def test_end2end_known_test_data(self):
if rs.app.config['RUN_TESTS']:
# training/test data and output files
#label_file = '../data/input/SDS_PV2_combined/SDS_PV2_class_labels.txt'
label_file = rs.app.config['LABEL_FILE']
#self.report_path = '../data/input/SDS_PV2_combined/reports'
#self.report_path = rs.app.config['TEXT_REPORT_DIR']
label_data = pd.read_csv(label_file)
key_start = int(rs.app.config['REGION_COL_START'])
key_stop = int(rs.app.config['REGION_COL_STOP'])+1
region_keys = label_data.columns[key_start:key_stop]
# set the numpy random seed so results are reproducible
randstate = RandomState(987654321)
# partition the data
pos_cases, neg_cases = wrangle.partion(label_data['doc_norm']==1, label_data, ratios=[0.8,0.2])
test_mask = np.concatenate((pos_cases[1], neg_cases[1]))
randstate.shuffle(test_mask)
test_labels = label_data.iloc[test_mask]
#report_path = '../data/input/SDS_PV2_combined/reports'
report_path = rs.app.config['TEXT_REPORT_DIR']
test_reports = [self.load_report('{0}/{1}.txt'.format(report_path, pid)) for pid in test_labels['pid']]
min_acc = float(rs.app.config['MIN_ACCURACY'])
# send reports individually as multiple requests
accuracy = [0,0,0,0]
region_labels = ['inner','middle', 'outer', 'mastoid']
for idx, tpl in enumerate(zip(test_labels['pid'],test_reports)):
data = {tpl[0]:tpl[1]}
request_body = json.dumps(data)
rv = self.app.post('/classify',data=request_body, content_type='application/json')
rdata = json.loads(rv.data)
for jdx,label in enumerate(region_labels):
act = test_labels[label].iloc[idx]
pred = rdata[tpl[0]][jdx]
if act == pred:
accuracy[jdx] += 1
accuracy = [v/float(len(test_labels)) for v in accuracy]
for v in accuracy:
self.assertGreater(v, min_acc, 'Failed accuracy on individual post test {0}'.format(accuracy))
#send reports in one batch requiest
accuracy = [0,0,0,0]
region_labels = ['inner','middle', 'outer', 'mastoid']
data = {}
for idx, tpl in enumerate(zip(test_labels['pid'],test_reports)):
data[tpl[0]]=tpl[1]
request_body = json.dumps(data)
rv = self.app.post('/classify',data=request_body, content_type='application/json')
rdata = json.loads(rv.data)
for idx,pid in enumerate(test_labels['pid']):
for jdx,label in enumerate(region_labels):
act = test_labels[label].iloc[idx]
pred = rdata[pid][jdx]
if act == pred:
accuracy[jdx] += 1
accuracy = [v/float(len(test_labels)) for v in accuracy]
for v in accuracy:
self.assertGreater(v, min_acc, 'Failed accuracy on batch post test {0}'.format(accuracy))
report_path = './data/input/SDS_PV2_combined/reports_single_find_impr'
#load test set data - same set used for ML tests
seed = 987654321
# set the numpy random seed so results are reproducible
rs = RandomState(987654321)
# set common path variables
label_file = './data/input/SDS_PV2_combined/SDS_PV2_class_labels.txt'
# read data
label_data = pd.read_csv(label_file)
# partition the data
pos_cases, neg_cases = wrangle.partion(label_data['doc_norm']==1, label_data, ratios=[0.8,0.2])
train_mask = np.concatenate((pos_cases[0], neg_cases[0]))
test_mask = np.concatenate((pos_cases[1], neg_cases[1]))
rs.shuffle(train_mask)
rs.shuffle(test_mask)
train_labels = label_data.iloc[train_mask]
test_labels = label_data.iloc[test_mask]
# read in the text reports
train_reports = [load_report('{0}/{1}_fi.txt'.format(report_path, pid)) for pid in train_labels['pid']]
test_reports = [load_report('{0}/{1}_fi.txt'.format(report_path, pid)) for pid in test_labels['pid']]
#import keywords
keywords = {}
with open(keyword_file, 'r') as f:
key = ""
for line in f.readlines():
def test_end2end_known_test_data(self):
if rs.app.config['RUN_TESTS']:
# training/test data and output files
#label_file = '../data/input/SDS_PV2_combined/SDS_PV2_class_labels.txt'
label_file = rs.app.config['LABEL_FILE']
#self.report_path = '../data/input/SDS_PV2_combined/reports'
#self.report_path = rs.app.config['TEXT_REPORT_DIR']
label_data = pd.read_csv(label_file)
key_start = int(rs.app.config['REGION_COL_START'])
key_stop = int(rs.app.config['REGION_COL_STOP']) + 1
region_keys = label_data.columns[key_start:key_stop]
# set the numpy random seed so results are reproducible
randstate = RandomState(987654321)
# partition the data
pos_cases, neg_cases = wrangle.partion(label_data['doc_norm'] == 1,
label_data,
ratios=[0.8, 0.2])
test_mask = np.concatenate((pos_cases[1], neg_cases[1]))
randstate.shuffle(test_mask)
test_labels = label_data.iloc[test_mask]
#report_path = '../data/input/SDS_PV2_combined/reports'
report_path = rs.app.config['TEXT_REPORT_DIR']
test_reports = [
self.load_report('{0}/{1}.txt'.format(report_path, pid))
for pid in test_labels['pid']
]
min_acc = float(rs.app.config['MIN_ACCURACY'])
# send reports individually as multiple requests
accuracy = [0, 0, 0, 0]
region_labels = ['inner', 'middle', 'outer', 'mastoid']
for idx, tpl in enumerate(zip(test_labels['pid'], test_reports)):
data = {tpl[0]: tpl[1]}
request_body = json.dumps(data)
rv = self.app.post('/classify',
data=request_body,
content_type='application/json')
rdata = json.loads(rv.data)
for jdx, label in enumerate(region_labels):
act = test_labels[label].iloc[idx]
pred = rdata[tpl[0]][jdx]
if act == pred:
accuracy[jdx] += 1
accuracy = [v / float(len(test_labels)) for v in accuracy]
for v in accuracy:
self.assertGreater(
v, min_acc,
'Failed accuracy on individual post test {0}'.format(
accuracy))
#send reports in one batch requiest
accuracy = [0, 0, 0, 0]
region_labels = ['inner', 'middle', 'outer', 'mastoid']
data = {}
for idx, tpl in enumerate(zip(test_labels['pid'], test_reports)):
data[tpl[0]] = tpl[1]
request_body = json.dumps(data)
rv = self.app.post('/classify',
data=request_body,
content_type='application/json')
rdata = json.loads(rv.data)
for idx, pid in enumerate(test_labels['pid']):
for jdx, label in enumerate(region_labels):
act = test_labels[label].iloc[idx]
pred = rdata[pid][jdx]
if act == pred:
accuracy[jdx] += 1
accuracy = [v / float(len(test_labels)) for v in accuracy]
for v in accuracy:
self.assertGreater(
v, min_acc,
'Failed accuracy on batch post test {0}'.format(accuracy))