More fine grained options for --shed_install #1001
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cc @bgruening |
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@AndreasSko a few tests are failing, can you please look at those? |
Seems strange.. |
`--shed_install` uses the default options for installing tools from Ephemeris, resulting in automatic dependency resolution/installation on first run (see: https://github.com/galaxyproject/ephemeris/blob/6a01ac3de3f8e40145365523e3ae8807b9072282/src/ephemeris/shed_tools.py#L103). In some situations, where installing dependencies is not necessary (for example when using containers), disabling this would result in faster execution time. With this change, the options `--install_tool_dependencies`, `--install_resolver_dependencies`, and `--install_repository_dependencies` are introduced, which enables to define tool installation using `--shed_install` more fine grained. The default options stay the same, so there should be no breaking change to existing usage.
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Is it possible that the tests/pipeline itself is broken currently? Tested the master branch on my fork and it failed with the same problem: https://github.com/AndreasSko/planemo/actions/runs/53662366 |
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Those look like pre-existing problems - thanks for the enhancements! They look great! |
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--shed_installuses the default options for installing tools from Ephemeris, resulting in automatic dependency resolution/installation on first run (see: https://github.com/galaxyproject/ephemeris/blob/6a01ac3de3f8e40145365523e3ae8807b9072282/src/ephemeris/shed_tools.py#L103). In some situations, where installing dependencies is not necessary (for example when using containers), disabling this would result in faster execution time.With this change, the options
--install_tool_dependencies,--install_resolver_dependencies, and--install_repository_dependenciesare introduced, which enables to define tool installation using--shed_installmore fine grained. The default options stay the same, so there should be no breaking change to existing usage.