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merge dev into branch #1

Merged
merged 414 commits into from
Nov 3, 2023
Merged

merge dev into branch #1

merged 414 commits into from
Nov 3, 2023

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gecage952
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(Please replace this header with a description of your pull request. Please include BOTH what you did and why you made the changes. The "why" may simply be citing a relevant Galaxy issue.)
(If fixing a bug, please add any relevant error or traceback)
(For UI components, it is recommended to include screenshots or screencasts)

How to test the changes?

(Select all options that apply)

  • I've included appropriate automated tests.
  • This is a refactoring of components with existing test coverage.
  • Instructions for manual testing are as follows:
    1. [add testing steps and prerequisites here if you didn't write automated tests covering all your changes]

License

  • I agree to license these and all my past contributions to the core galaxy codebase under the MIT license.

in default of storeFingerprintForResuming, which should be compatible
with our setups -- works locally, will be good to exercise in CI.
mvdbeek and others added 27 commits October 31, 2023 17:51
Standardize to W3C naming for color.
…om_dashboard_viz

Allow to permanently delete non-deleted items in Storage Dashboard Visualizations
Co-authored-by: Michael R. Crusoe <michael.crusoe@gmail.com>
Co-authored-by: Marius van den Beek <m.vandenbeek@gmail.com>
…d_to_item

Add helper to get dataset or collection via ``src`` and ``id``
I suppose we have no way to express in tools that we are discovering
collection elements with extra files, and that's why that hasn't caused
any problems ? Caught by 🦅👀!
Seems like typing has been fixed in it?
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com>
…_path_persistence

Move and re-use persist_extra_files
Co-authored-by: Nicola Soranzo <nicola.soranzo@earlham.ac.uk>
…l_storage_workaround

Enhance Invenio RDM integration
…e_admin

Augment pgcleanup to allow periodically deleting old datasets.
Previously a tool with such an input would fail to load.

Add test tool.
Galaxy Markdown - add workflow image and license to Galaxy markdown.
Allow non-optional integer/float params without value attribute
…and_typos

prep for updated h5py and typos
@gecage952 gecage952 merged commit fba01ad into feature_stdout_live_reporting Nov 3, 2023
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github-actions bot commented Nov 3, 2023

This PR was merged without a "kind/" label, please correct.

gecage952 pushed a commit that referenced this pull request Mar 21, 2024
* Rename `delta` to `eps` for float-based assertions

* Fix tests
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