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# Conflicts:
#	lib/galaxy/version.py
#	packages/app/HISTORY.rst
#	packages/app/setup.cfg
#	packages/auth/HISTORY.rst
#	packages/auth/setup.cfg
#	packages/config/HISTORY.rst
#	packages/config/setup.cfg
#	packages/data/HISTORY.rst
#	packages/data/setup.cfg
#	packages/files/HISTORY.rst
#	packages/files/setup.cfg
#	packages/job_execution/HISTORY.rst
#	packages/job_execution/setup.cfg
#	packages/job_metrics/HISTORY.rst
#	packages/job_metrics/setup.cfg
#	packages/navigation/HISTORY.rst
#	packages/navigation/setup.cfg
#	packages/objectstore/HISTORY.rst
#	packages/objectstore/setup.cfg
#	packages/schema/HISTORY.rst
#	packages/schema/setup.cfg
#	packages/selenium/HISTORY.rst
#	packages/selenium/setup.cfg
#	packages/test_api/HISTORY.rst
#	packages/test_api/setup.cfg
#	packages/test_base/HISTORY.rst
#	packages/test_base/setup.cfg
#	packages/test_driver/HISTORY.rst
#	packages/test_driver/setup.cfg
#	packages/tool_shed/HISTORY.rst
#	packages/tool_shed/setup.cfg
#	packages/tool_util/HISTORY.rst
#	packages/tool_util/setup.cfg
#	packages/tours/HISTORY.rst
#	packages/tours/setup.cfg
#	packages/util/HISTORY.rst
#	packages/util/setup.cfg
#	packages/web_apps/HISTORY.rst
#	packages/web_apps/setup.cfg
#	packages/web_framework/HISTORY.rst
#	packages/web_framework/setup.cfg
#	packages/web_stack/HISTORY.rst
#	packages/web_stack/setup.cfg
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@bernt-matthias
bernt-matthias committed Jun 28, 2024
2 parents 7a7a2e1 + ba5e53b commit 9d601f8
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Showing 21 changed files with 371 additions and 63 deletions.
56 changes: 53 additions & 3 deletions packages/app/HISTORY.rst
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-------------------
24.0.3 (2024-06-28)
-------------------


=========
Bug fixes
=========

* Raise exception if collection elements missing during download by `@jdavcs <https://github.com/jdavcs>`_ in `#18094 <https://github.com/galaxyproject/galaxy/pull/18094>`_
* Allow purge query param, deprecate purge body param by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18105 <https://github.com/galaxyproject/galaxy/pull/18105>`_
* Backport OIDC schema fix by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18111 <https://github.com/galaxyproject/galaxy/pull/18111>`_
* Don't log exception if cancelled slurm job doesn't have stderr file by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18121 <https://github.com/galaxyproject/galaxy/pull/18121>`_
* Downgrade missing output file in working directory to warning for failed jobs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18123 <https://github.com/galaxyproject/galaxy/pull/18123>`_
* Fix data default values not getting added to history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18132 <https://github.com/galaxyproject/galaxy/pull/18132>`_
* Drop redundant error message by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18156 <https://github.com/galaxyproject/galaxy/pull/18156>`_
* Emit warning when user-cancelled job already complete by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18178 <https://github.com/galaxyproject/galaxy/pull/18178>`_
* Avoid object store path lookup when constructing JobState object by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18190 <https://github.com/galaxyproject/galaxy/pull/18190>`_
* Add string cast for dbkey / genome_build by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18207 <https://github.com/galaxyproject/galaxy/pull/18207>`_
* Check dataset state when attempting to acces dataset contents by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18214 <https://github.com/galaxyproject/galaxy/pull/18214>`_
* Don't set dataset peek for errored jobs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18231 <https://github.com/galaxyproject/galaxy/pull/18231>`_
* Raise exception when extracting dataset from collection without datasets by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18249 <https://github.com/galaxyproject/galaxy/pull/18249>`_
* Skip tests if toolshed, dx.doi not responding by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18250 <https://github.com/galaxyproject/galaxy/pull/18250>`_
* Don't attempt to download purged datasets by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18278 <https://github.com/galaxyproject/galaxy/pull/18278>`_
* Check various preconditions in FeatureLocationIndexDataProvider by `@davelopez <https://github.com/davelopez>`_ in `#18283 <https://github.com/galaxyproject/galaxy/pull/18283>`_
* Don't serialize display application links for deleted datasets by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18307 <https://github.com/galaxyproject/galaxy/pull/18307>`_
* Downgrade doi fetch error to debug by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18330 <https://github.com/galaxyproject/galaxy/pull/18330>`_
* Fix authentication error for anonymous users querying jobs by `@davelopez <https://github.com/davelopez>`_ in `#18333 <https://github.com/galaxyproject/galaxy/pull/18333>`_
* Fix seek in slurm memory check by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18338 <https://github.com/galaxyproject/galaxy/pull/18338>`_
* Do not copy purged outputs to object store by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18342 <https://github.com/galaxyproject/galaxy/pull/18342>`_
* Kill pulsar job if job stopped on galaxy side by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18348 <https://github.com/galaxyproject/galaxy/pull/18348>`_
* Allow DCE as outer input to to_cwl by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18349 <https://github.com/galaxyproject/galaxy/pull/18349>`_
* Fix anonymous user job retrieval logic by `@davelopez <https://github.com/davelopez>`_ in `#18358 <https://github.com/galaxyproject/galaxy/pull/18358>`_
* Fix update group API payload model by `@davelopez <https://github.com/davelopez>`_ in `#18374 <https://github.com/galaxyproject/galaxy/pull/18374>`_
* Fix user's private role can be missing by `@davelopez <https://github.com/davelopez>`_ in `#18381 <https://github.com/galaxyproject/galaxy/pull/18381>`_
* Fix null inputs in database operation tools by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18385 <https://github.com/galaxyproject/galaxy/pull/18385>`_
* Assign default ``data`` extension on discovered collection output by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18389 <https://github.com/galaxyproject/galaxy/pull/18389>`_
* Fix ``get_accessible_job`` if called without session by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18400 <https://github.com/galaxyproject/galaxy/pull/18400>`_
* Fix invocation step_job_summary for new collections by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18402 <https://github.com/galaxyproject/galaxy/pull/18402>`_
* Really allow in-range validator for txt by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#18411 <https://github.com/galaxyproject/galaxy/pull/18411>`_
* Fix collection map over status for dragged collections by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18416 <https://github.com/galaxyproject/galaxy/pull/18416>`_
* Serialize purged flag for datasets in collections by `@davelopez <https://github.com/davelopez>`_ in `#18420 <https://github.com/galaxyproject/galaxy/pull/18420>`_

=============
Other changes
=============

* Minor linting cleanup by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18421 <https://github.com/galaxyproject/galaxy/pull/18421>`_
* Replace busybox:ubuntu-14.04 image with busybox:1.36.1-glibc by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18428 <https://github.com/galaxyproject/galaxy/pull/18428>`_

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24.0.2 (2024-05-07)
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12 changes: 9 additions & 3 deletions packages/auth/HISTORY.rst
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24.1.0.dev0
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24.0.3 (2024-06-28)
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No recorded changes since last release

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24.0.2 (2024-05-07)
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24 changes: 21 additions & 3 deletions packages/config/HISTORY.rst
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24.1.dev0
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24.1.0.dev0
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-------------------
24.0.3 (2024-06-28)
-------------------


=========
Bug fixes
=========

* Backport OIDC schema fix by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18111 <https://github.com/galaxyproject/galaxy/pull/18111>`_
* Minor fix to enable external hgweb process by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18256 <https://github.com/galaxyproject/galaxy/pull/18256>`_

=============
Other changes
=============

* Replace busybox:ubuntu-14.04 image with busybox:1.36.1-glibc by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18428 <https://github.com/galaxyproject/galaxy/pull/18428>`_

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24.0.2 (2024-05-07)
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31 changes: 28 additions & 3 deletions packages/data/HISTORY.rst
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-------------------
24.0.3 (2024-06-28)
-------------------


=========
Bug fixes
=========

* Downgrade count lines error to warning by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18175 <https://github.com/galaxyproject/galaxy/pull/18175>`_
* Don't set dataset peek for errored jobs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18231 <https://github.com/galaxyproject/galaxy/pull/18231>`_
* Transparently open compressed files in DatasetDataProvider by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18248 <https://github.com/galaxyproject/galaxy/pull/18248>`_
* Raise exception when extracting dataset from collection without datasets by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18249 <https://github.com/galaxyproject/galaxy/pull/18249>`_
* Set page importable to false when serializing by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18263 <https://github.com/galaxyproject/galaxy/pull/18263>`_
* Fix first_dataset_element type hint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18284 <https://github.com/galaxyproject/galaxy/pull/18284>`_
* Do not copy purged outputs to object store by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18342 <https://github.com/galaxyproject/galaxy/pull/18342>`_
* Fix user's private role can be missing by `@davelopez <https://github.com/davelopez>`_ in `#18381 <https://github.com/galaxyproject/galaxy/pull/18381>`_
* Assign default ``data`` extension on discovered collection output by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18389 <https://github.com/galaxyproject/galaxy/pull/18389>`_

=============
Other changes
=============

* Replace busybox:ubuntu-14.04 image with busybox:1.36.1-glibc by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18428 <https://github.com/galaxyproject/galaxy/pull/18428>`_

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24.0.2 (2024-05-07)
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21 changes: 18 additions & 3 deletions packages/files/HISTORY.rst
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24.0.3 (2024-06-28)
-------------------


=========
Bug fixes
=========

* Fix listing possibly untitled records in Invenio Plugin by `@davelopez <https://github.com/davelopez>`_ in `#18130 <https://github.com/galaxyproject/galaxy/pull/18130>`_
* Raise ``RequestParameterInvalidException`` when url is invalid by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18155 <https://github.com/galaxyproject/galaxy/pull/18155>`_
* Fix error message when accessing restricted Zenodo records by `@davelopez <https://github.com/davelopez>`_ in `#18169 <https://github.com/galaxyproject/galaxy/pull/18169>`_
* Raise ``RequestParameterInvalidException`` if url can't be verified by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18230 <https://github.com/galaxyproject/galaxy/pull/18230>`_
* Fix Invenio credentials handling by `@davelopez <https://github.com/davelopez>`_ in `#18255 <https://github.com/galaxyproject/galaxy/pull/18255>`_

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24.0.2 (2024-05-07)
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21 changes: 18 additions & 3 deletions packages/job_execution/HISTORY.rst
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-------------------
24.0.3 (2024-06-28)
-------------------


=========
Bug fixes
=========

* Include traceback when logging email PJA exception by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18122 <https://github.com/galaxyproject/galaxy/pull/18122>`_
* Don't commit in ``DeleteIntermediatesAction`` by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18131 <https://github.com/galaxyproject/galaxy/pull/18131>`_
* Don't fail metadata if we only have an extra output files dir by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18179 <https://github.com/galaxyproject/galaxy/pull/18179>`_
* Don't set dataset peek for errored jobs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18231 <https://github.com/galaxyproject/galaxy/pull/18231>`_
* Do not copy purged outputs to object store by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18342 <https://github.com/galaxyproject/galaxy/pull/18342>`_

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24.0.2 (2024-05-07)
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12 changes: 9 additions & 3 deletions packages/job_metrics/HISTORY.rst
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24.0.3 (2024-06-28)
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No recorded changes since last release

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24.0.2 (2024-05-07)
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12 changes: 9 additions & 3 deletions packages/navigation/HISTORY.rst
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24.0.3 (2024-06-28)
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No recorded changes since last release

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24.0.2 (2024-05-07)
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19 changes: 16 additions & 3 deletions packages/objectstore/HISTORY.rst
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-------------------
24.0.3 (2024-06-28)
-------------------


=========
Bug fixes
=========

* Include stack when reporting delete error by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18208 <https://github.com/galaxyproject/galaxy/pull/18208>`_
* Only log error if deleting directory really failed by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18236 <https://github.com/galaxyproject/galaxy/pull/18236>`_
* Do not copy purged outputs to object store by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18342 <https://github.com/galaxyproject/galaxy/pull/18342>`_

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24.0.2 (2024-05-07)
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22 changes: 19 additions & 3 deletions packages/schema/HISTORY.rst
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-------------------
24.0.3 (2024-06-28)
-------------------


=========
Bug fixes
=========

* do not expand datasets that are known to be inaccessible by `@martenson <https://github.com/martenson>`_ in `#17818 <https://github.com/galaxyproject/galaxy/pull/17818>`_
* Allow purge query param, deprecate purge body param by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18105 <https://github.com/galaxyproject/galaxy/pull/18105>`_
* Fix deprecated `deprecated` argument by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18119 <https://github.com/galaxyproject/galaxy/pull/18119>`_
* Fix users API serialization when listing users by `@davelopez <https://github.com/davelopez>`_ in `#18329 <https://github.com/galaxyproject/galaxy/pull/18329>`_
* Fix update group API payload model by `@davelopez <https://github.com/davelopez>`_ in `#18374 <https://github.com/galaxyproject/galaxy/pull/18374>`_
* Serialize purged flag for datasets in collections by `@davelopez <https://github.com/davelopez>`_ in `#18420 <https://github.com/galaxyproject/galaxy/pull/18420>`_

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24.0.2 (2024-05-07)
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12 changes: 9 additions & 3 deletions packages/selenium/HISTORY.rst
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24.0.3 (2024-06-28)
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No recorded changes since last release

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24.0.2 (2024-05-07)
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20 changes: 17 additions & 3 deletions packages/test_api/HISTORY.rst
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24.1.0.dev0
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-------------------
24.0.3 (2024-06-28)
-------------------


=========
Bug fixes
=========

* Allow purge query param, deprecate purge body param by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18105 <https://github.com/galaxyproject/galaxy/pull/18105>`_
* Prevent anonymous and inactive users from running workflows by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#18192 <https://github.com/galaxyproject/galaxy/pull/18192>`_
* Check dataset state when attempting to acces dataset contents by `@mvdbeek <https://github.com/mvdbeek>`_ in `#18214 <https://github.com/galaxyproject/galaxy/pull/18214>`_
* Fix update group API payload model by `@davelopez <https://github.com/davelopez>`_ in `#18374 <https://github.com/galaxyproject/galaxy/pull/18374>`_

-------------------
24.0.2 (2024-05-07)
-------------------
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