M Bernt
I think these are all cases which lead to errors in deploying. fixes #1112
by considering exclude when - build and downloading tar balls - diff shed update should now consider exclude in .shed.yml I checked this (https://github.com/galaxyproject/planemo/pull/1106/commits/a1e2cae620bf195c70ea97ae09f3ea0db8488861) in the following way on the...
Would be nice if `planemo test` would fail for such cases automatically. Like so https://github.com/galaxyproject/tools-iuc/pull/3986#issuecomment-926729276
e.g. for test, *lint, shed_lint and, workflow_lint, workflow_test : this would often simplify the CI code: - https://github.com/galaxyproject/galaxy/pull/12104#discussion_r650074197 - https://github.com/galaxyproject/planemo-ci-action/blob/80d6ba560a2847391493542116edf3c66f95f0cb/planemo_ci_actions.sh#L77 - https://github.com/galaxyproject/planemo-ci-action/blob/80d6ba560a2847391493542116edf3c66f95f0cb/planemo_ci_actions.sh#L105
It seems that `--conda_channels` is ignored when `--biocontainers` is enabled
It would be cool if the `ci_find*` commands would also consider symlinks. That is to if a file is changed then also consider all files that link to it as...
We see an exception in the output, but the test is not showing up in the test output: ``` Traceback (most recent call last): File "/tmp/tmp4o1tthh_/galaxy-dev/lib/galaxy/tools/toolbox/base.py", line 662, in _load_tool_tag_set...
``` export PLANEMO_VERSION="xyz" planemo --help ``` leads to ``` Error: Invalid value for '--version': xyz is not a valid boolean ```
`ci_find_tools --changed_in_commit_range RANGE` seems not find changed tools if the main xml file is not changed (e.g. if only scripts or test-data is changed). Not sure if this is the...
https://github.com/galaxyproject/tools-iuc/pull/3212/checks?check_run_id=1172370699 ``` Run planemo ci_find_repos --changed_in_commit_range HEAD~.. --exclude packages --exclude deprecated --exclude_from .tt_skip --output changed_repositories.list galaxy.util ERROR: Error parsing file /home/runner/work/tools-iuc/tools-iuc/tools/mothur/chimera.check.xml Traceback (most recent call last): File "/opt/hostedtoolcache/Python/3.7.9/x64/lib/python3.7/site-packages/galaxy/util/__init__.py", line 237,...