.. image:: https://badge.fury.io/py/galaxy-web-apps.svg
:target: https://pypi.python.org/pypi/galaxy-web-apps/
Overview
--------
The Galaxy_ web apps (Galaxy, Reports, Tool Shed).
* Code: https://github.com/galaxyproject/galaxy
.. _Galaxy: http://galaxyproject.org/
History
-------
.. to_doc
-------------------
24.0.0 (2024-04-02)
-------------------
=========
Bug fixes
=========
* tus wants a json response from v2.0.0 by `@mira-miracoli <https://github.com/mira-miracoli>`_ in `#17246 <https://github.com/galaxyproject/galaxy/pull/17246>`_
* Fix quotas ID encoding by `@davelopez <https://github.com/davelopez>`_ in `#17335 <https://github.com/galaxyproject/galaxy/pull/17335>`_
* Fixes for flake8-bugbear 24.1.17 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#17340 <https://github.com/galaxyproject/galaxy/pull/17340>`_
* Fix data_source and data_source_async bugs by `@wm75 <https://github.com/wm75>`_ in `#17422 <https://github.com/galaxyproject/galaxy/pull/17422>`_
* Only check access permissions in ``/api/{history_dataset_collection_id}/contents/{dataset_collection_id}`` by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#17444 <https://github.com/galaxyproject/galaxy/pull/17444>`_
* Associate default history with session when creating a new session by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17557 <https://github.com/galaxyproject/galaxy/pull/17557>`_
* Fix tool shed webapp by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17597 <https://github.com/galaxyproject/galaxy/pull/17597>`_
* Don't call ``get_or_create_default_history()`` twice for invalidated sessions by `@nsoranzo <https://github.com/nsoranzo>`_ in `#17613 <https://github.com/galaxyproject/galaxy/pull/17613>`_
* Fix tool panel workflow and favorites button bugs by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#17634 <https://github.com/galaxyproject/galaxy/pull/17634>`_
* Fix DataResult type by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17639 <https://github.com/galaxyproject/galaxy/pull/17639>`_
* Prevent 500 for anon /api/invocations by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17640 <https://github.com/galaxyproject/galaxy/pull/17640>`_
* Don't fail for anon /api/users request by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17645 <https://github.com/galaxyproject/galaxy/pull/17645>`_
* Limit new anon histories by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17657 <https://github.com/galaxyproject/galaxy/pull/17657>`_
* Fix histories API index_query serialization by `@davelopez <https://github.com/davelopez>`_ in `#17726 <https://github.com/galaxyproject/galaxy/pull/17726>`_
* Handle missing indexer for a dataset by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#17736 <https://github.com/galaxyproject/galaxy/pull/17736>`_
* Don't require history to calculate anon disk usage by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17765 <https://github.com/galaxyproject/galaxy/pull/17765>`_
* Fix anon user values again by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17772 <https://github.com/galaxyproject/galaxy/pull/17772>`_
* Fix new default history creation when in remote or single user mode by `@dannon <https://github.com/dannon>`_ in `#17796 <https://github.com/galaxyproject/galaxy/pull/17796>`_
* Return published histories first in display_by_username_and_slug by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17808 <https://github.com/galaxyproject/galaxy/pull/17808>`_
* Fix archived histories mixing with active in histories list by `@davelopez <https://github.com/davelopez>`_ in `#17856 <https://github.com/galaxyproject/galaxy/pull/17856>`_
============
Enhancements
============
* New Workflow List and Card View by `@itisAliRH <https://github.com/itisAliRH>`_ in `#16607 <https://github.com/galaxyproject/galaxy/pull/16607>`_
* port invocation API to fastapi by `@martenson <https://github.com/martenson>`_ in `#16707 <https://github.com/galaxyproject/galaxy/pull/16707>`_
* Python 3.8 as minimum by `@mr-c <https://github.com/mr-c>`_ in `#16954 <https://github.com/galaxyproject/galaxy/pull/16954>`_
* Support for OIDC API Auth and OIDC integration tests by `@nuwang <https://github.com/nuwang>`_ in `#16977 <https://github.com/galaxyproject/galaxy/pull/16977>`_
* Toward declarative help for Galaxy markdown directives. by `@jmchilton <https://github.com/jmchilton>`_ in `#16979 <https://github.com/galaxyproject/galaxy/pull/16979>`_
* Vueify Admin User Grid by `@guerler <https://github.com/guerler>`_ in `#17030 <https://github.com/galaxyproject/galaxy/pull/17030>`_
* Remove web framework dependency from tools by `@davelopez <https://github.com/davelopez>`_ in `#17058 <https://github.com/galaxyproject/galaxy/pull/17058>`_
* Vueify Admin Roles Grid by `@guerler <https://github.com/guerler>`_ in `#17118 <https://github.com/galaxyproject/galaxy/pull/17118>`_
* SA2.0 updates: handling "object is being merged into a Session along the backref cascade path" by `@jdavcs <https://github.com/jdavcs>`_ in `#17122 <https://github.com/galaxyproject/galaxy/pull/17122>`_
* Vueify Admin Groups Grid by `@guerler <https://github.com/guerler>`_ in `#17126 <https://github.com/galaxyproject/galaxy/pull/17126>`_
* Towards SQLAlchemy 2.0: fix last cases of RemovedIn20Warning by `@jdavcs <https://github.com/jdavcs>`_ in `#17132 <https://github.com/galaxyproject/galaxy/pull/17132>`_
* Vueify Admin Forms and Quota grids by `@guerler <https://github.com/guerler>`_ in `#17141 <https://github.com/galaxyproject/galaxy/pull/17141>`_
* Migrate dataset extra files store to Pinia by `@davelopez <https://github.com/davelopez>`_ in `#17145 <https://github.com/galaxyproject/galaxy/pull/17145>`_
* Create pydantic model for the return of show operation - get: `/api/jobs/{job_id}` by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#17153 <https://github.com/galaxyproject/galaxy/pull/17153>`_
* Remove legacy tool versions list from admin panel by `@guerler <https://github.com/guerler>`_ in `#17155 <https://github.com/galaxyproject/galaxy/pull/17155>`_
* Don't require admin user to list ``/api/tool_data`` by `@jozh2008 <https://github.com/jozh2008>`_ in `#17161 <https://github.com/galaxyproject/galaxy/pull/17161>`_
* Drop fastapi-utils.InferringRouter in favor of fastapi.APIRouter by `@jdavcs <https://github.com/jdavcs>`_ in `#17184 <https://github.com/galaxyproject/galaxy/pull/17184>`_
* Vendorize fastapi-utls.cbv by `@jdavcs <https://github.com/jdavcs>`_ in `#17205 <https://github.com/galaxyproject/galaxy/pull/17205>`_
* Vueifiy History Grids by `@guerler <https://github.com/guerler>`_ in `#17219 <https://github.com/galaxyproject/galaxy/pull/17219>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#17235 <https://github.com/galaxyproject/galaxy/pull/17235>`_
* Refactor two of the missing invocation routes to FastAPI by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#17237 <https://github.com/galaxyproject/galaxy/pull/17237>`_
* Allow job files to consume TUS uploads by `@jmchilton <https://github.com/jmchilton>`_ in `#17242 <https://github.com/galaxyproject/galaxy/pull/17242>`_
* Migrate models to pydantic 2 by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17262 <https://github.com/galaxyproject/galaxy/pull/17262>`_
* Adds delete, purge and undelete batch operations to History Grid by `@guerler <https://github.com/guerler>`_ in `#17282 <https://github.com/galaxyproject/galaxy/pull/17282>`_
* Fix any type for tool_data_file_path by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17293 <https://github.com/galaxyproject/galaxy/pull/17293>`_
* API endpoint that allows "changing" the objectstore for "safe" scenarios. by `@jmchilton <https://github.com/jmchilton>`_ in `#17329 <https://github.com/galaxyproject/galaxy/pull/17329>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#17333 <https://github.com/galaxyproject/galaxy/pull/17333>`_
* Combines legacy qv-pattern and advanced filter pattern in history index endpoint by `@guerler <https://github.com/guerler>`_ in `#17368 <https://github.com/galaxyproject/galaxy/pull/17368>`_
* Update to black 2024 stable style by `@nsoranzo <https://github.com/nsoranzo>`_ in `#17391 <https://github.com/galaxyproject/galaxy/pull/17391>`_
* Replaces Trackster Grids with Data Dialog, Removes Phyloviz, Circster and Sweepster by `@guerler <https://github.com/guerler>`_ in `#17415 <https://github.com/galaxyproject/galaxy/pull/17415>`_
* Removes outdated Grid controller and backbone modules by `@guerler <https://github.com/guerler>`_ in `#17434 <https://github.com/galaxyproject/galaxy/pull/17434>`_
* Allow using tool data bundles as inputs to reference data select parameters by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17435 <https://github.com/galaxyproject/galaxy/pull/17435>`_
* Modernize bits and pieces of storage display by `@jmchilton <https://github.com/jmchilton>`_ in `#17436 <https://github.com/galaxyproject/galaxy/pull/17436>`_
* UI for "relocating" a dataset to a new object store (when safe) by `@jmchilton <https://github.com/jmchilton>`_ in `#17437 <https://github.com/galaxyproject/galaxy/pull/17437>`_
* Refactor Workflow API routes - Part 1 by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#17463 <https://github.com/galaxyproject/galaxy/pull/17463>`_
* Consolidate resource grids into tab views by `@guerler <https://github.com/guerler>`_ in `#17487 <https://github.com/galaxyproject/galaxy/pull/17487>`_
* Display workflow invocation counts. by `@jmchilton <https://github.com/jmchilton>`_ in `#17488 <https://github.com/galaxyproject/galaxy/pull/17488>`_
* Removes legacy history xml makos by `@guerler <https://github.com/guerler>`_ in `#17505 <https://github.com/galaxyproject/galaxy/pull/17505>`_
* add encode ID API endpoint by `@mira-miracoli <https://github.com/mira-miracoli>`_ in `#17510 <https://github.com/galaxyproject/galaxy/pull/17510>`_
* Fixing data_source tools and incrementing tool profile by `@wm75 <https://github.com/wm75>`_ in `#17515 <https://github.com/galaxyproject/galaxy/pull/17515>`_
* Filter out subworkflow invocations by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17558 <https://github.com/galaxyproject/galaxy/pull/17558>`_
* Links to individual invocations. by `@jmchilton <https://github.com/jmchilton>`_ in `#17566 <https://github.com/galaxyproject/galaxy/pull/17566>`_
* Restore histories API behavior for `keys` query parameter by `@davelopez <https://github.com/davelopez>`_ in `#17779 <https://github.com/galaxyproject/galaxy/pull/17779>`_
* Fix datasets API custom keys encoding by `@davelopez <https://github.com/davelopez>`_ in `#17793 <https://github.com/galaxyproject/galaxy/pull/17793>`_
-------------------
23.2.1 (2024-02-21)
-------------------
=========
Bug fixes
=========
* Rename to_dict to populate in FormDefintion to fix bug by `@jdavcs <https://github.com/jdavcs>`_ in `#16553 <https://github.com/galaxyproject/galaxy/pull/16553>`_
* Fix: serialize `tool_shed_urls` directly from the API by `@davelopez <https://github.com/davelopez>`_ in `#16561 <https://github.com/galaxyproject/galaxy/pull/16561>`_
* chore: fix typos by `@afuetterer <https://github.com/afuetterer>`_ in `#16851 <https://github.com/galaxyproject/galaxy/pull/16851>`_
* Restore ToolsApi and create new api route for new panel structure by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16872 <https://github.com/galaxyproject/galaxy/pull/16872>`_
* Ruff and flake8 fixes by `@nsoranzo <https://github.com/nsoranzo>`_ in `#16884 <https://github.com/galaxyproject/galaxy/pull/16884>`_
* Make payload optional again for create tag API by `@nsoranzo <https://github.com/nsoranzo>`_ in `#17144 <https://github.com/galaxyproject/galaxy/pull/17144>`_
* Fix Display Application link generation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17227 <https://github.com/galaxyproject/galaxy/pull/17227>`_
* Display application fixes and tests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17233 <https://github.com/galaxyproject/galaxy/pull/17233>`_
* Respect ``upstream_gzip`` setting when streaming dataset collection archive by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17400 <https://github.com/galaxyproject/galaxy/pull/17400>`_
* Fix history bulk operations menu conditions by `@davelopez <https://github.com/davelopez>`_ in `#17433 <https://github.com/galaxyproject/galaxy/pull/17433>`_
* Only check access permissions in `/api/{history_dataset_collection_id}/contents/{dataset_collection_id}` by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17459 <https://github.com/galaxyproject/galaxy/pull/17459>`_
* Set metadata states on dataset association, not dataset by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17474 <https://github.com/galaxyproject/galaxy/pull/17474>`_
* Provide working routes.url_for every ASGI request by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17497 <https://github.com/galaxyproject/galaxy/pull/17497>`_
============
Enhancements
============
* Tool Shed 2.0 by `@jmchilton <https://github.com/jmchilton>`_ in `#15639 <https://github.com/galaxyproject/galaxy/pull/15639>`_
* Limit number of celery task executions per second per user by `@claudiofr <https://github.com/claudiofr>`_ in `#16232 <https://github.com/galaxyproject/galaxy/pull/16232>`_
* Delete non-terminal jobs and subworkflow invocations when cancelling invocation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16252 <https://github.com/galaxyproject/galaxy/pull/16252>`_
* Towards SQLAlchemy 2.0 (upgrades to SA Core usage) by `@jdavcs <https://github.com/jdavcs>`_ in `#16264 <https://github.com/galaxyproject/galaxy/pull/16264>`_
* Notifications admin panel by `@itisAliRH <https://github.com/itisAliRH>`_ in `#16278 <https://github.com/galaxyproject/galaxy/pull/16278>`_
* Migrate cloud API to Fast API by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#16296 <https://github.com/galaxyproject/galaxy/pull/16296>`_
* Drop (admin only) userskeys controller by `@dannon <https://github.com/dannon>`_ in `#16318 <https://github.com/galaxyproject/galaxy/pull/16318>`_
* Migrate a part of the users API to Fast API by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#16341 <https://github.com/galaxyproject/galaxy/pull/16341>`_
* Add Invenio RDM repository integration by `@davelopez <https://github.com/davelopez>`_ in `#16381 <https://github.com/galaxyproject/galaxy/pull/16381>`_
* Refactor FilesDialog + Remote Files API schema improvements by `@davelopez <https://github.com/davelopez>`_ in `#16420 <https://github.com/galaxyproject/galaxy/pull/16420>`_
* SQLAlchemy 2.0 upgrades to ORM usage in /lib by `@jdavcs <https://github.com/jdavcs>`_ in `#16434 <https://github.com/galaxyproject/galaxy/pull/16434>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#16436 <https://github.com/galaxyproject/galaxy/pull/16436>`_
* Published Workflow Sharing Page Overhaul by `@ElectronicBlueberry <https://github.com/ElectronicBlueberry>`_ in `#16510 <https://github.com/galaxyproject/galaxy/pull/16510>`_
* Tweak tool memory use and optimize shared memory when using preload by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16536 <https://github.com/galaxyproject/galaxy/pull/16536>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#16577 <https://github.com/galaxyproject/galaxy/pull/16577>`_
* Workflow Comments 💬 by `@ElectronicBlueberry <https://github.com/ElectronicBlueberry>`_ in `#16612 <https://github.com/galaxyproject/galaxy/pull/16612>`_
* Galaxy Markdown - add workflow image and license to Galaxy markdown. by `@jmchilton <https://github.com/jmchilton>`_ in `#16672 <https://github.com/galaxyproject/galaxy/pull/16672>`_
* Implement instance URLs in Galaxy markdown. by `@jmchilton <https://github.com/jmchilton>`_ in `#16675 <https://github.com/galaxyproject/galaxy/pull/16675>`_
* Enhance task monitor composable by `@davelopez <https://github.com/davelopez>`_ in `#16695 <https://github.com/galaxyproject/galaxy/pull/16695>`_
* SQLAlchemy 2.0 upgrades (part 2) by `@jdavcs <https://github.com/jdavcs>`_ in `#16724 <https://github.com/galaxyproject/galaxy/pull/16724>`_
* Migrate `collection elements` store to Pinia by `@davelopez <https://github.com/davelopez>`_ in `#16725 <https://github.com/galaxyproject/galaxy/pull/16725>`_
* Refactor Tool Panel views structures and combine ToolBox and ToolBoxWorkflow into one component by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16739 <https://github.com/galaxyproject/galaxy/pull/16739>`_
* Don't copy collection elements in ``test_dataset_collection_hide_originals`` by `@nsoranzo <https://github.com/nsoranzo>`_ in `#16747 <https://github.com/galaxyproject/galaxy/pull/16747>`_
* Drop legacy server-side search by `@jdavcs <https://github.com/jdavcs>`_ in `#16755 <https://github.com/galaxyproject/galaxy/pull/16755>`_
* Migrate a part of the jobs API to Fast API by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#16778 <https://github.com/galaxyproject/galaxy/pull/16778>`_
* Replace file_name property with get_file_name function by `@SergeyYakubov <https://github.com/SergeyYakubov>`_ in `#16783 <https://github.com/galaxyproject/galaxy/pull/16783>`_
* Updated path-based interactive tools with entry point path injection, support for ITs with relative links, shortened URLs, doc and config updates including Podman job_conf by `@sveinugu <https://github.com/sveinugu>`_ in `#16795 <https://github.com/galaxyproject/galaxy/pull/16795>`_
* Galaxy help forum integration by `@ElectronicBlueberry <https://github.com/ElectronicBlueberry>`_ in `#16798 <https://github.com/galaxyproject/galaxy/pull/16798>`_
* SQLAlchemy 2.0 upgrades (part 4) by `@jdavcs <https://github.com/jdavcs>`_ in `#16852 <https://github.com/galaxyproject/galaxy/pull/16852>`_
* Vueify Visualizations Grid by `@guerler <https://github.com/guerler>`_ in `#16892 <https://github.com/galaxyproject/galaxy/pull/16892>`_
* Change `api/tool_panel` to `api/tool_panels/...` by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16928 <https://github.com/galaxyproject/galaxy/pull/16928>`_
* Remove "Create Workflow" form and allow workflow creation in editor by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16938 <https://github.com/galaxyproject/galaxy/pull/16938>`_
* Update API tool_panels route conditions by `@dannon <https://github.com/dannon>`_ in `#16991 <https://github.com/galaxyproject/galaxy/pull/16991>`_
* Fix invocation report to target correct workflow version. by `@jmchilton <https://github.com/jmchilton>`_ in `#17008 <https://github.com/galaxyproject/galaxy/pull/17008>`_
* Upgrade job manager's index_query method to SA2.0 by `@jdavcs <https://github.com/jdavcs>`_ in `#17020 <https://github.com/galaxyproject/galaxy/pull/17020>`_
* Require name for workflows on save, set default to Unnamed Workflow by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#17038 <https://github.com/galaxyproject/galaxy/pull/17038>`_
* Migrate groups API to fastAPI by `@arash77 <https://github.com/arash77>`_ in `#17051 <https://github.com/galaxyproject/galaxy/pull/17051>`_
* Migrate ItemTags API to FastAPI by `@arash77 <https://github.com/arash77>`_ in `#17064 <https://github.com/galaxyproject/galaxy/pull/17064>`_
=============
Other changes
=============
* Merge 23.1 into dev by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16534 <https://github.com/galaxyproject/galaxy/pull/16534>`_
* Fix succces typo by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17481 <https://github.com/galaxyproject/galaxy/pull/17481>`_
-------------------
23.1.4 (2024-01-04)
-------------------
=========
Bug fixes
=========
* Properly clear session on OIDC logout by `@guerler <https://github.com/guerler>`_ in `#17120 <https://github.com/galaxyproject/galaxy/pull/17120>`_
-------------------
23.1.3 (2023-12-01)
-------------------
=========
Bug fixes
=========
* Add missing optional description field, fixes ephemeris data library example by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17116 <https://github.com/galaxyproject/galaxy/pull/17116>`_
-------------------
23.1.2 (2023-11-29)
-------------------
=========
Bug fixes
=========
* Provide error message instead of internal server error by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16905 <https://github.com/galaxyproject/galaxy/pull/16905>`_
* Fix input dates in notifications: consider timezone offset by `@davelopez <https://github.com/davelopez>`_ in `#17088 <https://github.com/galaxyproject/galaxy/pull/17088>`_
============
Enhancements
============
* Add HEAD route to job_files endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17072 <https://github.com/galaxyproject/galaxy/pull/17072>`_
-------------------
23.1.1 (2023-10-23)
-------------------
=========
Bug fixes
=========
* Create ToolSuccess route and refactor component by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#15484 <https://github.com/galaxyproject/galaxy/pull/15484>`_
* fix premature return in user API by `@martenson <https://github.com/martenson>`_ in `#15781 <https://github.com/galaxyproject/galaxy/pull/15781>`_
* Ensure session is request-scoped for legacy endpoints by `@jdavcs <https://github.com/jdavcs>`_ in `#16207 <https://github.com/galaxyproject/galaxy/pull/16207>`_
* allow anon access for api/datasets/get_content_as_text by `@martenson <https://github.com/martenson>`_ in `#16226 <https://github.com/galaxyproject/galaxy/pull/16226>`_
* Fix form builder value handling by `@guerler <https://github.com/guerler>`_ in `#16304 <https://github.com/galaxyproject/galaxy/pull/16304>`_
* Fix tags ownership by `@davelopez <https://github.com/davelopez>`_ in `#16339 <https://github.com/galaxyproject/galaxy/pull/16339>`_
* Fix histories count by `@davelopez <https://github.com/davelopez>`_ in `#16400 <https://github.com/galaxyproject/galaxy/pull/16400>`_
* Make datatype edit default value a string instead of list of strings by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16591 <https://github.com/galaxyproject/galaxy/pull/16591>`_
* Backport tool mem fixes by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16601 <https://github.com/galaxyproject/galaxy/pull/16601>`_
* Optimize getting current user session by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16604 <https://github.com/galaxyproject/galaxy/pull/16604>`_
* Drop RecursiveMiddleware by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16605 <https://github.com/galaxyproject/galaxy/pull/16605>`_
* List extra files only for terminal datasets by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16705 <https://github.com/galaxyproject/galaxy/pull/16705>`_
* Copy the collection contents by default when copying a collection by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16717 <https://github.com/galaxyproject/galaxy/pull/16717>`_
* Fix up local tool version handling by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16836 <https://github.com/galaxyproject/galaxy/pull/16836>`_
* Fix delete collection + elements by `@davelopez <https://github.com/davelopez>`_ in `#16879 <https://github.com/galaxyproject/galaxy/pull/16879>`_
============
Enhancements
============
* Empower Users to Select Storage Destination by `@jmchilton <https://github.com/jmchilton>`_ in `#14073 <https://github.com/galaxyproject/galaxy/pull/14073>`_
* Add Storage Dashboard visualizations for histories by `@davelopez <https://github.com/davelopez>`_ in `#14820 <https://github.com/galaxyproject/galaxy/pull/14820>`_
* External Login Flow: Redirect users if account already exists by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#15019 <https://github.com/galaxyproject/galaxy/pull/15019>`_
* Various Tool Shed Cleanup by `@jmchilton <https://github.com/jmchilton>`_ in `#15247 <https://github.com/galaxyproject/galaxy/pull/15247>`_
* Add Storage Management API by `@davelopez <https://github.com/davelopez>`_ in `#15295 <https://github.com/galaxyproject/galaxy/pull/15295>`_
* OIDC tokens by `@SergeyYakubov <https://github.com/SergeyYakubov>`_ in `#15300 <https://github.com/galaxyproject/galaxy/pull/15300>`_
* Add support for visualizing HDF5 datasets. by `@jarrah42 <https://github.com/jarrah42>`_ in `#15394 <https://github.com/galaxyproject/galaxy/pull/15394>`_
* Towards SQLAlchemy 2.0: drop session autocommit setting by `@jdavcs <https://github.com/jdavcs>`_ in `#15421 <https://github.com/galaxyproject/galaxy/pull/15421>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#15435 <https://github.com/galaxyproject/galaxy/pull/15435>`_
* Unify url handling with filesources by `@nuwang <https://github.com/nuwang>`_ in `#15497 <https://github.com/galaxyproject/galaxy/pull/15497>`_
* Explore tool remote test data by `@davelopez <https://github.com/davelopez>`_ in `#15510 <https://github.com/galaxyproject/galaxy/pull/15510>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#15564 <https://github.com/galaxyproject/galaxy/pull/15564>`_
* Drop workflow exports to myexperiment.org by `@dannon <https://github.com/dannon>`_ in `#15576 <https://github.com/galaxyproject/galaxy/pull/15576>`_
* Add Galaxy Notification System by `@davelopez <https://github.com/davelopez>`_ in `#15663 <https://github.com/galaxyproject/galaxy/pull/15663>`_
* Mention OpenAPI docs in Galaxy API Documentation by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#15713 <https://github.com/galaxyproject/galaxy/pull/15713>`_
* Fix/Enhance recalculate disk usage API endpoint by `@davelopez <https://github.com/davelopez>`_ in `#15739 <https://github.com/galaxyproject/galaxy/pull/15739>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#15890 <https://github.com/galaxyproject/galaxy/pull/15890>`_
* Add History Archival feature by `@davelopez <https://github.com/davelopez>`_ in `#16003 <https://github.com/galaxyproject/galaxy/pull/16003>`_
* Code cleanups from ruff and pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#16035 <https://github.com/galaxyproject/galaxy/pull/16035>`_
* Dataset chunking tests (and small fixes) by `@jmchilton <https://github.com/jmchilton>`_ in `#16069 <https://github.com/galaxyproject/galaxy/pull/16069>`_
* Paginate History Store by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16084 <https://github.com/galaxyproject/galaxy/pull/16084>`_
* Allow HEAD request for requesting metadata files by `@martenson <https://github.com/martenson>`_ in `#16113 <https://github.com/galaxyproject/galaxy/pull/16113>`_
* Add option to see invocations related to a history by `@martenson <https://github.com/martenson>`_ in `#16136 <https://github.com/galaxyproject/galaxy/pull/16136>`_
* Improve histories and datasets immutability checks by `@davelopez <https://github.com/davelopez>`_ in `#16143 <https://github.com/galaxyproject/galaxy/pull/16143>`_
* Migrate display applications API to Fast API by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#16156 <https://github.com/galaxyproject/galaxy/pull/16156>`_
* adjust grid sharing indicators by `@martenson <https://github.com/martenson>`_ in `#16163 <https://github.com/galaxyproject/galaxy/pull/16163>`_
* Remove various fallback behaviors by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16199 <https://github.com/galaxyproject/galaxy/pull/16199>`_
* bring grids for (published) pages on par with workflows by `@martenson <https://github.com/martenson>`_ in `#16209 <https://github.com/galaxyproject/galaxy/pull/16209>`_
* Small test decorator improvements. by `@jmchilton <https://github.com/jmchilton>`_ in `#16220 <https://github.com/galaxyproject/galaxy/pull/16220>`_
* Don't error on missing parameters or unused parameters in UI controllers by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16246 <https://github.com/galaxyproject/galaxy/pull/16246>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#16267 <https://github.com/galaxyproject/galaxy/pull/16267>`_
* Fix Storage Dashboard missing archived histories by `@davelopez <https://github.com/davelopez>`_ in `#16473 <https://github.com/galaxyproject/galaxy/pull/16473>`_
* Add missing archived filter in saved histories by `@davelopez <https://github.com/davelopez>`_ in `#16475 <https://github.com/galaxyproject/galaxy/pull/16475>`_
* Drop expunge_all() call in WebTransactionRequest by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16606 <https://github.com/galaxyproject/galaxy/pull/16606>`_
=============
Other changes
=============
* Follow up on object store selection PR. by `@jmchilton <https://github.com/jmchilton>`_ in `#15654 <https://github.com/galaxyproject/galaxy/pull/15654>`_
* Tweaks to new object store and quota APIs by `@jmchilton <https://github.com/jmchilton>`_ in `#15709 <https://github.com/galaxyproject/galaxy/pull/15709>`_
* Fix Enums in API docs by `@davelopez <https://github.com/davelopez>`_ in `#15740 <https://github.com/galaxyproject/galaxy/pull/15740>`_
* Quota source labelling bug fixes and improvements by `@jmchilton <https://github.com/jmchilton>`_ in `#15795 <https://github.com/galaxyproject/galaxy/pull/15795>`_
* merge release_23.0 into dev by `@martenson <https://github.com/martenson>`_ in `#15830 <https://github.com/galaxyproject/galaxy/pull/15830>`_
* merge release_23.0 into dev by `@martenson <https://github.com/martenson>`_ in `#15854 <https://github.com/galaxyproject/galaxy/pull/15854>`_
* Merge 23.0 into dev by `@nsoranzo <https://github.com/nsoranzo>`_ in `#15902 <https://github.com/galaxyproject/galaxy/pull/15902>`_
* Fix recalculate_quota throug kombu message by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16299 <https://github.com/galaxyproject/galaxy/pull/16299>`_
-------------------
23.0.6 (2023-10-23)
-------------------
=========
Bug fixes
=========
* Fix incorrect ASGI request host by `@davelopez <https://github.com/davelopez>`_ in `#16574 <https://github.com/galaxyproject/galaxy/pull/16574>`_
* Allow the legacy DELETE dataset endpoint to accept any string for the history_id by `@assuntad23 <https://github.com/assuntad23>`_ in `#16593 <https://github.com/galaxyproject/galaxy/pull/16593>`_
-------------------
23.0.5 (2023-07-29)
-------------------
=========
Bug fixes
=========
* Fix active step display in workflow editor side panel by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16364 <https://github.com/galaxyproject/galaxy/pull/16364>`_
-------------------
23.0.4 (2023-06-30)
-------------------
=========
Bug fixes
=========
* Fix folder access for anonymous user by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16330 <https://github.com/galaxyproject/galaxy/pull/16330>`_
-------------------
23.0.3 (2023-06-26)
-------------------
=========
Bug fixes
=========
* Fix converting Enum value to str for Python 3.11 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#16284 <https://github.com/galaxyproject/galaxy/pull/16284>`_
============
Enhancements
============
* When importing tool data bundles, use the first loc file for the matching table by `@natefoo <https://github.com/natefoo>`_ in `#16247 <https://github.com/galaxyproject/galaxy/pull/16247>`_
-------------------
23.0.2 (2023-06-13)
-------------------
No recorded changes since last release
-------------------
23.0.1 (2023-06-08)
-------------------
=========
Bug fixes
=========
* Display DCE in job parameter component, allow rerunning with DCE input by `@mvdbeek <https://github.com/mvdbeek>`_ in `#15744 <https://github.com/galaxyproject/galaxy/pull/15744>`_
* Various fixes to path prefix handling by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16033 <https://github.com/galaxyproject/galaxy/pull/16033>`_
* Fix dataype_change not updating HDCA update_time by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16099 <https://github.com/galaxyproject/galaxy/pull/16099>`_
* Ignore invalid query params in display_by_username_and_slug by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16117 <https://github.com/galaxyproject/galaxy/pull/16117>`_
-------------------
20.5.0 (2020-07-04)
-------------------
* First release from the 20.05 branch of Galaxy.
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"description": "\n.. image:: https://badge.fury.io/py/galaxy-web-apps.svg\n :target: https://pypi.python.org/pypi/galaxy-web-apps/\n\n\nOverview\n--------\n\nThe Galaxy_ web apps (Galaxy, Reports, Tool Shed).\n\n* Code: https://github.com/galaxyproject/galaxy\n\n.. _Galaxy: http://galaxyproject.org/\n\nHistory\n-------\n\n.. to_doc\n\n-------------------\n24.0.0 (2024-04-02)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* tus wants a json response from v2.0.0 by `@mira-miracoli <https://github.com/mira-miracoli>`_ in `#17246 <https://github.com/galaxyproject/galaxy/pull/17246>`_\n* Fix quotas ID encoding by `@davelopez <https://github.com/davelopez>`_ in `#17335 <https://github.com/galaxyproject/galaxy/pull/17335>`_\n* Fixes for flake8-bugbear 24.1.17 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#17340 <https://github.com/galaxyproject/galaxy/pull/17340>`_\n* Fix data_source and data_source_async bugs by `@wm75 <https://github.com/wm75>`_ in `#17422 <https://github.com/galaxyproject/galaxy/pull/17422>`_\n* Only check access permissions in ``/api/{history_dataset_collection_id}/contents/{dataset_collection_id}`` by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#17444 <https://github.com/galaxyproject/galaxy/pull/17444>`_\n* Associate default history with session when creating a new session by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17557 <https://github.com/galaxyproject/galaxy/pull/17557>`_\n* Fix tool shed webapp by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17597 <https://github.com/galaxyproject/galaxy/pull/17597>`_\n* Don't call ``get_or_create_default_history()`` twice for invalidated sessions by `@nsoranzo <https://github.com/nsoranzo>`_ in `#17613 <https://github.com/galaxyproject/galaxy/pull/17613>`_\n* Fix tool panel workflow and favorites button bugs by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#17634 <https://github.com/galaxyproject/galaxy/pull/17634>`_\n* Fix DataResult type by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17639 <https://github.com/galaxyproject/galaxy/pull/17639>`_\n* Prevent 500 for anon /api/invocations by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17640 <https://github.com/galaxyproject/galaxy/pull/17640>`_\n* Don't fail for anon /api/users request by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17645 <https://github.com/galaxyproject/galaxy/pull/17645>`_\n* Limit new anon histories by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17657 <https://github.com/galaxyproject/galaxy/pull/17657>`_\n* Fix histories API index_query serialization by `@davelopez <https://github.com/davelopez>`_ in `#17726 <https://github.com/galaxyproject/galaxy/pull/17726>`_\n* Handle missing indexer for a dataset by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#17736 <https://github.com/galaxyproject/galaxy/pull/17736>`_\n* Don't require history to calculate anon disk usage by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17765 <https://github.com/galaxyproject/galaxy/pull/17765>`_\n* Fix anon user values again by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17772 <https://github.com/galaxyproject/galaxy/pull/17772>`_\n* Fix new default history creation when in remote or single user mode by `@dannon <https://github.com/dannon>`_ in `#17796 <https://github.com/galaxyproject/galaxy/pull/17796>`_\n* Return published histories first in display_by_username_and_slug by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17808 <https://github.com/galaxyproject/galaxy/pull/17808>`_\n* Fix archived histories mixing with active in histories list by `@davelopez <https://github.com/davelopez>`_ in `#17856 <https://github.com/galaxyproject/galaxy/pull/17856>`_\n\n============\nEnhancements\n============\n\n* New Workflow List and Card View by `@itisAliRH <https://github.com/itisAliRH>`_ in `#16607 <https://github.com/galaxyproject/galaxy/pull/16607>`_\n* port invocation API to fastapi by `@martenson <https://github.com/martenson>`_ in `#16707 <https://github.com/galaxyproject/galaxy/pull/16707>`_\n* Python 3.8 as minimum by `@mr-c <https://github.com/mr-c>`_ in `#16954 <https://github.com/galaxyproject/galaxy/pull/16954>`_\n* Support for OIDC API Auth and OIDC integration tests by `@nuwang <https://github.com/nuwang>`_ in `#16977 <https://github.com/galaxyproject/galaxy/pull/16977>`_\n* Toward declarative help for Galaxy markdown directives. by `@jmchilton <https://github.com/jmchilton>`_ in `#16979 <https://github.com/galaxyproject/galaxy/pull/16979>`_\n* Vueify Admin User Grid by `@guerler <https://github.com/guerler>`_ in `#17030 <https://github.com/galaxyproject/galaxy/pull/17030>`_\n* Remove web framework dependency from tools by `@davelopez <https://github.com/davelopez>`_ in `#17058 <https://github.com/galaxyproject/galaxy/pull/17058>`_\n* Vueify Admin Roles Grid by `@guerler <https://github.com/guerler>`_ in `#17118 <https://github.com/galaxyproject/galaxy/pull/17118>`_\n* SA2.0 updates: handling \"object is being merged into a Session along the backref cascade path\" by `@jdavcs <https://github.com/jdavcs>`_ in `#17122 <https://github.com/galaxyproject/galaxy/pull/17122>`_\n* Vueify Admin Groups Grid by `@guerler <https://github.com/guerler>`_ in `#17126 <https://github.com/galaxyproject/galaxy/pull/17126>`_\n* Towards SQLAlchemy 2.0: fix last cases of RemovedIn20Warning by `@jdavcs <https://github.com/jdavcs>`_ in `#17132 <https://github.com/galaxyproject/galaxy/pull/17132>`_\n* Vueify Admin Forms and Quota grids by `@guerler <https://github.com/guerler>`_ in `#17141 <https://github.com/galaxyproject/galaxy/pull/17141>`_\n* Migrate dataset extra files store to Pinia by `@davelopez <https://github.com/davelopez>`_ in `#17145 <https://github.com/galaxyproject/galaxy/pull/17145>`_\n* Create pydantic model for the return of show operation - get: `/api/jobs/{job_id}` by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#17153 <https://github.com/galaxyproject/galaxy/pull/17153>`_\n* Remove legacy tool versions list from admin panel by `@guerler <https://github.com/guerler>`_ in `#17155 <https://github.com/galaxyproject/galaxy/pull/17155>`_\n* Don't require admin user to list ``/api/tool_data`` by `@jozh2008 <https://github.com/jozh2008>`_ in `#17161 <https://github.com/galaxyproject/galaxy/pull/17161>`_\n* Drop fastapi-utils.InferringRouter in favor of fastapi.APIRouter by `@jdavcs <https://github.com/jdavcs>`_ in `#17184 <https://github.com/galaxyproject/galaxy/pull/17184>`_\n* Vendorize fastapi-utls.cbv by `@jdavcs <https://github.com/jdavcs>`_ in `#17205 <https://github.com/galaxyproject/galaxy/pull/17205>`_\n* Vueifiy History Grids by `@guerler <https://github.com/guerler>`_ in `#17219 <https://github.com/galaxyproject/galaxy/pull/17219>`_\n* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#17235 <https://github.com/galaxyproject/galaxy/pull/17235>`_\n* Refactor two of the missing invocation routes to FastAPI by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#17237 <https://github.com/galaxyproject/galaxy/pull/17237>`_\n* Allow job files to consume TUS uploads by `@jmchilton <https://github.com/jmchilton>`_ in `#17242 <https://github.com/galaxyproject/galaxy/pull/17242>`_\n* Migrate models to pydantic 2 by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17262 <https://github.com/galaxyproject/galaxy/pull/17262>`_\n* Adds delete, purge and undelete batch operations to History Grid by `@guerler <https://github.com/guerler>`_ in `#17282 <https://github.com/galaxyproject/galaxy/pull/17282>`_\n* Fix any type for tool_data_file_path by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17293 <https://github.com/galaxyproject/galaxy/pull/17293>`_\n* API endpoint that allows \"changing\" the objectstore for \"safe\" scenarios. by `@jmchilton <https://github.com/jmchilton>`_ in `#17329 <https://github.com/galaxyproject/galaxy/pull/17329>`_\n* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#17333 <https://github.com/galaxyproject/galaxy/pull/17333>`_\n* Combines legacy qv-pattern and advanced filter pattern in history index endpoint by `@guerler <https://github.com/guerler>`_ in `#17368 <https://github.com/galaxyproject/galaxy/pull/17368>`_\n* Update to black 2024 stable style by `@nsoranzo <https://github.com/nsoranzo>`_ in `#17391 <https://github.com/galaxyproject/galaxy/pull/17391>`_\n* Replaces Trackster Grids with Data Dialog, Removes Phyloviz, Circster and Sweepster by `@guerler <https://github.com/guerler>`_ in `#17415 <https://github.com/galaxyproject/galaxy/pull/17415>`_\n* Removes outdated Grid controller and backbone modules by `@guerler <https://github.com/guerler>`_ in `#17434 <https://github.com/galaxyproject/galaxy/pull/17434>`_\n* Allow using tool data bundles as inputs to reference data select parameters by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17435 <https://github.com/galaxyproject/galaxy/pull/17435>`_\n* Modernize bits and pieces of storage display by `@jmchilton <https://github.com/jmchilton>`_ in `#17436 <https://github.com/galaxyproject/galaxy/pull/17436>`_\n* UI for \"relocating\" a dataset to a new object store (when safe) by `@jmchilton <https://github.com/jmchilton>`_ in `#17437 <https://github.com/galaxyproject/galaxy/pull/17437>`_\n* Refactor Workflow API routes - Part 1 by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#17463 <https://github.com/galaxyproject/galaxy/pull/17463>`_\n* Consolidate resource grids into tab views by `@guerler <https://github.com/guerler>`_ in `#17487 <https://github.com/galaxyproject/galaxy/pull/17487>`_\n* Display workflow invocation counts. by `@jmchilton <https://github.com/jmchilton>`_ in `#17488 <https://github.com/galaxyproject/galaxy/pull/17488>`_\n* Removes legacy history xml makos by `@guerler <https://github.com/guerler>`_ in `#17505 <https://github.com/galaxyproject/galaxy/pull/17505>`_\n* add encode ID API endpoint by `@mira-miracoli <https://github.com/mira-miracoli>`_ in `#17510 <https://github.com/galaxyproject/galaxy/pull/17510>`_\n* Fixing data_source tools and incrementing tool profile by `@wm75 <https://github.com/wm75>`_ in `#17515 <https://github.com/galaxyproject/galaxy/pull/17515>`_\n* Filter out subworkflow invocations by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17558 <https://github.com/galaxyproject/galaxy/pull/17558>`_\n* Links to individual invocations. by `@jmchilton <https://github.com/jmchilton>`_ in `#17566 <https://github.com/galaxyproject/galaxy/pull/17566>`_\n* Restore histories API behavior for `keys` query parameter by `@davelopez <https://github.com/davelopez>`_ in `#17779 <https://github.com/galaxyproject/galaxy/pull/17779>`_\n* Fix datasets API custom keys encoding by `@davelopez <https://github.com/davelopez>`_ in `#17793 <https://github.com/galaxyproject/galaxy/pull/17793>`_\n\n-------------------\n23.2.1 (2024-02-21)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Rename to_dict to populate in FormDefintion to fix bug by `@jdavcs <https://github.com/jdavcs>`_ in `#16553 <https://github.com/galaxyproject/galaxy/pull/16553>`_\n* Fix: serialize `tool_shed_urls` directly from the API by `@davelopez <https://github.com/davelopez>`_ in `#16561 <https://github.com/galaxyproject/galaxy/pull/16561>`_\n* chore: fix typos by `@afuetterer <https://github.com/afuetterer>`_ in `#16851 <https://github.com/galaxyproject/galaxy/pull/16851>`_\n* Restore ToolsApi and create new api route for new panel structure by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16872 <https://github.com/galaxyproject/galaxy/pull/16872>`_\n* Ruff and flake8 fixes by `@nsoranzo <https://github.com/nsoranzo>`_ in `#16884 <https://github.com/galaxyproject/galaxy/pull/16884>`_\n* Make payload optional again for create tag API by `@nsoranzo <https://github.com/nsoranzo>`_ in `#17144 <https://github.com/galaxyproject/galaxy/pull/17144>`_\n* Fix Display Application link generation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17227 <https://github.com/galaxyproject/galaxy/pull/17227>`_\n* Display application fixes and tests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17233 <https://github.com/galaxyproject/galaxy/pull/17233>`_\n* Respect ``upstream_gzip`` setting when streaming dataset collection archive by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17400 <https://github.com/galaxyproject/galaxy/pull/17400>`_\n* Fix history bulk operations menu conditions by `@davelopez <https://github.com/davelopez>`_ in `#17433 <https://github.com/galaxyproject/galaxy/pull/17433>`_\n* Only check access permissions in `/api/{history_dataset_collection_id}/contents/{dataset_collection_id}` by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17459 <https://github.com/galaxyproject/galaxy/pull/17459>`_\n* Set metadata states on dataset association, not dataset by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17474 <https://github.com/galaxyproject/galaxy/pull/17474>`_\n* Provide working routes.url_for every ASGI request by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17497 <https://github.com/galaxyproject/galaxy/pull/17497>`_\n\n============\nEnhancements\n============\n\n* Tool Shed 2.0 by `@jmchilton <https://github.com/jmchilton>`_ in `#15639 <https://github.com/galaxyproject/galaxy/pull/15639>`_\n* Limit number of celery task executions per second per user by `@claudiofr <https://github.com/claudiofr>`_ in `#16232 <https://github.com/galaxyproject/galaxy/pull/16232>`_\n* Delete non-terminal jobs and subworkflow invocations when cancelling invocation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16252 <https://github.com/galaxyproject/galaxy/pull/16252>`_\n* Towards SQLAlchemy 2.0 (upgrades to SA Core usage) by `@jdavcs <https://github.com/jdavcs>`_ in `#16264 <https://github.com/galaxyproject/galaxy/pull/16264>`_\n* Notifications admin panel by `@itisAliRH <https://github.com/itisAliRH>`_ in `#16278 <https://github.com/galaxyproject/galaxy/pull/16278>`_\n* Migrate cloud API to Fast API by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#16296 <https://github.com/galaxyproject/galaxy/pull/16296>`_\n* Drop (admin only) userskeys controller by `@dannon <https://github.com/dannon>`_ in `#16318 <https://github.com/galaxyproject/galaxy/pull/16318>`_\n* Migrate a part of the users API to Fast API by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#16341 <https://github.com/galaxyproject/galaxy/pull/16341>`_\n* Add Invenio RDM repository integration by `@davelopez <https://github.com/davelopez>`_ in `#16381 <https://github.com/galaxyproject/galaxy/pull/16381>`_\n* Refactor FilesDialog + Remote Files API schema improvements by `@davelopez <https://github.com/davelopez>`_ in `#16420 <https://github.com/galaxyproject/galaxy/pull/16420>`_\n* SQLAlchemy 2.0 upgrades to ORM usage in /lib by `@jdavcs <https://github.com/jdavcs>`_ in `#16434 <https://github.com/galaxyproject/galaxy/pull/16434>`_\n* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#16436 <https://github.com/galaxyproject/galaxy/pull/16436>`_\n* Published Workflow Sharing Page Overhaul by `@ElectronicBlueberry <https://github.com/ElectronicBlueberry>`_ in `#16510 <https://github.com/galaxyproject/galaxy/pull/16510>`_\n* Tweak tool memory use and optimize shared memory when using preload by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16536 <https://github.com/galaxyproject/galaxy/pull/16536>`_\n* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#16577 <https://github.com/galaxyproject/galaxy/pull/16577>`_\n* Workflow Comments \ud83d\udcac by `@ElectronicBlueberry <https://github.com/ElectronicBlueberry>`_ in `#16612 <https://github.com/galaxyproject/galaxy/pull/16612>`_\n* Galaxy Markdown - add workflow image and license to Galaxy markdown. by `@jmchilton <https://github.com/jmchilton>`_ in `#16672 <https://github.com/galaxyproject/galaxy/pull/16672>`_\n* Implement instance URLs in Galaxy markdown. by `@jmchilton <https://github.com/jmchilton>`_ in `#16675 <https://github.com/galaxyproject/galaxy/pull/16675>`_\n* Enhance task monitor composable by `@davelopez <https://github.com/davelopez>`_ in `#16695 <https://github.com/galaxyproject/galaxy/pull/16695>`_\n* SQLAlchemy 2.0 upgrades (part 2) by `@jdavcs <https://github.com/jdavcs>`_ in `#16724 <https://github.com/galaxyproject/galaxy/pull/16724>`_\n* Migrate `collection elements` store to Pinia by `@davelopez <https://github.com/davelopez>`_ in `#16725 <https://github.com/galaxyproject/galaxy/pull/16725>`_\n* Refactor Tool Panel views structures and combine ToolBox and ToolBoxWorkflow into one component by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16739 <https://github.com/galaxyproject/galaxy/pull/16739>`_\n* Don't copy collection elements in ``test_dataset_collection_hide_originals`` by `@nsoranzo <https://github.com/nsoranzo>`_ in `#16747 <https://github.com/galaxyproject/galaxy/pull/16747>`_\n* Drop legacy server-side search by `@jdavcs <https://github.com/jdavcs>`_ in `#16755 <https://github.com/galaxyproject/galaxy/pull/16755>`_\n* Migrate a part of the jobs API to Fast API by `@heisner-tillman <https://github.com/heisner-tillman>`_ in `#16778 <https://github.com/galaxyproject/galaxy/pull/16778>`_\n* Replace file_name property with get_file_name function by `@SergeyYakubov <https://github.com/SergeyYakubov>`_ in `#16783 <https://github.com/galaxyproject/galaxy/pull/16783>`_\n* Updated path-based interactive tools with entry point path injection, support for ITs with relative links, shortened URLs, doc and config updates including Podman job_conf by `@sveinugu <https://github.com/sveinugu>`_ in `#16795 <https://github.com/galaxyproject/galaxy/pull/16795>`_\n* Galaxy help forum integration by `@ElectronicBlueberry <https://github.com/ElectronicBlueberry>`_ in `#16798 <https://github.com/galaxyproject/galaxy/pull/16798>`_\n* SQLAlchemy 2.0 upgrades (part 4) by `@jdavcs <https://github.com/jdavcs>`_ in `#16852 <https://github.com/galaxyproject/galaxy/pull/16852>`_\n* Vueify Visualizations Grid by `@guerler <https://github.com/guerler>`_ in `#16892 <https://github.com/galaxyproject/galaxy/pull/16892>`_\n* Change `api/tool_panel` to `api/tool_panels/...` by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16928 <https://github.com/galaxyproject/galaxy/pull/16928>`_\n* Remove \"Create Workflow\" form and allow workflow creation in editor by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#16938 <https://github.com/galaxyproject/galaxy/pull/16938>`_\n* Update API tool_panels route conditions by `@dannon <https://github.com/dannon>`_ in `#16991 <https://github.com/galaxyproject/galaxy/pull/16991>`_\n* Fix invocation report to target correct workflow version. by `@jmchilton <https://github.com/jmchilton>`_ in `#17008 <https://github.com/galaxyproject/galaxy/pull/17008>`_\n* Upgrade job manager's index_query method to SA2.0 by `@jdavcs <https://github.com/jdavcs>`_ in `#17020 <https://github.com/galaxyproject/galaxy/pull/17020>`_\n* Require name for workflows on save, set default to Unnamed Workflow by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#17038 <https://github.com/galaxyproject/galaxy/pull/17038>`_\n* Migrate groups API to fastAPI by `@arash77 <https://github.com/arash77>`_ in `#17051 <https://github.com/galaxyproject/galaxy/pull/17051>`_\n* Migrate ItemTags API to FastAPI by `@arash77 <https://github.com/arash77>`_ in `#17064 <https://github.com/galaxyproject/galaxy/pull/17064>`_\n\n=============\nOther changes\n=============\n\n* Merge 23.1 into dev by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16534 <https://github.com/galaxyproject/galaxy/pull/16534>`_\n* Fix succces typo by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17481 <https://github.com/galaxyproject/galaxy/pull/17481>`_\n\n-------------------\n23.1.4 (2024-01-04)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Properly clear session on OIDC logout by `@guerler <https://github.com/guerler>`_ in `#17120 <https://github.com/galaxyproject/galaxy/pull/17120>`_\n\n-------------------\n23.1.3 (2023-12-01)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Add missing optional description field, fixes ephemeris data library example by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17116 <https://github.com/galaxyproject/galaxy/pull/17116>`_\n\n-------------------\n23.1.2 (2023-11-29)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Provide error message instead of internal server error by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16905 <https://github.com/galaxyproject/galaxy/pull/16905>`_\n* Fix input dates in notifications: consider timezone offset by `@davelopez <https://github.com/davelopez>`_ in `#17088 <https://github.com/galaxyproject/galaxy/pull/17088>`_\n\n============\nEnhancements\n============\n\n* Add HEAD route to job_files endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#17072 <https://github.com/galaxyproject/galaxy/pull/17072>`_\n\n-------------------\n23.1.1 (2023-10-23)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Create ToolSuccess route and refactor component by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#15484 <https://github.com/galaxyproject/galaxy/pull/15484>`_\n* fix premature return in user API by `@martenson <https://github.com/martenson>`_ in `#15781 <https://github.com/galaxyproject/galaxy/pull/15781>`_\n* Ensure session is request-scoped for legacy endpoints by `@jdavcs <https://github.com/jdavcs>`_ in `#16207 <https://github.com/galaxyproject/galaxy/pull/16207>`_\n* allow anon access for api/datasets/get_content_as_text by `@martenson <https://github.com/martenson>`_ in `#16226 <https://github.com/galaxyproject/galaxy/pull/16226>`_\n* Fix form builder value handling by `@guerler <https://github.com/guerler>`_ in `#16304 <https://github.com/galaxyproject/galaxy/pull/16304>`_\n* Fix tags ownership by `@davelopez <https://github.com/davelopez>`_ in `#16339 <https://github.com/galaxyproject/galaxy/pull/16339>`_\n* Fix histories count by `@davelopez <https://github.com/davelopez>`_ in `#16400 <https://github.com/galaxyproject/galaxy/pull/16400>`_\n* Make datatype edit default value a string instead of list of strings by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16591 <https://github.com/galaxyproject/galaxy/pull/16591>`_\n* Backport tool mem fixes by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16601 <https://github.com/galaxyproject/galaxy/pull/16601>`_\n* Optimize getting current user session by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16604 <https://github.com/galaxyproject/galaxy/pull/16604>`_\n* Drop RecursiveMiddleware by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16605 <https://github.com/galaxyproject/galaxy/pull/16605>`_\n* List extra files only for terminal datasets by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16705 <https://github.com/galaxyproject/galaxy/pull/16705>`_\n* Copy the collection contents by default when copying a collection by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16717 <https://github.com/galaxyproject/galaxy/pull/16717>`_\n* Fix up local tool version handling by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16836 <https://github.com/galaxyproject/galaxy/pull/16836>`_\n* Fix delete collection + elements by `@davelopez <https://github.com/davelopez>`_ in `#16879 <https://github.com/galaxyproject/galaxy/pull/16879>`_\n\n============\nEnhancements\n============\n\n* Empower Users to Select Storage Destination by `@jmchilton <https://github.com/jmchilton>`_ in `#14073 <https://github.com/galaxyproject/galaxy/pull/14073>`_\n* Add Storage Dashboard visualizations for histories by `@davelopez <https://github.com/davelopez>`_ in `#14820 <https://github.com/galaxyproject/galaxy/pull/14820>`_\n* External Login Flow: Redirect users if account already exists by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#15019 <https://github.com/galaxyproject/galaxy/pull/15019>`_\n* Various Tool Shed Cleanup by `@jmchilton <https://github.com/jmchilton>`_ in `#15247 <https://github.com/galaxyproject/galaxy/pull/15247>`_\n* Add Storage Management API by `@davelopez <https://github.com/davelopez>`_ in `#15295 <https://github.com/galaxyproject/galaxy/pull/15295>`_\n* OIDC tokens by `@SergeyYakubov <https://github.com/SergeyYakubov>`_ in `#15300 <https://github.com/galaxyproject/galaxy/pull/15300>`_\n* Add support for visualizing HDF5 datasets. by `@jarrah42 <https://github.com/jarrah42>`_ in `#15394 <https://github.com/galaxyproject/galaxy/pull/15394>`_\n* Towards SQLAlchemy 2.0: drop session autocommit setting by `@jdavcs <https://github.com/jdavcs>`_ in `#15421 <https://github.com/galaxyproject/galaxy/pull/15421>`_\n* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#15435 <https://github.com/galaxyproject/galaxy/pull/15435>`_\n* Unify url handling with filesources by `@nuwang <https://github.com/nuwang>`_ in `#15497 <https://github.com/galaxyproject/galaxy/pull/15497>`_\n* Explore tool remote test data by `@davelopez <https://github.com/davelopez>`_ in `#15510 <https://github.com/galaxyproject/galaxy/pull/15510>`_\n* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#15564 <https://github.com/galaxyproject/galaxy/pull/15564>`_\n* Drop workflow exports to myexperiment.org by `@dannon <https://github.com/dannon>`_ in `#15576 <https://github.com/galaxyproject/galaxy/pull/15576>`_\n* Add Galaxy Notification System by `@davelopez <https://github.com/davelopez>`_ in `#15663 <https://github.com/galaxyproject/galaxy/pull/15663>`_\n* Mention OpenAPI docs in Galaxy API Documentation by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#15713 <https://github.com/galaxyproject/galaxy/pull/15713>`_\n* Fix/Enhance recalculate disk usage API endpoint by `@davelopez <https://github.com/davelopez>`_ in `#15739 <https://github.com/galaxyproject/galaxy/pull/15739>`_\n* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#15890 <https://github.com/galaxyproject/galaxy/pull/15890>`_\n* Add History Archival feature by `@davelopez <https://github.com/davelopez>`_ in `#16003 <https://github.com/galaxyproject/galaxy/pull/16003>`_\n* Code cleanups from ruff and pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#16035 <https://github.com/galaxyproject/galaxy/pull/16035>`_\n* Dataset chunking tests (and small fixes) by `@jmchilton <https://github.com/jmchilton>`_ in `#16069 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<https://github.com/galaxyproject/galaxy/pull/16163>`_\n* Remove various fallback behaviors by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16199 <https://github.com/galaxyproject/galaxy/pull/16199>`_\n* bring grids for (published) pages on par with workflows by `@martenson <https://github.com/martenson>`_ in `#16209 <https://github.com/galaxyproject/galaxy/pull/16209>`_\n* Small test decorator improvements. by `@jmchilton <https://github.com/jmchilton>`_ in `#16220 <https://github.com/galaxyproject/galaxy/pull/16220>`_\n* Don't error on missing parameters or unused parameters in UI controllers by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16246 <https://github.com/galaxyproject/galaxy/pull/16246>`_\n* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#16267 <https://github.com/galaxyproject/galaxy/pull/16267>`_\n* Fix Storage Dashboard missing archived histories by `@davelopez <https://github.com/davelopez>`_ in `#16473 <https://github.com/galaxyproject/galaxy/pull/16473>`_\n* Add missing archived filter in saved histories by `@davelopez <https://github.com/davelopez>`_ in `#16475 <https://github.com/galaxyproject/galaxy/pull/16475>`_\n* Drop expunge_all() call in WebTransactionRequest by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16606 <https://github.com/galaxyproject/galaxy/pull/16606>`_\n\n=============\nOther changes\n=============\n\n* Follow up on object store selection PR. by `@jmchilton <https://github.com/jmchilton>`_ in `#15654 <https://github.com/galaxyproject/galaxy/pull/15654>`_\n* Tweaks to new object store and quota APIs by `@jmchilton <https://github.com/jmchilton>`_ in `#15709 <https://github.com/galaxyproject/galaxy/pull/15709>`_\n* Fix Enums in API docs by `@davelopez <https://github.com/davelopez>`_ in `#15740 <https://github.com/galaxyproject/galaxy/pull/15740>`_\n* Quota source labelling bug fixes and improvements by `@jmchilton <https://github.com/jmchilton>`_ in `#15795 <https://github.com/galaxyproject/galaxy/pull/15795>`_\n* merge release_23.0 into dev by `@martenson <https://github.com/martenson>`_ in `#15830 <https://github.com/galaxyproject/galaxy/pull/15830>`_\n* merge release_23.0 into dev by `@martenson <https://github.com/martenson>`_ in `#15854 <https://github.com/galaxyproject/galaxy/pull/15854>`_\n* Merge 23.0 into dev by `@nsoranzo <https://github.com/nsoranzo>`_ in `#15902 <https://github.com/galaxyproject/galaxy/pull/15902>`_\n* Fix recalculate_quota throug kombu message by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16299 <https://github.com/galaxyproject/galaxy/pull/16299>`_\n\n-------------------\n23.0.6 (2023-10-23)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Fix incorrect ASGI request host by `@davelopez <https://github.com/davelopez>`_ in `#16574 <https://github.com/galaxyproject/galaxy/pull/16574>`_\n* Allow the legacy DELETE dataset endpoint to accept any string for the history_id by `@assuntad23 <https://github.com/assuntad23>`_ in `#16593 <https://github.com/galaxyproject/galaxy/pull/16593>`_\n\n-------------------\n23.0.5 (2023-07-29)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Fix active step display in workflow editor side panel by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16364 <https://github.com/galaxyproject/galaxy/pull/16364>`_\n\n-------------------\n23.0.4 (2023-06-30)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Fix folder access for anonymous user by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16330 <https://github.com/galaxyproject/galaxy/pull/16330>`_\n\n-------------------\n23.0.3 (2023-06-26)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Fix converting Enum value to str for Python 3.11 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#16284 <https://github.com/galaxyproject/galaxy/pull/16284>`_\n\n============\nEnhancements\n============\n\n* When importing tool data bundles, use the first loc file for the matching table by `@natefoo <https://github.com/natefoo>`_ in `#16247 <https://github.com/galaxyproject/galaxy/pull/16247>`_\n\n-------------------\n23.0.2 (2023-06-13)\n-------------------\n\nNo recorded changes since last release\n\n-------------------\n23.0.1 (2023-06-08)\n-------------------\n\n\n=========\nBug fixes\n=========\n\n* Display DCE in job parameter component, allow rerunning with DCE input by `@mvdbeek <https://github.com/mvdbeek>`_ in `#15744 <https://github.com/galaxyproject/galaxy/pull/15744>`_\n* Various fixes to path prefix handling by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16033 <https://github.com/galaxyproject/galaxy/pull/16033>`_\n* Fix dataype_change not updating HDCA update_time by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16099 <https://github.com/galaxyproject/galaxy/pull/16099>`_\n* Ignore invalid query params in display_by_username_and_slug by `@mvdbeek <https://github.com/mvdbeek>`_ in `#16117 <https://github.com/galaxyproject/galaxy/pull/16117>`_\n\n-------------------\n20.5.0 (2020-07-04)\n-------------------\n\n* First release from the 20.05 branch of Galaxy.\n",
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