Mercurial > repos > shellac > guppy_basecaller
diff env/lib/python3.7/site-packages/ephemeris/common_parser.py @ 0:26e78fe6e8c4 draft
"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
author | shellac |
---|---|
date | Sat, 02 May 2020 07:14:21 -0400 |
parents | |
children |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/env/lib/python3.7/site-packages/ephemeris/common_parser.py Sat May 02 07:14:21 2020 -0400 @@ -0,0 +1,32 @@ +#!/usr/bin/env python + +import argparse + + +def get_common_args(login_required=True, log_file=False): + + parser = argparse.ArgumentParser(add_help=False) + general_group = parser.add_argument_group('General options') + general_group.add_argument("-v", "--verbose", help="Increase output verbosity.", action="store_true") + if log_file: + general_group.add_argument("--log_file", + dest="log_file", + help="Where the log file should be stored. " + "Default is a file in your system's temp folder", + default=None) + + con_group = parser.add_argument_group('Galaxy connection') + con_group.add_argument("-g", "--galaxy", + help="Target Galaxy instance URL/IP address", + default="http://localhost:8080") + + if login_required: + con_group.add_argument("-u", "--user", + help="Galaxy user email address") + con_group.add_argument("-p", "--password", + help="Password for the Galaxy user") + con_group.add_argument("-a", "--api_key", + dest="api_key", + help="Galaxy admin user API key (required if not defined in the tools list file)") + + return parser