thejacksonlaboratory / basic-browser Goto Github PK

(_py) [root@5ef180056e76 basic]# _py/bin/python console/table_util.py load_genes 5 -i /Documents/hg38.gtf 
/opt/basic/console/../table/traits.py:43: YAMLLoadWarning: calling yaml.load() without Loader=... is deprecated, as the default Loader is unsafe. Please read https://msg.pyyaml.org/load for full details.
  _TRAITS = yaml.load(f)
/opt/basic/console/../engine/table_load.py:23: YAMLLoadWarning: calling yaml.load() without Loader=... is deprecated, as the default Loader is unsafe. Please read https://msg.pyyaml.org/load for full details.
  raw_presets = yaml.load(f)
Traceback (most recent call last):
  File "console/table_util.py", line 16, in <module>
    pluginsys.execute('table')
  File "/opt/basic/console/pluginsys.py", line 53, in execute
    args.func(args)
  File "/opt/basic/console/../console/plugins/table/load_genes.py", line 172, in _parser_callback
    _upload_ucscfile(genefile, table_id)
  File "/opt/basic/console/../console/plugins/table/load_genes.py", line 64, in _upload_ucscfile
    for p, q in _determine_mapping(_MAPPING_NAME, header).iteritems()]
  File "/opt/basic/console/../console/plugins/table/load_genes.py", line 197, in _determine_mapping
    raise Exception('No column found that satisfies regex /%s/' % pat)
Exception: No column found that satisfies regex /.strand$/