galaxy: fix selects and more - #63
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jpfeuffer
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April 1, 2022 22:56
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Looks ok. Let me know when you want to merge. Btw, do you think it makes sense to give you write/admin rights here? |
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I guess when I'm happy with the 2.8 galaxy wrappers over here galaxyproteomics/tools-galaxyp#653 and tests run successful again... I will send you a ping.
If you like. |
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@jpfeuffer any idea why the travis tests are not running here? |
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Any idea why CI tests are not starting here? |
and remove copy paste remnants
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count is now required for planemo lint to pass
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Hey @jpfeuffer lets get tests running first #64 |
Topic/gha tool linting fixes
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and fixup for out type parameter in tests
and use delta_frac fot test outputs
eg `--test-condition "compare=sim_size" "delta_frac=0.05"` which is the default
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instead of conditional
for Galaxy tool description see OpenMS/OpenMS#6568
and make code a bit more readable (hopefully)
for the Galaxy converter
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test data generation needs to remove whens and set the select parameter
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- remove XML declaration from output - indent XML
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@jpfeuffer 767f148 was used to generate the Galaxy tools for 3.1 (which have now been released). |
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June 17, 2024 07:39
some OpenMS tools have parameters with the same name (different sections). This creates problems in Galaxy. workaround is to hardcode a unique prefix. Before _ was used which now creates problems with the tool linting (parameters are not supposed to start with _). Hence we now use prefix of the form DEDUP_[0-9]+_DEDUP_
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TODO:
output-prefixconvert to cwl: output-prefix support #61