Mercurial > repos > shellac > sam_consensus_v3
comparison env/lib/python3.9/site-packages/planemo/commands/cmd_shed_upload.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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-1:000000000000 | 0:4f3585e2f14b |
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1 """Module describing the planemo ``shed_upload`` command.""" | |
2 import sys | |
3 | |
4 import click | |
5 | |
6 from planemo import options | |
7 from planemo import shed | |
8 from planemo.cli import command_function | |
9 | |
10 | |
11 tar_path = click.Path( | |
12 exists=True, | |
13 file_okay=True, | |
14 dir_okay=False, | |
15 resolve_path=True, | |
16 ) | |
17 | |
18 | |
19 @click.command("shed_upload") | |
20 @options.shed_publish_options() | |
21 @options.shed_upload_options() | |
22 @click.option( | |
23 '--tar_only', | |
24 is_flag=True, | |
25 help="Produce tar file for upload but do not publish to a tool shed.", | |
26 ) | |
27 @click.option( | |
28 '--tar', | |
29 help="Specify a pre-existing tar file instead of automatically building " | |
30 "one as part of this command.", | |
31 type=tar_path, | |
32 default=None, | |
33 ) | |
34 @command_function | |
35 def cli(ctx, paths, **kwds): | |
36 """Low-level command to upload tarballs. | |
37 | |
38 Generally, ``shed_update`` should be used instead since it also updates | |
39 both tool shed contents (via tar ball generation and upload) as well as | |
40 metadata (to handle metadata changes in ``.shed.yml`` files). | |
41 | |
42 \b | |
43 % planemo shed_upload --tar_only ~/ | |
44 % tar -tzf shed_upload.tar.gz | |
45 test-data/blastdb.loc | |
46 ... | |
47 tools/ncbi_blast_plus/tool_dependencies.xml | |
48 % tar -tzf shed_upload.tar.gz | wc -l | |
49 117 | |
50 | |
51 """ | |
52 def upload(realized_repository): | |
53 return shed.upload_repository(ctx, realized_repository, **kwds) | |
54 | |
55 exit_code = shed.for_each_repository(ctx, upload, paths, **kwds) | |
56 sys.exit(exit_code) |