else:
log_level = logging.INFO
if args.log:
logging.basicConfig(filename=args.log, level=log_level)
try:
config = json.load(open(args.config, "U"))
except IOError:
raise EnrichError('Failed to open "%s"' % args.config, _DRIVER_NAME)
except ValueError:
raise EnrichError("Improperly formatted .json file", _DRIVER_NAME)
if config_check.is_experiment(config):
obj = Experiment(config)
elif config_check.is_selection(config):
obj = Selection(config)
elif config_check.is_seqlib(config):
obj = globals()[config_check.seqlib_type(config)](config)
else:
raise EnrichError("Unrecognized .json config", _DRIVER_NAME)
if obj.output_base is None:
raise EnrichError("No output directory set", _DRIVER_NAME)
obj.calculate()
obj.write_data()
if args.plots:
pass
# obj.make_plots()
if args.log:
logging.basicConfig(filename=args.log, level=log_level)
else:
logging.basicConfig(level=log_level)
try:
config = json.load(open(args.config, "U"))
except IOError:
raise EnrichError('Failed to open "%s"' % args.config, _DRIVER_NAME)
except ValueError:
raise EnrichError("Improperly formatted .json file", _DRIVER_NAME)
if 'output directory' not in config:
raise EnrichError("No output directory set", _DRIVER_NAME)
if config_check.is_experiment(config):
obj = Experiment(config)
elif config_check.is_selection(config):
obj = Selection(config)
elif config_check.is_seqlib(config):
obj = globals()[config_check.seqlib_type(config)](config)
else:
raise EnrichError("Unrecognized .json config", _DRIVER_NAME)
obj.calculate()
obj.write_all()
if args.plots:
pass
# obj.make_plots()
