to the benchmark, one has to : Create a .py file named after the classifier Define a canProbas function returning True or False whether the classifier is able to predict class probabilities Define a fit function @@ -27,5 +27,5 @@ Define a getKWARGS function Output : KWARGSDict : a dictionnary of arguments matching the kwargs needed in train Define a getConfig function that returns a string explaining the algorithm's config using a config dict or list -Add the arguments to configure the classifier in the parser in ExecClassif.py +Add the arguments to configure the classifier in the parser in exec_classif.py """ diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/Adaboost.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost.py similarity index 94% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/Adaboost.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost.py index 82b53efa4e1b4765ea1e5d463ecc67c910c901ff..23bbe7185c9cbdc6f68829f42dc73b0eb1fc8464 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/Adaboost.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost.py @@ -4,9 +4,9 @@ import numpy as np from sklearn.ensemble import AdaBoostClassifier from sklearn.tree import DecisionTreeClassifier -from .. import Metrics -from ..Monoview.Additions.BoostUtils import get_accuracy_graph -from ..Monoview.MonoviewUtils import CustomRandint, BaseMonoviewClassifier +from .. import metrics +from ..monoview.additions.BoostUtils import get_accuracy_graph +from ..monoview.monoview_utils import CustomRandint, BaseMonoviewClassifier # Author-Info __author__ = "Baptiste Bauvin" @@ -28,7 +28,7 @@ class Adaboost(AdaBoostClassifier, BaseMonoviewClassifier): self.distribs = [CustomRandint(low=1, high=500), [DecisionTreeClassifier(max_depth=1)]] self.weird_strings = {"base_estimator": "class_name"} - self.plotted_metric = Metrics.zero_one_loss + self.plotted_metric = metrics.zero_one_loss self.plotted_metric_name = "zero_one_loss" self.step_predictions = None diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostGraalpy.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_graalpy.py similarity index 98% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostGraalpy.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_graalpy.py index d7ddcab5b48dd543cd45612261c1412cd6b928ad..975bf5ad8a316dedc196d5572654cf94618088ab 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostGraalpy.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_graalpy.py @@ -4,10 +4,10 @@ import numpy as np from sklearn.base import BaseEstimator, ClassifierMixin from sklearn.utils.validation import check_is_fitted -from ..Metrics import zero_one_loss -from ..Monoview.Additions.BoostUtils import StumpsClassifiersGenerator, \ +from ..metrics import zero_one_loss +from ..monoview.additions.BoostUtils import StumpsClassifiersGenerator, \ BaseBoost -from ..Monoview.MonoviewUtils import CustomRandint, \ +from ..monoview.monoview_utils import CustomRandint, \ BaseMonoviewClassifier, change_label_to_minus, change_label_to_zero diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregen.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregen.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen.py index 07ae58db2946ba9fb7c7514ef581aff1b9a80932..6914c5e79addb0e811269cbff40e285d4c6b2bbc 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregen.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen.py @@ -4,10 +4,10 @@ import numpy as np from sklearn.ensemble import AdaBoostClassifier from sklearn.tree import DecisionTreeClassifier -from .. import Metrics -from ..Monoview.Additions.BoostUtils import get_accuracy_graph -from ..Monoview.Additions.PregenUtils import PregenClassifier -from ..Monoview.MonoviewUtils import CustomRandint, BaseMonoviewClassifier, \ +from .. import metrics +from ..monoview.additions.BoostUtils import get_accuracy_graph +from ..monoview.additions.PregenUtils import PregenClassifier +from ..monoview.monoview_utils import CustomRandint, BaseMonoviewClassifier, \ change_label_to_zero # Author-Info @@ -34,7 +34,7 @@ class AdaboostPregen(AdaBoostClassifier, BaseMonoviewClassifier, [DecisionTreeClassifier(max_depth=1)], [n_stumps], [random_state]] self.weird_strings = {"base_estimator": "class_name"} - self.plotted_metric = Metrics.zero_one_loss + self.plotted_metric = metrics.zero_one_loss self.plotted_metric_name = "zero_one_loss" self.step_predictions = None self.estimators_generator = "Stumps" diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregen10.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen10.py similarity index 96% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregen10.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen10.py index de729f2dcc63238bb45cc74daef7f4bd777acc1d..d24724ee78a7757357b7c3cd7ca8dfe5b13d4891 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregen10.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen10.py @@ -1,6 +1,6 @@ from sklearn.tree import DecisionTreeClassifier -from .AdaboostPregen import AdaboostPregen +from .adaboost_pregen import AdaboostPregen # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregenTree.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen_tree.py similarity index 94% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregenTree.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen_tree.py index fd9401bfa281070ce6c53ba29238f9573b31d744..b5fe62b3a4d79d38c3ab2aecdbcec8b67566bdb0 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/AdaboostPregenTree.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/adaboost_pregen_tree.py @@ -4,10 +4,10 @@ import numpy as np from sklearn.ensemble import AdaBoostClassifier from sklearn.tree import DecisionTreeClassifier -from .. import Metrics -from ..Monoview.Additions.BoostUtils import get_accuracy_graph -from ..Monoview.Additions.PregenUtils import PregenClassifier -from ..Monoview.MonoviewUtils import CustomRandint, BaseMonoviewClassifier, \ +from .. import metrics +from ..monoview.additions.BoostUtils import get_accuracy_graph +from ..monoview.additions.PregenUtils import PregenClassifier +from ..monoview.monoview_utils import CustomRandint, BaseMonoviewClassifier, \ change_label_to_zero # Author-Info @@ -34,7 +34,7 @@ class AdaboostPregenTree(AdaBoostClassifier, BaseMonoviewClassifier, [DecisionTreeClassifier(max_depth=1)], [n_stumps], [random_state], [max_depth]] self.weird_strings = {"base_estimator": "class_name"} - self.plotted_metric = Metrics.zero_one_loss + self.plotted_metric = metrics.zero_one_loss self.plotted_metric_name = "zero_one_loss" self.step_predictions = None self.estimators_generator = "Trees" diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGreed.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/c_greed.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGreed.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/c_greed.py index 6030dc1e44021c7975794c488b12a245f73d8499..dff8a6f3360dcef9528321c24efd5ad33e88dad7 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGreed.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/c_greed.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.CGDescUtils import ColumnGenerationClassifierQar -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier, CustomRandint +from ..monoview.additions.CGDescUtils import ColumnGenerationClassifierQar +from ..monoview.monoview_utils import BaseMonoviewClassifier, CustomRandint class CGreed(ColumnGenerationClassifierQar, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CBBoost.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cb_boost.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CBBoost.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cb_boost.py index 4833778269b71e2c4297d3373c9b58a8f1c7e9cd..b7fef9b6367524789b807aa7be5b78b6238a0bae 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CBBoost.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cb_boost.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.CBBoostUtils import CBBoostClassifier -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier, CustomRandint +from ..monoview.additions.CBBoostUtils import CBBoostClassifier +from ..monoview.monoview_utils import BaseMonoviewClassifier, CustomRandint class CBBoost(CBBoostClassifier, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDesc.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDesc.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc.py index 30a42f593b5e161ee299e36771e0c2eb215f7f23..62fa41a119be4f21d624fb0767611e9318bb20bd 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDesc.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.CGDescUtils import ColumnGenerationClassifierQar -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier, CustomRandint +from ..monoview.additions.CGDescUtils import ColumnGenerationClassifierQar +from ..monoview.monoview_utils import BaseMonoviewClassifier, CustomRandint class CGDesc(ColumnGenerationClassifierQar, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDesc10.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc10.py similarity index 96% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDesc10.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc10.py index dbc628568ce589609620619e20c701e5f29375aa..229f71c5cf1842b2f515b97135010c8d4795648d 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDesc10.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc10.py @@ -1,4 +1,4 @@ -from .CGDesc import CGDesc +from .cg_desc import CGDesc class CGDesc10(CGDesc): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDescTree.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc_tree.py similarity index 93% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDescTree.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc_tree.py index bef57eea4567d85b9aa42a518d3ffc59eb7a62b0..d1ab5ee7aea041cb2542c57752eabfea50d63b33 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CGDescTree.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cg_desc_tree.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.CGDescUtils import ColumnGenerationClassifierQar -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier, CustomRandint +from ..monoview.additions.CGDescUtils import ColumnGenerationClassifierQar +from ..monoview.monoview_utils import BaseMonoviewClassifier, CustomRandint class CGDescTree(ColumnGenerationClassifierQar, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoost.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boost.py similarity index 93% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoost.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boost.py index 9ed52604f4745fb0f6f05616a654a89da19287b4..aac9472759fe9b6945685b0255760815c48d6cd5 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoost.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boost.py @@ -1,8 +1,8 @@ import numpy as np -from ..Monoview.Additions.BoostUtils import getInterpretBase -from ..Monoview.Additions.CQBoostUtils import ColumnGenerationClassifier -from ..Monoview.MonoviewUtils import CustomUniform, CustomRandint, \ +from ..monoview.additions.BoostUtils import getInterpretBase +from ..monoview.additions.CQBoostUtils import ColumnGenerationClassifier +from ..monoview.monoview_utils import CustomUniform, CustomRandint, \ BaseMonoviewClassifier diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostTree.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boosttree.py similarity index 93% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostTree.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boosttree.py index d66eef7675d6e906d4036001b7867a630d27bd87..9cdb2ac5ef740a3e8f79dd9f4c8d6cff0fcfe423 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostTree.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boosttree.py @@ -1,8 +1,8 @@ import numpy as np -from ..Monoview.Additions.BoostUtils import getInterpretBase -from ..Monoview.Additions.CQBoostUtils import ColumnGenerationClassifier -from ..Monoview.MonoviewUtils import CustomUniform, CustomRandint, \ +from ..monoview.additions.BoostUtils import getInterpretBase +from ..monoview.additions.CQBoostUtils import ColumnGenerationClassifier +from ..monoview.monoview_utils import CustomUniform, CustomRandint, \ BaseMonoviewClassifier diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostv2.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boostv2.py similarity index 97% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostv2.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boostv2.py index a308b9baeea0e456ceec5cd3f7d3a8c6388adf69..51fc983da497b185b75d1da59329b33478095a4d 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostv2.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boostv2.py @@ -1,8 +1,8 @@ import numpy as np -from ..Monoview.Additions.BoostUtils import getInterpretBase -from ..Monoview.Additions.CQBoostUtils import ColumnGenerationClassifier -from ..Monoview.MonoviewUtils import CustomRandint, CustomUniform, \ +from ..monoview.additions.BoostUtils import getInterpretBase +from ..monoview.additions.CQBoostUtils import ColumnGenerationClassifier +from ..monoview.monoview_utils import CustomRandint, CustomUniform, \ BaseMonoviewClassifier diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostv21.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boostv21.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostv21.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boostv21.py index 9875b22a2a480a149df3560a946a5d2d51658e6e..7ccd2168a05c151cc58c4647d64566f529aa0c56 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/CQBoostv21.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/cq_boostv21.py @@ -9,9 +9,9 @@ from sklearn.base import BaseEstimator, ClassifierMixin from sklearn.metrics import accuracy_score from sklearn.utils.validation import check_is_fitted -from ..Monoview.Additions.BoostUtils import StumpsClassifiersGenerator, sign, \ +from ..monoview.additions.BoostUtils import StumpsClassifiersGenerator, sign, \ getInterpretBase, BaseBoost -from ..Monoview.MonoviewUtils import CustomUniform, CustomRandint, \ +from ..monoview.monoview_utils import CustomUniform, CustomRandint, \ BaseMonoviewClassifier diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/DecisionTree.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/decision_tree.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/DecisionTree.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/decision_tree.py index 4aec553905287fe2b860325d10d5c59b7ca85c23..f108f03e9bb91d54266a14c29156a3c894c6f104 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/DecisionTree.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/decision_tree.py @@ -1,6 +1,6 @@ from sklearn.tree import DecisionTreeClassifier -from ..Monoview.MonoviewUtils import CustomRandint, BaseMonoviewClassifier +from ..monoview.monoview_utils import CustomRandint, BaseMonoviewClassifier # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/DecisionTreePregen.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/decision_tree_pregen.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/DecisionTreePregen.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/decision_tree_pregen.py index 75fa10cc1ef5001674c02c3f842e2ce7dfaa4854..98fa1d1b7e4022b888412f31fb850b014821fd9c 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/DecisionTreePregen.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/decision_tree_pregen.py @@ -3,8 +3,8 @@ import time import numpy as np from sklearn.tree import DecisionTreeClassifier -from ..Monoview.Additions.PregenUtils import PregenClassifier -from ..Monoview.MonoviewUtils import CustomRandint, BaseMonoviewClassifier, \ +from ..monoview.additions.PregenUtils import PregenClassifier +from ..monoview.monoview_utils import CustomRandint, BaseMonoviewClassifier, \ change_label_to_zero # Author-Info diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/GradientBoosting.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/gradient_boosting.py similarity index 94% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/GradientBoosting.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/gradient_boosting.py index 8b6acba93ae808025f64109c303085bb1e7489bc..ca1baace9a5b11eb3ca279e36ab883cfcf177eaa 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/GradientBoosting.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/gradient_boosting.py @@ -4,9 +4,9 @@ import numpy as np from sklearn.ensemble import GradientBoostingClassifier from sklearn.tree import DecisionTreeClassifier -from .. import Metrics -from ..Monoview.Additions.BoostUtils import get_accuracy_graph -from ..Monoview.MonoviewUtils import CustomRandint, BaseMonoviewClassifier +from .. import metrics +from ..monoview.additions.BoostUtils import get_accuracy_graph +from ..monoview.monoview_utils import CustomRandint, BaseMonoviewClassifier # Author-Info __author__ = "Baptiste Bauvin" @@ -37,7 +37,7 @@ class GradientBoosting(GradientBoostingClassifier, BaseMonoviewClassifier): self.classed_params = [] self.distribs = [CustomRandint(low=50, high=500), ] self.weird_strings = {} - self.plotted_metric = Metrics.zero_one_loss + self.plotted_metric = metrics.zero_one_loss self.plotted_metric_name = "zero_one_loss" self.step_predictions = None diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/KNN.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/knn.py similarity index 96% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/KNN.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/knn.py index 9774ef7f0cf8c2553b28faf5d4f322d9390efc69..0f7f077914166f78462fbf78d02061d929e8487f 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/KNN.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/knn.py @@ -1,6 +1,6 @@ from sklearn.neighbors import KNeighborsClassifier -from ..Monoview.MonoviewUtils import CustomRandint, BaseMonoviewClassifier +from ..monoview.monoview_utils import CustomRandint, BaseMonoviewClassifier # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/Lasso.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/lasso.py similarity index 96% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/Lasso.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/lasso.py index 19def37abb8bc1e7c9141f13364cac69eb1cd612..c330f96ee3f81b09bae021f939321ca8a3edf67c 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/Lasso.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/lasso.py @@ -1,7 +1,7 @@ import numpy as np from sklearn.linear_model import Lasso -from ..Monoview.MonoviewUtils import CustomRandint, CustomUniform, \ +from ..monoview.monoview_utils import CustomRandint, CustomUniform, \ BaseMonoviewClassifier # Author-Info diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQ.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQ.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq.py index 620b3ff76d73b7084a4e115ac79928a4d3a57b21..a9421c25bd151e0526b48a47735d9ddbb8ac3a9a 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQ.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq.py @@ -1,4 +1,4 @@ -from ..Monoview.MonoviewUtils import CustomUniform, BaseMonoviewClassifier +from ..monoview.monoview_utils import CustomUniform, BaseMonoviewClassifier #### Algorithm code #### @@ -18,7 +18,7 @@ from sklearn.base import BaseEstimator, ClassifierMixin from sklearn.metrics.pairwise import rbf_kernel, linear_kernel, \ polynomial_kernel # from qp import QP -from ..Monoview.Additions.BoostUtils import ConvexProgram as QP +from ..monoview.additions.BoostUtils import ConvexProgram as QP # from majority_vote import MajorityVote diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQGraalpy.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq_graalpy.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQGraalpy.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq_graalpy.py index 7923daec1798bd4cb1dbd21f92b13e6f6bd4e3c1..30b1aff49d3cb9fd5beb75070dfd05f56eb3baac 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQGraalpy.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq_graalpy.py @@ -1,8 +1,8 @@ import numpy as np -from ..Monoview.Additions.BoostUtils import StumpsClassifiersGenerator -from ..Monoview.Additions.MinCQUtils import RegularizedBinaryMinCqClassifier -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier, CustomUniform +from ..monoview.additions.BoostUtils import StumpsClassifiersGenerator +from ..monoview.additions.MinCQUtils import RegularizedBinaryMinCqClassifier +from ..monoview.monoview_utils import BaseMonoviewClassifier, CustomUniform class MinCQGraalpy(RegularizedBinaryMinCqClassifier, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQGraalpyTree.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq_graalpy_tree.py similarity index 93% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQGraalpyTree.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq_graalpy_tree.py index b174cbfd87480e80d1f6987277064b1942c58979..c1d399a4ed4035f4968675749b9ac7c0f07e75e5 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/MinCQGraalpyTree.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/min_cq_graalpy_tree.py @@ -1,8 +1,8 @@ import numpy as np -from ..Monoview.Additions.BoostUtils import TreeClassifiersGenerator -from ..Monoview.Additions.MinCQUtils import RegularizedBinaryMinCqClassifier -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier, CustomUniform +from ..monoview.additions.BoostUtils import TreeClassifiersGenerator +from ..monoview.additions.MinCQUtils import RegularizedBinaryMinCqClassifier +from ..monoview.monoview_utils import BaseMonoviewClassifier, CustomUniform class MinCQGraalpyTree(RegularizedBinaryMinCqClassifier, diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoost.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boost.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoost.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boost.py index e425aa59344fd80f7c6785d5338e46be842ffa38..3723d1dca02948d1b2b6ffc637815b34c0dfc32f 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoost.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boost.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.CGDescUtils import ColumnGenerationClassifierQar -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier +from ..monoview.additions.CGDescUtils import ColumnGenerationClassifierQar +from ..monoview.monoview_utils import BaseMonoviewClassifier class QarBoost(ColumnGenerationClassifierQar, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostNC3.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boost_nc3.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostNC3.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boost_nc3.py index 98d16a87625c08b79465899e5709c21c4073b7ea..c58921670ff9801848300ed56cf49c38a3b387e0 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostNC3.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boost_nc3.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.CGDescUtils import ColumnGenerationClassifierQar -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier +from ..monoview.additions.CGDescUtils import ColumnGenerationClassifierQar +from ..monoview.monoview_utils import BaseMonoviewClassifier class QarBoostNC3(ColumnGenerationClassifierQar, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostv2.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boostv2.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostv2.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boostv2.py index 0a083b692f0a98e9b81cc8ee65ba1c548c21b3aa..55d31afdfd7420f4cb48af8ef06e2d3e7efc537b 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostv2.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boostv2.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.CGDescUtils import ColumnGenerationClassifierQar -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier +from ..monoview.additions.CGDescUtils import ColumnGenerationClassifierQar +from ..monoview.monoview_utils import BaseMonoviewClassifier class QarBoostv2(ColumnGenerationClassifierQar, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostv3.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boostv3.py similarity index 91% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostv3.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boostv3.py index c09d380281461c1e62835826f833ca243b365f68..c66c194279025a765b205c9fbf8695890910e98b 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/QarBoostv3.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/qar_boostv3.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.CGDescUtils import ColumnGenerationClassifierQar -from ..Monoview.MonoviewUtils import BaseMonoviewClassifier +from ..monoview.additions.CGDescUtils import ColumnGenerationClassifierQar +from ..monoview.monoview_utils import BaseMonoviewClassifier class QarBoostv3(ColumnGenerationClassifierQar, BaseMonoviewClassifier): diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/RandomForest.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/random_forest.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/RandomForest.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/random_forest.py index 2bef1b5f41ae0274238c0ed120c50ddafafbe793..618fa0d07a960f9869b80c00cf17fe2739943c21 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/RandomForest.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/random_forest.py @@ -1,6 +1,6 @@ from sklearn.ensemble import RandomForestClassifier -from ..Monoview.MonoviewUtils import CustomRandint, BaseMonoviewClassifier +from ..monoview.monoview_utils import CustomRandint, BaseMonoviewClassifier # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCM.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm.py similarity index 97% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCM.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm.py index dc789830cc859d5a6dc2329290a6eeb2b6bb75b0..766f7b06dc4a5ad121a7712f14b4f39f51165ee4 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCM.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm.py @@ -1,6 +1,6 @@ from pyscm.scm import SetCoveringMachineClassifier as scm -from ..Monoview.MonoviewUtils import CustomRandint, CustomUniform, \ +from ..monoview.monoview_utils import CustomRandint, CustomUniform, \ BaseMonoviewClassifier # Author-Info diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMPregen.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_pregen.py similarity index 96% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMPregen.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_pregen.py index 8f566ba8bd9a4d40c73ee81509af35c70b45b5dc..ae9729b81395c3ae6ea3c715979fd6aa8ef65afb 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMPregen.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_pregen.py @@ -3,8 +3,8 @@ import os import numpy as np from pyscm.scm import SetCoveringMachineClassifier as scm -from ..Monoview.Additions.PregenUtils import PregenClassifier -from ..Monoview.MonoviewUtils import CustomRandint, CustomUniform, \ +from ..monoview.additions.PregenUtils import PregenClassifier +from ..monoview.monoview_utils import CustomRandint, CustomUniform, \ BaseMonoviewClassifier # Author-Info diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMPregenTree.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_pregen_tree.py similarity index 96% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMPregenTree.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_pregen_tree.py index efb418665735c1a7d1db2a2253959c0666de4f18..a22fa1e28f81d04f44b7e7a2a05d02bf2bfc80f1 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMPregenTree.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_pregen_tree.py @@ -3,8 +3,8 @@ import os import numpy as np from pyscm.scm import SetCoveringMachineClassifier as scm -from ..Monoview.Additions.PregenUtils import PregenClassifier -from ..Monoview.MonoviewUtils import CustomRandint, CustomUniform, \ +from ..monoview.additions.PregenUtils import PregenClassifier +from ..monoview.monoview_utils import CustomRandint, CustomUniform, \ BaseMonoviewClassifier # Author-Info diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMSparsity.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_sparsity.py similarity index 96% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMSparsity.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_sparsity.py index c2bdb32b31bdcd41fd69dd75da93900a122b763a..b5d02d90c34f8e0db03e7a881c2f56d077d3d082 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMSparsity.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_sparsity.py @@ -4,9 +4,9 @@ import time import numpy as np from pyscm.scm import SetCoveringMachineClassifier as scm -from ..Metrics import zero_one_loss -from ..Monoview.Additions.PregenUtils import PregenClassifier -from ..Monoview.MonoviewUtils import CustomRandint, CustomUniform, \ +from ..metrics import zero_one_loss +from ..monoview.additions.PregenUtils import PregenClassifier +from ..monoview.monoview_utils import CustomRandint, CustomUniform, \ BaseMonoviewClassifier # Author-Info diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMSparsityTree.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_sparsity_ttee.py similarity index 96% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMSparsityTree.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_sparsity_ttee.py index 3071c5ca55f8f3b090120cc44041e1c3fc28d89c..fdd5491c48a7fdf2b049673de80ba78b1fe734e1 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SCMSparsityTree.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/scm_sparsity_ttee.py @@ -4,9 +4,9 @@ import time import numpy as np from pyscm.scm import SetCoveringMachineClassifier as scm -from ..Metrics import zero_one_loss -from ..Monoview.Additions.PregenUtils import PregenClassifier -from ..Monoview.MonoviewUtils import CustomRandint, CustomUniform, \ +from ..metrics import zero_one_loss +from ..monoview.additions.PregenUtils import PregenClassifier +from ..monoview.monoview_utils import CustomRandint, CustomUniform, \ BaseMonoviewClassifier # Author-Info diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SGD.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/sgd.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SGD.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/sgd.py index a1d3d50266a43797ddc324b6fa6a3674c5976057..dce9fa5a55471472c63b81e8cd27efc97be300a8 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SGD.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/sgd.py @@ -1,6 +1,6 @@ from sklearn.linear_model import SGDClassifier -from ..Monoview.MonoviewUtils import CustomUniform, BaseMonoviewClassifier +from ..monoview.monoview_utils import CustomUniform, BaseMonoviewClassifier # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMLinear.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_linear.py similarity index 85% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMLinear.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_linear.py index 4eb427b682e62a9dcc7498cadcc8aceac18af2b0..7d7bcd610a6548b4519afb8c357e364d8e2722aa 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMLinear.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_linear.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.SVCClassifier import SVCClassifier -from ..Monoview.MonoviewUtils import CustomUniform, BaseMonoviewClassifier +from ..monoview.additions.SVCClassifier import SVCClassifier +from ..monoview.monoview_utils import CustomUniform, BaseMonoviewClassifier # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMPoly.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_poly.py similarity index 88% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMPoly.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_poly.py index a5154599990dd1f9230144f793a1ad88cc453bca..b9893492a995914b66b76a7a6988e9d3f364f580 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMPoly.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_poly.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.SVCClassifier import SVCClassifier -from ..Monoview.MonoviewUtils import CustomUniform, CustomRandint, \ +from ..monoview.additions.SVCClassifier import SVCClassifier +from ..monoview.monoview_utils import CustomUniform, CustomRandint, \ BaseMonoviewClassifier # Author-Info diff --git a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMRBF.py b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_rbf.py similarity index 85% rename from multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMRBF.py rename to multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_rbf.py index 8e8e8d03b6e42dc19b5939b097caa0d75b146675..49edfacce2373faeafac5e9b04f2e9d8f8d90dc8 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers/SVMRBF.py +++ b/multiview_platform/mono_multi_view_classifiers/monoview_classifiers/svm_rbf.py @@ -1,5 +1,5 @@ -from ..Monoview.Additions.SVCClassifier import SVCClassifier -from ..Monoview.MonoviewUtils import CustomUniform, BaseMonoviewClassifier +from ..monoview.additions.SVCClassifier import SVCClassifier +from ..monoview.monoview_utils import CustomUniform, BaseMonoviewClassifier # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/Multiview/Additions/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview/Additions/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Multiview/Additions/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview/Additions/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/Multiview/Additions/diversity_utils.py b/multiview_platform/mono_multi_view_classifiers/multiview/Additions/diversity_utils.py similarity index 98% rename from multiview_platform/MonoMultiViewClassifiers/Multiview/Additions/diversity_utils.py rename to multiview_platform/mono_multi_view_classifiers/multiview/Additions/diversity_utils.py index fce99c308b91c42fffc622b636a953dd447f7071..977730184b0f502af77fe4d0025e37d869eddccd 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Multiview/Additions/diversity_utils.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview/Additions/diversity_utils.py @@ -4,7 +4,7 @@ import os import numpy as np -from ...utils.Multiclass import isBiclass, genMulticlassMonoviewDecision +from ...utils.multiclass import isBiclass, genMulticlassMonoviewDecision def getClassifiersDecisions(allClassifersNames, viewsIndices, resultsMonoview): @@ -202,17 +202,17 @@ def getArgs(args, benchmark, views, viewsIndices, randomState, foldsGroundTruth = getFoldsGroundTruth(directory, folds=True) else: foldsGroundTruth = getFoldsGroundTruth(directory, folds=False) - monoviewClassifierModulesNames = benchmark["Monoview"] + monoviewClassifierModulesNames = benchmark["monoview"] classifiersDecisions, classifiersNames = getClassifiersDecisions( monoviewClassifierModulesNames, viewsIndices, resultsMonoview) - if name in ['DisagreeFusion', 'DoubleFaultFusion']: + if name in ['disagree_fusion', 'double_fault_fusion']: classifiersNames, div_measure = couple_div_measure(classifiersNames, classifiersDecisions, measurement, foldsGroundTruth) - elif name == "PseudoCQFusion": + elif name == "pseudo_cq_fusion": classifiersNames, div_measure = CQ_div_measure(classifiersNames, classifiersDecisions, measurement, diff --git a/multiview_platform/mono_multi_view_classifiers/multiview/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview/__init__.py new file mode 100644 index 0000000000000000000000000000000000000000..a3ab07f2a12aedb7ffa60628a0103c838e9af55b --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/multiview/__init__.py @@ -0,0 +1,5 @@ +# # from Code.mono_multi_view_classifiers.multiview_classifiers import fusion, Mumbo +# from . import ExecMultiview +# # from . import Mumbo +# +# __all__ = ['fusion', 'Mumbo'] diff --git a/multiview_platform/MonoMultiViewClassifiers/Multiview/analyzeResults.py b/multiview_platform/mono_multi_view_classifiers/multiview/analyzeResults.py similarity index 94% rename from multiview_platform/MonoMultiViewClassifiers/Multiview/analyzeResults.py rename to multiview_platform/mono_multi_view_classifiers/multiview/analyzeResults.py index bd06d7f27ef3792ac2595db77ff6a4632db6ab02..0deca9b6c96419d815de93a6d585385fefee6e40 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Multiview/analyzeResults.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview/analyzeResults.py @@ -1,4 +1,4 @@ -from .. import Metrics +from .. import metrics # Author-Info __author__ = "Baptiste Bauvin" @@ -8,7 +8,7 @@ __status__ = "Prototype" # Production, Development, Prototype def printMetricScore(metricScores, metrics): metricScoreString = "\n\n" for metric in metrics: - metricModule = getattr(Metrics, metric[0]) + metricModule = getattr(metrics, metric[0]) if metric[1] is not None: metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metric[1])) @@ -26,7 +26,7 @@ def printMetricScore(metricScores, metrics): def getTotalMetricScores(metric, trainLabels, testLabels, validationIndices, learningIndices, labels): - metricModule = getattr(Metrics, metric[0]) + metricModule = getattr(metrics, metric[0]) if metric[1] is not None: metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metric[1])) @@ -67,7 +67,7 @@ def execute(classifier, trainLabels, CLASS_LABELS = labels learningIndices, validationIndices, testIndicesMulticlass = classificationIndices - metricModule = getattr(Metrics, metrics[0][0]) + metricModule = getattr(metrics, metrics[0][0]) if metrics[0][1] is not None: metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metrics[0][1])) @@ -81,7 +81,7 @@ def execute(classifier, trainLabels, classifierConfiguration = classifier.getConfigString(classificationKWARGS) - stringAnalysis = "\t\tResult for Multiview classification with " + classifierNameString + \ + stringAnalysis = "\t\tResult for multiview classification with " + classifierNameString + \ "\n\n" + metrics[0][0] + " :\n\t-On Train : " + str( scoreOnTrain) + "\n\t-On Test : " + str( scoreOnTest) + \ diff --git a/multiview_platform/MonoMultiViewClassifiers/Multiview/ExecMultiview.py b/multiview_platform/mono_multi_view_classifiers/multiview/exec_multiview.py similarity index 90% rename from multiview_platform/MonoMultiViewClassifiers/Multiview/ExecMultiview.py rename to multiview_platform/mono_multi_view_classifiers/multiview/exec_multiview.py index 54cd4e8585dccb29b8f0b3cf6fffd33d6a2784d0..c6eaf6e83d437c1a699e28b278c11a0aa8bdc59d 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Multiview/ExecMultiview.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview/exec_multiview.py @@ -7,10 +7,10 @@ import time import h5py import numpy as np -from .MultiviewUtils import MultiviewResult -from .. import MultiviewClassifiers -from ..utils import HyperParameterSearch -from ..utils.Dataset import getShape +from .multiview_utils import MultiviewResult +from .. import multiview_classifiers +from ..utils import hyper_parameter_search +from ..utils.dataset import getShape # Author-Info __author__ = "Baptiste Bauvin" @@ -50,7 +50,7 @@ def saveResults(LABELS_DICTIONARY, stringAnalysis, views, classifierModule, labelsString = "-".join(labelsSet) timestr = time.strftime("%Y_%m_%d-%H_%M_%S") CL_type_string = classifierModule.genName(classificationKWARGS) - outputFileName = directory + "/" + CL_type_string + "/" + timestr + "-Results-" + CL_type_string + "-" + viewsString + '-' + labelsString + \ + outputFileName = directory + "/" + CL_type_string + "/" + timestr + "-results-" + CL_type_string + "-" + viewsString + '-' + labelsString + \ '-learnRate_{0:.2f}'.format(learningRate) + '-' + name if not os.path.exists(os.path.dirname(outputFileName)): try: @@ -113,7 +113,7 @@ def ExecMultiview(directory, DATASET, name, classificationIndices, KFolds, logging.debug("Done:\t Getting train/test split") logging.debug("Start:\t Getting classifiers modules") - classifierPackage = getattr(MultiviewClassifiers, + classifierPackage = getattr(multiview_classifiers, CL_type) # Permet d'appeler un module avec une string classifierModule = getattr(classifierPackage, CL_type + "Module") classifierClass = getattr(classifierModule, CL_type + "Class") @@ -122,16 +122,16 @@ def ExecMultiview(directory, DATASET, name, classificationIndices, KFolds, logging.debug("Start:\t Optimizing hyperparameters") if hyperParamSearch != "None": - classifier = HyperParameterSearch.searchBestSettings(DATASET, labels, - classifierPackage, - CL_type, metrics, - learningIndices, - KFolds, - randomState, - viewsIndices=viewsIndices, - searchingTool=hyperParamSearch, - nIter=nIter, - **classificationKWARGS) + classifier = hyper_parameter_search.searchBestSettings(DATASET, labels, + classifierPackage, + CL_type, metrics, + learningIndices, + KFolds, + randomState, + viewsIndices=viewsIndices, + searchingTool=hyperParamSearch, + nIter=nIter, + **classificationKWARGS) else: classifier = classifierClass(randomState, NB_CORES=nbCores, **classificationKWARGS) @@ -209,10 +209,10 @@ if __name__ == "__main__": default='View0') groupStandard.add_argument('--pathF', metavar='STRING', action='store', help='Path to the views (default: %(default)s)', - default='Results-FeatExtr/') + default='results-FeatExtr/') groupStandard.add_argument('--directory', metavar='STRING', action='store', help='Path to the views (default: %(default)s)', - default='Results-FeatExtr/') + default='results-FeatExtr/') groupStandard.add_argument('--LABELS_DICTIONARY', metavar='STRING', action='store', nargs='+', help='Name of classLabels CSV-file (default: %(default)s)', @@ -233,7 +233,7 @@ if __name__ == "__main__": default='randomizedSearch') groupStandard.add_argument('--metrics', metavar='STRING', action='store', nargs="+", - help='Metrics used in the experimentation, the first will be the one used in CV', + help='metrics used in the experimentation, the first will be the one used in CV', default=['']) groupStandard.add_argument('--nIter', metavar='INT', action='store', help='Number of itetarion in hyper parameter search', diff --git a/multiview_platform/MonoMultiViewClassifiers/Multiview/MultiviewUtils.py b/multiview_platform/mono_multi_view_classifiers/multiview/multiview_utils.py similarity index 87% rename from multiview_platform/MonoMultiViewClassifiers/Multiview/MultiviewUtils.py rename to multiview_platform/mono_multi_view_classifiers/multiview/multiview_utils.py index 1bc415bf0ac4a9fc1b57116944bbc0c7476ae5b3..724900fe3dca82577dfc38c1662da4fcaa7fa2a8 100644 --- a/multiview_platform/MonoMultiViewClassifiers/Multiview/MultiviewUtils.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview/multiview_utils.py @@ -1,4 +1,4 @@ -from .. import MultiviewClassifiers +from .. import multiview_classifiers class MultiviewResult(object): @@ -11,7 +11,7 @@ class MultiviewResult(object): self.y_test_multiclass_pred = test_labels_multiclass def get_classifier_name(self): - multiviewClassifierPackage = getattr(MultiviewClassifiers, + multiviewClassifierPackage = getattr(multiview_classifiers, self.classifier_name) multiviewClassifierModule = getattr(multiviewClassifierPackage, self.classifier_name + "Module") diff --git a/multiview_platform/MonoMultiViewClassifiers/Multiview/profile b/multiview_platform/mono_multi_view_classifiers/multiview/profile similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/Multiview/profile rename to multiview_platform/mono_multi_view_classifiers/multiview/profile diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/__init__.py diff --git a/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/__init__.py new file mode 100644 index 0000000000000000000000000000000000000000..5c0d0a9eb5152a3f5c88ac99fd0fc83b1982873f --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/__init__.py @@ -0,0 +1 @@ +from . import difficulty_fusion, analyze_results \ No newline at end of file diff --git a/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/analyze_results.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/analyze_results.py new file mode 100644 index 0000000000000000000000000000000000000000..7773f1dcec38f4aba808ec6fc8bd8aa806af1230 --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/analyze_results.py @@ -0,0 +1,21 @@ +from ...multiview import analyzeResults + +# Author-Info +__author__ = "Baptiste Bauvin" +__status__ = "Prototype" # Production, Development, Prototype + + +def execute(classifier, trainLabels, + testLabels, DATASET, + classificationKWARGS, classificationIndices, + LABELS_DICTIONARY, views, nbCores, times, + name, KFolds, + hyperParamSearch, nIter, metrics, + viewsIndices, randomState, labels, classifierModule): + return analyzeResults.execute(classifier, trainLabels, + testLabels, DATASET, + classificationKWARGS, classificationIndices, + LABELS_DICTIONARY, views, nbCores, times, + name, KFolds, + hyperParamSearch, nIter, metrics, + viewsIndices, randomState, labels, classifierModule) \ No newline at end of file diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/DifficultyFusionModule.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/difficulty_fusion.py similarity index 89% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/DifficultyFusionModule.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/difficulty_fusion.py index 54a130ab871557da808405f5372042cc1e44a7e3..5d33140d74fcc69a88e8590e7510c3bc20a30b0d 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/DifficultyFusionModule.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/difficulty_fusion/difficulty_fusion.py @@ -1,14 +1,14 @@ import numpy as np -from ...Multiview.Additions import diversity_utils +from ...multiview.Additions import diversity_utils def genName(config): - return "DifficultyFusion" + return "difficulty_fusion" def getBenchmark(benchmark, args=None): - benchmark["Multiview"]["DifficultyFusion"] = ["take_everything"] + benchmark["multiview"]["difficulty_fusion"] = ["take_everything"] return benchmark @@ -35,7 +35,7 @@ def getArgs(args, benchmark, views, viewsIndices, randomState, directory, result return diversity_utils.getArgs(args, benchmark, views, viewsIndices, randomState, directory, resultsMonoview, classificationIndices, - difficulty, "DifficultyFusion") + difficulty, "difficulty_fusion") def genParamsSets(classificationKWARGS, randomState, nIter=1): diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DisagreeFusion/DisagreeFusionModule.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/disagree_fusion/DisagreeFusionModule.py similarity index 90% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DisagreeFusion/DisagreeFusionModule.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/disagree_fusion/DisagreeFusionModule.py index e0a7e84ef938a47efccedc6b6142238a985037bc..4ff796b42e8e710cb6d61a65663e63c6dc333a58 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DisagreeFusion/DisagreeFusionModule.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/disagree_fusion/DisagreeFusionModule.py @@ -1,14 +1,14 @@ import numpy as np -from ...Multiview.Additions import diversity_utils +from ...multiview.Additions import diversity_utils def genName(config): - return "DisagreeFusion" + return "disagree_fusion" def getBenchmark(benchmark, args=None): - benchmark["Multiview"]["DisagreeFusion"] = ["take_everything"] + benchmark["multiview"]["disagree_fusion"] = ["take_everything"] return benchmark @@ -19,7 +19,7 @@ def disagree(classifierDecision1, classifierDecision2, ground_truth): def getArgs(args, benchmark, views, viewsIndices, randomState, directory, resultsMonoview, classificationIndices): return diversity_utils.getArgs(args, benchmark, views, viewsIndices, randomState, directory, resultsMonoview, - classificationIndices, disagree, "DisagreeFusion") + classificationIndices, disagree, "disagree_fusion") def genParamsSets(classificationKWARGS, randomState, nIter=1): diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DisagreeFusion/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/disagree_fusion/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DisagreeFusion/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/disagree_fusion/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/analyzeResults.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/disagree_fusion/analyzeResults.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/analyzeResults.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/disagree_fusion/analyzeResults.py index af44a6fb415aa97cd62c1a52d10dbca3baf3041b..7773f1dcec38f4aba808ec6fc8bd8aa806af1230 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DifficultyFusion/analyzeResults.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/disagree_fusion/analyzeResults.py @@ -1,4 +1,4 @@ -from ...Multiview import analyzeResults +from ...multiview import analyzeResults # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DoubleFaultFusion/DoubleFaultFusionModule.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/double_fault_fusion/DoubleFaultFusionModule.py similarity index 85% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DoubleFaultFusion/DoubleFaultFusionModule.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/double_fault_fusion/DoubleFaultFusionModule.py index 4ed17d2403863473eb176d90f957ae31070b95ba..fceafcf644567a919eaffc5038d70f805edf4b6e 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DoubleFaultFusion/DoubleFaultFusionModule.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/double_fault_fusion/DoubleFaultFusionModule.py @@ -1,14 +1,14 @@ import numpy as np -from ...Multiview.Additions import diversity_utils +from ...multiview.Additions import diversity_utils def genName(config): - return "DoubleFaultFusion" + return "double_fault_fusion" def getBenchmark(benchmark, args=None): - benchmark["Multiview"]["DoubleFaultFusion"] = ["take_everything"] + benchmark["multiview"]["double_fault_fusion"] = ["take_everything"] return benchmark @@ -21,7 +21,7 @@ def getArgs(args, benchmark, views, viewsIndices, randomState, directory, result return diversity_utils.getArgs(args, benchmark, views, viewsIndices, randomState, directory, resultsMonoview, classificationIndices, - doubleFault, "DoubleFaultFusion") + doubleFault, "double_fault_fusion") def genParamsSets(classificationKWARGS, randomState, nIter=1): diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DoubleFaultFusion/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/double_fault_fusion/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DoubleFaultFusion/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/double_fault_fusion/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/EntropyFusion/analyzeResults.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/double_fault_fusion/analyzeResults.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/EntropyFusion/analyzeResults.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/double_fault_fusion/analyzeResults.py index af44a6fb415aa97cd62c1a52d10dbca3baf3041b..7773f1dcec38f4aba808ec6fc8bd8aa806af1230 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/EntropyFusion/analyzeResults.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/double_fault_fusion/analyzeResults.py @@ -1,4 +1,4 @@ -from ...Multiview import analyzeResults +from ...multiview import analyzeResults # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/EntropyFusion/EntropyFusionModule.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/entropy_fusion/EntropyFusionModule.py similarity index 89% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/EntropyFusion/EntropyFusionModule.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/entropy_fusion/EntropyFusionModule.py index 1f5995e57acd804e3eba404340da7e6010b5e79b..3e83eff5c1eac7ad258daae3dbb5b9c7a27373ec 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/EntropyFusion/EntropyFusionModule.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/entropy_fusion/EntropyFusionModule.py @@ -1,14 +1,14 @@ import numpy as np -from ...Multiview.Additions import diversity_utils +from ...multiview.Additions import diversity_utils def genName(config): - return "EntropyFusion" + return "entropy_fusion" def getBenchmark(benchmark, args=None): - benchmark["Multiview"]["EntropyFusion"] = ["take_everything"] + benchmark["multiview"]["entropy_fusion"] = ["take_everything"] return benchmark @@ -30,7 +30,7 @@ def getArgs(args, benchmark, views, viewsIndices, randomState, directory, result return diversity_utils.getArgs(args, benchmark, views, viewsIndices, randomState, directory, resultsMonoview, classificationIndices, - entropy, "EntropyFusion") + entropy, "entropy_fusion") def genParamsSets(classificationKWARGS, randomState, nIter=1): diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/EntropyFusion/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/entropy_fusion/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/EntropyFusion/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/entropy_fusion/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DoubleFaultFusion/analyzeResults.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/entropy_fusion/analyzeResults.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DoubleFaultFusion/analyzeResults.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/entropy_fusion/analyzeResults.py index af44a6fb415aa97cd62c1a52d10dbca3baf3041b..7773f1dcec38f4aba808ec6fc8bd8aa806af1230 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DoubleFaultFusion/analyzeResults.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/entropy_fusion/analyzeResults.py @@ -1,4 +1,4 @@ -from ...Multiview import analyzeResults +from ...multiview import analyzeResults # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatLateFusion/FatLateFusionModule.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_late_fusion/FatLateFusionModule.py similarity index 94% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatLateFusion/FatLateFusionModule.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_late_fusion/FatLateFusionModule.py index 717ca70f13e47b70a03abc7d0f3872ad4de0386a..041b679c0a948c2d5f39b22a1d929168e82e7e84 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatLateFusion/FatLateFusionModule.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_late_fusion/FatLateFusionModule.py @@ -1,14 +1,14 @@ import numpy as np -from ...utils.Multiclass import isBiclass, genMulticlassMonoviewDecision +from ...utils.multiclass import isBiclass, genMulticlassMonoviewDecision def genName(config): - return "FatLateFusion" + return "fat_late_fusion" def getBenchmark(benchmark, args=None): - benchmark["Multiview"]["FatLateFusion"] = ["take_everything"] + benchmark["multiview"]["fat_late_fusion"] = ["take_everything"] return benchmark @@ -23,7 +23,7 @@ def getArgs(args, benchmark, views, viewsIndices, randomState, directory, result weights = [1.0 for _ in range(monoviewDecisions.shape[0])] else: weights = args.FLF_weights - arguments = {"CL_type": "FatLateFusion", + arguments = {"CL_type": "fat_late_fusion", "views": views, "NB_VIEW": len(resultsMonoview), "viewsIndices": range(len(resultsMonoview)), diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatLateFusion/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_late_fusion/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatLateFusion/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_late_fusion/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DisagreeFusion/analyzeResults.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_late_fusion/analyzeResults.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DisagreeFusion/analyzeResults.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_late_fusion/analyzeResults.py index af44a6fb415aa97cd62c1a52d10dbca3baf3041b..7773f1dcec38f4aba808ec6fc8bd8aa806af1230 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/DisagreeFusion/analyzeResults.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_late_fusion/analyzeResults.py @@ -1,4 +1,4 @@ -from ...Multiview import analyzeResults +from ...multiview import analyzeResults # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatSCMLateFusion/FatSCMLateFusionModule.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_scm_late_fusion/FatSCMLateFusionModule.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatSCMLateFusion/FatSCMLateFusionModule.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_scm_late_fusion/FatSCMLateFusionModule.py index fdc0ab700dffd5889ed4217ecbb230d443bab83a..205b360e2dc105bb3438ad4792df386ab3696a6c 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatSCMLateFusion/FatSCMLateFusionModule.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_scm_late_fusion/FatSCMLateFusionModule.py @@ -4,14 +4,14 @@ from sklearn.base import BaseEstimator, ClassifierMixin from sklearn.externals.six import iteritems -from ...utils.Multiclass import isBiclass, genMulticlassMonoviewDecision +from ...utils.multiclass import isBiclass, genMulticlassMonoviewDecision def genName(config): - return "FatSCMLateFusion" + return "fat_scm_late_fusion" def getBenchmark(benchmark, args=None): - benchmark["Multiview"]["FatSCMLateFusion"] = ["take_everything"] + benchmark["multiview"]["fat_scm_late_fusion"] = ["take_everything"] return benchmark @@ -25,7 +25,7 @@ def getArgs(args, benchmark, views, viewsIndices, randomState, directory, result monoviewDecisions = np.array([genMulticlassMonoviewDecision(monoviewResult, classificationIndices) for monoviewResult in resultsMonoview]) monoviewDecisions = np.transpose(monoviewDecisions) #monoviewDecisions = np.transpose(np.array([monoviewResult[1][3] for monoviewResult in resultsMonoview])) - arguments = {"CL_type": "FatSCMLateFusion", + arguments = {"CL_type": "fat_scm_late_fusion", "views": ["all"], "NB_VIEW": len(resultsMonoview), "viewsIndices": range(len(resultsMonoview)), diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatSCMLateFusion/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_scm_late_fusion/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/FatSCMLateFusion/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_scm_late_fusion/__init__.py diff --git a/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_scm_late_fusion/analyzeResults.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_scm_late_fusion/analyzeResults.py new file mode 100644 index 0000000000000000000000000000000000000000..7773f1dcec38f4aba808ec6fc8bd8aa806af1230 --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fat_scm_late_fusion/analyzeResults.py @@ -0,0 +1,21 @@ +from ...multiview import analyzeResults + +# Author-Info +__author__ = "Baptiste Bauvin" +__status__ = "Prototype" # Production, Development, Prototype + + +def execute(classifier, trainLabels, + testLabels, DATASET, + classificationKWARGS, classificationIndices, + LABELS_DICTIONARY, views, nbCores, times, + name, KFolds, + hyperParamSearch, nIter, metrics, + viewsIndices, randomState, labels, classifierModule): + return analyzeResults.execute(classifier, trainLabels, + testLabels, DATASET, + classificationKWARGS, classificationIndices, + LABELS_DICTIONARY, views, nbCores, times, + name, KFolds, + hyperParamSearch, nIter, metrics, + viewsIndices, randomState, labels, classifierModule) \ No newline at end of file diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/FusionModule.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/FusionModule.py similarity index 82% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/FusionModule.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/FusionModule.py index 975403008fa0511787c345759fdd01076062c89f..991a33639963fe2182b42adc2c240ae92ce94e15 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/FusionModule.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/FusionModule.py @@ -10,8 +10,8 @@ try: except ValueError: import pdb;pdb.set_trace() -from ... import MonoviewClassifiers -from ...utils.Dataset import getV +from ... import monoview_classifiers +from ...utils.dataset import getV # Author-Info __author__ = "Baptiste Bauvin" @@ -23,70 +23,70 @@ def genName(config): classifierRedNames = [classifierName[:4] for classifierName in config["classifiersNames"]] return "Late-" + str(config["fusionMethod"][:4])#+"-"+"-".join(classifierRedNames) elif config["fusionType"] == "EarlyFusion": - monoview_short_name = getattr(getattr(MonoviewClassifiers, config["classifiersNames"]), - config["classifiersNames"])().get_name_for_fusion() + monoview_short_name = getattr(getattr(monoview_classifiers, config["classifiersNames"]), + config["classifiersNames"])().get_name_for_fusion() return "Early-" + config["fusionMethod"][:4] + "-" + monoview_short_name def getBenchmark(benchmark, args=None): """Used to generate the list of fusion classifiers for the benchmark""" fusionModulesNames = [name for _, name, isPackage - in pkgutil.iter_modules(['./MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods']) if not isPackage] + in pkgutil.iter_modules(['./mono_multi_view_classifiers/multiview_classifiers/fusion/Methods']) if not isPackage] fusionMethods = dict((fusionModulesName, [name for _, name, isPackage in pkgutil.iter_modules( - ["./MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/" + fusionModulesName + "Package"]) + ["./mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/" + fusionModulesName + "Package"]) if not isPackage]) for fusionModulesName in fusionModulesNames) if args is None: allMonoviewAlgos = [name for _, name, isPackage in - pkgutil.iter_modules(['./MonoMultiViewClassifiers/MonoviewClassifiers']) + pkgutil.iter_modules(['./mono_multi_view_classifiers/monoview_classifiers']) if (not isPackage)] fusionMonoviewClassifiers = allMonoviewAlgos allFusionAlgos = {"Methods": fusionMethods, "Classifiers": fusionMonoviewClassifiers} - benchmark["Multiview"]["Fusion"] = allFusionAlgos + benchmark["multiview"]["fusion"] = allFusionAlgos else: - benchmark["Multiview"]["Fusion"] = {} + benchmark["multiview"]["fusion"] = {} if args.FU_types != [""]: - benchmark["Multiview"]["Fusion"]["Methods"] = dict( + benchmark["multiview"]["fusion"]["Methods"] = dict( (fusionType, []) for fusionType in args.FU_types) else: - benchmark["Multiview"]["Fusion"]["Methods"] = dict( + benchmark["multiview"]["fusion"]["Methods"] = dict( (fusionModulesName, "_") for fusionModulesName in fusionModulesNames) - if "LateFusion" in benchmark["Multiview"]["Fusion"]["Methods"]: + if "LateFusion" in benchmark["multiview"]["fusion"]["Methods"]: if args.FU_late_methods == [""]: - benchmark["Multiview"]["Fusion"]["Methods"]["LateFusion"] = [name for _, name, isPackage in + benchmark["multiview"]["fusion"]["Methods"]["LateFusion"] = [name for _, name, isPackage in pkgutil.iter_modules([ - "./MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage"]) + "./mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage"]) if not isPackage] else: - benchmark["Multiview"]["Fusion"]["Methods"]["LateFusion"] = args.FU_late_methods - if "EarlyFusion" in benchmark["Multiview"]["Fusion"]["Methods"]: + benchmark["multiview"]["fusion"]["Methods"]["LateFusion"] = args.FU_late_methods + if "EarlyFusion" in benchmark["multiview"]["fusion"]["Methods"]: if args.FU_early_methods == [""]: - benchmark["Multiview"]["Fusion"]["Methods"]["EarlyFusion"] = [name for _, name, isPackage in + benchmark["multiview"]["fusion"]["Methods"]["EarlyFusion"] = [name for _, name, isPackage in pkgutil.iter_modules([ - "./MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusionPackage"]) + "./mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusionPackage"]) if not isPackage] else: - benchmark["Multiview"]["Fusion"]["Methods"]["EarlyFusion"] = args.FU_early_methods + benchmark["multiview"]["fusion"]["Methods"]["EarlyFusion"] = args.FU_early_methods if args.CL_algos_monoview == ['']: - benchmark["Multiview"]["Fusion"]["Classifiers"] = [name for _, name, isPackage in - pkgutil.iter_modules(['./MonoMultiViewClassifiers/MonoviewClassifiers']) + benchmark["multiview"]["fusion"]["Classifiers"] = [name for _, name, isPackage in + pkgutil.iter_modules(['./mono_multi_view_classifiers/monoview_classifiers']) if (not isPackage) and (name != "SGD") and ( name[:3] != "SVM") and (name != "SCM")] else: - benchmark["Multiview"]["Fusion"]["Classifiers"] = args.CL_algos_monoview + benchmark["multiview"]["fusion"]["Classifiers"] = args.CL_algos_monoview return benchmark def getArgs(args, benchmark, views, viewsIndices, randomState, directory, resultsMonoview, classificationIndices): """Used to generate the list of arguments for each fusion experimentation""" - if not "Monoview" in benchmark and not args.FU_L_select_monoview in ["randomClf", "Determined"]: + if not "monoview" in benchmark and not args.FU_L_select_monoview in ["randomClf", "Determined"]: args.FU_L_select_monoview = "randomClf" argumentsList = [] - for fusionType in benchmark["Multiview"]["Fusion"]["Methods"]: + for fusionType in benchmark["multiview"]["fusion"]["Methods"]: fusionTypePackage = getattr(Methods, fusionType + "Package") - for fusionMethod in benchmark["Multiview"]["Fusion"]["Methods"][fusionType]: + for fusionMethod in benchmark["multiview"]["fusion"]["Methods"][fusionType]: fusionMethodModule = getattr(fusionTypePackage, fusionMethod) arguments = fusionMethodModule.getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, classificationIndices) @@ -131,7 +131,7 @@ def genParamsSets(classificationKWARGS, randomState, nIter=1): # bestSettings = [] # for classifierIndex, classifierName in enumerate(classifiersNames): # logging.debug("\tStart:\t Random search for " + classifierName + " with " + str(nIter) + " iterations") -# classifierModule = getattr(MonoviewClassifiers, classifierName) +# classifierModule = getattr(monoview_classifiers, classifierName) # classifierMethod = getattr(classifierModule, "hyperParamSearch") # if fusionTypeName == "LateFusion": # bestSettings.append(classifierMethod(getV(DATASET, viewsIndices[classifierIndex], learningIndices), @@ -153,7 +153,7 @@ def genParamsSets(classificationKWARGS, randomState, nIter=1): class FusionClass: - """The global representant of Fusion""" + """The global representant of fusion""" def __init__(self, randomState, NB_CORES=1, **kwargs): fusionType = kwargs['fusionType'] fusionMethod = kwargs['fusionMethod'] diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusion.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusion.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusion.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusion.py index 0199062d8d6b9a6ab31571dea40e773680458f1d..07a63a6f8e6380c6ff463a0359cd73a63625a34b 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusion.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusion.py @@ -2,8 +2,8 @@ # -*- encoding: utf-8 import numpy as np -from ....utils.Dataset import getV -from .... import MonoviewClassifiers +from ....utils.dataset import getV +from .... import monoview_classifiers class EarlyFusionClassifier(object): def __init__(self, randomState, monoviewClassifierName, monoviewClassifierConfig, NB_CORES=1): @@ -16,7 +16,7 @@ class EarlyFusionClassifier(object): monoviewClassifierConfig = dict((str(configIndex), config[0]) for configIndex, config in enumerate(monoviewClassifierConfig )) - monoviewClassifierModule = getattr(MonoviewClassifiers, self.monoviewClassifierName) + monoviewClassifierModule = getattr(monoview_classifiers, self.monoviewClassifierName) if monoviewClassifierConfig is not None: self.monoviewClassifier = getattr(monoviewClassifierModule, self.monoviewClassifierName)( random_state=randomState, **monoviewClassifierConfig) diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusionPackage/WeightedLinear.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusionPackage/WeightedLinear.py similarity index 91% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusionPackage/WeightedLinear.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusionPackage/WeightedLinear.py index c0dd0bfc47b066eae131a96bea30cd5cc3dd77cc..79059d5ca203ccc3a2a5fcc651086431262403cb 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusionPackage/WeightedLinear.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusionPackage/WeightedLinear.py @@ -1,13 +1,13 @@ import numpy as np from ...Methods.EarlyFusion import EarlyFusionClassifier -from ..... import MonoviewClassifiers +from ..... import monoview_classifiers def genParamsSets(classificationKWARGS, randomState, nIter=1): nbView = classificationKWARGS["nbView"] if classificationKWARGS["classifiersConfigs"] is None: - monoviewClassifierModule = getattr(MonoviewClassifiers, classificationKWARGS["classifiersNames"]) + monoviewClassifierModule = getattr(monoview_classifiers, classificationKWARGS["classifiersNames"]) paramsMonoview = monoviewClassifierModule.paramsToSet(nIter, randomState) paramsSets = [] for iterIndex in range(nIter): @@ -22,13 +22,13 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl if args.FU_E_cl_names != ['']: pass else: - monoviewClassifierModulesNames = benchmark["Monoview"] + monoviewClassifierModulesNames = benchmark["monoview"] args.FU_E_cl_names = monoviewClassifierModulesNames args.FU_E_cl_config = [None for _ in monoviewClassifierModulesNames] for classifierName, classifierConfig in zip(args.FU_E_cl_names, args.FU_E_cl_config): - monoviewClassifierModule = getattr(MonoviewClassifiers, classifierName) + monoviewClassifierModule = getattr(monoview_classifiers, classifierName) if classifierConfig is not None: - arguments = {"CL_type": "Fusion", + arguments = {"CL_type": "fusion", "views": views, "NB_VIEW": len(views), "viewsIndices": viewsIndices, @@ -44,7 +44,7 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl 'fusionMethodConfig': args.FU_E_method_configs, "nbView": (len(viewsIndices))}} else: - arguments = {"CL_type": "Fusion", + arguments = {"CL_type": "fusion", "views": views, "NB_VIEW": len(views), "viewsIndices": viewsIndices, @@ -81,7 +81,7 @@ class WeightedLinear(EarlyFusionClassifier): trainIndices = range(DATASET.get("Metadata").attrs["datasetLength"]) self.weights /= float(max(self.weights)) self.makeMonoviewData_hdf5(DATASET, weights=self.weights, usedIndices=trainIndices, viewsIndices=viewsIndices) - # monoviewClassifierModule = getattr(MonoviewClassifiers, self.monoviewClassifierName) + # monoviewClassifierModule = getattr(monoview_classifiers, self.monoviewClassifierName) self.monoviewClassifier.fit(self.monoviewData, labels[trainIndices]) # self.randomState, # NB_CORES=self.nbCores, @@ -112,7 +112,7 @@ class WeightedLinear(EarlyFusionClassifier): def getConfig(self, fusionMethodConfig, monoviewClassifiersNames, monoviewClassifiersConfigs): configString = "with weighted concatenation, using weights : " + ", ".join(map(str, self.weights)) + \ " with monoview classifier : " - # monoviewClassifierModule = getattr(MonoviewClassifiers, monoviewClassifiersNames) + # monoviewClassifierModule = getattr(monoview_classifiers, monoviewClassifiersNames) configString += self.monoviewClassifier.getConfig() return configString diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusionPackage/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusionPackage/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/EarlyFusionPackage/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/EarlyFusionPackage/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusion.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusion.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusion.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusion.py index 90807af20ff9c324ddf157ffeee38635a5ce94eb..8beb6a299404e32d8b1791da34cad45961f87668 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusion.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusion.py @@ -7,9 +7,9 @@ from joblib import Parallel, delayed import sys import math -from .... import MonoviewClassifiers -from .... import Metrics -from ....utils.Dataset import getV +from .... import monoview_classifiers +from .... import metrics +from ....utils.dataset import getV # def canProbasClassifier(classifierConfig): @@ -23,7 +23,7 @@ from ....utils.Dataset import getV def fitMonoviewClassifier(monoviewClassifier, data, labels, needProbas, randomState, nbCores=1): if needProbas and not monoviewClassifier.canProbas(): DTConfig = {"max_depth": 300, "criterion": "entropy", "splitter": "random"} - monoviewClassifier = getattr(MonoviewClassifiers, "DecisionTree")(random_state=randomState, **DTConfig) + monoviewClassifier = getattr(monoview_classifiers, "DecisionTree")(random_state=randomState, **DTConfig) classifier = monoviewClassifier.fit(data, labels) return classifier else: @@ -77,7 +77,7 @@ def bestScore(allClassifersNames, directory, viewsIndices, resultsMonoview, clas scores = np.zeros((nbViews, nbClassifiers)) classifiersNames = [[] for _ in viewsIndices] metricName = resultsMonoview[0].metrics_scores.keys()[0] - metricModule = getattr(Metrics, metricName) + metricModule = getattr(metrics, metricName) if metricModule.getConfig()[-14] == "h": betterHigh = True else: @@ -117,7 +117,7 @@ class LateFusionClassifier(object): def __init__(self, randomState, monoviewClassifiersNames, monoviewClassifiersConfigs, monoviewSelection, NB_CORES=1): self.monoviewClassifiersNames = monoviewClassifiersNames - monoviewClassifiersModules = [getattr(MonoviewClassifiers, classifierName) + monoviewClassifiersModules = [getattr(monoview_classifiers, classifierName) for classifierName in self.monoviewClassifiersNames] if type(monoviewClassifiersConfigs[0]) == dict: self.monoviewClassifiers = [ diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/BayesianInference.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/BayesianInference.py similarity index 91% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/BayesianInference.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/BayesianInference.py index d825f24a9ec951460314292d4d5a9afd6e422d57..2f6d9b723fedf68094fe591b37b638fe81f729f5 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/BayesianInference.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/BayesianInference.py @@ -2,8 +2,8 @@ import numpy as np from sklearn.metrics import accuracy_score import pkgutil -from .....utils.Dataset import getV -from ..... import MonoviewClassifiers +from .....utils.dataset import getV +from ..... import monoview_classifiers from ..LateFusion import LateFusionClassifier, getClassifiers, getConfig @@ -21,14 +21,14 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl if args.FU_L_cl_names != ['']: args.FU_L_select_monoview = "user_defined" else: - monoviewClassifierModulesNames = benchmark["Monoview"] + monoviewClassifierModulesNames = benchmark["monoview"] args.FU_L_cl_names = getClassifiers(args.FU_L_select_monoview, monoviewClassifierModulesNames, directory, viewsIndices, resultsMonoview, classificationIndices) - monoviewClassifierModules = [getattr(MonoviewClassifiers, classifierName) + monoviewClassifierModules = [getattr(monoview_classifiers, classifierName) for classifierName in args.FU_L_cl_names] - if args.FU_L_cl_names == [""] and args.CL_type == ["Multiview"]: - raise AttributeError("You must perform Monoview classification or specify " - "which monoview classifier to use Late Fusion") + if args.FU_L_cl_names == [""] and args.CL_type == ["multiview"]: + raise AttributeError("You must perform monoview classification or specify " + "which monoview classifier to use Late fusion") if args.FU_L_cl_config != ['']: classifiersConfigs = [ monoviewClassifierModule.getKWARGS([arg.split(":") for arg in classifierConfig.split(",")]) @@ -36,7 +36,7 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl in zip(monoviewClassifierModules, args.FU_L_cl_config)] else: classifiersConfigs = getConfig(args.FU_L_cl_names, resultsMonoview, viewsIndices) - arguments = {"CL_type": "Fusion", + arguments = {"CL_type": "fusion", "views": views, "NB_VIEW": len(views), "viewsIndices": viewsIndices, diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/MajorityVoting.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/MajorityVoting.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/MajorityVoting.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/MajorityVoting.py index 34086cc82ff5745b8720c1a6872bac68818dfca3..bef30f9cd687e389745a8b1f117718b84faeb2d4 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/MajorityVoting.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/MajorityVoting.py @@ -2,9 +2,9 @@ import numpy as np # from sklearn.metrics import accuracy_score # import pkgutil -from .....utils.Dataset import getV +from .....utils.dataset import getV from ..LateFusion import LateFusionClassifier, getClassifiers, getConfig -from ..... import MonoviewClassifiers +from ..... import monoview_classifiers def genParamsSets(classificationKWARGS, randomState, nIter=1): @@ -21,14 +21,14 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl if args.FU_L_cl_names != ['']: pass else: - monoviewClassifierModulesNames = benchmark["Monoview"] + monoviewClassifierModulesNames = benchmark["monoview"] args.FU_L_cl_names = getClassifiers(args.FU_L_select_monoview, monoviewClassifierModulesNames, directory, viewsIndices, resultsMonoview, classificationIndices) - monoviewClassifierModules = [getattr(MonoviewClassifiers, classifierName) + monoviewClassifierModules = [getattr(monoview_classifiers, classifierName) for classifierName in args.FU_L_cl_names] - if args.FU_L_cl_names == [""] and args.CL_type == ["Multiview"]: - raise AttributeError("You must perform Monoview classification or specify " - "which monoview classifier to use Late Fusion") + if args.FU_L_cl_names == [""] and args.CL_type == ["multiview"]: + raise AttributeError("You must perform monoview classification or specify " + "which monoview classifier to use Late fusion") if args.FU_L_cl_config != ['']: classifiersConfigs = [ monoviewClassifierModule.getKWARGS([arg.split(":") for arg in classifierConfig.split(",")]) @@ -36,7 +36,7 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl in zip(monoviewClassifierModules, args.FU_L_cl_config)] else: classifiersConfigs = getConfig(args.FU_L_cl_names, resultsMonoview, viewsIndices) - arguments = {"CL_type": "Fusion", + arguments = {"CL_type": "fusion", "views": views, "NB_VIEW": len(views), "viewsIndices": viewsIndices, diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/SCMForLinear.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/SCMForLinear.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/SCMForLinear.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/SCMForLinear.py index 705c6a8feb89c4d57104deeb34128d6893156646..c5e7b9acab1504a506751722ebfbd13aa8637a9f 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/SCMForLinear.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/SCMForLinear.py @@ -8,8 +8,8 @@ from sklearn.metrics import accuracy_score import itertools from ..LateFusion import LateFusionClassifier, getClassifiers, getConfig -from ..... import MonoviewClassifiers -from .....utils.Dataset import getV +from ..... import monoview_classifiers +from .....utils.dataset import getV class DecisionStumpSCMNew(BaseEstimator, ClassifierMixin): @@ -59,14 +59,14 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl if args.FU_L_cl_names != ['']: pass else: - monoviewClassifierModulesNames = benchmark["Monoview"] + monoviewClassifierModulesNames = benchmark["monoview"] args.FU_L_cl_names = getClassifiers(args.FU_L_select_monoview, monoviewClassifierModulesNames, directory, viewsIndices, resultsMonoview, classificationIndices) - monoviewClassifierModules = [getattr(MonoviewClassifiers, classifierName) + monoviewClassifierModules = [getattr(monoview_classifiers, classifierName) for classifierName in args.FU_L_cl_names] - if args.FU_L_cl_names == [""] and args.CL_type == ["Multiview"]: - raise AttributeError("You must perform Monoview classification or specify " - "which monoview classifier to use Late Fusion") + if args.FU_L_cl_names == [""] and args.CL_type == ["multiview"]: + raise AttributeError("You must perform monoview classification or specify " + "which monoview classifier to use Late fusion") if args.FU_L_cl_config != ['']: classifiersConfigs = [ monoviewClassifierModule.getKWARGS([arg.split(":") for arg in classifierConfig.split(",")]) @@ -74,7 +74,7 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl in zip(monoviewClassifierModules, args.FU_L_cl_config)] else: classifiersConfigs = getConfig(args.FU_L_cl_names, resultsMonoview, viewsIndices) - arguments = {"CL_type": "Fusion", + arguments = {"CL_type": "fusion", "views": views, "NB_VIEW": len(views), "viewsIndices": viewsIndices, diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/SVMForLinear.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/SVMForLinear.py similarity index 92% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/SVMForLinear.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/SVMForLinear.py index 260cef5790d659a58707346ba11be92fae363738..8b4c984039282d8aa49e91a6328663f0a48768e8 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/SVMForLinear.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/SVMForLinear.py @@ -4,8 +4,8 @@ from sklearn.svm import SVC import pkgutil from ..LateFusion import LateFusionClassifier, getClassifiers, getConfig -from .....utils.Dataset import getV -from ..... import MonoviewClassifiers +from .....utils.dataset import getV +from ..... import monoview_classifiers def genParamsSets(classificationKWARGS, randomState, nIter=1): @@ -19,14 +19,14 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl if args.FU_L_cl_names != ['']: pass else: - monoviewClassifierModulesNames = benchmark["Monoview"] + monoviewClassifierModulesNames = benchmark["monoview"] args.FU_L_cl_names = getClassifiers(args.FU_L_select_monoview, monoviewClassifierModulesNames, directory, viewsIndices, resultsMonoview, classificationIndices) - monoviewClassifierModules = [getattr(MonoviewClassifiers, classifierName) + monoviewClassifierModules = [getattr(monoview_classifiers, classifierName) for classifierName in args.FU_L_cl_names] - if args.FU_L_cl_names == [""] and args.CL_type == ["Multiview"]: - raise AttributeError("You must perform Monoview classification or specify " - "which monoview classifier to use Late Fusion") + if args.FU_L_cl_names == [""] and args.CL_type == ["multiview"]: + raise AttributeError("You must perform monoview classification or specify " + "which monoview classifier to use Late fusion") if args.FU_L_cl_config != ['']: classifiersConfigs = [ monoviewClassifierModule.getKWARGS([arg.split(":") for arg in classifierConfig.split(",")]) @@ -34,7 +34,7 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl in zip(monoviewClassifierModules, args.FU_L_cl_config)] else: classifiersConfigs = getConfig(args.FU_L_cl_names, resultsMonoview, viewsIndices) - arguments = {"CL_type": "Fusion", + arguments = {"CL_type": "fusion", "views": views, "NB_VIEW": len(views), "viewsIndices": viewsIndices, diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/WeightedLinear.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/WeightedLinear.py similarity index 91% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/WeightedLinear.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/WeightedLinear.py index ad5b2fadd46d73a6cda3d4462e38bf4a603ad0c9..d7d9f418bdaeccf190e9534e2ea407b71fdc1eef 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/WeightedLinear.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/WeightedLinear.py @@ -2,9 +2,9 @@ import numpy as np from sklearn.metrics import accuracy_score import pkgutil -from ..... import MonoviewClassifiers +from ..... import monoview_classifiers from ..LateFusion import LateFusionClassifier, getClassifiers, getConfig -from .....utils.Dataset import getV +from .....utils.dataset import getV def genParamsSets(classificationKWARGS, randomState, nIter=1): @@ -21,14 +21,14 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl if args.FU_L_cl_names != ['']: pass else: - monoviewClassifierModulesNames = benchmark["Monoview"] + monoviewClassifierModulesNames = benchmark["monoview"] args.FU_L_cl_names = getClassifiers(args.FU_L_select_monoview, monoviewClassifierModulesNames, directory, viewsIndices, resultsMonoview, classificationIndices) - monoviewClassifierModules = [getattr(MonoviewClassifiers, classifierName) + monoviewClassifierModules = [getattr(monoview_classifiers, classifierName) for classifierName in args.FU_L_cl_names] - if args.FU_L_cl_names == [""] and args.CL_type == ["Multiview"]: - raise AttributeError("You must perform Monoview classification or specify " - "which monoview classifier to use Late Fusion") + if args.FU_L_cl_names == [""] and args.CL_type == ["multiview"]: + raise AttributeError("You must perform monoview classification or specify " + "which monoview classifier to use Late fusion") if args.FU_L_cl_config != ['']: classifiersConfigs = [ monoviewClassifierModule.getKWARGS([arg.split(":") for arg in classifierConfig.split(",")]) @@ -36,7 +36,7 @@ def getArgs(benchmark, args, views, viewsIndices, directory, resultsMonoview, cl in zip(monoviewClassifierModules, args.FU_L_cl_config)] else: classifiersConfigs = getConfig(args.FU_L_cl_names, resultsMonoview, viewsIndices) - arguments = {"CL_type": "Fusion", + arguments = {"CL_type": "fusion", "views": views, "NB_VIEW": len(views), "viewsIndices": viewsIndices, diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/LateFusionPackage/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/LateFusionPackage/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/Methods/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/Methods/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/__init__.py diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/analyzeResults.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/analyzeResults.py similarity index 95% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/analyzeResults.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/analyzeResults.py index 0348bdd827c715e998644c83cabc9cbe6f319f41..d7ba82d2382483982fc174401ae6d9f51e19f301 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/Fusion/analyzeResults.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/fusion/analyzeResults.py @@ -1,4 +1,4 @@ -from ...Multiview import analyzeResults +from ...multiview import analyzeResults # Author-Info __author__ = "Baptiste Bauvin" diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/PseudoCQFusion/PseudoCQFusionModule.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/pseudo_cq_fusion/PseudoCQFusionModule.py similarity index 75% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/PseudoCQFusion/PseudoCQFusionModule.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/pseudo_cq_fusion/PseudoCQFusionModule.py index 05b1bb381abf0486ba2b8aaf3321343230e48d63..fa26a47e736cdcace540f1befbc7358a875ad0e3 100644 --- a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/PseudoCQFusion/PseudoCQFusionModule.py +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/pseudo_cq_fusion/PseudoCQFusionModule.py @@ -1,14 +1,14 @@ -from ...Multiview.Additions import diversity_utils -from ..DifficultyFusion.DifficultyFusionModule import difficulty -from ..DoubleFaultFusion.DoubleFaultFusionModule import doubleFault +from ...multiview.Additions import diversity_utils +from ..difficulty_fusion.difficulty_fusion import difficulty +from ..double_fault_fusion.DoubleFaultFusionModule import doubleFault def genName(config): - return "PseudoCQFusion" + return "pseudo_cq_fusion" def getBenchmark(benchmark, args=None): - benchmark["Multiview"]["PseudoCQFusion"] = ["take_everything"] + benchmark["multiview"]["pseudo_cq_fusion"] = ["take_everything"] return benchmark @@ -20,7 +20,7 @@ def getArgs(args, benchmark, views, viewsIndices, randomState, directory, result return diversity_utils.getArgs(args, benchmark, views, viewsIndices, randomState, directory, resultsMonoview, classificationIndices, - [doubleFault, difficulty], "PseudoCQFusion") + [doubleFault, difficulty], "pseudo_cq_fusion") def genParamsSets(classificationKWARGS, randomState, nIter=1): diff --git a/multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/PseudoCQFusion/__init__.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/pseudo_cq_fusion/__init__.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/MultiviewClassifiers/PseudoCQFusion/__init__.py rename to multiview_platform/mono_multi_view_classifiers/multiview_classifiers/pseudo_cq_fusion/__init__.py diff --git a/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/pseudo_cq_fusion/analyzeResults.py b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/pseudo_cq_fusion/analyzeResults.py new file mode 100644 index 0000000000000000000000000000000000000000..7773f1dcec38f4aba808ec6fc8bd8aa806af1230 --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/multiview_classifiers/pseudo_cq_fusion/analyzeResults.py @@ -0,0 +1,21 @@ +from ...multiview import analyzeResults + +# Author-Info +__author__ = "Baptiste Bauvin" +__status__ = "Prototype" # Production, Development, Prototype + + +def execute(classifier, trainLabels, + testLabels, DATASET, + classificationKWARGS, classificationIndices, + LABELS_DICTIONARY, views, nbCores, times, + name, KFolds, + hyperParamSearch, nIter, metrics, + viewsIndices, randomState, labels, classifierModule): + return analyzeResults.execute(classifier, trainLabels, + testLabels, DATASET, + classificationKWARGS, classificationIndices, + LABELS_DICTIONARY, views, nbCores, times, + name, KFolds, + hyperParamSearch, nIter, metrics, + viewsIndices, randomState, labels, classifierModule) \ No newline at end of file diff --git a/multiview_platform/MonoMultiViewClassifiers/ResultAnalysis.py b/multiview_platform/mono_multi_view_classifiers/result_analysis.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/ResultAnalysis.py rename to multiview_platform/mono_multi_view_classifiers/result_analysis.py index df79a60e94154361c95bfb8ab09841ca02fe98bc..59ed1d8ed9e3583aef28fc0541fafef296a8982b 100644 --- a/multiview_platform/MonoMultiViewClassifiers/ResultAnalysis.py +++ b/multiview_platform/mono_multi_view_classifiers/result_analysis.py @@ -12,7 +12,7 @@ import numpy as np import pandas as pd # Import own Modules -from . import Metrics +from . import metrics # Author-Info __author__ = "Baptiste Bauvin" @@ -615,7 +615,7 @@ def genMetricsScoresMulticlass(results, trueLabels, metrics, logging.debug("Start:\t Getting multiclass scores for each metric") for metric in metrics: - metricModule = getattr(Metrics, metric[0]) + metricModule = getattr(metrics, metric[0]) for iterIndex, iterResults in enumerate(results): for argumentsDictionary in argumentsDictionaries: diff --git a/multiview_platform/mono_multi_view_classifiers/utils/__init__.py b/multiview_platform/mono_multi_view_classifiers/utils/__init__.py new file mode 100644 index 0000000000000000000000000000000000000000..e0473b520b385389e967e567261bdb95a360aa37 --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/utils/__init__.py @@ -0,0 +1 @@ +from . import dataset, execution, hyper_parameter_search, transformations diff --git a/multiview_platform/MonoMultiViewClassifiers/utils/Dataset.py b/multiview_platform/mono_multi_view_classifiers/utils/dataset.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/utils/Dataset.py rename to multiview_platform/mono_multi_view_classifiers/utils/dataset.py index 71ff205b3cd176ef6256da9910db007344cc13d9..6a19674c653148ab554121ba41f8f31c66cf9904 100644 --- a/multiview_platform/MonoMultiViewClassifiers/utils/Dataset.py +++ b/multiview_platform/mono_multi_view_classifiers/utils/dataset.py @@ -7,7 +7,7 @@ import h5py import numpy as np from scipy import sparse -from . import GetMultiviewDb as DB +from . import get_multiview_db as DB def getV(DATASET, viewIndex, usedIndices=None): diff --git a/multiview_platform/MonoMultiViewClassifiers/utils/execution.py b/multiview_platform/mono_multi_view_classifiers/utils/execution.py similarity index 98% rename from multiview_platform/MonoMultiViewClassifiers/utils/execution.py rename to multiview_platform/mono_multi_view_classifiers/utils/execution.py index dc8507bbc4f305c693d4bd213811aa9058927002..2bd4770024c7fdd955de927d5623c5046fb0860b 100644 --- a/multiview_platform/MonoMultiViewClassifiers/utils/execution.py +++ b/multiview_platform/mono_multi_view_classifiers/utils/execution.py @@ -7,7 +7,7 @@ import time import numpy as np import sklearn -from . import GetMultiviewDb as DB +from . import get_multiview_db as DB def parseTheArgs(arguments): @@ -70,7 +70,7 @@ def parseTheArgs(arguments): type=float, default=[0.0]) groupStandard.add_argument('--res_dir', metavar='STRING', action='store', help='The path to the result directory', - default="../Results/") + default="../results/") groupClass = parser.add_argument_group('Classification arguments') groupClass.add_argument('--CL_multiclassMethod', metavar='STRING', @@ -97,9 +97,9 @@ def parseTheArgs(arguments): 'selected', default=["yes", "no"]) groupClass.add_argument('--CL_type', metavar='STRING', action='store', nargs="+", - help='Determine whether to use Multiview and/or ' - 'Monoview, or Benchmark classification', - default=['Monoview', 'Multiview']) + help='Determine whether to use multiview and/or ' + 'monoview, or Benchmark classification', + default=['monoview', 'multiview']) groupClass.add_argument('--CL_algos_monoview', metavar='STRING', action='store', nargs="+", help='Determine which monoview classifier to use ' @@ -589,7 +589,7 @@ def parseTheArgs(arguments): default=[1e-08]) # -# Multiview args +# multiview args # groupMumbo = parser.add_argument_group('Mumbo arguments') @@ -609,12 +609,12 @@ def parseTheArgs(arguments): help='Try all the monoview classifiers combinations for each view', default=False) - groupFusion = parser.add_argument_group('Fusion arguments') + groupFusion = parser.add_argument_group('fusion arguments') groupFusion.add_argument('--FU_types', metavar='STRING', action='store', nargs="+", help='Determine which type of fusion to use', default=['']) - groupEarlyFusion = parser.add_argument_group('Early Fusion arguments') + groupEarlyFusion = parser.add_argument_group('Early fusion arguments') groupEarlyFusion.add_argument('--FU_early_methods', metavar='STRING', action='store', nargs="+", help='Determine which early fusion method of fusion to use', @@ -634,7 +634,7 @@ def parseTheArgs(arguments): help='Name of the classifiers used for each early fusion method', default=['']) - groupLateFusion = parser.add_argument_group('Late Fusion arguments') + groupLateFusion = parser.add_argument_group('Late fusion arguments') groupLateFusion.add_argument('--FU_late_methods', metavar='STRING', action='store', nargs="+", help='Determine which late fusion method of fusion to use', @@ -656,7 +656,7 @@ def parseTheArgs(arguments): help='Determine which method to use to select the monoview classifiers', default="intersect") - groupFatLateFusion = parser.add_argument_group('Fat Late Fusion arguments') + groupFatLateFusion = parser.add_argument_group('Fat Late fusion arguments') groupFatLateFusion.add_argument('--FLF_weights', metavar='FLOAT', action='store', nargs="+", help='Determine the weights of each monoview decision for FLF', @@ -664,7 +664,7 @@ def parseTheArgs(arguments): default=[]) groupFatSCMLateFusion = parser.add_argument_group( - 'Fat SCM Late Fusion arguments') + 'Fat SCM Late fusion arguments') groupFatSCMLateFusion.add_argument('--FSCMLF_p', metavar='FLOAT', action='store', help='Determine the p argument of the SCM', @@ -1005,7 +1005,7 @@ def genArgumentDictionaries(labelsDictionary, directories, multiclassLabels, statsIterRandomStates : list of numpy.random.RandomState objects Multiple random states, one for each sattistical iteration of the same benchmark. metrics : list of lists - Metrics that will be used to evaluate the algorithms performance. + metrics that will be used to evaluate the algorithms performance. argumentDictionaries : dictionary Dictionary resuming all the specific arguments for the benchmark, oe dictionary for each classifier. benchmark : dictionary diff --git a/multiview_platform/MonoMultiViewClassifiers/utils/GetMultiviewDb.py b/multiview_platform/mono_multi_view_classifiers/utils/get_multiview_db.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/utils/GetMultiviewDb.py rename to multiview_platform/mono_multi_view_classifiers/utils/get_multiview_db.py diff --git a/multiview_platform/MonoMultiViewClassifiers/utils/HyperParameterSearch.py b/multiview_platform/mono_multi_view_classifiers/utils/hyper_parameter_search.py similarity index 99% rename from multiview_platform/MonoMultiViewClassifiers/utils/HyperParameterSearch.py rename to multiview_platform/mono_multi_view_classifiers/utils/hyper_parameter_search.py index 08b23063f2e1e58a9b536c371b56dc73698e7353..7124c2654125c1b454f5a0ecec05a0277533f833 100644 --- a/multiview_platform/MonoMultiViewClassifiers/utils/HyperParameterSearch.py +++ b/multiview_platform/mono_multi_view_classifiers/utils/hyper_parameter_search.py @@ -4,7 +4,7 @@ import sys import matplotlib.pyplot as plt import numpy as np -from .. import Metrics +from .. import metrics def searchBestSettings(dataset, labels, classifierPackage, classifierName, @@ -39,7 +39,7 @@ def randomizedSearch(dataset, labels, classifierPackage, classifierName, if viewsIndices is None: viewsIndices = range(dataset.get("Metadata").attrs["nbView"]) metric = metrics[0] - metricModule = getattr(Metrics, metric[0]) + metricModule = getattr(metrics, metric[0]) if metric[1] is not None: metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metric[1])) diff --git a/multiview_platform/mono_multi_view_classifiers/utils/make_file_config.py b/multiview_platform/mono_multi_view_classifiers/utils/make_file_config.py new file mode 100644 index 0000000000000000000000000000000000000000..de258fddc484f7524ff388a5c3318e44be176a9f --- /dev/null +++ b/multiview_platform/mono_multi_view_classifiers/utils/make_file_config.py @@ -0,0 +1,91 @@ +import os, sys, inspect +from MonoviewClassifiers.Adaboost import Adaboost + + + +class ConfigurationMaker(): + """ + + """ + + def __init__(self): + classifier_dict = {"0": [Adaboost, + multiview_platform.MonoMultiViewClassifiers.MonoviewClassifiers.Adaboost]} + for key, val in classifier_dict.items(): + + __import__(val[1], locals(), globals(), [], 1) + sig = inspect.signature(val[1]+"."+val[0]+".__init__") + print(sig) + for arg_idx, name in enumerate(sig.parameters): + print(arg_idx) + print(name) + + +def make(dir='.', output=None): + """ + Generate file config from classifier files + :param dir: (default'.' + :dir type: str or list of str + :return: + """ + + currentdir = os.path.dirname(os.path.abspath(inspect.getfile(inspect.currentframe()))) + parentdir = os.path.dirname(currentdir) + sys.path.insert(0, parentdir) + + import mymodule + calling_module = inspect.getmodule(stack_frame[0]) + + + + +import os + +path = os.getcwd() + '/multiview_platform/' +files = [] +# r=root, d=directories, f = files +for r, d, f in os.walk(path): + print('dir', d) + print('root', r) + for file in f: + if '.py' in file and not file.startswith('__init__'): + print("file", file) + files.append(os.path.join(r, file)) + +for f in files: + print(f) + +for module in os.listdir(os.path.dirname(os.path.realpath(__file__))): + if module == '__init__.py' or module[-3:] != '.py': + continue + __import__(module[:-3], locals(), globals(), [], 1) + +import glob + +path = 'c:\\projects\\hc2\\' + +files = [f for f in glob.glob(path + "**/*.txt", recursive=True)] + +for f in files: + print(f) + +import inspect + + +# Import this to other module and call it +def print_caller_info(): + # Get the full stack + stack = inspect.stack() + + # Get one level up from current + previous_stack_frame = stack[1] + print(previous_stack_frame.filename) # Filename where caller lives + + # Get the module object of the caller + calling_module = inspect.getmodule(stack_frame[0]) + print(calling_module) + print(calling_module.__file__) + + +if __name__ == '__main__': + print_caller_info() \ No newline at end of file diff --git a/multiview_platform/MonoMultiViewClassifiers/utils/Multiclass.py b/multiview_platform/mono_multi_view_classifiers/utils/multiclass.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/utils/Multiclass.py rename to multiview_platform/mono_multi_view_classifiers/utils/multiclass.py diff --git a/multiview_platform/MonoMultiViewClassifiers/utils/MultiviewResultAnalysis.py b/multiview_platform/mono_multi_view_classifiers/utils/multiview_result_analysis.py similarity index 94% rename from multiview_platform/MonoMultiViewClassifiers/utils/MultiviewResultAnalysis.py rename to multiview_platform/mono_multi_view_classifiers/utils/multiview_result_analysis.py index 1e8ec1c69dd311ce5b63fd7e8751a21a884f9c93..5036232294ec6abac6551bd34356f2a8de16fe0c 100644 --- a/multiview_platform/MonoMultiViewClassifiers/utils/MultiviewResultAnalysis.py +++ b/multiview_platform/mono_multi_view_classifiers/utils/multiview_result_analysis.py @@ -1,4 +1,4 @@ -from .. import Metrics +from .. import metrics # Author-Info __author__ = "Baptiste Bauvin" @@ -8,7 +8,7 @@ __status__ = "Prototype" # Production, Development, Prototype def printMetricScore(metricScores, metrics): metricScoreString = "\n\n" for metric in metrics: - metricModule = getattr(Metrics, metric[0]) + metricModule = getattr(metrics, metric[0]) if metric[1] is not None: metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metric[1])) @@ -26,7 +26,7 @@ def printMetricScore(metricScores, metrics): def getTotalMetricScores(metric, trainLabels, testLabels, validationIndices, learningIndices, labels): - metricModule = getattr(Metrics, metric[0]) + metricModule = getattr(metrics, metric[0]) if metric[1] is not None: metricKWARGS = dict((index, metricConfig) for index, metricConfig in enumerate(metric[1])) diff --git a/multiview_platform/MonoMultiViewClassifiers/utils/Transformations.py b/multiview_platform/mono_multi_view_classifiers/utils/transformations.py similarity index 100% rename from multiview_platform/MonoMultiViewClassifiers/utils/Transformations.py rename to multiview_platform/mono_multi_view_classifiers/utils/transformations.py diff --git a/multiview_platform/Tests.py b/multiview_platform/tests.py similarity index 71% rename from multiview_platform/Tests.py rename to multiview_platform/tests.py index 25b01535d1b28e7acc5dcb78f096e02a60891fa0..90705cc440aca892f3a8bd98aad809352f1c58aa 100644 --- a/multiview_platform/Tests.py +++ b/multiview_platform/tests.py @@ -1,6 +1,6 @@ # if __name__=="__main__": # import unittest -# from .Tests.test_ExecClassif import suite +# from .tests.test_ExecClassif import suite # # runner = unittest.TextTestRunner() # runner.run(suite()) diff --git a/multiview_platform/Tests/Test_Metrics/__init__.py b/multiview_platform/tests/Test_Metrics/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_Metrics/__init__.py rename to multiview_platform/tests/Test_Metrics/__init__.py diff --git a/multiview_platform/Tests/Test_Metrics/test_accuracy_score.py b/multiview_platform/tests/Test_Metrics/test_accuracy_score.py similarity index 100% rename from multiview_platform/Tests/Test_Metrics/test_accuracy_score.py rename to multiview_platform/tests/Test_Metrics/test_accuracy_score.py diff --git a/multiview_platform/Tests/Test_MonoView/__init__.py b/multiview_platform/tests/Test_MonoView/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MonoView/__init__.py rename to multiview_platform/tests/Test_MonoView/__init__.py diff --git a/multiview_platform/Tests/Test_MonoView/test_ExecClassifMonoView.py b/multiview_platform/tests/Test_MonoView/test_ExecClassifMonoView.py similarity index 80% rename from multiview_platform/Tests/Test_MonoView/test_ExecClassifMonoView.py rename to multiview_platform/tests/Test_MonoView/test_ExecClassifMonoView.py index c1ddf2e5ff998fdd73c39a1539752333da6c0d76..9f380ca9b73695a4bdb414e7103f112ac6211573 100644 --- a/multiview_platform/Tests/Test_MonoView/test_ExecClassifMonoView.py +++ b/multiview_platform/tests/Test_MonoView/test_ExecClassifMonoView.py @@ -4,16 +4,16 @@ import unittest import h5py import numpy as np -from ...MonoMultiViewClassifiers.Monoview import ExecClassifMonoView +from ...mono_multi_view_classifiers.monoview import exec_classif_mono_view class Test_initConstants(unittest.TestCase): @classmethod def setUpClass(cls): - os.mkdir("multiview_platform/Tests/temp_tests") + os.mkdir("multiview_platform/tests/temp_tests") cls.datasetFile = h5py.File( - "multiview_platform/Tests/temp_tests/test.hdf5", "w") + "multiview_platform/tests/temp_tests/test.hdf5", "w") cls.random_state = np.random.RandomState(42) cls.args = {"CL_type": "test_clf"} cls.X_value = cls.random_state.randint(0, 500, (10, 20)) @@ -25,7 +25,7 @@ class Test_initConstants(unittest.TestCase): np.array([1, 3, 5, 7, 9])] cls.labelsNames = ["test_true", "test_false"] cls.name = "test" - cls.directory = "multiview_platform/Tests/temp_tests/test_dir/" + cls.directory = "multiview_platform/tests/temp_tests/test_dir/" def test_simple(cls): kwargs, \ @@ -35,28 +35,28 @@ class Test_initConstants(unittest.TestCase): X, \ learningRate, \ labelsString, \ - outputFileName = ExecClassifMonoView.initConstants(cls.args, - cls.X, - cls.classificationIndices, - cls.labelsNames, - cls.name, - cls.directory) + outputFileName = exec_classif_mono_view.initConstants(cls.args, + cls.X, + cls.classificationIndices, + cls.labelsNames, + cls.name, + cls.directory) cls.assertEqual(kwargs, cls.args) cls.assertEqual(feat, "test_dataset") cls.assertEqual(CL_type, "test_clf") np.testing.assert_array_equal(X, cls.X_value) cls.assertEqual(learningRate, 0.5) cls.assertEqual(labelsString, "test_true-test_false") - # cls.assertEqual(outputFileName, "Code/Tests/temp_tests/test_dir/test_clf/test_dataset/Results-test_clf-test_true-test_false-learnRate0.5-test-test_dataset-") + # cls.assertEqual(outputFileName, "Code/tests/temp_tests/test_dir/test_clf/test_dataset/results-test_clf-test_true-test_false-learnRate0.5-test-test_dataset-") @classmethod def tearDownClass(cls): - os.remove("multiview_platform/Tests/temp_tests/test.hdf5") + os.remove("multiview_platform/tests/temp_tests/test.hdf5") os.rmdir( - "multiview_platform/Tests/temp_tests/test_dir/test_clf/test_dataset") - os.rmdir("multiview_platform/Tests/temp_tests/test_dir/test_clf") - os.rmdir("multiview_platform/Tests/temp_tests/test_dir") - os.rmdir("multiview_platform/Tests/temp_tests") + "multiview_platform/tests/temp_tests/test_dir/test_clf/test_dataset") + os.rmdir("multiview_platform/tests/temp_tests/test_dir/test_clf") + os.rmdir("multiview_platform/tests/temp_tests/test_dir") + os.rmdir("multiview_platform/tests/temp_tests") class Test_initTrainTest(unittest.TestCase): @@ -71,7 +71,7 @@ class Test_initTrainTest(unittest.TestCase): np.array([1, 3, 5, 7, 9])] def test_simple(cls): - X_train, y_train, X_test, y_test, X_test_multiclass = ExecClassifMonoView.initTrainTest( + X_train, y_train, X_test, y_test, X_test_multiclass = exec_classif_mono_view.initTrainTest( cls.X, cls.Y, cls.classificationIndices) np.testing.assert_array_equal(X_train, np.array( [np.array([102, 435, 348, 270, 106]), diff --git a/multiview_platform/Tests/Test_MonoView/test_MonoviewUtils.py b/multiview_platform/tests/Test_MonoView/test_MonoviewUtils.py similarity index 70% rename from multiview_platform/Tests/Test_MonoView/test_MonoviewUtils.py rename to multiview_platform/tests/Test_MonoView/test_MonoviewUtils.py index d68b1c202ec3e74c044030596e6fe3d49cbb430d..da1136c66cd8c639a9c4155a261b7426384a06e2 100644 --- a/multiview_platform/Tests/Test_MonoView/test_MonoviewUtils.py +++ b/multiview_platform/tests/Test_MonoView/test_MonoviewUtils.py @@ -4,7 +4,7 @@ import numpy as np from sklearn.model_selection import StratifiedKFold from sklearn.tree.tree import DecisionTreeClassifier -from ...MonoMultiViewClassifiers.Monoview import MonoviewUtils +from ...mono_multi_view_classifiers.monoview import monoview_utils class Test_genTestFoldsPreds(unittest.TestCase): @@ -23,10 +23,10 @@ class Test_genTestFoldsPreds(unittest.TestCase): # print(cls.y_train) def test_simple(cls): - testFoldsPreds = MonoviewUtils.genTestFoldsPreds(cls.X_train, - cls.y_train, - cls.KFolds, - cls.estimator) + testFoldsPreds = monoview_utils.genTestFoldsPreds(cls.X_train, + cls.y_train, + cls.KFolds, + cls.estimator) cls.assertEqual(testFoldsPreds.shape, (3, 10)) np.testing.assert_array_equal(testFoldsPreds[0], np.array( [1, 1, -1, -1, 1, 1, -1, 1, -1, 1])) diff --git a/multiview_platform/Tests/Test_MonoviewClassifiers/__init__.py b/multiview_platform/tests/Test_MonoviewClassifiers/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MonoviewClassifiers/__init__.py rename to multiview_platform/tests/Test_MonoviewClassifiers/__init__.py diff --git a/multiview_platform/Tests/Test_MonoviewClassifiers/test_Adaboost.py b/multiview_platform/tests/Test_MonoviewClassifiers/test_Adaboost.py similarity index 97% rename from multiview_platform/Tests/Test_MonoviewClassifiers/test_Adaboost.py rename to multiview_platform/tests/Test_MonoviewClassifiers/test_Adaboost.py index 77cc09ab3917539aebeeca97ebdf9d34352bd43d..94f5f835d05d4292a57998d9a3175d0afe6fec89 100644 --- a/multiview_platform/Tests/Test_MonoviewClassifiers/test_Adaboost.py +++ b/multiview_platform/tests/Test_MonoviewClassifiers/test_Adaboost.py @@ -2,7 +2,7 @@ # import numpy as np # from sklearn.tree import DecisionTreeClassifier # -# from ...MonoMultiViewClassifiers.MonoviewClassifiers import Adaboost +# from ...mono_multi_view_classifiers.monoview_classifiers import Adaboost # # # class Test_canProbas(unittest.TestCase): diff --git a/multiview_platform/Tests/Test_MonoviewClassifiers/test_compatibility.py b/multiview_platform/tests/Test_MonoviewClassifiers/test_compatibility.py similarity index 82% rename from multiview_platform/Tests/Test_MonoviewClassifiers/test_compatibility.py rename to multiview_platform/tests/Test_MonoviewClassifiers/test_compatibility.py index d5474eb5d5c2845fcb0991f05e3b15d3e3495a3d..d2e84d2da0deba4aa660c6e388430b7dd155b37b 100644 --- a/multiview_platform/Tests/Test_MonoviewClassifiers/test_compatibility.py +++ b/multiview_platform/tests/Test_MonoviewClassifiers/test_compatibility.py @@ -3,16 +3,16 @@ import unittest import numpy as np -from ...MonoMultiViewClassifiers import MonoviewClassifiers +from ...mono_multi_view_classifiers import monoview_classifiers class Test_methods(unittest.TestCase): def test_simple(self): for fileName in os.listdir( - "multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers"): + "multiview_platform/mono_multi_view_classifiers/monoview_classifiers"): if fileName[-3:] == ".py" and fileName != "__init__.py": - monoview_classifier_module = getattr(MonoviewClassifiers, + monoview_classifier_module = getattr(monoview_classifiers, fileName[:-3]) self.assertIn("formatCmdArgs", dir(monoview_classifier_module), fileName[ @@ -52,9 +52,9 @@ class Test_canProbas(unittest.TestCase): def test_outputs(self): for fileName in os.listdir( - "multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers"): + "multiview_platform/mono_multi_view_classifiers/monoview_classifiers"): if fileName[-3:] == ".py" and fileName != "__init__.py": - monoview_classifier_module = getattr(MonoviewClassifiers, + monoview_classifier_module = getattr(monoview_classifiers, fileName[:-3]) monoview_classifier_class = getattr(monoview_classifier_module, fileName[:-3])() @@ -64,9 +64,9 @@ class Test_canProbas(unittest.TestCase): def test_inputs(self): for fileName in os.listdir( - "multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers"): + "multiview_platform/mono_multi_view_classifiers/monoview_classifiers"): if fileName[-3:] == ".py" and fileName != "__init__.py": - monoview_classifier_module = getattr(MonoviewClassifiers, + monoview_classifier_module = getattr(monoview_classifiers, fileName[:-3]) monoview_classifier_class = getattr(monoview_classifier_module, fileName[:-3])() @@ -85,9 +85,9 @@ class Test_fit(unittest.TestCase): # def test_inputs(cls): # # DATASET, CLASS_LABELS, randomState, NB_CORES=1, **kwargs - # for fileName in os.listdir("Code/MonoMultiViewClassifiers/MonoviewClassifiers"): + # for fileName in os.listdir("Code/mono_multi_view_classifiers/monoview_classifiers"): # if fileName[-3:] == ".py" and fileName != "__init__.py": - # monoview_classifier_module = getattr(MonoviewClassifiers, fileName[:-3]) + # monoview_classifier_module = getattr(monoview_classifiers, fileName[:-3]) # cls.args = dict((str(index), value) for index, value in # enumerate(monoview_classifier_module.paramsToSet(1, cls.random_state)[0])) # res = monoview_classifier_module.fit(cls.dataset, cls.labels, cls.random_state, **cls.args) @@ -98,9 +98,9 @@ class Test_fit(unittest.TestCase): # monoview_classifier_module.fit(cls.dataset,cls.labels, cls.random_state, 1, 10) # def test_outputs(cls): - # for fileName in os.listdir("Code/MonoMultiViewClassifiers/MonoviewClassifiers"): + # for fileName in os.listdir("Code/mono_multi_view_classifiers/monoview_classifiers"): # if fileName[-3:] == ".py" and fileName != "__init__.py": - # monoview_classifier_module = getattr(MonoviewClassifiers, fileName[:-3]) + # monoview_classifier_module = getattr(monoview_classifiers, fileName[:-3]) # cls.args = dict((str(index), value) for index, value in # enumerate(monoview_classifier_module.paramsToSet(1, cls.random_state)[0])) # res = monoview_classifier_module.fit(cls.dataset, cls.labels, cls.random_state, **cls.args) @@ -111,9 +111,9 @@ class Test_paramsToSet(unittest.TestCase): def test_inputs(self): for fileName in os.listdir( - "multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers"): + "multiview_platform/mono_multi_view_classifiers/monoview_classifiers"): if fileName[-3:] == ".py" and fileName != "__init__.py": - monoview_classifier_module = getattr(MonoviewClassifiers, + monoview_classifier_module = getattr(monoview_classifiers, fileName[:-3]) with self.assertRaises(TypeError, msg="paramsToSet must have 2 positional args") as catcher: @@ -128,9 +128,9 @@ class Test_paramsToSet(unittest.TestCase): def test_outputs(self): for fileName in os.listdir( - "multiview_platform/MonoMultiViewClassifiers/MonoviewClassifiers"): + "multiview_platform/mono_multi_view_classifiers/monoview_classifiers"): if fileName[-3:] == ".py" and fileName != "__init__.py": - monoview_classifier_module = getattr(MonoviewClassifiers, + monoview_classifier_module = getattr(monoview_classifiers, fileName[:-3]) res = monoview_classifier_module.paramsToSet(2, np.random.RandomState( @@ -144,9 +144,9 @@ class Test_paramsToSet(unittest.TestCase): # # TODO : Find a way to enter the right args # # def test_inputs(self): -# for fileName in os.listdir("Code/MonoMultiViewClassifiers/MonoviewClassifiers"): +# for fileName in os.listdir("Code/mono_multi_view_classifiers/monoview_classifiers"): # if fileName[-3:] == ".py" and fileName != "__init__.py": -# monoview_classifier_module = getattr(MonoviewClassifiers, fileName[:-3]) +# monoview_classifier_module = getattr(monoview_classifiers, fileName[:-3]) # with self.assertRaises(TypeError, msg="getKWARGS must have 1 positional args") as catcher: # monoview_classifier_module.getKWARGS() # monoview_classifier_module.getKWARGS([1],2) diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/__init__.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/__init__.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/__init__.py diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/test_DifficultyMeasureModule.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/test_DifficultyMeasureModule.py similarity index 87% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/test_DifficultyMeasureModule.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/test_DifficultyMeasureModule.py index 08462ada48a68813c20399296a1e29227d54184b..4dd7cdef6269e5c6daf9dd64a41a8159e320701e 100644 --- a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/test_DifficultyMeasureModule.py +++ b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DifficultyMeasure/test_DifficultyMeasureModule.py @@ -2,8 +2,8 @@ import unittest import numpy as np -from ....MonoMultiViewClassifiers.MultiviewClassifiers.DifficultyFusion import \ - DifficultyFusionModule +from ....mono_multi_view_classifiers.multiview_classifiers.difficulty_fusion import \ + difficulty_fusion class Test_difficulty(unittest.TestCase): @@ -28,7 +28,7 @@ class Test_difficulty(unittest.TestCase): cls.foldsLen = "" def test_simple(cls): - difficulty_measure = DifficultyFusionModule.difficulty( + difficulty_measure = difficulty_fusion.difficulty( cls.classifiersDecisions, cls.combination, cls.foldsGroudTruth, diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DisagreeFusion/__init__.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DisagreeFusion/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_DisagreeFusion/__init__.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_DisagreeFusion/__init__.py diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DisagreeFusion/test_DisagreeFusionModule.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DisagreeFusion/test_DisagreeFusionModule.py similarity index 91% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_DisagreeFusion/test_DisagreeFusionModule.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_DisagreeFusion/test_DisagreeFusionModule.py index 16b809f78e39ca987e65b945f04789965d628fe9..cbc84a26a9cb85558d908fdaea98be5a3d53f41c 100644 --- a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DisagreeFusion/test_DisagreeFusionModule.py +++ b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DisagreeFusion/test_DisagreeFusionModule.py @@ -2,11 +2,11 @@ import unittest import numpy as np -from multiview_platform.MonoMultiViewClassifiers.Multiview.Additions import \ +from multiview_platform.mono_multi_view_classifiers.multiview.Additions import \ diversity_utils -from ....MonoMultiViewClassifiers.MultiviewClassifiers.DisagreeFusion import \ +from ....mono_multi_view_classifiers.multiview_classifiers.disagree_fusion import \ DisagreeFusionModule -from multiview_platform.MonoMultiViewClassifiers.Multiview.MultiviewUtils import MultiviewResult +from multiview_platform.mono_multi_view_classifiers.multiview.multiview_utils import MultiviewResult class Test_disagreement(unittest.TestCase): diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/__init__.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/__init__.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/__init__.py diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/test_DoubleFaultFusionModule.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/test_DoubleFaultFusionModule.py similarity index 94% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/test_DoubleFaultFusionModule.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/test_DoubleFaultFusionModule.py index ab7b9d31a43334cb24db5a186ff850f22f062b14..4a014b4e41b99f707ca86ddbe8ef539c0488bc88 100644 --- a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/test_DoubleFaultFusionModule.py +++ b/multiview_platform/tests/Test_MultiviewClassifiers/Test_DoubleFaultFusion/test_DoubleFaultFusionModule.py @@ -2,9 +2,9 @@ import unittest import numpy as np -from multiview_platform.MonoMultiViewClassifiers.Multiview.Additions import \ +from multiview_platform.mono_multi_view_classifiers.multiview.Additions import \ diversity_utils -from ....MonoMultiViewClassifiers.MultiviewClassifiers.DoubleFaultFusion import \ +from ....mono_multi_view_classifiers.multiview_classifiers.double_fault_fusion import \ DoubleFaultFusionModule diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_EntropyFusion/__init__.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_EntropyFusion/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_EntropyFusion/__init__.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_EntropyFusion/__init__.py diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_EntropyFusion/test_EntropyFusionModule.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_EntropyFusion/test_EntropyFusionModule.py similarity index 94% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_EntropyFusion/test_EntropyFusionModule.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_EntropyFusion/test_EntropyFusionModule.py index 00b4a911b9912f6ba23249e337dfa6c3c04dded4..56b374513aba498c63f7c4f0c2728ab4e4c906c1 100644 --- a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_EntropyFusion/test_EntropyFusionModule.py +++ b/multiview_platform/tests/Test_MultiviewClassifiers/Test_EntropyFusion/test_EntropyFusionModule.py @@ -2,7 +2,7 @@ import unittest import numpy as np -from ....MonoMultiViewClassifiers.MultiviewClassifiers.EntropyFusion import \ +from ....mono_multi_view_classifiers.multiview_classifiers.entropy_fusion import \ EntropyFusionModule diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_Fusion/Test_Methods/__init__.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_Fusion/Test_Methods/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_Fusion/Test_Methods/__init__.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_Fusion/Test_Methods/__init__.py diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_Fusion/__init__.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_Fusion/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_Fusion/__init__.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_Fusion/__init__.py diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_Fusion/test_FusionModule.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_Fusion/test_FusionModule.py similarity index 83% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_Fusion/test_FusionModule.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_Fusion/test_FusionModule.py index b60b2e0ed749409bc99052cf21d5d25d0c1d6d22..fc2e54bf6eb2ec3862a2ed1dd0d245616158fb44 100644 --- a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_Fusion/test_FusionModule.py +++ b/multiview_platform/tests/Test_MultiviewClassifiers/Test_Fusion/test_FusionModule.py @@ -1,6 +1,6 @@ import unittest -from ....MonoMultiViewClassifiers.MultiviewClassifiers.Fusion import \ +from ....mono_multi_view_classifiers.multiview_classifiers.fusion import \ FusionModule diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/__init__.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/__init__.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/__init__.py diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/test_PseudoCQFusionModule.py b/multiview_platform/tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/test_PseudoCQFusionModule.py similarity index 91% rename from multiview_platform/Tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/test_PseudoCQFusionModule.py rename to multiview_platform/tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/test_PseudoCQFusionModule.py index 957cef74647fbdc8be700070de638b9c1ce5fa24..be4f271c5b9bdee74da924b037f1a58b827405fb 100644 --- a/multiview_platform/Tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/test_PseudoCQFusionModule.py +++ b/multiview_platform/tests/Test_MultiviewClassifiers/Test_PseudoCQMeasure/test_PseudoCQFusionModule.py @@ -2,7 +2,7 @@ # # import numpy as np # -# from ....MonoMultiViewClassifiers.MultiviewClassifiers.EntropyFusion import EntropyFusionModule +# from ....mono_multi_view_classifiers.multiview_classifiers.entropy_fusion import EntropyFusionModule # # class Test_entropy(unittest.TestCase): # diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/__init__.py b/multiview_platform/tests/Test_MultiviewClassifiers/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_MultiviewClassifiers/__init__.py rename to multiview_platform/tests/Test_MultiviewClassifiers/__init__.py diff --git a/multiview_platform/Tests/Test_MultiviewClassifiers/test_diversity_utils.py b/multiview_platform/tests/Test_MultiviewClassifiers/test_diversity_utils.py similarity index 94% rename from multiview_platform/Tests/Test_MultiviewClassifiers/test_diversity_utils.py rename to multiview_platform/tests/Test_MultiviewClassifiers/test_diversity_utils.py index ea1c0bd88608d0e06a4fe2adc98b77bb20c9931f..98520e2e790826534e2e5c2ccd684ebb7eff7086 100644 --- a/multiview_platform/Tests/Test_MultiviewClassifiers/test_diversity_utils.py +++ b/multiview_platform/tests/Test_MultiviewClassifiers/test_diversity_utils.py @@ -2,7 +2,7 @@ import unittest import numpy as np -from multiview_platform.MonoMultiViewClassifiers.Multiview.Additions import \ +from multiview_platform.mono_multi_view_classifiers.multiview.Additions import \ diversity_utils diff --git a/multiview_platform/Tests/Test_utils/__init__.py b/multiview_platform/tests/Test_utils/__init__.py similarity index 100% rename from multiview_platform/Tests/Test_utils/__init__.py rename to multiview_platform/tests/Test_utils/__init__.py diff --git a/multiview_platform/Tests/Test_utils/test_GetMultiviewDB.py b/multiview_platform/tests/Test_utils/test_GetMultiviewDB.py similarity index 75% rename from multiview_platform/Tests/Test_utils/test_GetMultiviewDB.py rename to multiview_platform/tests/Test_utils/test_GetMultiviewDB.py index 4f344d0ad3ae3baf04e1c128127482aa0f82c0be..e59ce5fbc419a28643dff535be8fb6d1347a49bc 100644 --- a/multiview_platform/Tests/Test_utils/test_GetMultiviewDB.py +++ b/multiview_platform/tests/Test_utils/test_GetMultiviewDB.py @@ -4,7 +4,7 @@ import unittest import h5py import numpy as np -from ...MonoMultiViewClassifiers.utils import GetMultiviewDb +from ...mono_multi_view_classifiers.utils import get_multiview_db class Test_copyhdf5Dataset(unittest.TestCase): @@ -12,17 +12,17 @@ class Test_copyhdf5Dataset(unittest.TestCase): @classmethod def setUpClass(cls): cls.random_state = np.random.RandomState(42) - if not os.path.exists("multiview_platform/Tests/temp_tests"): - os.mkdir("multiview_platform/Tests/temp_tests") + if not os.path.exists("multiview_platform/tests/temp_tests"): + os.mkdir("multiview_platform/tests/temp_tests") cls.dataset_file = h5py.File( - "multiview_platform/Tests/temp_tests/test_copy.hdf5", "w") + "multiview_platform/tests/temp_tests/test_copy.hdf5", "w") cls.dataset = cls.dataset_file.create_dataset("test", data=cls.random_state.randint( 0, 100, (10, 20))) cls.dataset.attrs["test_arg"] = "Am I copied" def test_simple_copy(cls): - GetMultiviewDb.copyhdf5Dataset(cls.dataset_file, cls.dataset_file, + get_multiview_db.copyhdf5Dataset(cls.dataset_file, cls.dataset_file, "test", "test_copy_1", np.arange(10)) np.testing.assert_array_equal(cls.dataset_file.get("test").value, cls.dataset_file.get("test_copy_1").value) @@ -31,7 +31,7 @@ class Test_copyhdf5Dataset(unittest.TestCase): def test_copy_only_some_indices(cls): usedIndices = cls.random_state.choice(10, 6, replace=False) - GetMultiviewDb.copyhdf5Dataset(cls.dataset_file, cls.dataset_file, + get_multiview_db.copyhdf5Dataset(cls.dataset_file, cls.dataset_file, "test", "test_copy", usedIndices) np.testing.assert_array_equal( cls.dataset_file.get("test").value[usedIndices, :], @@ -41,8 +41,8 @@ class Test_copyhdf5Dataset(unittest.TestCase): @classmethod def tearDownClass(cls): - os.remove("multiview_platform/Tests/temp_tests/test_copy.hdf5") - os.rmdir("multiview_platform/Tests/temp_tests") + os.remove("multiview_platform/tests/temp_tests/test_copy.hdf5") + os.rmdir("multiview_platform/tests/temp_tests") class Test_filterViews(unittest.TestCase): @@ -51,10 +51,10 @@ class Test_filterViews(unittest.TestCase): def setUpClass(cls): cls.random_state = np.random.RandomState(42) cls.views = ["test_view_1", "test_view_2"] - if not os.path.exists("multiview_platform/Tests/temp_tests"): - os.mkdir("multiview_platform/Tests/temp_tests") + if not os.path.exists("multiview_platform/tests/temp_tests"): + os.mkdir("multiview_platform/tests/temp_tests") cls.dataset_file = h5py.File( - "multiview_platform/Tests/temp_tests/test_copy.hdf5", "w") + "multiview_platform/tests/temp_tests/test_copy.hdf5", "w") cls.metadata_group = cls.dataset_file.create_group("Metadata") cls.metadata_group.attrs["nbView"] = 4 @@ -66,10 +66,10 @@ class Test_filterViews(unittest.TestCase): def test_simple_filter(cls): cls.temp_dataset_file = h5py.File( - "multiview_platform/Tests/temp_tests/test_copy_temp.hdf5", "w") + "multiview_platform/tests/temp_tests/test_copy_temp.hdf5", "w") cls.dataset_file.copy("Metadata", cls.temp_dataset_file) - GetMultiviewDb.filterViews(cls.dataset_file, cls.temp_dataset_file, - cls.views, np.arange(10)) + get_multiview_db.filterViews(cls.dataset_file, cls.temp_dataset_file, + cls.views, np.arange(10)) cls.assertEqual(cls.dataset_file.get("View1").attrs["name"], cls.temp_dataset_file.get("View0").attrs["name"]) np.testing.assert_array_equal(cls.dataset_file.get("View2").value, @@ -79,11 +79,11 @@ class Test_filterViews(unittest.TestCase): def test_filter_view_and_examples(cls): cls.temp_dataset_file = h5py.File( - "multiview_platform/Tests/temp_tests/test_copy_temp.hdf5", "w") + "multiview_platform/tests/temp_tests/test_copy_temp.hdf5", "w") cls.dataset_file.copy("Metadata", cls.temp_dataset_file) usedIndices = cls.random_state.choice(10, 6, replace=False) - GetMultiviewDb.filterViews(cls.dataset_file, cls.temp_dataset_file, - cls.views, usedIndices) + get_multiview_db.filterViews(cls.dataset_file, cls.temp_dataset_file, + cls.views, usedIndices) np.testing.assert_array_equal( cls.dataset_file.get("View1").value[usedIndices, :], cls.temp_dataset_file.get("View0").value) @@ -91,9 +91,9 @@ class Test_filterViews(unittest.TestCase): @classmethod def tearDownClass(cls): - os.remove("multiview_platform/Tests/temp_tests/test_copy.hdf5") - os.remove("multiview_platform/Tests/temp_tests/test_copy_temp.hdf5") - os.rmdir("multiview_platform/Tests/temp_tests") + os.remove("multiview_platform/tests/temp_tests/test_copy.hdf5") + os.remove("multiview_platform/tests/temp_tests/test_copy_temp.hdf5") + os.rmdir("multiview_platform/tests/temp_tests") # @@ -112,11 +112,11 @@ class Test_filterLabels(unittest.TestCase): def test_simple(cls): newLabels, \ newLabelsNames, \ - usedIndices = GetMultiviewDb.filterLabels(cls.labelsSet, - cls.askedLabelsNamesSet, - cls.fullLabels, - cls.availableLabelsNames, - cls.askedLabelsNames) + usedIndices = get_multiview_db.filterLabels(cls.labelsSet, + cls.askedLabelsNamesSet, + cls.fullLabels, + cls.availableLabelsNames, + cls.askedLabelsNames) cls.assertEqual(["test_label_1", "test_label_3"], newLabelsNames) np.testing.assert_array_equal(usedIndices, np.array([1, 5, 9])) np.testing.assert_array_equal(newLabels, np.array([1, 1, 0])) @@ -127,11 +127,11 @@ class Test_filterLabels(unittest.TestCase): cls.availableLabelsNames = ["test_label_0", "test_label_1"] newLabels, \ newLabelsNames, \ - usedIndices = GetMultiviewDb.filterLabels(cls.labelsSet, - cls.askedLabelsNamesSet, - cls.fullLabels, - cls.availableLabelsNames, - cls.askedLabelsNames) + usedIndices = get_multiview_db.filterLabels(cls.labelsSet, + cls.askedLabelsNamesSet, + cls.fullLabels, + cls.availableLabelsNames, + cls.askedLabelsNames) cls.assertEqual(cls.availableLabelsNames, newLabelsNames) np.testing.assert_array_equal(usedIndices, np.arange(10)) np.testing.assert_array_equal(newLabels, cls.fullLabels) @@ -140,12 +140,12 @@ class Test_filterLabels(unittest.TestCase): cls.askedLabelsNamesSet = {"test_label_0", "test_label_1", "test_label_2", "test_label_3", "chicken_is_heaven"} - with cls.assertRaises(GetMultiviewDb.DatasetError) as catcher: - GetMultiviewDb.filterLabels(cls.labelsSet, - cls.askedLabelsNamesSet, - cls.fullLabels, - cls.availableLabelsNames, - cls.askedLabelsNames) + with cls.assertRaises(get_multiview_db.DatasetError) as catcher: + get_multiview_db.filterLabels(cls.labelsSet, + cls.askedLabelsNamesSet, + cls.fullLabels, + cls.availableLabelsNames, + cls.askedLabelsNames) exception = catcher.exception def test_asked_all_labels(cls): @@ -155,11 +155,11 @@ class Test_filterLabels(unittest.TestCase): "test_label_3"] newLabels, \ newLabelsNames, \ - usedIndices = GetMultiviewDb.filterLabels(cls.labelsSet, - cls.askedLabelsNamesSet, - cls.fullLabels, - cls.availableLabelsNames, - cls.askedLabelsNames) + usedIndices = get_multiview_db.filterLabels(cls.labelsSet, + cls.askedLabelsNamesSet, + cls.fullLabels, + cls.availableLabelsNames, + cls.askedLabelsNames) cls.assertEqual(cls.availableLabelsNames, newLabelsNames) np.testing.assert_array_equal(usedIndices, np.arange(10)) np.testing.assert_array_equal(newLabels, cls.fullLabels) @@ -179,10 +179,10 @@ class Test_selectAskedLabels(unittest.TestCase): def test_simple(cls): newLabels, \ newLabelsNames, \ - usedIndices = GetMultiviewDb.selectAskedLabels(cls.askedLabelsNamesSet, - cls.availableLabelsNames, - cls.askedLabelsNames, - cls.fullLabels) + usedIndices = get_multiview_db.selectAskedLabels(cls.askedLabelsNamesSet, + cls.availableLabelsNames, + cls.askedLabelsNames, + cls.fullLabels) cls.assertEqual(["test_label_1", "test_label_3"], newLabelsNames) np.testing.assert_array_equal(usedIndices, np.array([1, 5, 9])) np.testing.assert_array_equal(newLabels, np.array([1, 1, 0])) @@ -194,10 +194,10 @@ class Test_selectAskedLabels(unittest.TestCase): "test_label_3"] newLabels, \ newLabelsNames, \ - usedIndices = GetMultiviewDb.selectAskedLabels(cls.askedLabelsNamesSet, - cls.availableLabelsNames, - cls.askedLabelsNames, - cls.fullLabels) + usedIndices = get_multiview_db.selectAskedLabels(cls.askedLabelsNamesSet, + cls.availableLabelsNames, + cls.askedLabelsNames, + cls.fullLabels) cls.assertEqual(cls.availableLabelsNames, newLabelsNames) np.testing.assert_array_equal(usedIndices, np.arange(10)) np.testing.assert_array_equal(newLabels, cls.fullLabels) @@ -205,11 +205,11 @@ class Test_selectAskedLabels(unittest.TestCase): def test_asked_unavailable_labels(cls): cls.askedLabelsNamesSet = {"test_label_1", "test_label_3", "chicken_is_heaven"} - with cls.assertRaises(GetMultiviewDb.DatasetError) as catcher: - GetMultiviewDb.selectAskedLabels(cls.askedLabelsNamesSet, - cls.availableLabelsNames, - cls.askedLabelsNames, - cls.fullLabels) + with cls.assertRaises(get_multiview_db.DatasetError) as catcher: + get_multiview_db.selectAskedLabels(cls.askedLabelsNamesSet, + cls.availableLabelsNames, + cls.askedLabelsNames, + cls.fullLabels) exception = catcher.exception # cls.assertTrue("Asked labels are not all available in the dataset" in exception) @@ -224,7 +224,7 @@ class Test_getAllLabels(unittest.TestCase): "test_label_2", "test_label_3"] def test_simple(cls): - newLabels, newLabelsNames, usedIndices = GetMultiviewDb.getAllLabels( + newLabels, newLabelsNames, usedIndices = get_multiview_db.getAllLabels( cls.fullLabels, cls.availableLabelsNames) cls.assertEqual(cls.availableLabelsNames, newLabelsNames) np.testing.assert_array_equal(usedIndices, np.arange(10)) @@ -241,7 +241,7 @@ class Test_fillLabelNames(unittest.TestCase): cls.availableLabelsNames = ["test_label_" + str(_) for _ in range(40)] def test_simple(cls): - askedLabelsNames, askedLabelsNamesSet = GetMultiviewDb.fillLabelNames( + askedLabelsNames, askedLabelsNamesSet = get_multiview_db.fillLabelNames( cls.NB_CLASS, cls.askedLabelsNames, cls.randomState, @@ -251,7 +251,7 @@ class Test_fillLabelNames(unittest.TestCase): def test_missing_labels_names(cls): cls.NB_CLASS = 39 - askedLabelsNames, askedLabelsNamesSet = GetMultiviewDb.fillLabelNames( + askedLabelsNames, askedLabelsNamesSet = get_multiview_db.fillLabelNames( cls.NB_CLASS, cls.askedLabelsNames, cls.randomState, @@ -279,7 +279,7 @@ class Test_fillLabelNames(unittest.TestCase): cls.NB_CLASS = 2 cls.askedLabelsNames = ["test_label_1", "test_label_3", "test_label_4", "test_label_6"] - askedLabelsNames, askedLabelsNamesSet = GetMultiviewDb.fillLabelNames( + askedLabelsNames, askedLabelsNamesSet = get_multiview_db.fillLabelNames( cls.NB_CLASS, cls.askedLabelsNames, cls.randomState, @@ -298,15 +298,15 @@ class Test_allAskedLabelsAreAvailable(unittest.TestCase): def test_asked_available_labels(cls): cls.assertTrue( - GetMultiviewDb.allAskedLabelsAreAvailable(cls.askedLabelsNamesSet, - cls.availableLabelsNames)) + get_multiview_db.allAskedLabelsAreAvailable(cls.askedLabelsNamesSet, + cls.availableLabelsNames)) def test_asked_unavailable_label(cls): cls.askedLabelsNamesSet = {"test_label_1", "test_label_3", "chicken_is_heaven"} cls.assertFalse( - GetMultiviewDb.allAskedLabelsAreAvailable(cls.askedLabelsNamesSet, - cls.availableLabelsNames)) + get_multiview_db.allAskedLabelsAreAvailable(cls.askedLabelsNamesSet, + cls.availableLabelsNames)) class Test_getClasses(unittest.TestCase): @@ -316,18 +316,18 @@ class Test_getClasses(unittest.TestCase): cls.random_state = np.random.RandomState(42) def test_multiclass(cls): - labelsSet = GetMultiviewDb.getClasses( + labelsSet = get_multiview_db.getClasses( cls.random_state.randint(0, 5, 30)) cls.assertEqual(labelsSet, {0, 1, 2, 3, 4}) def test_biclass(cls): - labelsSet = GetMultiviewDb.getClasses( + labelsSet = get_multiview_db.getClasses( cls.random_state.randint(0, 2, 30)) cls.assertEqual(labelsSet, {0, 1}) def test_one_class(cls): - with cls.assertRaises(GetMultiviewDb.DatasetError) as catcher: - GetMultiviewDb.getClasses(np.zeros(30, dtype=int)) + with cls.assertRaises(get_multiview_db.DatasetError) as catcher: + get_multiview_db.getClasses(np.zeros(30, dtype=int)) exception = catcher.exception # cls.assertTrue("Dataset must have at least two different labels" in exception) @@ -336,11 +336,11 @@ class Test_getClassicDBhdf5(unittest.TestCase): @classmethod def setUpClass(cls): - if not os.path.exists("multiview_platform/Tests/temp_tests"): - os.mkdir("multiview_platform/Tests/temp_tests") + if not os.path.exists("multiview_platform/tests/temp_tests"): + os.mkdir("multiview_platform/tests/temp_tests") cls.dataset_file = h5py.File( - "multiview_platform/Tests/temp_tests/test_dataset.hdf5", "w") - cls.pathF = "multiview_platform/Tests/temp_tests/" + "multiview_platform/tests/temp_tests/test_dataset.hdf5", "w") + cls.pathF = "multiview_platform/tests/temp_tests/" cls.nameDB = "test_dataset" cls.NB_CLASS = 2 cls.askedLabelsNames = ["test_label_1", "test_label_3"] @@ -363,7 +363,7 @@ class Test_getClassicDBhdf5(unittest.TestCase): cls.dataset.attrs["name"] = "test_view_" + str(i) def test_simple(cls): - dataset_file, labels_dictionary, dataset_name = GetMultiviewDb.getClassicDBhdf5( + dataset_file, labels_dictionary, dataset_name = get_multiview_db.getClassicDBhdf5( cls.views, cls.pathF, cls.nameDB, cls.NB_CLASS, cls.askedLabelsNames, cls.random_state) @@ -381,7 +381,7 @@ class Test_getClassicDBhdf5(unittest.TestCase): askedLabelsNames = ["test_label_0", "test_label_1", "test_label_2", "test_label_3"] NB_CLASS = 4 - dataset_file, labels_dictionary, dataset_name = GetMultiviewDb.getClassicDBhdf5( + dataset_file, labels_dictionary, dataset_name = get_multiview_db.getClassicDBhdf5( cls.views, cls.pathF, cls.nameDB, NB_CLASS, askedLabelsNames, cls.random_state) @@ -398,12 +398,12 @@ class Test_getClassicDBhdf5(unittest.TestCase): def test_all_views_asked(cls): views = ["test_view_0", "test_view_1", "test_view_2", "test_view_3"] - dataset_file, labels_dictionary, dataset_name = GetMultiviewDb.getClassicDBhdf5(views, - cls.pathF, - cls.nameDB, - cls.NB_CLASS, - cls.askedLabelsNames, - cls.random_state) + dataset_file, labels_dictionary, dataset_name = get_multiview_db.getClassicDBhdf5(views, + cls.pathF, + cls.nameDB, + cls.NB_CLASS, + cls.askedLabelsNames, + cls.random_state) for viewIndex in range(4): np.testing.assert_array_equal( dataset_file.get("View" + str(viewIndex)).value, @@ -423,12 +423,12 @@ class Test_getClassicDBhdf5(unittest.TestCase): "test_label_3"] NB_CLASS = 4 views = ["test_view_0", "test_view_1", "test_view_2", "test_view_3"] - dataset_file, labels_dictionary, dataset_name = GetMultiviewDb.getClassicDBhdf5(views, - cls.pathF, - cls.nameDB, - NB_CLASS, - askedLabelsNames, - cls.random_state) + dataset_file, labels_dictionary, dataset_name = get_multiview_db.getClassicDBhdf5(views, + cls.pathF, + cls.nameDB, + NB_CLASS, + askedLabelsNames, + cls.random_state) for viewIndex in range(4): np.testing.assert_array_equal( dataset_file.get("View" + str(viewIndex)).value, @@ -446,21 +446,21 @@ class Test_getClassicDBhdf5(unittest.TestCase): @classmethod def tearDownClass(cls): os.remove( - "multiview_platform/Tests/temp_tests/test_dataset_temp_view_label_select.hdf5") - os.remove("multiview_platform/Tests/temp_tests/test_dataset.hdf5") - dirs = os.listdir("multiview_platform/Tests/temp_tests") + "multiview_platform/tests/temp_tests/test_dataset_temp_view_label_select.hdf5") + os.remove("multiview_platform/tests/temp_tests/test_dataset.hdf5") + dirs = os.listdir("multiview_platform/tests/temp_tests") for dir in dirs: print(dir) - os.rmdir("multiview_platform/Tests/temp_tests") + os.rmdir("multiview_platform/tests/temp_tests") class Test_getClassicDBcsv(unittest.TestCase): @classmethod def setUpClass(cls): - if not os.path.exists("multiview_platform/Tests/temp_tests"): - os.mkdir("multiview_platform/Tests/temp_tests") - cls.pathF = "multiview_platform/Tests/temp_tests/" + if not os.path.exists("multiview_platform/tests/temp_tests"): + os.mkdir("multiview_platform/tests/temp_tests") + cls.pathF = "multiview_platform/tests/temp_tests/" cls.NB_CLASS = 2 cls.nameDB = "test_dataset" cls.askedLabelsNames = ["test_label_1", "test_label_3"] @@ -481,7 +481,7 @@ class Test_getClassicDBcsv(unittest.TestCase): cls.datas.append(data) def test_simple(cls): - dataset_file, labels_dictionary, dataset_name = GetMultiviewDb.getClassicDBcsv( + dataset_file, labels_dictionary, dataset_name = get_multiview_db.getClassicDBcsv( cls.views, cls.pathF, cls.nameDB, cls.NB_CLASS, cls.askedLabelsNames, cls.random_state, delimiter=",") @@ -497,13 +497,13 @@ class Test_getClassicDBcsv(unittest.TestCase): def test_all_views_asked(cls): views = ["test_view_0", "test_view_1", "test_view_2", "test_view_3"] - dataset_file, labels_dictionary, dataset_name = GetMultiviewDb.getClassicDBcsv(views, - cls.pathF, - cls.nameDB, - cls.NB_CLASS, - cls.askedLabelsNames, - cls.random_state, - delimiter=",") + dataset_file, labels_dictionary, dataset_name = get_multiview_db.getClassicDBcsv(views, + cls.pathF, + cls.nameDB, + cls.NB_CLASS, + cls.askedLabelsNames, + cls.random_state, + delimiter=",") cls.assertEqual(labels_dictionary, {0: "test_label_1", 1: "test_label_3"}) cls.assertEqual(dataset_file.get("Metadata").attrs["datasetLength"], 3) @@ -522,7 +522,7 @@ class Test_getClassicDBcsv(unittest.TestCase): askedLabelsNames = ["test_label_0", "test_label_1", "test_label_2", "test_label_3"] NB_CLASS = 4 - dataset_file, labels_dictionary, dataset_name = GetMultiviewDb.getClassicDBcsv( + dataset_file, labels_dictionary, dataset_name = get_multiview_db.getClassicDBcsv( cls.views, cls.pathF, cls.nameDB, NB_CLASS, askedLabelsNames, cls.random_state, delimiter=",") @@ -541,13 +541,13 @@ class Test_getClassicDBcsv(unittest.TestCase): "test_label_3"] NB_CLASS = 4 views = ["test_view_0", "test_view_1", "test_view_2", "test_view_3"] - dataset_file, labels_dictionary, dataset_name = GetMultiviewDb.getClassicDBcsv(views, - cls.pathF, - cls.nameDB, - NB_CLASS, - askedLabelsNames, - cls.random_state, - delimiter=",") + dataset_file, labels_dictionary, dataset_name = get_multiview_db.getClassicDBcsv(views, + cls.pathF, + cls.nameDB, + NB_CLASS, + askedLabelsNames, + cls.random_state, + delimiter=",") for viewIndex in range(4): np.testing.assert_array_equal( dataset_file.get("View" + str(viewIndex)).value, @@ -566,15 +566,15 @@ class Test_getClassicDBcsv(unittest.TestCase): def tearDownClass(cls): for i in range(4): os.remove( - "multiview_platform/Tests/temp_tests/Views/test_view_" + str( + "multiview_platform/tests/temp_tests/Views/test_view_" + str( i) + ".csv") - os.rmdir("multiview_platform/Tests/temp_tests/Views") + os.rmdir("multiview_platform/tests/temp_tests/Views") os.remove( - "multiview_platform/Tests/temp_tests/test_dataset-labels-names.csv") - os.remove("multiview_platform/Tests/temp_tests/test_dataset-labels.csv") - os.remove("multiview_platform/Tests/temp_tests/test_dataset.hdf5") + "multiview_platform/tests/temp_tests/test_dataset-labels-names.csv") + os.remove("multiview_platform/tests/temp_tests/test_dataset-labels.csv") + os.remove("multiview_platform/tests/temp_tests/test_dataset.hdf5") os.remove( - "multiview_platform/Tests/temp_tests/test_dataset_temp_view_label_select.hdf5") - for file in os.listdir("multiview_platform/Tests/temp_tests"): print( + "multiview_platform/tests/temp_tests/test_dataset_temp_view_label_select.hdf5") + for file in os.listdir("multiview_platform/tests/temp_tests"): print( file) - os.rmdir("multiview_platform/Tests/temp_tests") + os.rmdir("multiview_platform/tests/temp_tests") diff --git a/multiview_platform/Tests/Test_utils/test_execution.py b/multiview_platform/tests/Test_utils/test_execution.py similarity index 89% rename from multiview_platform/Tests/Test_utils/test_execution.py rename to multiview_platform/tests/Test_utils/test_execution.py index b2beaf5e163002dfd7f86522c9972038e3c38e03..003b928bccd7816d0b84d86249fece750c4c2abe 100644 --- a/multiview_platform/Tests/Test_utils/test_execution.py +++ b/multiview_platform/tests/Test_utils/test_execution.py @@ -3,7 +3,7 @@ import unittest import numpy as np -from ...MonoMultiViewClassifiers.utils import execution +from ...mono_multi_view_classifiers.utils import execution class Test_parseTheArgs(unittest.TestCase): @@ -52,14 +52,14 @@ class Test_getDatabaseFunction(unittest.TestCase): def test_simple(cls): getDB = execution.getDatabaseFunction(cls.name, cls.type) - from ...MonoMultiViewClassifiers.utils.GetMultiviewDb import \ + from ...mono_multi_view_classifiers.utils.get_multiview_db import \ getClassicDBcsv cls.assertEqual(getDB, getClassicDBcsv) def test_hdf5(cls): cls.type = ".hdf5" getDB = execution.getDatabaseFunction(cls.name, cls.type) - from ...MonoMultiViewClassifiers.utils.GetMultiviewDb import \ + from ...mono_multi_view_classifiers.utils.get_multiview_db import \ getClassicDBhdf5 cls.assertEqual(getDB, getClassicDBhdf5) @@ -67,7 +67,7 @@ class Test_getDatabaseFunction(unittest.TestCase): cls.name = "Plausible" cls.type = ".hdf5" getDB = execution.getDatabaseFunction(cls.name, cls.type) - from ...MonoMultiViewClassifiers.utils.GetMultiviewDb import \ + from ...mono_multi_view_classifiers.utils.get_multiview_db import \ getPlausibleDBhdf5 cls.assertEqual(getDB, getPlausibleDBhdf5) @@ -75,26 +75,26 @@ class Test_getDatabaseFunction(unittest.TestCase): class Test_initRandomState(unittest.TestCase): def setUp(self): - os.mkdir("multiview_platform/Tests/temp_tests/") + os.mkdir("multiview_platform/tests/temp_tests/") def tearDown(self): - os.rmdir("multiview_platform/Tests/temp_tests/") + os.rmdir("multiview_platform/tests/temp_tests/") def test_random_state_42(self): randomState_42 = np.random.RandomState(42) randomState = execution.initRandomState("42", - "multiview_platform/Tests/temp_tests/") - os.remove("multiview_platform/Tests/temp_tests/randomState.pickle") + "multiview_platform/tests/temp_tests/") + os.remove("multiview_platform/tests/temp_tests/randomState.pickle") np.testing.assert_array_equal(randomState.beta(1, 100, 100), randomState_42.beta(1, 100, 100)) def test_random_state_pickle(self): randomState_to_pickle = execution.initRandomState(None, - "multiview_platform/Tests/temp_tests/") + "multiview_platform/tests/temp_tests/") pickled_randomState = execution.initRandomState( - "multiview_platform/Tests/temp_tests/randomState.pickle", - "multiview_platform/Tests/temp_tests/") - os.remove("multiview_platform/Tests/temp_tests/randomState.pickle") + "multiview_platform/tests/temp_tests/randomState.pickle", + "multiview_platform/tests/temp_tests/") + os.remove("multiview_platform/tests/temp_tests/randomState.pickle") np.testing.assert_array_equal(randomState_to_pickle.beta(1, 100, 100), pickled_randomState.beta(1, 100, 100)) @@ -119,14 +119,14 @@ class FakeArg(): # def test_initLogFile(cls): # cls.timestr = time.strftime("%Y_%m_%d-%H_%M") # execution.initLogFile(cls.fakeArgs) -# cls.assertIn("zrtTap", os.listdir("mutliview_platform/Results"), "Database directory not created") -# cls.assertIn("started_"+cls.timestr, os.listdir("mutliview_platform/Results/zrtTap"),"experimentation dir not created") +# cls.assertIn("zrtTap", os.listdir("mutliview_platform/results"), "Database directory not created") +# cls.assertIn("started_"+cls.timestr, os.listdir("mutliview_platform/results/zrtTap"),"experimentation dir not created") # cls.assertIn(cls.timestr + "-" + ''.join(cls.fakeArgs.CL_type) + "-" + "_".join( -# cls.fakeArgs.views) + "-" + cls.fakeArgs.name + "-LOG.log", os.listdir("mutliview_platform/Results/zrtTap/"+"started_"+cls.timestr), "logfile was not created") +# cls.fakeArgs.views) + "-" + cls.fakeArgs.name + "-LOG.log", os.listdir("mutliview_platform/results/zrtTap/"+"started_"+cls.timestr), "logfile was not created") # # @classmethod # def tearDownClass(cls): -# shutil.rmtree("multiview_platform/Results/zrtTap") +# shutil.rmtree("multiview_platform/results/zrtTap") # pass diff --git a/multiview_platform/Tests/Test_utils/test_multiclass.py b/multiview_platform/tests/Test_utils/test_multiclass.py similarity index 95% rename from multiview_platform/Tests/Test_utils/test_multiclass.py rename to multiview_platform/tests/Test_utils/test_multiclass.py index c6bcc6ca532c1a96c3855211602c0c5405669907..a73e9f2b044dd8cd42c534e21d610ba384a897ec 100644 --- a/multiview_platform/Tests/Test_utils/test_multiclass.py +++ b/multiview_platform/tests/Test_utils/test_multiclass.py @@ -2,7 +2,7 @@ import unittest import numpy as np -from ...MonoMultiViewClassifiers.utils import Multiclass +from ...mono_multi_view_classifiers.utils import multiclass class Test_genMulticlassLabels(unittest.TestCase): @@ -21,7 +21,7 @@ class Test_genMulticlassLabels(unittest.TestCase): cls.testIndices[1]]] def test_one_versus_one(cls): - multiclassLabels, labelsIndices, oldIndicesMulticlass = Multiclass.genMulticlassLabels( + multiclassLabels, labelsIndices, oldIndicesMulticlass = multiclass.genMulticlassLabels( cls.labels, "oneVersusOne", cls.classificationIndices) cls.assertEqual(len(multiclassLabels), 10) cls.assertEqual(labelsIndices, diff --git a/multiview_platform/Tests/__init__.py b/multiview_platform/tests/__init__.py similarity index 100% rename from multiview_platform/Tests/__init__.py rename to multiview_platform/tests/__init__.py diff --git a/multiview_platform/Tests/test_ExecClassif.py b/multiview_platform/tests/test_ExecClassif.py similarity index 82% rename from multiview_platform/Tests/test_ExecClassif.py rename to multiview_platform/tests/test_ExecClassif.py index c9e6416adb0dd54ebb7794b3609ad90939d957d7..77bcda5fccccb06f9d922c8836b9fbea99f5c029 100644 --- a/multiview_platform/Tests/test_ExecClassif.py +++ b/multiview_platform/tests/test_ExecClassif.py @@ -4,7 +4,7 @@ import unittest import h5py import numpy as np -from ..MonoMultiViewClassifiers import ExecClassif +from ..mono_multi_view_classifiers import exec_classif class Test_initBenchmark(unittest.TestCase): @@ -17,21 +17,21 @@ class Test_initBenchmark(unittest.TestCase): class Test_initKWARGS(unittest.TestCase): def test_initKWARGSFunc_no_monoview(self): - benchmark = {"Monoview": {}, "Multiview": {}} - args = ExecClassif.initKWARGSFunc({}, benchmark) + benchmark = {"monoview": {}, "multiview": {}} + args = exec_classif.initKWARGSFunc({}, benchmark) self.assertEqual(args, {}) class Test_initMonoviewArguments(unittest.TestCase): def test_initMonoviewArguments_no_monoview(self): - benchmark = {"Monoview": {}, "Multiview": {}} - arguments = ExecClassif.initMonoviewExps(benchmark, {}, 0, {}) - self.assertEqual(arguments, {'Monoview': [], 'Multiview': []}) + benchmark = {"monoview": {}, "multiview": {}} + arguments = exec_classif.initMonoviewExps(benchmark, {}, 0, {}) + self.assertEqual(arguments, {'monoview': [], 'multiview': []}) def test_initMonoviewArguments_empty(self): - benchmark = {"Monoview": {}, "Multiview": {}} - arguments = ExecClassif.initMonoviewExps(benchmark, {}, 0, {}) + benchmark = {"monoview": {}, "multiview": {}} + arguments = exec_classif.initMonoviewExps(benchmark, {}, 0, {}) def fakeBenchmarkExec(coreIndex=-1, a=7, args=1): @@ -61,35 +61,35 @@ class Test_execBenchmark(unittest.TestCase): @classmethod def setUpClass(cls): - os.mkdir("multiview_platform/Tests/tmp_tests") + os.mkdir("multiview_platform/tests/tmp_tests") cls.Dataset = h5py.File( - "multiview_platform/Tests/tmp_tests/test_file.hdf5", "w") + "multiview_platform/tests/tmp_tests/test_file.hdf5", "w") cls.labels = cls.Dataset.create_dataset("Labels", data=np.array([0, 1, 2])) cls.argumentDictionaries = [{"a": 4, "args": FakeArg()}] def test_simple(cls): - res = ExecClassif.execBenchmark(1, 2, 3, cls.argumentDictionaries, - [[[1, 2], [3, 4, 5]]], 5, 6, 7, 8, 9, - 10, cls.Dataset, - execOneBenchmark=fakeBenchmarkExec, - execOneBenchmark_multicore=fakeBenchmarkExec_mutlicore, - execOneBenchmarkMonoCore=fakeBenchmarkExec_monocore, - getResults=fakegetResults, - delete=fakeDelete) + res = exec_classif.execBenchmark(1, 2, 3, cls.argumentDictionaries, + [[[1, 2], [3, 4, 5]]], 5, 6, 7, 8, 9, + 10, cls.Dataset, + execOneBenchmark=fakeBenchmarkExec, + execOneBenchmark_multicore=fakeBenchmarkExec_mutlicore, + execOneBenchmarkMonoCore=fakeBenchmarkExec_monocore, + getResults=fakegetResults, + delete=fakeDelete) cls.assertEqual(res, 3) def test_multiclass_no_iter(cls): cls.argumentDictionaries = [{"a": 10, "args": FakeArg()}, {"a": 4, "args": FakeArg()}] - res = ExecClassif.execBenchmark(2, 1, 2, cls.argumentDictionaries, - [[[1, 2], [3, 4, 5]]], 5, 6, 7, 8, 9, - 10, cls.Dataset, - execOneBenchmark=fakeBenchmarkExec, - execOneBenchmark_multicore=fakeBenchmarkExec_mutlicore, - execOneBenchmarkMonoCore=fakeBenchmarkExec_monocore, - getResults=fakegetResults, - delete=fakeDelete) + res = exec_classif.execBenchmark(2, 1, 2, cls.argumentDictionaries, + [[[1, 2], [3, 4, 5]]], 5, 6, 7, 8, 9, + 10, cls.Dataset, + execOneBenchmark=fakeBenchmarkExec, + execOneBenchmark_multicore=fakeBenchmarkExec_mutlicore, + execOneBenchmarkMonoCore=fakeBenchmarkExec_monocore, + getResults=fakegetResults, + delete=fakeDelete) cls.assertEqual(res, 3) def test_multiclass_and_iter(cls): @@ -97,32 +97,32 @@ class Test_execBenchmark(unittest.TestCase): {"a": 4, "args": FakeArg()}, {"a": 55, "args": FakeArg()}, {"a": 24, "args": FakeArg()}] - res = ExecClassif.execBenchmark(2, 2, 2, cls.argumentDictionaries, - [[[1, 2], [3, 4, 5]]], 5, 6, 7, 8, 9, - 10, cls.Dataset, - execOneBenchmark=fakeBenchmarkExec, - execOneBenchmark_multicore=fakeBenchmarkExec_mutlicore, - execOneBenchmarkMonoCore=fakeBenchmarkExec_monocore, - getResults=fakegetResults, - delete=fakeDelete) + res = exec_classif.execBenchmark(2, 2, 2, cls.argumentDictionaries, + [[[1, 2], [3, 4, 5]]], 5, 6, 7, 8, 9, + 10, cls.Dataset, + execOneBenchmark=fakeBenchmarkExec, + execOneBenchmark_multicore=fakeBenchmarkExec_mutlicore, + execOneBenchmarkMonoCore=fakeBenchmarkExec_monocore, + getResults=fakegetResults, + delete=fakeDelete) cls.assertEqual(res, 3) def test_no_iter_biclass_multicore(cls): - res = ExecClassif.execBenchmark(2, 1, 1, cls.argumentDictionaries, - [[[1, 2], [3, 4, 5]]], 5, 6, 7, 8, 9, - 10, cls.Dataset, - execOneBenchmark=fakeBenchmarkExec, - execOneBenchmark_multicore=fakeBenchmarkExec_mutlicore, - execOneBenchmarkMonoCore=fakeBenchmarkExec_monocore, - getResults=fakegetResults, - delete=fakeDelete) + res = exec_classif.execBenchmark(2, 1, 1, cls.argumentDictionaries, + [[[1, 2], [3, 4, 5]]], 5, 6, 7, 8, 9, + 10, cls.Dataset, + execOneBenchmark=fakeBenchmarkExec, + execOneBenchmark_multicore=fakeBenchmarkExec_mutlicore, + execOneBenchmarkMonoCore=fakeBenchmarkExec_monocore, + getResults=fakegetResults, + delete=fakeDelete) cls.assertEqual(res, 3) @classmethod def tearDownClass(cls): cls.Dataset.close() - os.remove("multiview_platform/Tests/tmp_tests/test_file.hdf5") - os.rmdir("multiview_platform/Tests/tmp_tests") + os.remove("multiview_platform/tests/tmp_tests/test_file.hdf5") + os.rmdir("multiview_platform/tests/tmp_tests") def fakeExecMono(directory, name, labelsNames, classificationIndices, kFolds, @@ -141,8 +141,8 @@ def fakeExecMulti(directory, coreIndex, name, classificationIndices, kFolds, def fakeInitMulti(args, benchmark, views, viewsIndices, argumentDictionaries, randomState, directory, resultsMonoview, classificationIndices): - return {"Monoview": [{"try": 0}, {"try2": 100}], - "Multiview": [{"try3": 5}, {"try4": 10}]} + return {"monoview": [{"try": 0}, {"try2": 100}], + "multiview": [{"try3": 5}, {"try4": 10}]} class FakeArg(object): @@ -166,40 +166,40 @@ class Test_execOneBenchmark(unittest.TestCase): @classmethod def setUpClass(cls): - os.mkdir("multiview_platform/Tests/tmp_tests") + os.mkdir("multiview_platform/tests/tmp_tests") def test_simple(cls): - flag, results = ExecClassif.execOneBenchmark(coreIndex=10, - LABELS_DICTIONARY={ + flag, results = exec_classif.execOneBenchmark(coreIndex=10, + LABELS_DICTIONARY={ 0: "a", 1: "b"}, - directory="multiview_platform/Tests/tmp_tests/", - classificationIndices=( + directory="multiview_platform/tests/tmp_tests/", + classificationIndices=( [1, 2, 3, 4], [0, 5, 6, 7, 8]), - args=FakeArg(), - kFolds=FakeKfold(), - randomState="try", - hyperParamSearch="try", - metrics="try", - argumentDictionaries={ - "Monoview": [ + args=FakeArg(), + kFolds=FakeKfold(), + randomState="try", + hyperParamSearch="try", + metrics="try", + argumentDictionaries={ + "monoview": [ { "try": 0}, { "try2": 100}]}, - benchmark="try", - views="try", - viewsIndices="try", - flag=None, - labels=np.array( + benchmark="try", + views="try", + viewsIndices="try", + flag=None, + labels=np.array( [0, 1, 2, 1, 2, 2, 2, 12, 1, 2, 1, 1, 2, 1, 21]), - ExecMonoview_multicore=fakeExecMono, - ExecMultiview_multicore=fakeExecMulti, - initMultiviewArguments=fakeInitMulti) + ExecMonoview_multicore=fakeExecMono, + ExecMultiview_multicore=fakeExecMulti, + initMultiviewArguments=fakeInitMulti) cls.assertEqual(flag, None) cls.assertEqual(results , @@ -208,34 +208,34 @@ class Test_execOneBenchmark(unittest.TestCase): @classmethod def tearDownClass(cls): - os.remove("multiview_platform/Tests/tmp_tests/train_indices.csv") - os.remove("multiview_platform/Tests/tmp_tests/train_labels.csv") + os.remove("multiview_platform/tests/tmp_tests/train_indices.csv") + os.remove("multiview_platform/tests/tmp_tests/train_labels.csv") os.remove( - "multiview_platform/Tests/tmp_tests/folds/test_labels_fold_0.csv") + "multiview_platform/tests/tmp_tests/folds/test_labels_fold_0.csv") os.remove( - "multiview_platform/Tests/tmp_tests/folds/test_labels_fold_1.csv") - os.rmdir("multiview_platform/Tests/tmp_tests/folds") - os.rmdir("multiview_platform/Tests/tmp_tests") + "multiview_platform/tests/tmp_tests/folds/test_labels_fold_1.csv") + os.rmdir("multiview_platform/tests/tmp_tests/folds") + os.rmdir("multiview_platform/tests/tmp_tests") class Test_execOneBenchmark_multicore(unittest.TestCase): @classmethod def setUpClass(cls): - os.mkdir("multiview_platform/Tests/tmp_tests") + os.mkdir("multiview_platform/tests/tmp_tests") def test_simple(cls): - flag, results = ExecClassif.execOneBenchmark_multicore( + flag, results = exec_classif.execOneBenchmark_multicore( nbCores=2, LABELS_DICTIONARY={0: "a", 1: "b"}, - directory="multiview_platform/Tests/tmp_tests/", + directory="multiview_platform/tests/tmp_tests/", classificationIndices=([1, 2, 3, 4], [0, 10, 20, 30, 40]), args=FakeArg(), kFolds=FakeKfold(), randomState="try", hyperParamSearch="try", metrics="try", - argumentDictionaries={"Monoview": [{"try": 0}, {"try2": 100}]}, + argumentDictionaries={"monoview": [{"try": 0}, {"try2": 100}]}, benchmark="try", views="try", viewsIndices="try", @@ -252,14 +252,14 @@ class Test_execOneBenchmark_multicore(unittest.TestCase): @classmethod def tearDownClass(cls): - os.remove("multiview_platform/Tests/tmp_tests/train_indices.csv") - os.remove("multiview_platform/Tests/tmp_tests/train_labels.csv") + os.remove("multiview_platform/tests/tmp_tests/train_indices.csv") + os.remove("multiview_platform/tests/tmp_tests/train_labels.csv") os.remove( - "multiview_platform/Tests/tmp_tests/folds/test_labels_fold_0.csv") + "multiview_platform/tests/tmp_tests/folds/test_labels_fold_0.csv") os.remove( - "multiview_platform/Tests/tmp_tests/folds/test_labels_fold_1.csv") - os.rmdir("multiview_platform/Tests/tmp_tests/folds") - os.rmdir("multiview_platform/Tests/tmp_tests") + "multiview_platform/tests/tmp_tests/folds/test_labels_fold_1.csv") + os.rmdir("multiview_platform/tests/tmp_tests/folds") + os.rmdir("multiview_platform/tests/tmp_tests") # # class Test_analyzeMulticlass(unittest.TestCase): @@ -419,7 +419,7 @@ class Test_execOneBenchmark_multicore(unittest.TestCase): # help='Classes used in the dataset (names of the folders) if not filled, random classes will be ' # 'selected ex. walrus mole leopard', default=["yes", "no"]) # groupClass.add_argument('--CL_type', metavar='STRING', action='store', nargs="+", -# help='Determine whether to use Multiview and/or Monoview, or Benchmark', +# help='Determine whether to use multiview and/or monoview, or Benchmark', # default=['Benchmark']) # groupClass.add_argument('--CL_algos_monoview', metavar='STRING', action='store', nargs="+", # help='Determine which monoview classifier to use if empty, considering all', @@ -523,11 +523,11 @@ class Test_execOneBenchmark_multicore(unittest.TestCase): # default=False) # # -# groupFusion = parser.add_argument_group('Fusion arguments') +# groupFusion = parser.add_argument_group('fusion arguments') # groupFusion.add_argument('--FU_types', metavar='STRING', action='store', nargs="+", # help='Determine which type of fusion to use', # default=['']) -# groupEarlyFusion = parser.add_argument_group('Early Fusion arguments') +# groupEarlyFusion = parser.add_argument_group('Early fusion arguments') # groupEarlyFusion.add_argument('--FU_early_methods', metavar='STRING', action='store', nargs="+", # help='Determine which early fusion method of fusion to use', # default=['']) @@ -542,7 +542,7 @@ class Test_execOneBenchmark_multicore(unittest.TestCase): # groupEarlyFusion.add_argument('--FU_E_cl_names', metavar='STRING', action='store', nargs='+', # help='Name of the classifiers used for each early fusion method', default=['']) # -# groupLateFusion = parser.add_argument_group('Late Early Fusion arguments') +# groupLateFusion = parser.add_argument_group('Late Early fusion arguments') # groupLateFusion.add_argument('--FU_late_methods', metavar='STRING', action='store', nargs="+", # help='Determine which late fusion method of fusion to use', # default=['']) diff --git a/multiview_platform/Tests/test_ResultAnalysis.py b/multiview_platform/tests/test_ResultAnalysis.py similarity index 97% rename from multiview_platform/Tests/test_ResultAnalysis.py rename to multiview_platform/tests/test_ResultAnalysis.py index e74405d2c047515fdc76bd48803a8620f7a40b01..be59cce4c0d7c5186e3e0e06d4d36f62bf6564a3 100644 --- a/multiview_platform/Tests/test_ResultAnalysis.py +++ b/multiview_platform/tests/test_ResultAnalysis.py @@ -1,7 +1,7 @@ # import unittest # import numpy as np # -# from ..MonoMultiViewClassifiers import ResultAnalysis +# from ..mono_multi_view_classifiers import ResultAnalysis # # # class Test_getMetricsScoresBiclass(unittest.TestCase): diff --git a/multiview_platform/Versions.py b/multiview_platform/versions.py similarity index 100% rename from multiview_platform/Versions.py rename to multiview_platform/versions.py diff --git a/results/Plausible/n_0/started_2019_09_12-12_15_/2019_09_12-12_15-MonoviewMultiview--Plausible-LOG.log b/results/Plausible/n_0/started_2019_09_12-12_15_/2019_09_12-12_15-MonoviewMultiview--Plausible-LOG.log new file mode 100644 index 0000000000000000000000000000000000000000..cebcc1af0b4e0865045497a66299c23427e2a3fa --- /dev/null +++ b/results/Plausible/n_0/started_2019_09_12-12_15_/2019_09_12-12_15-MonoviewMultiview--Plausible-LOG.log @@ -0,0 +1,4 @@ +2019-09-12 12:15:46,117 DEBUG: Info: Enough copies of the dataset are already available +2019-09-12 12:15:46,121 DEBUG: Start: Initializing Monoview classifiers arguments +2019-09-12 12:15:46,121 DEBUG: Done: Initializing Monoview classifiers arguments +2019-09-12 12:15:46,122 DEBUG: Start: Executing all the needed biclass benchmarks diff --git a/results/Plausible/n_0/started_2019_09_12-12_15_/iter_1/No-vs-Yes/folds/test_labels_fold_0.csv b/results/Plausible/n_0/started_2019_09_12-12_15_/iter_1/No-vs-Yes/folds/test_labels_fold_0.csv new file mode 100644 index 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b/results/Plausible/started_2019_09_12-11_15_/2019_09_12-11_15-MonoviewMultiview--Plausible-LOG.log @@ -0,0 +1,7 @@ +2019-09-12 11:15:36,540 DEBUG: Start: Creating 2 temporary datasets for multiprocessing +2019-09-12 11:15:36,540 WARNING: WARNING : /!\ This may use a lot of HDD storage space : 1.82578125e-05 Gbytes /!\ +2019-09-12 11:15:36,541 WARNING: You have 15 seconds to stop the dataset copy by typing n +2019-09-12 11:15:51,552 DEBUG: Start: Creating datasets for multiprocessing +2019-09-12 11:15:51,556 DEBUG: Start: Initializing Monoview classifiers arguments +2019-09-12 11:15:51,557 DEBUG: Done: Initializing Monoview classifiers arguments +2019-09-12 11:15:51,570 DEBUG: Start: Executing all the needed biclass benchmarks diff --git a/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/Adaboost/ViewNumber0/2019_09_12-11_15_52-Results-Adaboost-No-Yes-learnRate_0.79-Plausible-ViewNumber0-feature_importances.pickle 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b/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/Adaboost/ViewNumber0/2019_09_12-11_15_52-Results-Adaboost-No-Yes-learnRate_0.79-Plausible-ViewNumber0-summary.txt @@ -0,0 +1,192 @@ +Classification on Plausible database for ViewNumber0 with Adaboost. + +f1_score on train : 0.8799999999999999 +f1_score on test : 0.8571428571428571 + +Database configuration : + - Database name : Plausible + - View name : ViewNumber0 View shape : (34, 10) + - Learning Rate : 0.7941176470588235 + - Labels used : No, Yes + - Number of cross validation folds : 5 + +Classifier configuration : + - Adaboostwith n_estimators : 133, base_estimator : DecisionTreeClassifier + - Executed on 1 core(s) + - Got configuration using randomized search with 2 iterations + + + For F1 score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 0.8571428571428571 + For Accuracy score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For F-beta score using None as sample_weights, None as labels, 1 as pos_label, binary as average, 1.0 as beta (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 0.8571428571428571 + For Hamming loss using None as classes (lower is better) : + - Score on train : 0.1111111111111111 + - Score on test : 0.14285714285714285 + For Jaccard_similarity score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For Precision score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.9166666666666666 + - Score on test : 1.0 + For Recall score using None as sample_weights, None as labels, 1 as pos_label, binaryas average (higher is better) : + - Score on train : 0.8461538461538461 + - Score on test : 0.75 + For Zero_one loss using None as sample_weights (lower is better) : + - Score on train : 0.11111111111111116 + - Score on test : 0.1428571428571429 + + + Classification took 0:00:09 + + Classifier Interpretation : +Feature importances : +- Feature index : 7, feature importance : 0.4512313405765816 +- Feature index : 2, feature importance : 0.14178323550020988 +- Feature index : 4, feature importance : 0.098936521213332 +- Feature index : 6, feature importance : 0.09639978807241292 +- Feature index : 9, feature importance : 0.08295676759522444 +- Feature index : 1, feature importance : 0.05046178939750596 +- Feature index : 3, feature importance : 0.04117978545910412 +- Feature index : 5, feature importance : 0.037050772185629036 + + + Estimator error | Estimator weight +0.14814814814814817 | 0.10308236152142845 +0.41847826086956513 | 0.019389728551740214 +0.3811142128899139 | 0.028571097609234052 +0.4170436816011132 | 0.019737297235633357 +0.4243148571771182 | 0.017979017220383774 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AdaboostGraalpy. + +f1_score on train : 0.8799999999999999 +f1_score on test : 0.8571428571428571 + +Database configuration : + - Database name : Plausible + - View name : ViewNumber0 View shape : (34, 10) + - Learning Rate : 0.7941176470588235 + - Labels used : No, Yes + - Number of cross validation folds : 5 + +Classifier configuration : + - AdaboostGraalpywith n_iterations : 330, n_stumps : 1, random_state : None + - Executed on 1 core(s) + - Got configuration using randomized search with 2 iterations + + + For F1 score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 0.8571428571428571 + For Accuracy score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For F-beta score using None as sample_weights, None as labels, 1 as pos_label, binary as average, 1.0 as beta (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 0.8571428571428571 + For Hamming loss using None as classes (lower is better) : + - Score on train : 0.1111111111111111 + - Score on test : 0.14285714285714285 + For Jaccard_similarity score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For Precision score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.9166666666666666 + - Score on test : 1.0 + For Recall score using None as sample_weights, None as labels, 1 as pos_label, binaryas average (higher is better) : + - Score on train : 0.8461538461538461 + - Score on test : 0.75 + For Zero_one loss using None as sample_weights (lower is better) : + - Score on train : 0.11111111111111116 + - Score on test : 0.1428571428571429 + + + Classification took 0:00:02 + + Classifier Interpretation : diff --git a/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostGraalpy/ViewNumber0/2019_09_12-11_16_02-Results-AdaboostGraalpy-No-Yes-learnRate_0.79-Plausible-ViewNumber0-test_labels.csv b/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostGraalpy/ViewNumber0/2019_09_12-11_16_02-Results-AdaboostGraalpy-No-Yes-learnRate_0.79-Plausible-ViewNumber0-test_labels.csv new file mode 100644 index 0000000000000000000000000000000000000000..7a514b27de9c230179d07e86174fc0ad8093c356 --- /dev/null +++ b/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostGraalpy/ViewNumber0/2019_09_12-11_16_02-Results-AdaboostGraalpy-No-Yes-learnRate_0.79-Plausible-ViewNumber0-test_labels.csv @@ -0,0 +1,7 @@ +1.000000000000000000e+00 +1.000000000000000000e+00 +0.000000000000000000e+00 +0.000000000000000000e+00 +1.000000000000000000e+00 +1.000000000000000000e+00 +0.000000000000000000e+00 diff --git 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a/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostPregen/ViewNumber0/2019_09_12-11_16_04-Results-AdaboostPregen-No-Yes-learnRate_0.79-Plausible-ViewNumber0-summary.txt b/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostPregen/ViewNumber0/2019_09_12-11_16_04-Results-AdaboostPregen-No-Yes-learnRate_0.79-Plausible-ViewNumber0-summary.txt new file mode 100644 index 0000000000000000000000000000000000000000..937595c2e9f8499d7860ad24d6ca4898dad9e9ce --- /dev/null +++ b/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostPregen/ViewNumber0/2019_09_12-11_16_04-Results-AdaboostPregen-No-Yes-learnRate_0.79-Plausible-ViewNumber0-summary.txt @@ -0,0 +1,197 @@ +Classification on Plausible database for ViewNumber0 with AdaboostPregen. + +f1_score on train : 0.8799999999999999 +f1_score on test : 0.8571428571428571 + +Database configuration : + - Database name : Plausible + - View name : ViewNumber0 View shape : (34, 10) + - Learning Rate : 0.7941176470588235 + - Labels used : No, Yes + - Number of cross validation folds : 5 + +Classifier configuration : + - AdaboostPregenwith n_estimators : 130, base_estimator : DecisionTreeClassifier, n_stumps : 1, random_state : <mtrand.RandomState object at 0x7fc8ceb8ca68> + - Executed on 1 core(s) + - Got configuration using randomized search with 2 iterations + + + For F1 score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 0.8571428571428571 + For Accuracy score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For F-beta score using None as sample_weights, None as labels, 1 as pos_label, binary as average, 1.0 as beta (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 0.8571428571428571 + For Hamming loss using None as classes (lower is better) : + - Score on train : 0.1111111111111111 + - Score on test : 0.14285714285714285 + For Jaccard_similarity score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For Precision score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.9166666666666666 + - Score on test : 1.0 + For Recall score using None as sample_weights, None as labels, 1 as pos_label, binaryas average (higher is better) : + - Score on train : 0.8461538461538461 + - Score on test : 0.75 + For Zero_one loss using None as sample_weights (lower is better) : + - Score on train : 0.11111111111111116 + - Score on test : 0.1428571428571429 + + + Classification took 0:00:15 + + Classifier Interpretation : +Feature importances : +- Feature index : 7, feature importance : 0.3013127912156881 +- Feature index : 17, feature importance : 0.15151455245406334 +- Feature index : 2, feature importance : 0.09896909766512689 +- Feature index : 19, feature importance : 0.06305256140479262 +- Feature index : 14, feature importance : 0.051780205671756584 +- Feature index : 16, feature importance : 0.05100864156571934 +- Feature index : 4, feature importance : 0.048427791586712815 +- Feature index : 6, feature importance : 0.04663002189656192 +- Feature index : 12, feature importance : 0.040279845407527215 +- Feature index : 11, feature importance : 0.031614704971605824 +- Feature index : 5, feature importance : 0.027590872063692262 +- Feature index : 9, feature importance : 0.02097031950719099 +- Feature index : 13, feature importance : 0.02069167788784662 +- Feature index : 1, feature importance : 0.019495590716871788 +- Feature index : 3, feature importance : 0.016835249803455413 +- Feature index : 15, feature importance : 0.009826076181388222 + + + Estimator error | Estimator weight +0.14814814814814817 | 0.10440711755432026 +0.41847826086956513 | 0.01963891434352781 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0000000000000000000000000000000000000000..447f744d022ee2938eaf3cb11d9adf2fb69514ea --- /dev/null +++ b/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostPregen10/ViewNumber0/2019_09_12-11_16_20-Results-AdaboostPregen10-No-Yes-learnRate_0.79-Plausible-ViewNumber0-summary.txt @@ -0,0 +1,201 @@ +Classification on Plausible database for ViewNumber0 with AdaboostPregen10. + +f1_score on train : 0.8799999999999999 +f1_score on test : 0.8571428571428571 + +Database configuration : + - Database name : Plausible + - View name : ViewNumber0 View shape : (34, 10) + - Learning Rate : 0.7941176470588235 + - Labels used : No, Yes + - Number of cross validation folds : 5 + +Classifier configuration : + - AdaboostPregen10with n_estimators : 100, base_estimator : DecisionTreeClassifier, n_stumps : 10, random_state : <mtrand.RandomState object at 0x7fc8ceb8ca68> + - Executed on 1 core(s) + - Got configuration using randomized search with 2 iterations + + + For F1 score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 0.8571428571428571 + For Accuracy score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For F-beta score using None as sample_weights, None as labels, 1 as pos_label, binary as average, 1.0 as beta (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 0.8571428571428571 + For Hamming loss using None as classes (lower is better) : + - Score on train : 0.1111111111111111 + - Score on test : 0.14285714285714285 + For Jaccard_similarity score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For Precision score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.9166666666666666 + - Score on test : 1.0 + For Recall score using None as sample_weights, None as labels, 1 as pos_label, binaryas average (higher is better) : + - Score on train : 0.8461538461538461 + - Score on test : 0.75 + For Zero_one loss using None as sample_weights (lower is better) : + - Score on train : 0.11111111111111116 + - Score on test : 0.1428571428571429 + + + Classification took 0:00:24 + + Classifier Interpretation : +Feature importances : +- Feature index : 71, feature importance : 0.12689592591079354 +- Feature index : 126, feature importance : 0.05697790824543862 +- Feature index : 175, feature importance : 0.047272519602349745 +- Feature index : 174, feature importance : 0.0420779015106621 +- Feature index : 176, feature importance : 0.041214317830667424 +- Feature index : 68, feature importance : 0.040361791836590756 +- Feature index : 177, feature importance : 0.03832739594378058 +- Feature index : 149, feature importance : 0.028775021063197577 +- Feature index : 173, feature importance : 0.02678647306546427 +- Feature index : 162, feature importance : 0.024975994946198635 +- Feature index : 140, feature importance : 0.02316442062959914 +- Feature index : 95, feature importance : 0.0211008382975498 +- Feature index : 75, feature importance : 0.01990738505808622 +- Feature index : 77, feature importance : 0.019793506267758835 +- Feature index : 132, feature importance : 0.019556293178168014 +- Feature index : 171, feature importance : 0.01913273084140539 +- Feature index : 120, feature importance : 0.018262981426596433 +- Feature index : 72, feature importance : 0.01753853472450508 +- Feature index : 125, feature importance : 0.016610526976555566 +- Feature index : 128, feature importance : 0.015745464452194154 +- Feature index : 179, feature importance : 0.014745178472067385 +- Feature index : 143, feature importance : 0.014739389381663647 +- Feature index : 165, feature importance : 0.013834826601869256 +- Feature index : 172, feature importance : 0.013570276619927282 +- Feature index : 190, feature importance : 0.013452314707375868 +- Feature index : 196, feature importance : 0.012841680486824408 +- Feature index : 166, feature importance : 0.012220694008748909 +- Feature index : 142, feature importance : 0.011411357440130334 +- Feature index : 198, feature importance : 0.010728371397906743 +- Feature index : 48, feature importance : 0.00953857443636483 +- Feature index : 113, feature importance : 0.009344725319043404 +- Feature index : 167, feature importance : 0.008960456108215888 +- Feature index : 124, feature importance : 0.008878540006729172 +- Feature index : 44, feature importance : 0.00874070308243857 +- Feature index : 70, feature importance : 0.008414662431837293 +- Feature index : 194, feature importance : 0.008245344094056974 +- Feature index : 115, feature importance : 0.008132439244978832 +- Feature index : 199, feature importance : 0.007994156415171616 +- Feature index : 148, feature importance : 0.007953182611648244 +- Feature index : 121, feature importance : 0.007872607785374876 +- Feature index : 26, feature importance : 0.007820485338920697 +- Feature index : 11, feature importance : 0.007290687118183025 +- Feature index : 136, feature importance : 0.007267663525866059 +- Feature index : 58, feature importance : 0.007229926189861582 +- Feature index : 90, feature importance : 0.0072217059277589505 +- Feature index : 110, feature importance : 0.007029278509028481 +- Feature index : 27, feature importance : 0.006980516407321124 +- Feature index : 170, feature importance : 0.006863092996914979 +- Feature index : 152, feature importance : 0.00671377978322433 +- Feature index : 57, feature importance : 0.006614056717217335 + + + Estimator error | Estimator weight +0.14814814814814817 | 0.1209812647227 +0.41847826086956513 | 0.022756501191833298 +0.3811142128899139 | 0.03353209484400786 +0.4170436816011132 | 0.02316442062959914 +0.4243148571771182 | 0.0211008382975498 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b/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostPregenTree/ViewNumber0/2019_09_12-11_16_45-Results-AdaboostPregenTree-No-Yes-learnRate_0.79-Plausible-ViewNumber0-summary.txt new file mode 100644 index 0000000000000000000000000000000000000000..58efd685fa45035825f46e3069b69097448e4528 --- /dev/null +++ b/results/Plausible/started_2019_09_12-11_15_/iter_1/No-vs-Yes/AdaboostPregenTree/ViewNumber0/2019_09_12-11_16_45-Results-AdaboostPregenTree-No-Yes-learnRate_0.79-Plausible-ViewNumber0-summary.txt @@ -0,0 +1,211 @@ +Classification on Plausible database for ViewNumber0 with AdaboostPregenTree. + +f1_score on train : 0.8799999999999999 +f1_score on test : 1.0 + +Database configuration : + - Database name : Plausible + - View name : ViewNumber0 View shape : (34, 10) + - Learning Rate : 0.7941176470588235 + - Labels used : No, Yes + - Number of cross validation folds : 5 + +Classifier configuration : + - AdaboostPregenTreewith n_estimators : 147, base_estimator : DecisionTreeClassifier, n_stumps : 100, random_state : <mtrand.RandomState object at 0x7fc8ceb8ca68>, max_depth : 3 + - Executed on 1 core(s) + - Got configuration using randomized search with 2 iterations + + + For F1 score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 1.0 + For Accuracy score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 1.0 + For F-beta score using None as sample_weights, None as labels, 1 as pos_label, binary as average, 1.0 as beta (higher is better) : + - Score on train : 0.8799999999999999 + - Score on test : 1.0 + For Hamming loss using None as classes (lower is better) : + - Score on train : 0.1111111111111111 + - Score on test : 0.0 + For Jaccard_similarity score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 1.0 + For Precision score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.9166666666666666 + - Score on test : 1.0 + For Recall score using None as sample_weights, None as labels, 1 as pos_label, binaryas average (higher is better) : + - Score on train : 0.8461538461538461 + - Score on test : 1.0 + For Zero_one loss using None as sample_weights (lower is better) : + - Score on train : 0.11111111111111116 + - Score on test : 0.0 + + + Classification took 0:00:19 + + Classifier Interpretation : +Feature importances : +- Feature index : 59, feature importance : 0.250995564710809 +- Feature index : 11, feature importance : 0.228370478207426 +- Feature index : 67, feature importance : 0.13255801862890249 +- Feature index : 93, feature importance : 0.0817974084494998 +- Feature index : 15, feature importance : 0.07605852141818412 +- Feature index : 46, feature importance : 0.07536561352287406 +- Feature index : 94, feature 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0.5 + +Database configuration : + - Database name : Plausible + - View name : ViewNumber0 View shape : (34, 10) + - Learning Rate : 0.7941176470588235 + - Labels used : No, Yes + - Number of cross validation folds : 5 + +Classifier configuration : + - Adaboostwith n_estimators : 36, base_estimator : DecisionTreeClassifier + - Executed on 1 core(s) + - Got configuration using randomized search with 2 iterations + + + For F1 score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.888888888888889 + - Score on test : 0.5 + For Accuracy score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.7142857142857143 + For F-beta score using None as sample_weights, None as labels, 1 as pos_label, binary as average, 1.0 as beta (higher is better) : + - Score on train : 0.888888888888889 + - Score on test : 0.5 + For Hamming loss using None as classes (lower is better) : + - Score on train : 0.1111111111111111 + - Score on test : 0.2857142857142857 + For Jaccard_similarity score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.7142857142857143 + For Precision score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.9230769230769231 + - Score on test : 1.0 + For Recall score using None as sample_weights, None as labels, 1 as pos_label, binaryas average (higher is better) : + - Score on train : 0.8571428571428571 + - Score on test : 0.3333333333333333 + For Zero_one loss using None as sample_weights (lower is better) : + - Score on train : 0.11111111111111116 + - Score on test : 0.2857142857142857 + + + Classification took 0:00:05 + + Classifier Interpretation : +Feature importances : +- Feature index : 4, feature importance : 0.27658467471101356 +- Feature index : 8, feature importance : 0.19573951165821046 +- 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labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.888888888888889 + - Score on test : 0.8 + For Accuracy score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For F-beta score using None as sample_weights, None as labels, 1 as pos_label, binary as average, 1.0 as beta (higher is better) : + - Score on train : 0.888888888888889 + - Score on test : 0.8 + For Hamming loss using None as classes (lower is better) : + - Score on train : 0.1111111111111111 + - Score on test : 0.14285714285714285 + For Jaccard_similarity score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.8571428571428571 + For Precision score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.9230769230769231 + - Score on test : 1.0 + For Recall score using None as 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b/results/Plausible/started_2019_09_12-11_15_/iter_2/No-vs-Yes/AdaboostPregen10/ViewNumber0/2019_09_12-11_16_14-Results-AdaboostPregen10-No-Yes-learnRate_0.79-Plausible-ViewNumber0-summary.txt @@ -0,0 +1,201 @@ +Classification on Plausible database for ViewNumber0 with AdaboostPregen10. + +f1_score on train : 0.888888888888889 +f1_score on test : 0.5 + +Database configuration : + - Database name : Plausible + - View name : ViewNumber0 View shape : (34, 10) + - Learning Rate : 0.7941176470588235 + - Labels used : No, Yes + - Number of cross validation folds : 5 + +Classifier configuration : + - AdaboostPregen10with n_estimators : 100, base_estimator : DecisionTreeClassifier, n_stumps : 10, random_state : <mtrand.RandomState object at 0x7fc164e80a68> + - Executed on 1 core(s) + - Got configuration using randomized search with 2 iterations + + + For F1 score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.888888888888889 + - Score on test : 0.5 + For Accuracy score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.7142857142857143 + For F-beta score using None as sample_weights, None as labels, 1 as pos_label, binary as average, 1.0 as beta (higher is better) : + - Score on train : 0.888888888888889 + - Score on test : 0.5 + For Hamming loss using None as classes (lower is better) : + - Score on train : 0.1111111111111111 + - Score on test : 0.2857142857142857 + For Jaccard_similarity score using None as sample_weights (higher is better) : + - Score on train : 0.8888888888888888 + - Score on test : 0.7142857142857143 + For Precision score using None as sample_weights, None as labels, 1 as pos_label, binary as average (higher is better) : + - Score on train : 0.9230769230769231 + - Score on test : 1.0 + For Recall score using None as sample_weights, None as labels, 1 as pos_label, binaryas average (higher is better) : + - Score on train : 0.8571428571428571 + - Score on test : 0.3333333333333333 + For Zero_one loss using None as sample_weights (lower is better) : + - Score on train : 0.11111111111111116 + - Score on test : 0.2857142857142857 + + + Classification took 0:00:09 + + Classifier Interpretation : +Feature importances : +- Feature index : 48, feature importance : 0.11951094465712629 +- Feature index : 158, feature importance : 0.04131831253225961 +- Feature index : 169, feature importance : 0.035692678652550124 +- Feature index : 85, feature importance : 0.03175033713047559 +- Feature index : 153, feature importance : 0.028194825191550504 +- Feature index : 165, feature importance : 0.026111773064163533 +- Feature index : 59, feature importance : 0.024805283512208284 +- Feature index : 198, feature importance : 0.02433804249487639 +- Feature index : 92, feature importance : 0.02307788083905098 +- Feature index : 156, feature importance : 0.022657169011343892 +- Feature index : 182, feature importance : 0.022499144786975928 +- Feature index : 52, feature importance : 0.02063049895805183 +- Feature index : 65, feature importance : 0.020130894101068154 +- Feature index : 69, feature importance : 0.019722250934096946 +- Feature index : 195, feature importance : 0.018423613605495288 +- Feature index : 187, feature importance : 0.01822928626551477 +- Feature index : 146, feature importance : 0.017537774219031892 +- Feature index : 188, feature importance : 0.0172988293700977 +- Feature index : 189, feature importance : 0.017221548319660513 +- Feature index : 186, feature importance : 0.015809416556100176 +- Feature index : 117, feature importance : 0.014872719027438107 +- Feature index : 141, feature importance : 0.01458604017384155 +- Feature index : 56, feature importance : 0.01457318899844308 +- Feature index : 180, feature importance : 0.013852056046587454 +- Feature index : 140, feature importance : 0.013705951733730619 +- Feature index : 190, feature importance : 0.013484494327546769 +- Feature index : 197, feature importance : 0.012722391962292835 +- Feature index : 157, feature importance : 0.012207936853336081 +- Feature index : 143, feature importance : 0.011946974686369363 +- Feature index : 193, feature importance : 0.01152690749014737 +- Feature index : 61, feature importance : 0.011254249359883927 +- Feature index : 80, feature importance : 0.011152590717566715 +- Feature index : 11, feature importance : 0.010738382242526016 +- Feature index : 151, feature importance : 0.010425027024500984 +- Feature index : 40, feature importance : 0.010015868514004808 +- Feature index : 196, feature importance : 0.00994336690327981 +- Feature index : 93, feature importance : 0.008809269716661003 +- Feature index : 119, feature importance : 0.008169085948479102 +- Feature index : 87, feature importance : 0.007841486410486088 +- Feature index : 181, feature importance : 0.0077077764008845655 +- Feature index : 112, feature importance : 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b/results/Plausible/started_2019_09_12-11_15_/iter_2/No-vs-Yes/train_labels.csv new file mode 100644 index 0000000000000000000000000000000000000000..cfdea50064ce593ccd080071d75e8263a1f1f5ce --- /dev/null +++ b/results/Plausible/started_2019_09_12-11_15_/iter_2/No-vs-Yes/train_labels.csv @@ -0,0 +1,27 @@ +0.000000000000000000e+00 +1.000000000000000000e+00 +0.000000000000000000e+00 +1.000000000000000000e+00 +1.000000000000000000e+00 +0.000000000000000000e+00 +0.000000000000000000e+00 +1.000000000000000000e+00 +1.000000000000000000e+00 +1.000000000000000000e+00 +1.000000000000000000e+00 +0.000000000000000000e+00 +0.000000000000000000e+00 +0.000000000000000000e+00 +0.000000000000000000e+00 +1.000000000000000000e+00 +0.000000000000000000e+00 +1.000000000000000000e+00 +0.000000000000000000e+00 +0.000000000000000000e+00 +1.000000000000000000e+00 +1.000000000000000000e+00 +1.000000000000000000e+00 +1.000000000000000000e+00 +0.000000000000000000e+00 +0.000000000000000000e+00 +1.000000000000000000e+00 diff --git a/results/Plausible/started_2019_09_12-11_15_/randomState.pickle b/results/Plausible/started_2019_09_12-11_15_/randomState.pickle new file mode 100644 index 0000000000000000000000000000000000000000..16f638b38d2df5cff3d953e4ea8e4f451f2438c0 Binary files /dev/null and b/results/Plausible/started_2019_09_12-11_15_/randomState.pickle differ diff --git a/setup.py b/setup.py index 8090e9971ce21b1055bb4f2604ce183109c7a9a5..c92aa05939321d4f459cfc5ba2cce082d853333f 100644 --- a/setup.py +++ b/setup.py @@ -90,5 +90,5 @@ setup( # Il y a encore une chiée de paramètres possibles, mais avec ça vous # couvrez 90% des besoins # ext_modules=cythonize( - # "multiview_platform/MonoMultiViewClassifiers/Monoview/Additions/_custom_criterion.pyx"), + # "multiview_platform/mono_multi_view_classifiers/monoview/additions/_custom_criterion.pyx"), )