Mercurial > repos > shellac > guppy_basecaller
comparison 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 |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:26e78fe6e8c4 |
|---|---|
| 1 #!/usr/bin/env python | |
| 2 | |
| 3 import argparse | |
| 4 | |
| 5 | |
| 6 def get_common_args(login_required=True, log_file=False): | |
| 7 | |
| 8 parser = argparse.ArgumentParser(add_help=False) | |
| 9 general_group = parser.add_argument_group('General options') | |
| 10 general_group.add_argument("-v", "--verbose", help="Increase output verbosity.", action="store_true") | |
| 11 if log_file: | |
| 12 general_group.add_argument("--log_file", | |
| 13 dest="log_file", | |
| 14 help="Where the log file should be stored. " | |
| 15 "Default is a file in your system's temp folder", | |
| 16 default=None) | |
| 17 | |
| 18 con_group = parser.add_argument_group('Galaxy connection') | |
| 19 con_group.add_argument("-g", "--galaxy", | |
| 20 help="Target Galaxy instance URL/IP address", | |
| 21 default="http://localhost:8080") | |
| 22 | |
| 23 if login_required: | |
| 24 con_group.add_argument("-u", "--user", | |
| 25 help="Galaxy user email address") | |
| 26 con_group.add_argument("-p", "--password", | |
| 27 help="Password for the Galaxy user") | |
| 28 con_group.add_argument("-a", "--api_key", | |
| 29 dest="api_key", | |
| 30 help="Galaxy admin user API key (required if not defined in the tools list file)") | |
| 31 | |
| 32 return parser |