diff gmm_baseline_experiments/run_experiments.py @ 2:cb535b80218a

Remaining scripts and brief documentation

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/gmm_baseline_experiments/run_experiments.py	Fri Jul 10 23:24:23 2015 +0100
@@ -0,0 +1,135 @@
+#!/usr/bin/python
+
+#
+# run_experiments.py:
+#    Main script for CHiME-Home dataset baseline GMM evaluation
+#
+# Author: Peter Foster
+# (c) 2015 Peter Foster
+#
+
+from pylab import *
+from sklearn import cross_validation
+import os
+from pandas import Series, DataFrame
+from collections import defaultdict
+from extract_features import FeatureExtractor
+import exper002
+import custompickler
+from compute_performance_statistics import compute_performance_statistics
+import pdb
+
+Settings = {'paths':{}, 'algorithms':{}}
+Settings['paths'] = {'chime_home': {}, 'resultsdir':'/import/c4dm-scratch/peterf/audex/results/', 'featuresdir':'/import/c4dm-scratch/peterf/audex/features/'}
+Settings['paths']['chime_home'] = {'basepath':'/import/c4dm-02/people/peterf/audex/datasets/chime_home/'}
+
+#Read data sets and class assignments
+Datasets = {'chime_home':{}}
+
+#Read in annotations
+Chunks = list(Series.from_csv(Settings['paths']['chime_home']['basepath'] + 'release_chunks_refined.csv',header=None))
+Annotations = []
+for chunk in Chunks:
+    Annotations.append(Series.from_csv(Settings['paths']['chime_home']['basepath'] + 'chunks/' + chunk + '.csv'))
+Datasets['chime_home']['dataset'] = DataFrame(Annotations)
+
+#Compute label statistics
+Datasets['chime_home']['labelstats'] = defaultdict(lambda: 0)
+for item in Datasets['chime_home']['dataset']['majorityvote']:
+    for label in item:
+        Datasets['chime_home']['labelstats'][label] += 1
+#Labels to consider for multilabel classification -- based on label set used in Stowell and Plumbley (2013)
+Datasets['chime_home']['consideredlabels'] = ['c', 'b', 'f', 'm', 'o', 'p', 'v']
+#Populate binary label assignments
+for label in Datasets['chime_home']['consideredlabels']:
+    Datasets['chime_home']['dataset'][label] = [label in item for item in Datasets['chime_home']['dataset']['majorityvote']]
+#Obtain statistics for considered labels
+sum(Datasets['chime_home']['dataset'][Datasets['chime_home']['consideredlabels']]) / len(Datasets['chime_home']['dataset'])
+#Create partition for 10-fold cross-validation. Shuffling ensures each fold has approximately equal proportion of label ocurrences
+np.random.seed(475686)
+Datasets['chime_home']['crossval_10fold'] = cross_validation.KFold(len(Datasets['chime_home']['dataset']), 10, shuffle=True)
+
+Datasets['chime_home']['dataset']['wavfile'] = Datasets['chime_home']['dataset']['chunkname'].apply(lambda s: Settings['paths']['chime_home']['basepath'] + 'chunks/' + s + '.wav')
+
+#Extract features and assign them to Datasets structure
+for dataset in Datasets.keys():
+    picklepath = os.path.join(Settings['paths']['featuresdir'],'features_' + dataset)
+    if not(os.path.isfile(picklepath)):
+        if dataset == 'chime_home':
+            featureExtractor = FeatureExtractor(samplingRate=48000, frameLength=1024, hopLength=512)
+        else:
+            raise NotImplementedError()
+        FeatureList = featureExtractor.files_to_features(Datasets[dataset]['dataset']['wavfile'])
+        custompickler.pickle_save(FeatureList,picklepath)
+    else:
+        FeatureList = custompickler.pickle_load(picklepath)
+    #Integrity check
+    for features in FeatureList:
+        for feature in features.values():
+            assert(all(isfinite(feature.ravel())))
+    Datasets[dataset]['dataset']['features'] = FeatureList
+       
+#GMM experiments using CHiME home dataset
+EXPER005 = {}
+EXPER005['name'] = 'GMM_Baseline_EXPER005'
+EXPER005['path'] = os.path.join(Settings['paths']['resultsdir'],'exploratory','saved_objects','EXPER005')
+EXPER005['settings'] = {'numcomponents': (1,2,4,8), 'features': ('librosa_mfccs',)}
+EXPER005['datasets'] = {}
+EXPER005['datasets']['chime_home'] = exper002.exper002_multilabelclassification(Datasets['chime_home']['dataset'], Datasets['chime_home']['consideredlabels'], Datasets['chime_home']['crossval_10fold'], Settings, numComponentValues=EXPER005['settings']['numcomponents'], featureTypeValues=EXPER005['settings']['features'])
+EXPER005 = compute_performance_statistics(EXPER005, Datasets, Settings, iterableParameters=['numcomponents', 'features'])
+custompickler.pickle_save(EXPER005, EXPER005['path'])
+
+#Collate results
+def accumulate_results(EXPER):
+    EXPER['summaryresults'] = {}
+    ds = EXPER['datasets'].keys()[0]
+    for numComponents in EXPER['settings']['numcomponents']:
+        EXPER['summaryresults'][numComponents] = {}
+        for label in Datasets[ds]['consideredlabels']:
+            EXPER['summaryresults'][numComponents][label] = EXPER['datasets'][ds][(numComponents, 'librosa_mfccs')]['performance']['classwise'][label]['auc_precisionrecall']
+    EXPER['summaryresults'] = DataFrame(EXPER['summaryresults'])
+accumulate_results(EXPER005)
+
+#Generate plot
+def plot_performance(EXPER):
+    fig_width_pt = 246.0 # Get this from LaTeX using \showthe\columnwidth
+    inches_per_pt = 1.0/72.27 # Convert pt to inch
+    golden_mean = (sqrt(5)-1.0)/2.0 # Aesthetic ratio
+    fig_width = fig_width_pt*inches_per_pt # width in inches
+    fig_height = fig_width*golden_mean # height in inches
+    fig_size =  [fig_width,fig_height]
+    params = {'backend': 'ps',
+                'axes.labelsize': 8,
+                'text.fontsize': 8,
+                'legend.fontsize': 7.0,
+                'xtick.labelsize': 8,
+                'ytick.labelsize': 8,
+                'text.usetex': False,
+                'figure.figsize': fig_size}
+    rcParams.update(params)
+    ind = np.arange(len(EXPER['summaryresults'][1]))  # the x locations for the groups
+    width = 0.22      # the width of the bars
+    fig, ax = plt.subplots()
+    rects = []
+    colours = ('r', 'y', 'g', 'b', 'c')
+    for numComponents, i in zip(EXPER['summaryresults'],range(len(EXPER['summaryresults']))):
+        rects.append(ax.bar(ind+width*i, EXPER['summaryresults'][numComponents][['c','m','f','v','p','b','o']], width, color=colours[i], align='center'))
+    # add text for labels, title and axes ticks
+    ax.set_ylabel('AUC')
+    ax.set_xlabel('Label')
+    ax.set_xticks(ind+width)
+    ax.set_xticklabels(('c','m','f','v','p','b','o'))
+    ax.legend( (rect[0] for rect in rects), ('k=1', 'k=2', 'k=4','k=8') ,loc='lower right')
+    #Tweak x-axis limit
+    ax.set_xlim(left=-0.5)
+    ax.set_ylim(top=1.19)
+    plt.gcf().subplots_adjust(left=0.15) #Prevent y-axis label from being chopped off
+    def autolabel(r):
+        for rects in r:
+            for rect in rects:
+                height = rect.get_height()
+                ax.text(rect.get_x()+0.14,0.04+height,'%1.2f'%float(height),ha='center',va='bottom',rotation='vertical',size=6.0)
+    autolabel(rects)
+    plt.draw()
+    plt.savefig('figures/predictionperformance' + EXPER['name'] +'.pdf')
+plot_performance(EXPER005)
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