def mqc_load_config(yaml_config):
""" Load and parse a config file if we find it """
if os.path.isfile(yaml_config):
try:
with open(yaml_config) as f:
new_config = yaml.load(f)
logger.debug("Loading config settings from: {}".format(yaml_config))
for c, v in new_config.items():
if c == 'sp':
# Merge filename patterns instead of replacing
sp.update(v)
logger.debug("Added to filename patterns: {}".format(sp))
elif c == 'extra_fn_clean_exts':
# Prepend to filename cleaning patterns instead of replacing
fn_clean_exts[0:0] = v
logger.debug("Added to filename clean extensions. Now looking for: {}".format(fn_clean_exts))
else:
logger.debug("New config '{}': {}".format(c, v))
globals()[c] = v
except (IOError, AttributeError) as e:
logger.debug("Config error: {}".format(e))
except yaml.scanner.ScannerError as e:
logger.error("Error parsing config YAML: {}".format(e))
sys.exit(1)
else:
logger.debug("No MultiQC config found: {}".format(yaml_config))
def mqc_load_config(yaml_config):
""" Load and parse a config file if we find it """
if os.path.isfile(yaml_config):
try:
with open(yaml_config) as f:
new_config = yaml.load(f)
logger.debug(
"Loading config settings from: {}".format(yaml_config))
for c, v in new_config.items():
if c == 'sp':
# Merge filename patterns instead of replacing
sp.update(v)
logger.debug(
"Added to filename patterns: {}".format(sp))
elif c == 'extra_fn_clean_exts':
# Prepend to filename cleaning patterns instead of replacing
fn_clean_exts[0:0] = v
logger.debug(
"Added to filename clean extensions. Now looking for: {}"
.format(fn_clean_exts))
else:
logger.debug("New config '{}': {}".format(c, v))
globals()[c] = v
except (IOError, AttributeError) as e:
logger.debug("Config error: {}".format(e))
except yaml.scanner.ScannerError as e:
logger.error("Error parsing config YAML: {}".format(e))
sys.exit(1)
else:
logger.debug("No MultiQC config found: {}".format(yaml_config))