Mercurial > repos > shellac > sam_consensus_v3
diff env/lib/python3.9/site-packages/ephemeris/common_parser.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/env/lib/python3.9/site-packages/ephemeris/common_parser.py Mon Mar 22 18:12:50 2021 +0000 @@ -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