Mercurial > repos > shellac > sam_consensus_v3
diff env/lib/python3.9/site-packages/planemo/commands/cmd_shed_lint.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
| author | shellac |
|---|---|
| date | Mon, 22 Mar 2021 18:12:50 +0000 |
| parents | |
| children |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/env/lib/python3.9/site-packages/planemo/commands/cmd_shed_lint.py Mon Mar 22 18:12:50 2021 +0000 @@ -0,0 +1,59 @@ +"""Module describing the planemo ``shed_lint`` command.""" +import click + +from planemo import options +from planemo import shed +from planemo import shed_lint +from planemo.cli import command_function + + +@click.command('shed_lint') +@options.shed_realization_options() +@options.report_level_option() +@options.fail_level_option() +@options.click.option( + '--tools', + is_flag=True, + default=False, + help=("Lint tools discovered in the process of linting repositories.") +) +@options.lint_xsd_option() +@options.click.option( + '--ensure_metadata', + is_flag=True, + default=False, + help=("Ensure .shed.yml files contain enough metadata for each repository " + "to allow automated creation and/or updates.") +) +@click.option( + "--urls", + is_flag=True, + default=False, + help="Check validity of URLs in XML files", +) +# @click.option( +# "--verify", +# is_flag=True, +# help="If an sha256sum is available, download the entire file AND validate it.", +# default=False, +# ) +@command_function +def cli(ctx, paths, **kwds): + """Check Tool Shed repository for common issues. + + With the ``--tools`` flag, this command lints actual Galaxy tools + in addition to tool shed artifacts. + + With the ``--urls`` flag, this command searches for + ``<package>$URL</package>`` and download actions which specify URLs. Each + of those are accessed individually. By default, this tool requests the + first hundred or so bytes of each listed URL and validates that a 200 OK + was received. In tool XML files, the ``--urls`` option checks through the + help text for mentioned URLs and checks those. + """ + def lint(realized_repository): + return shed_lint.lint_repository(ctx, realized_repository, **kwds) + + kwds["fail_on_missing"] = False + exit_code = shed.for_each_repository(ctx, lint, paths, **kwds) + ctx.exit(exit_code)