def install(self):
workspace = self.buildout['extract']['workspace']
staging = self.options['staging']
if not os.path.exists(staging):
os.makedirs(staging)
data = {}
for source in [f for f in glob.glob(os.path.join(workspace, '*.csv'))]:
file_name = os.path.split(source)[-1]
target = os.path.join(staging, file_name)
shutil.copyfile(source, target)
data[file_name] = read_csv(target)
accessions.main(data, staging)
annotations.main(data, staging)
files.main(data, staging)
genomes.main(data, staging)
profiles.main(data)
experiments.main(data, staging)
read_length.main(data, staging)
view.main(data, staging)
def install(self):
workspace = self.buildout['extract']['workspace']
staging = self.options['staging']
if not os.path.exists(staging):
os.makedirs(staging)
data = {}
for source in [f for f in glob.glob(os.path.join(workspace, '*.csv'))]:
file_name = os.path.split(source)[-1]
target = os.path.join(staging, file_name)
shutil.copyfile(source, target)
data[file_name] = read_csv(target)
accessions.main(data, staging)
annotations.main(data, staging)
files.main(data, staging)
genomes.main(data, staging)
profiles.main(data)
experiments.main(data, staging)
read_length.main(data, staging)
view.main(data, staging)
def test_annotations(self):
"""
Test the annotations method
"""
self.failUnless(annotations.main(data=None, workspace=None) == None)
def test_annotations(self):
"""
Test the annotations method
"""
self.failUnless(annotations.main(data=None, workspace=None) == None)
