Python bc_count_contigs Examples

Example #1

File: bc_count_contigs_server_test.py Project: bobcottingham/bc_count_contigs

 def setUpClass(cls):
     token = environ.get('KB_AUTH_TOKEN', None)
     cls.ctx = {'token': token, 'provenance': [{'service': 'bc_count_contigs',
         'method': 'please_never_use_it_in_production', 'method_params': []}],
         'authenticated': 1}
     config_file = environ.get('KB_DEPLOYMENT_CONFIG', None)
     cls.cfg = {}
     config = ConfigParser()
     config.read(config_file)
     for nameval in config.items('bc_count_contigs'):
         cls.cfg[nameval[0]] = nameval[1]
     cls.wsURL = cls.cfg['workspace-url']
     cls.wsClient = workspaceService(cls.wsURL, token=token)
     cls.serviceImpl = bc_count_contigs(cls.cfg)

Example #2

File: bc_count_contigsServer.py Project: bobcottingham/bc_count_contigs

def get_config():
    if not get_config_file():
        return None
    retconfig = {}
    config = ConfigParser()
    config.read(get_config_file())
    for nameval in config.items(get_service_name() or 'bc_count_contigs'):
        retconfig[nameval[0]] = nameval[1]
    return retconfig

config = get_config()

from bc_count_contigs.bc_count_contigsImpl import bc_count_contigs
impl_bc_count_contigs = bc_count_contigs(config)


class JSONObjectEncoder(json.JSONEncoder):

    def default(self, obj):
        if isinstance(obj, set):
            return list(obj)
        if isinstance(obj, frozenset):
            return list(obj)
        if hasattr(obj, 'toJSONable'):
            return obj.toJSONable()
        return json.JSONEncoder.default(self, obj)

sync_methods = {}
async_run_methods = {}