Mercurial > repos > shellac > guppy_basecaller

comparison env/lib/python3.7/site-packages/ephemeris/common_parser.py @ 2:6af9afd405e9 draft

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"planemo upload commit 0a63dd5f4d38a1f6944587f52a8cd79874177fc1"
author shellac
date Thu, 14 May 2020 14:56:58 -0400
parents 26e78fe6e8c4
children
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1:75ca89e9b81c 2:6af9afd405e9
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