def setUp(self):
"""Connect to MongoDB and clear an existing experiment collection.
Create experiment manager"""
m = mongo.MongoDBFactory(db_name='scotest')
db = m.get_database()
db.experiments.drop()
self.mngr = experiments.DefaultExperimentManager(db.experiments)
def setUp(self):
"""Connect to MongoDB and clear an existing model collection.
Create model regisrty manager"""
# Read model definitions
with open(MODELS_FILE, 'r') as f:
self.models = json.load(f)
m = mongo.MongoDBFactory(db_name='test_sco')
db = m.get_database()
db.models.drop()
self.engine = engine.SCOEngine(m)
def setUp(self):
"""Connect to MongoDB and clear an existing modelruns collection.
Create the model run manager"""
m = mongo.MongoDBFactory(db_name='scotest')
db = m.get_database()
db.predictions.drop()
if os.path.isdir(TMP_DIR):
shutil.rmtree(TMP_DIR)
os.makedirs(TMP_DIR)
self.mngr = predictions.DefaultModelRunManager(db.modelruns, TMP_DIR)
def setUp(self):
"""Connect to MongoDB and clear an existing funcdata collection. Ensure
that data directory exists and is empty. Create functional data
manager."""
m = mongo.MongoDBFactory(db_name='scotest')
db = m.get_database()
db.fmris.drop()
if os.path.isdir(FMRIS_DIR):
shutil.rmtree(FMRIS_DIR)
os.makedirs(FMRIS_DIR)
self.mngr = funcdata.DefaultFunctionalDataManager(db.fmris, FMRIS_DIR)
def setUp(self):
"""Connect to MongoDB and clear an existing subjects collection. Ensure
that data directory exists and is empty. Then create subject manager."""
self.SUBJECT_FILE = os.path.join(DATA_DIR, 'subjects/ernie.tar.gz')
self.FALSE_SUBJECT_FILE = os.path.join(
DATA_DIR, 'subjects/false-subject.tar.gz')
m = mongo.MongoDBFactory(db_name='scotest')
db = m.get_database()
db.subjects.drop()
if os.path.isdir(SUBJECT_DIR):
shutil.rmtree(SUBJECT_DIR)
os.makedirs(SUBJECT_DIR)
self.mngr = subjects.DefaultSubjectManager(db.subjects, SUBJECT_DIR)
def setUp(self):
"""Connect to MongoDB and clear an existing images and image group
collection. Ensure that data directory exists and is empty. Then create
object managers."""
m = mongo.MongoDBFactory(db_name='scotest')
db = m.get_database()
db.images.drop()
db.predimages.drop()
if os.path.isdir(TMP_DIR):
shutil.rmtree(TMP_DIR)
os.makedirs(TMP_DIR)
self.mngr_images = images.DefaultImageManager(db.images, TMP_DIR)
self.mngr_predimages = images.DefaultPredictionImageSetManager(
db.predimages)