opensource/galaxy
3
0
Fork 0
mirror of https://github.com/galaxyproject/galaxy.git synced 2026-09-24 16:30:27 +08:00
Code Issues Packages Projects Releases Wiki Activity

Create version 26.0.0

Browse Source
This commit is contained in:
guerler
2026-04-08 02:01:25 +03:00
parent 663557594a
commit 52e970855b
53 changed files with 1195 additions and 108 deletions
Download Patch File Download Diff File Expand all files Collapse all files
client/package.json
+1 -1
View File
@@ -1,6 +1,6 @@
{
"name": "@galaxyproject/galaxy-client",
"version": "25.0.4",
"version": "26.0.0",
"description": "Galaxy client application build system",
"keywords": [
"galaxy"
lib/galaxy/version.py
+1 -1
View File
@@ -1,3 +1,3 @@
VERSION_MAJOR = "26.0"
VERSION_MINOR = "rc1"
VERSION_MINOR = "0"
VERSION = VERSION_MAJOR + (f".{VERSION_MINOR}" if VERSION_MINOR else "")
package.json
+2 -2
View File
@@ -1,6 +1,6 @@
{
"name": "@galaxyproject/galaxy",
"version": "24.0.0",
"version": "26.0.0",
"description": ".. figure:: https://galaxyproject.org/images/galaxy-logos/galaxy_project_logo.jpg :alt: Galaxy Logo",
"main": "index.js",
"scripts": {
@@ -17,7 +17,7 @@
},
"homepage": "https://github.com/galaxyproject/galaxy#readme",
"dependencies": {
"@galaxyproject/galaxy-client": "25.1.0",
"@galaxyproject/galaxy-client": "26.0.0",
"cpy-cli": "^5.0.0"
},
"packageManager": "pnpm@10.26.1"
packages/app/HISTORY.rst
+157 -3
View File
@@ -3,11 +3,165 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Fix workflow report time handling by `@dannon <https://github.com/dannon>`_ in `#19292 <https://github.com/galaxyproject/galaxy/pull/19292>`_
* Bump python-ldap from 3.4.0 to 3.4.5 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21042 <https://github.com/galaxyproject/galaxy/pull/21042>`_
* Cross product tools: Fix typos in help section by `@RZ9082 <https://github.com/RZ9082>`_ in `#21061 <https://github.com/galaxyproject/galaxy/pull/21061>`_
* Bump urllib3 from 2.5.0 to 2.6.0 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21399 <https://github.com/galaxyproject/galaxy/pull/21399>`_
* Don't set OAUTHLIB_INSECURE_TRANSPORT setting in user_data by `@nuwang <https://github.com/nuwang>`_ in `#21451 <https://github.com/galaxyproject/galaxy/pull/21451>`_
* Bump filelock from 3.20.0 to 3.20.1 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21476 <https://github.com/galaxyproject/galaxy/pull/21476>`_
* Provide more accurate step hints for failing subworkflow steps by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21514 <https://github.com/galaxyproject/galaxy/pull/21514>`_
* Restrict collection of dynamic working dir output to specified directory in pulsar by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21515 <https://github.com/galaxyproject/galaxy/pull/21515>`_
* Fix input tags not being copied when using copy_inputs_to_history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21529 <https://github.com/galaxyproject/galaxy/pull/21529>`_
* Bump aiohttp from 3.13.2 to 3.13.3 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21538 <https://github.com/galaxyproject/galaxy/pull/21538>`_
* Bump urllib3 from 2.6.2 to 2.6.3 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21546 <https://github.com/galaxyproject/galaxy/pull/21546>`_
* Bump werkzeug from 3.1.4 to 3.1.5 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21549 <https://github.com/galaxyproject/galaxy/pull/21549>`_
* Overhaul ChatGXY Routing approach by `@dannon <https://github.com/dannon>`_ in `#21580 <https://github.com/galaxyproject/galaxy/pull/21580>`_
* Bump pyasn1 from 0.6.1 to 0.6.2 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21605 <https://github.com/galaxyproject/galaxy/pull/21605>`_
* Fix toolshed tests on Python 3.14 by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21617 <https://github.com/galaxyproject/galaxy/pull/21617>`_
* Bump python-multipart from 0.0.21 to 0.0.22 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21663 <https://github.com/galaxyproject/galaxy/pull/21663>`_
* Fix storing origin for workflow landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21696 <https://github.com/galaxyproject/galaxy/pull/21696>`_
* Handle TPV floating point memory values by `@ksuderman <https://github.com/ksuderman>`_ in `#21763 <https://github.com/galaxyproject/galaxy/pull/21763>`_
* Deserialize json string for export_metadata from old records by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21772 <https://github.com/galaxyproject/galaxy/pull/21772>`_
* Fix passing invalid job_destination dict to JobState constructor by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21798 <https://github.com/galaxyproject/galaxy/pull/21798>`_
* Update ``get_definitions()`` to FastAPI 0.128.8 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21834 <https://github.com/galaxyproject/galaxy/pull/21834>`_
* Backport paired or unpaired mapping fix by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21936 <https://github.com/galaxyproject/galaxy/pull/21936>`_
* Fix dict leaking to process_dataset() during workflow execution by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21982 <https://github.com/galaxyproject/galaxy/pull/21982>`_
* Fix dataset collection tag duplication when copying a history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21984 <https://github.com/galaxyproject/galaxy/pull/21984>`_
* Restore file doesn't match sniffed datatype message by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21988 <https://github.com/galaxyproject/galaxy/pull/21988>`_
* Fix uncaught `ImplicitConversionRequired` by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22027 <https://github.com/galaxyproject/galaxy/pull/22027>`_
* Fix AttributeError when fetching citations for missing tools by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22029 <https://github.com/galaxyproject/galaxy/pull/22029>`_
* AttributeError when history is None during tool execution by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22031 <https://github.com/galaxyproject/galaxy/pull/22031>`_
* Fix AttributeError when export_metadata is a string instead of dict by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22033 <https://github.com/galaxyproject/galaxy/pull/22033>`_
* Fix TypeError when column_names metadata is None by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22057 <https://github.com/galaxyproject/galaxy/pull/22057>`_
* Fail job gracefully when output name exceeds 255 character DB limit by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22059 <https://github.com/galaxyproject/galaxy/pull/22059>`_
* Fix FileNotFoundError when workflow references purged HDA by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22060 <https://github.com/galaxyproject/galaxy/pull/22060>`_
* Add check_database_connection to workflow scheduling path by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22063 <https://github.com/galaxyproject/galaxy/pull/22063>`_
* Model hidden_data params as optional data in tool meta-models. by `@jmchilton <https://github.com/jmchilton>`_ in `#22116 <https://github.com/galaxyproject/galaxy/pull/22116>`_
* Fix unhandled exceptions in tool form model population by `@guerler <https://github.com/guerler>`_ in `#22129 <https://github.com/galaxyproject/galaxy/pull/22129>`_
* Backport transient CI fixes from #22102 to release_26.0 by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22135 <https://github.com/galaxyproject/galaxy/pull/22135>`_
* Do not queue paused jobs by `@martenson <https://github.com/martenson>`_ in `#22156 <https://github.com/galaxyproject/galaxy/pull/22156>`_
* Fix AmbiguousColumn error in job search for tools with long input names by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22167 <https://github.com/galaxyproject/galaxy/pull/22167>`_
* Fixes for gxformat2 by `@jmchilton <https://github.com/jmchilton>`_ in `#22179 <https://github.com/galaxyproject/galaxy/pull/22179>`_
* Add batch celery task for history dataset purging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22180 <https://github.com/galaxyproject/galaxy/pull/22180>`_
* Include missing tools in stock_tool_paths. by `@jmchilton <https://github.com/jmchilton>`_ in `#22181 <https://github.com/galaxyproject/galaxy/pull/22181>`_
* Throw ParameterValueError instead of generic error by `@guerler <https://github.com/guerler>`_ in `#22188 <https://github.com/galaxyproject/galaxy/pull/22188>`_
* Fix event loop blocking in async API routes by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22202 <https://github.com/galaxyproject/galaxy/pull/22202>`_
* Update fastmcp requirement to 3.0.2 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#22221 <https://github.com/galaxyproject/galaxy/pull/22221>`_
* Add optional dataset collection mode to harmonize tool by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22236 <https://github.com/galaxyproject/galaxy/pull/22236>`_
* Fix batch history purge not updating user's update_time by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22238 <https://github.com/galaxyproject/galaxy/pull/22238>`_
* Fix file source removal by `@davelopez <https://github.com/davelopez>`_ in `#22246 <https://github.com/galaxyproject/galaxy/pull/22246>`_
* Validate replacement_params values are strings before storing by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22250 <https://github.com/galaxyproject/galaxy/pull/22250>`_
* Fix N+1 queries in fetch_job_states for jobs_summary endpoints by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22251 <https://github.com/galaxyproject/galaxy/pull/22251>`_
* Fix oauth2 template validation by `@davelopez <https://github.com/davelopez>`_ in `#22253 <https://github.com/galaxyproject/galaxy/pull/22253>`_
* Drop stored workflow menu entries from user serialization by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22254 <https://github.com/galaxyproject/galaxy/pull/22254>`_
* Batch-prefetch HDCA job_state_summary in history contents listing by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22256 <https://github.com/galaxyproject/galaxy/pull/22256>`_
* Fix HDCA lost in tool form on rerun by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22258 <https://github.com/galaxyproject/galaxy/pull/22258>`_
* Fix purge for anon histories by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22275 <https://github.com/galaxyproject/galaxy/pull/22275>`_
* Raise error when API client sends invalid parameter keys by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22277 <https://github.com/galaxyproject/galaxy/pull/22277>`_
* Raise MessageException instead of generic Exception in rules_dsl by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22285 <https://github.com/galaxyproject/galaxy/pull/22285>`_
* Fix toolshed static image url encoding by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22286 <https://github.com/galaxyproject/galaxy/pull/22286>`_
* Fix nested DatasetCollectionElement in dynamic options by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22287 <https://github.com/galaxyproject/galaxy/pull/22287>`_
* Fix flaky job search for HDCA inputs on PostgreSQL by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22290 <https://github.com/galaxyproject/galaxy/pull/22290>`_
* Fix HDCA shown as unavailable on tool form rerun by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22291 <https://github.com/galaxyproject/galaxy/pull/22291>`_
* Fix AttributeError when anonymous user searches workflows with ``is:bookmarked`` by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22296 <https://github.com/galaxyproject/galaxy/pull/22296>`_
* Downgrade authnz OAuth callback errors from ERROR/EXCEPTION to WARNING by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22300 <https://github.com/galaxyproject/galaxy/pull/22300>`_
* Delay workflow scheduling when collection has unresolved 'auto' extension by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22303 <https://github.com/galaxyproject/galaxy/pull/22303>`_
* Fix slow get_private_role_user_emails_dict query by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22307 <https://github.com/galaxyproject/galaxy/pull/22307>`_
* Mark dataset collections as deleted when purging a history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22315 <https://github.com/galaxyproject/galaxy/pull/22315>`_
* Harden API parameter validation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22351 <https://github.com/galaxyproject/galaxy/pull/22351>`_
* Remove broken serialize_urls from HDASerializer by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22358 <https://github.com/galaxyproject/galaxy/pull/22358>`_
* Fix HideDatasetAction not applied for cached workflow jobs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22360 <https://github.com/galaxyproject/galaxy/pull/22360>`_
* Don't retry JobNotReadyException in job destination mapping by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22377 <https://github.com/galaxyproject/galaxy/pull/22377>`_
* Fix workflow extract NoneType on LDDA leaf in implicit collection by `@jmchilton <https://github.com/jmchilton>`_ in `#22381 <https://github.com/galaxyproject/galaxy/pull/22381>`_
* Serialize data provider errors as MessageException subclasses by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22398 <https://github.com/galaxyproject/galaxy/pull/22398>`_
* Handle ``MaxDiscoveredFilesExceededError`` for dynamic collections by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22402 <https://github.com/galaxyproject/galaxy/pull/22402>`_
* Unwrap HDCAs/DCEs nested in multi data input lists by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22405 <https://github.com/galaxyproject/galaxy/pull/22405>`_
* Reject HDCA submitted to single data parameter by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22406 <https://github.com/galaxyproject/galaxy/pull/22406>`_
============
Enhancements
============
* Refactor display application handling by `@guerler <https://github.com/guerler>`_ in `#15076 <https://github.com/galaxyproject/galaxy/pull/15076>`_
* Replace Copy Dataset Mako with Vue Component by `@guerler <https://github.com/guerler>`_ in `#17507 <https://github.com/galaxyproject/galaxy/pull/17507>`_
* Add Support for HTTP Headers in URL Fetch Requests with Secure Storage for Landing Requests by `@davelopez <https://github.com/davelopez>`_ in `#20924 <https://github.com/galaxyproject/galaxy/pull/20924>`_
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Remove Trackster by `@guerler <https://github.com/guerler>`_ in `#20974 <https://github.com/galaxyproject/galaxy/pull/20974>`_
* Integrate 'uv' for enhanced package management by `@arash77 <https://github.com/arash77>`_ in `#21002 <https://github.com/galaxyproject/galaxy/pull/21002>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21043 <https://github.com/galaxyproject/galaxy/pull/21043>`_
* Improve type annotation of job runners by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21050 <https://github.com/galaxyproject/galaxy/pull/21050>`_
* Remove Job.params by `@jdavcs <https://github.com/jdavcs>`_ in `#21075 <https://github.com/galaxyproject/galaxy/pull/21075>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21104 <https://github.com/galaxyproject/galaxy/pull/21104>`_
* Pulsar relay implementation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21118 <https://github.com/galaxyproject/galaxy/pull/21118>`_
* Remove legacy Visualization Mako and Controllers by `@guerler <https://github.com/guerler>`_ in `#21133 <https://github.com/galaxyproject/galaxy/pull/21133>`_
* Fix various bugs/hacks with tool_data_table handling. by `@jmchilton <https://github.com/jmchilton>`_ in `#21163 <https://github.com/galaxyproject/galaxy/pull/21163>`_
* Add type annotations to job handling code by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21171 <https://github.com/galaxyproject/galaxy/pull/21171>`_
* Replace tuswsgi with tuspyserver by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21201 <https://github.com/galaxyproject/galaxy/pull/21201>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21229 <https://github.com/galaxyproject/galaxy/pull/21229>`_
* Reimplement keycloak/cilogon as PSA providers and remove custos by `@nuwang <https://github.com/nuwang>`_ in `#21234 <https://github.com/galaxyproject/galaxy/pull/21234>`_
* Allow filtering job searches by history ID by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21257 <https://github.com/galaxyproject/galaxy/pull/21257>`_
* Move js-client bootstrapping to FastAPI by `@guerler <https://github.com/guerler>`_ in `#21264 <https://github.com/galaxyproject/galaxy/pull/21264>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21301 <https://github.com/galaxyproject/galaxy/pull/21301>`_
* Implement GA4GH WES API by `@jmchilton <https://github.com/jmchilton>`_ in `#21335 <https://github.com/galaxyproject/galaxy/pull/21335>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21345 <https://github.com/galaxyproject/galaxy/pull/21345>`_
* Link to an external profile when user accounts are managed by a single OIDC provider by `@marius-mather <https://github.com/marius-mather>`_ in `#21356 <https://github.com/galaxyproject/galaxy/pull/21356>`_
* Add OMERO File Source Plugin by `@davelopez <https://github.com/davelopez>`_ in `#21367 <https://github.com/galaxyproject/galaxy/pull/21367>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21368 <https://github.com/galaxyproject/galaxy/pull/21368>`_
* Fix: tool execution typing improvements/fixes by `@jmchilton <https://github.com/jmchilton>`_ in `#21374 <https://github.com/galaxyproject/galaxy/pull/21374>`_
* Update fastapi to 0.123.4 and ``get_openapi()`` fork by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21384 <https://github.com/galaxyproject/galaxy/pull/21384>`_
* Add initial support for the DICOM format by `@kostrykin <https://github.com/kostrykin>`_ in `#21385 <https://github.com/galaxyproject/galaxy/pull/21385>`_
* Add new Azure Flat object store file source by `@guerler <https://github.com/guerler>`_ in `#21398 <https://github.com/galaxyproject/galaxy/pull/21398>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21400 <https://github.com/galaxyproject/galaxy/pull/21400>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Add Google Batch job runner by `@ksuderman <https://github.com/ksuderman>`_ in `#21443 <https://github.com/galaxyproject/galaxy/pull/21443>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21449 <https://github.com/galaxyproject/galaxy/pull/21449>`_
* Add Jupyternaut adapter for JupyterLite integration by `@guerler <https://github.com/guerler>`_ in `#21463 <https://github.com/galaxyproject/galaxy/pull/21463>`_
* Add support for Python 3.14 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21486 <https://github.com/galaxyproject/galaxy/pull/21486>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21500 <https://github.com/galaxyproject/galaxy/pull/21500>`_
* Raise ConfigurationError instead etree.ParseError by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21509 <https://github.com/galaxyproject/galaxy/pull/21509>`_
* Include subworkflow jobs in invocation metrics by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21511 <https://github.com/galaxyproject/galaxy/pull/21511>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21513 <https://github.com/galaxyproject/galaxy/pull/21513>`_
* Add support for workflow landing requests using simple URLs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21525 <https://github.com/galaxyproject/galaxy/pull/21525>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21526 <https://github.com/galaxyproject/galaxy/pull/21526>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21552 <https://github.com/galaxyproject/galaxy/pull/21552>`_
* Add discarded_data option to model store import API by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21582 <https://github.com/galaxyproject/galaxy/pull/21582>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Switch Google Cloud Storage file source from fs-gcsfs to gcsfs (fsspec) by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21590 <https://github.com/galaxyproject/galaxy/pull/21590>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21606 <https://github.com/galaxyproject/galaxy/pull/21606>`_
* Update to gravity 1.2.0 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21608 <https://github.com/galaxyproject/galaxy/pull/21608>`_
* Move legacy Visualization Plugins API to FastAPI by `@guerler <https://github.com/guerler>`_ in `#21612 <https://github.com/galaxyproject/galaxy/pull/21612>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21653 <https://github.com/galaxyproject/galaxy/pull/21653>`_
* Add agent based AI tool recommendation by `@dannon <https://github.com/dannon>`_ in `#21661 <https://github.com/galaxyproject/galaxy/pull/21661>`_
* Type annotations and refactorings by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21673 <https://github.com/galaxyproject/galaxy/pull/21673>`_
* Check file source template config files for determining conditional dependencies + add constraint for zero-ice by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21688 <https://github.com/galaxyproject/galaxy/pull/21688>`_
* Standardize agent API schemas and response metadata by `@dannon <https://github.com/dannon>`_ in `#21692 <https://github.com/galaxyproject/galaxy/pull/21692>`_
* Backport chat API improvements by `@dannon <https://github.com/dannon>`_ in `#21973 <https://github.com/galaxyproject/galaxy/pull/21973>`_
* Use ParameterValueError for dataset count validation to reduce Sentry noise by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22058 <https://github.com/galaxyproject/galaxy/pull/22058>`_
* Use mock test server when tests don't target external galaxy server by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22103 <https://github.com/galaxyproject/galaxy/pull/22103>`_
=============
Other changes
=============
* Merge 25.1 into dev, fix openapi schema generation for TypedDict by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21168 <https://github.com/galaxyproject/galaxy/pull/21168>`_
* Don't return 404 when file name can't be serialized by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21577 <https://github.com/galaxyproject/galaxy/pull/21577>`_
* Reduce completion monitor logging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21674 <https://github.com/galaxyproject/galaxy/pull/21674>`_
* Backport: Fix dbkey filter returning no options when dbkey unset by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21945 <https://github.com/galaxyproject/galaxy/pull/21945>`_
* Show invalid tool error reasons in Tool Shed UI by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22040 <https://github.com/galaxyproject/galaxy/pull/22040>`_
* Backport of 21939 by `@jdavcs <https://github.com/jdavcs>`_ in `#22265 <https://github.com/galaxyproject/galaxy/pull/22265>`_
-------------------
25.1.2 (2026-03-09)
packages/app/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-app
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/auth/HISTORY.rst
+8 -3
View File
@@ -3,11 +3,16 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
============
Enhancements
============
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
-------------------
25.1.2 (2026-03-09)
packages/auth/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-auth
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/config/HISTORY.rst
+39 -3
View File
@@ -3,11 +3,47 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Infer type from extension for mzml by `@bgruening <https://github.com/bgruening>`_ in `#21033 <https://github.com/galaxyproject/galaxy/pull/21033>`_
* Update config samples from schema by `@davelopez <https://github.com/davelopez>`_ in `#21053 <https://github.com/galaxyproject/galaxy/pull/21053>`_
* remove a tool from sample that is no longer included in dist by `@martenson <https://github.com/martenson>`_ in `#21371 <https://github.com/galaxyproject/galaxy/pull/21371>`_
* Various fixes around ascp file source by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21372 <https://github.com/galaxyproject/galaxy/pull/21372>`_
* Add tool_shed_url config for explicit hostname setting by `@jmchilton <https://github.com/jmchilton>`_ in `#21499 <https://github.com/galaxyproject/galaxy/pull/21499>`_
* Use inference_services config for plugin chat proxy by `@dannon <https://github.com/dannon>`_ in `#21986 <https://github.com/galaxyproject/galaxy/pull/21986>`_
* Silence social_core's noisy handle_http_errors logging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22403 <https://github.com/galaxyproject/galaxy/pull/22403>`_
============
Enhancements
============
* Improve docs for `invalidjobexception_state` and `_retry` of DRMAA runners by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#20612 <https://github.com/galaxyproject/galaxy/pull/20612>`_
* Add Support for HTTP Headers in URL Fetch Requests with Secure Storage for Landing Requests by `@davelopez <https://github.com/davelopez>`_ in `#20924 <https://github.com/galaxyproject/galaxy/pull/20924>`_
* Remove Trackster by `@guerler <https://github.com/guerler>`_ in `#20974 <https://github.com/galaxyproject/galaxy/pull/20974>`_
* Remove legacy Visualization Mako and Controllers by `@guerler <https://github.com/guerler>`_ in `#21133 <https://github.com/galaxyproject/galaxy/pull/21133>`_
* Reimplement keycloak/cilogon as PSA providers and remove custos by `@nuwang <https://github.com/nuwang>`_ in `#21234 <https://github.com/galaxyproject/galaxy/pull/21234>`_
* Slight improvement of mztab2 datatype by `@nguilhot <https://github.com/nguilhot>`_ in `#21258 <https://github.com/galaxyproject/galaxy/pull/21258>`_
* Link to an external profile when user accounts are managed by a single OIDC provider by `@marius-mather <https://github.com/marius-mather>`_ in `#21356 <https://github.com/galaxyproject/galaxy/pull/21356>`_
* Ascp plugin by `@d-callan <https://github.com/d-callan>`_ in `#21357 <https://github.com/galaxyproject/galaxy/pull/21357>`_
* Add initial support for the DICOM format by `@kostrykin <https://github.com/kostrykin>`_ in `#21385 <https://github.com/galaxyproject/galaxy/pull/21385>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Update to gravity 1.2.0 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21608 <https://github.com/galaxyproject/galaxy/pull/21608>`_
* Add new datatypes: .taf and .taf.gz by `@Maed0x <https://github.com/Maed0x>`_ in `#22242 <https://github.com/galaxyproject/galaxy/pull/22242>`_
=============
Other changes
=============
* Backport of 21939 by `@jdavcs <https://github.com/jdavcs>`_ in `#22265 <https://github.com/galaxyproject/galaxy/pull/22265>`_
-------------------
25.1.2 (2026-03-09)
packages/config/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-config
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/data/HISTORY.rst
+71 -3
View File
@@ -3,11 +3,79 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Drop down revision for drop_job_params migration by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21122 <https://github.com/galaxyproject/galaxy/pull/21122>`_
* Create alembic merge by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21447 <https://github.com/galaxyproject/galaxy/pull/21447>`_
* Provide more accurate step hints for failing subworkflow steps by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21514 <https://github.com/galaxyproject/galaxy/pull/21514>`_
* Fix width and height assignment for image metadata using Pillow by `@kostrykin <https://github.com/kostrykin>`_ in `#21554 <https://github.com/galaxyproject/galaxy/pull/21554>`_
* Avoid slash duplication in display application urls by `@guerler <https://github.com/guerler>`_ in `#21809 <https://github.com/galaxyproject/galaxy/pull/21809>`_
* Fix redirect upon impersonation by `@guerler <https://github.com/guerler>`_ in `#21810 <https://github.com/galaxyproject/galaxy/pull/21810>`_
* Fix dataset collection tag duplication when copying a history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21984 <https://github.com/galaxyproject/galaxy/pull/21984>`_
* Fix AttributeError serializing implicit output collections during job prep by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22034 <https://github.com/galaxyproject/galaxy/pull/22034>`_
* Fix ``preferred_object_store_id`` not respected for discovered outputs with extended metadata by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22056 <https://github.com/galaxyproject/galaxy/pull/22056>`_
* Fix TypeError when column_names metadata is None by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22057 <https://github.com/galaxyproject/galaxy/pull/22057>`_
* Fail job gracefully when output name exceeds 255 character DB limit by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22059 <https://github.com/galaxyproject/galaxy/pull/22059>`_
* Fix nested collection query performance by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22119 <https://github.com/galaxyproject/galaxy/pull/22119>`_
* Fix CardinalityViolation in nested collection ARRAY walk scalar subqueries by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22123 <https://github.com/galaxyproject/galaxy/pull/22123>`_
* Use skip_locked also when updating collection by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22133 <https://github.com/galaxyproject/galaxy/pull/22133>`_
* Fix redundant empty collection elements by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22154 <https://github.com/galaxyproject/galaxy/pull/22154>`_
* Don't fail on probable delete race by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22183 <https://github.com/galaxyproject/galaxy/pull/22183>`_
* Back port collection fixes from #22170. by `@jmchilton <https://github.com/jmchilton>`_ in `#22193 <https://github.com/galaxyproject/galaxy/pull/22193>`_
* Optimize dataset get_edit API by deferring expensive role queries by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22232 <https://github.com/galaxyproject/galaxy/pull/22232>`_
* Batch-prefetch HDCA job_state_summary in history contents listing by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22256 <https://github.com/galaxyproject/galaxy/pull/22256>`_
* Sequence datatypes: only read first character per line for setting metadata by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#22276 <https://github.com/galaxyproject/galaxy/pull/22276>`_
* Fix slow get_private_role_user_emails_dict query by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22307 <https://github.com/galaxyproject/galaxy/pull/22307>`_
* Fix timestamp parsing in job import/export by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22372 <https://github.com/galaxyproject/galaxy/pull/22372>`_
* Ensure ``x-content-truncated`` header is string by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22386 <https://github.com/galaxyproject/galaxy/pull/22386>`_
* Fix dataset preview rendering to preserve newlines by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22397 <https://github.com/galaxyproject/galaxy/pull/22397>`_
============
Enhancements
============
* Refactor display application handling by `@guerler <https://github.com/guerler>`_ in `#15076 <https://github.com/galaxyproject/galaxy/pull/15076>`_
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Remove Trackster by `@guerler <https://github.com/guerler>`_ in `#20974 <https://github.com/galaxyproject/galaxy/pull/20974>`_
* Move database revision tags to separate file by `@guerler <https://github.com/guerler>`_ in `#20998 <https://github.com/galaxyproject/galaxy/pull/20998>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21043 <https://github.com/galaxyproject/galaxy/pull/21043>`_
* Remove Job.params by `@jdavcs <https://github.com/jdavcs>`_ in `#21075 <https://github.com/galaxyproject/galaxy/pull/21075>`_
* Remove tabular chunked, binary and large file mako by `@guerler <https://github.com/guerler>`_ in `#21106 <https://github.com/galaxyproject/galaxy/pull/21106>`_
* Add type annotations to job handling code by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21171 <https://github.com/galaxyproject/galaxy/pull/21171>`_
* Reimplement keycloak/cilogon as PSA providers and remove custos by `@nuwang <https://github.com/nuwang>`_ in `#21234 <https://github.com/galaxyproject/galaxy/pull/21234>`_
* Slight improvement of mztab2 datatype by `@nguilhot <https://github.com/nguilhot>`_ in `#21258 <https://github.com/galaxyproject/galaxy/pull/21258>`_
* Move js-client bootstrapping to FastAPI by `@guerler <https://github.com/guerler>`_ in `#21264 <https://github.com/galaxyproject/galaxy/pull/21264>`_
* Implement GA4GH WES API by `@jmchilton <https://github.com/jmchilton>`_ in `#21335 <https://github.com/galaxyproject/galaxy/pull/21335>`_
* Fix: tool execution typing improvements/fixes by `@jmchilton <https://github.com/jmchilton>`_ in `#21374 <https://github.com/galaxyproject/galaxy/pull/21374>`_
* Add initial support for the DICOM format by `@kostrykin <https://github.com/kostrykin>`_ in `#21385 <https://github.com/galaxyproject/galaxy/pull/21385>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Discriminate decompression tools by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21510 <https://github.com/galaxyproject/galaxy/pull/21510>`_
* Include subworkflow jobs in invocation metrics by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21511 <https://github.com/galaxyproject/galaxy/pull/21511>`_
* Implement subworkflow invocation export by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21512 <https://github.com/galaxyproject/galaxy/pull/21512>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
* Allow connecting sample sheet inputs to compatible collection inputs in editor by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21859 <https://github.com/galaxyproject/galaxy/pull/21859>`_
* Add new datatypes: .taf and .taf.gz by `@Maed0x <https://github.com/Maed0x>`_ in `#22242 <https://github.com/galaxyproject/galaxy/pull/22242>`_
* Add _F/_R auto-pairing filter for forward/reverse datasets by `@jmchilton <https://github.com/jmchilton>`_ in `#22267 <https://github.com/galaxyproject/galaxy/pull/22267>`_
=============
Other changes
=============
* Update revision tags for release 25.1 by `@arash77 <https://github.com/arash77>`_ in `#21022 <https://github.com/galaxyproject/galaxy/pull/21022>`_
* Merge 25.1 into dev and create alembic merge revision by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21440 <https://github.com/galaxyproject/galaxy/pull/21440>`_
* Add Database Revision for 26.0 by `@guerler <https://github.com/guerler>`_ in `#21675 <https://github.com/galaxyproject/galaxy/pull/21675>`_
* Fix on_complete column type mismatch by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21765 <https://github.com/galaxyproject/galaxy/pull/21765>`_
-------------------
25.1.2 (2026-03-09)
packages/data/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-data
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/files/HISTORY.rst
+35 -3
View File
@@ -3,11 +3,43 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Various fixes around ascp file source by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21372 <https://github.com/galaxyproject/galaxy/pull/21372>`_
* Better error message for unencoded/unresolvable filesource uri by `@dannon <https://github.com/dannon>`_ in `#21562 <https://github.com/galaxyproject/galaxy/pull/21562>`_
* Fix OMERO file source download multi channel TIFF by `@davelopez <https://github.com/davelopez>`_ in `#21856 <https://github.com/galaxyproject/galaxy/pull/21856>`_
* Fix ascp download retries by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21857 <https://github.com/galaxyproject/galaxy/pull/21857>`_
* Fixes some more optional fields in templates by `@davelopez <https://github.com/davelopez>`_ in `#21891 <https://github.com/galaxyproject/galaxy/pull/21891>`_
* Fix Pydantic UnsupportedFieldAttributeWarning for Field defaults in Annotated by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21923 <https://github.com/galaxyproject/galaxy/pull/21923>`_
* Fix OMERO temp directory handling by `@davelopez <https://github.com/davelopez>`_ in `#22262 <https://github.com/galaxyproject/galaxy/pull/22262>`_
* Harden API parameter validation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22351 <https://github.com/galaxyproject/galaxy/pull/22351>`_
============
Enhancements
============
* Add DRS compact identifier support by `@dannon <https://github.com/dannon>`_ in `#20410 <https://github.com/galaxyproject/galaxy/pull/20410>`_
* Add service account support for Google Cloud Storage client initialization by `@dannon <https://github.com/dannon>`_ in `#21027 <https://github.com/galaxyproject/galaxy/pull/21027>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21043 <https://github.com/galaxyproject/galaxy/pull/21043>`_
* Add Custom Validation for User-Configured Templates by `@davelopez <https://github.com/davelopez>`_ in `#21155 <https://github.com/galaxyproject/galaxy/pull/21155>`_
* Ascp plugin by `@d-callan <https://github.com/d-callan>`_ in `#21357 <https://github.com/galaxyproject/galaxy/pull/21357>`_
* Add OMERO File Source Plugin by `@davelopez <https://github.com/davelopez>`_ in `#21367 <https://github.com/galaxyproject/galaxy/pull/21367>`_
* Add new Azure Flat object store file source by `@guerler <https://github.com/guerler>`_ in `#21398 <https://github.com/galaxyproject/galaxy/pull/21398>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Switch Google Cloud Storage file source from fs-gcsfs to gcsfs (fsspec) by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21590 <https://github.com/galaxyproject/galaxy/pull/21590>`_
* Unify extensions of file source templates by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21594 <https://github.com/galaxyproject/galaxy/pull/21594>`_
* Various fixes to file source template's validation system by `@davelopez <https://github.com/davelopez>`_ in `#21704 <https://github.com/galaxyproject/galaxy/pull/21704>`_
* Adds ImageJ metadata support to TIFF export by `@davelopez <https://github.com/davelopez>`_ in `#21882 <https://github.com/galaxyproject/galaxy/pull/21882>`_
* Use mock test server when tests don't target external galaxy server by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22103 <https://github.com/galaxyproject/galaxy/pull/22103>`_
-------------------
25.1.2 (2026-03-09)
packages/files/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-files
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/job_execution/HISTORY.rst
+19 -3
View File
@@ -3,11 +3,27 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Fix ``preferred_object_store_id`` not respected for discovered outputs with extended metadata by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22056 <https://github.com/galaxyproject/galaxy/pull/22056>`_
* Fail job gracefully when output name exceeds 255 character DB limit by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22059 <https://github.com/galaxyproject/galaxy/pull/22059>`_
* Fix redundant empty collection elements by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22154 <https://github.com/galaxyproject/galaxy/pull/22154>`_
* Handle ``MaxDiscoveredFilesExceededError`` for dynamic collections by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22402 <https://github.com/galaxyproject/galaxy/pull/22402>`_
============
Enhancements
============
* Add citation reminder to job completion email by `@Syrinx55 <https://github.com/Syrinx55>`_ in `#21347 <https://github.com/galaxyproject/galaxy/pull/21347>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
-------------------
25.1.2 (2026-03-09)
packages/job_execution/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-job-execution
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/job_metrics/HISTORY.rst
+9 -3
View File
@@ -3,11 +3,17 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
============
Enhancements
============
* Add type annotations to job handling code by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21171 <https://github.com/galaxyproject/galaxy/pull/21171>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
-------------------
25.1.2 (2026-03-09)
packages/job_metrics/setup.cfg
+1 -1
View File
@@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-job-metrics
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/meta/HISTORY.rst
+390 -3
View File
@@ -3,11 +3,398 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Fix workflow report time handling by `@dannon <https://github.com/dannon>`_ in `#19292 <https://github.com/galaxyproject/galaxy/pull/19292>`_
* Attempt to fix transient API test failure for jobs search. by `@jmchilton <https://github.com/jmchilton>`_ in `#20898 <https://github.com/galaxyproject/galaxy/pull/20898>`_
* Infer type from extension for mzml by `@bgruening <https://github.com/bgruening>`_ in `#21033 <https://github.com/galaxyproject/galaxy/pull/21033>`_
* Bump python-ldap from 3.4.0 to 3.4.5 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21042 <https://github.com/galaxyproject/galaxy/pull/21042>`_
* Update config samples from schema by `@davelopez <https://github.com/davelopez>`_ in `#21053 <https://github.com/galaxyproject/galaxy/pull/21053>`_
* Cross product tools: Fix typos in help section by `@RZ9082 <https://github.com/RZ9082>`_ in `#21061 <https://github.com/galaxyproject/galaxy/pull/21061>`_
* Drop down revision for drop_job_params migration by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21122 <https://github.com/galaxyproject/galaxy/pull/21122>`_
* Pin Ansible version during Docker image building by `@ksuderman <https://github.com/ksuderman>`_ in `#21131 <https://github.com/galaxyproject/galaxy/pull/21131>`_
* Change invocation step state display selector to fix styling by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#21144 <https://github.com/galaxyproject/galaxy/pull/21144>`_
* Simplify transiently failing test (#21224) see if this stabilizes it at all by `@jmchilton <https://github.com/jmchilton>`_ in `#21239 <https://github.com/galaxyproject/galaxy/pull/21239>`_
* Plumbing for tracking potential fixes for transient failures (and a fix demonstrating it) by `@jmchilton <https://github.com/jmchilton>`_ in `#21243 <https://github.com/galaxyproject/galaxy/pull/21243>`_
* Fix differentiation between single handler and handler tag by `@natefoo <https://github.com/natefoo>`_ in `#21252 <https://github.com/galaxyproject/galaxy/pull/21252>`_
* Fix quoting issue getting the Galaxy version by `@ksuderman <https://github.com/ksuderman>`_ in `#21316 <https://github.com/galaxyproject/galaxy/pull/21316>`_
* Use uv also for the lint_openapi_schema GitHub workflow by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21319 <https://github.com/galaxyproject/galaxy/pull/21319>`_
* Extend startup probe timeout by `@ksuderman <https://github.com/ksuderman>`_ in `#21326 <https://github.com/galaxyproject/galaxy/pull/21326>`_
* remove a tool from sample that is no longer included in dist by `@martenson <https://github.com/martenson>`_ in `#21371 <https://github.com/galaxyproject/galaxy/pull/21371>`_
* Various fixes around ascp file source by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21372 <https://github.com/galaxyproject/galaxy/pull/21372>`_
* Attempt to fix transiently failing tests that click this tab. by `@jmchilton <https://github.com/jmchilton>`_ in `#21376 <https://github.com/galaxyproject/galaxy/pull/21376>`_
* Attempt to fix transient failure in list_list_copy by `@jmchilton <https://github.com/jmchilton>`_ in `#21381 <https://github.com/galaxyproject/galaxy/pull/21381>`_
* Use icon classes instead of strings for history content item states by `@guerler <https://github.com/guerler>`_ in `#21393 <https://github.com/galaxyproject/galaxy/pull/21393>`_
* Bump urllib3 from 2.5.0 to 2.6.0 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21399 <https://github.com/galaxyproject/galaxy/pull/21399>`_
* Assorted tool shed fixes. by `@jmchilton <https://github.com/jmchilton>`_ in `#21424 <https://github.com/galaxyproject/galaxy/pull/21424>`_
* Use Playwright from the Galaxy virtualenv by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21425 <https://github.com/galaxyproject/galaxy/pull/21425>`_
* Fix tool shed repository last updated time by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21427 <https://github.com/galaxyproject/galaxy/pull/21427>`_
* Add license define for vite by `@dannon <https://github.com/dannon>`_ in `#21431 <https://github.com/galaxyproject/galaxy/pull/21431>`_
* Create alembic merge by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21447 <https://github.com/galaxyproject/galaxy/pull/21447>`_
* Don't set OAUTHLIB_INSECURE_TRANSPORT setting in user_data by `@nuwang <https://github.com/nuwang>`_ in `#21451 <https://github.com/galaxyproject/galaxy/pull/21451>`_
* Bump filelock from 3.20.0 to 3.20.1 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21476 <https://github.com/galaxyproject/galaxy/pull/21476>`_
* Fixes select field clipping and filtering by `@guerler <https://github.com/guerler>`_ in `#21479 <https://github.com/galaxyproject/galaxy/pull/21479>`_
* Add tool_shed_url config for explicit hostname setting by `@jmchilton <https://github.com/jmchilton>`_ in `#21499 <https://github.com/galaxyproject/galaxy/pull/21499>`_
* Provide more accurate step hints for failing subworkflow steps by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21514 <https://github.com/galaxyproject/galaxy/pull/21514>`_
* Restrict collection of dynamic working dir output to specified directory in pulsar by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21515 <https://github.com/galaxyproject/galaxy/pull/21515>`_
* Accept 404 as valid intermediate state when waiting for dataset purge by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21521 <https://github.com/galaxyproject/galaxy/pull/21521>`_
* Fix input tags not being copied when using copy_inputs_to_history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21529 <https://github.com/galaxyproject/galaxy/pull/21529>`_
* Bump aiohttp from 3.13.2 to 3.13.3 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21538 <https://github.com/galaxyproject/galaxy/pull/21538>`_
* Preserve assistant messages with tool calls by `@guerler <https://github.com/guerler>`_ in `#21545 <https://github.com/galaxyproject/galaxy/pull/21545>`_
* Bump urllib3 from 2.6.2 to 2.6.3 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21546 <https://github.com/galaxyproject/galaxy/pull/21546>`_
* Bump werkzeug from 3.1.4 to 3.1.5 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21549 <https://github.com/galaxyproject/galaxy/pull/21549>`_
* Fix width and height assignment for image metadata using Pillow by `@kostrykin <https://github.com/kostrykin>`_ in `#21554 <https://github.com/galaxyproject/galaxy/pull/21554>`_
* Better error message for unencoded/unresolvable filesource uri by `@dannon <https://github.com/dannon>`_ in `#21562 <https://github.com/galaxyproject/galaxy/pull/21562>`_
* Fix loading spinner positioning in admin grid by `@dannon <https://github.com/dannon>`_ in `#21564 <https://github.com/galaxyproject/galaxy/pull/21564>`_
* Update Molstar by `@guerler <https://github.com/guerler>`_ in `#21567 <https://github.com/galaxyproject/galaxy/pull/21567>`_
* Overhaul ChatGXY Routing approach by `@dannon <https://github.com/dannon>`_ in `#21580 <https://github.com/galaxyproject/galaxy/pull/21580>`_
* Fix Vite 5 upgrade compatibility issues for tool shed frontend by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21581 <https://github.com/galaxyproject/galaxy/pull/21581>`_
* Remove dummy header from JupyterLite requests by `@guerler <https://github.com/guerler>`_ in `#21585 <https://github.com/galaxyproject/galaxy/pull/21585>`_
* Bump pyasn1 from 0.6.1 to 0.6.2 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21605 <https://github.com/galaxyproject/galaxy/pull/21605>`_
* Fix Auto Layout crash with conditional (when) step inputs by `@jmchilton <https://github.com/jmchilton>`_ in `#21616 <https://github.com/galaxyproject/galaxy/pull/21616>`_
* Fix toolshed tests on Python 3.14 by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21617 <https://github.com/galaxyproject/galaxy/pull/21617>`_
* Fix package test using ``--index-strategy unsafe-best-match`` to match pip behavior by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21619 <https://github.com/galaxyproject/galaxy/pull/21619>`_
* Fix ace import in cell-based markdown editor by `@guerler <https://github.com/guerler>`_ in `#21622 <https://github.com/galaxyproject/galaxy/pull/21622>`_
* Triage command followup fixes/tweaks by `@dannon <https://github.com/dannon>`_ in `#21629 <https://github.com/galaxyproject/galaxy/pull/21629>`_
* Bump python-multipart from 0.0.21 to 0.0.22 in /lib/galaxy/dependencies by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21663 <https://github.com/galaxyproject/galaxy/pull/21663>`_
* Fix incorrect router tag in plugins API by `@dannon <https://github.com/dannon>`_ in `#21669 <https://github.com/galaxyproject/galaxy/pull/21669>`_
* Add missing types to visualization model by `@guerler <https://github.com/guerler>`_ in `#21672 <https://github.com/galaxyproject/galaxy/pull/21672>`_
* Fix storing origin for workflow landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21696 <https://github.com/galaxyproject/galaxy/pull/21696>`_
* Hide interactivetools activity when disabled in config by `@dannon <https://github.com/dannon>`_ in `#21755 <https://github.com/galaxyproject/galaxy/pull/21755>`_
* Hide ChatGXY activity when LLM API isn't configured by `@dannon <https://github.com/dannon>`_ in `#21756 <https://github.com/galaxyproject/galaxy/pull/21756>`_
* Handle TPV floating point memory values by `@ksuderman <https://github.com/ksuderman>`_ in `#21763 <https://github.com/galaxyproject/galaxy/pull/21763>`_
* Deserialize json string for export_metadata from old records by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21772 <https://github.com/galaxyproject/galaxy/pull/21772>`_
* Removes unnecessary overflow restriction in upload method panel by `@davelopez <https://github.com/davelopez>`_ in `#21774 <https://github.com/galaxyproject/galaxy/pull/21774>`_
* Fix upload local file drop zone when listing by `@davelopez <https://github.com/davelopez>`_ in `#21776 <https://github.com/galaxyproject/galaxy/pull/21776>`_
* Fixes navigation back to added URLs in upload panel by `@davelopez <https://github.com/davelopez>`_ in `#21796 <https://github.com/galaxyproject/galaxy/pull/21796>`_
* Fix passing invalid job_destination dict to JobState constructor by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21798 <https://github.com/galaxyproject/galaxy/pull/21798>`_
* Avoid slash duplication in display application urls by `@guerler <https://github.com/guerler>`_ in `#21809 <https://github.com/galaxyproject/galaxy/pull/21809>`_
* Fix redirect upon impersonation by `@guerler <https://github.com/guerler>`_ in `#21810 <https://github.com/galaxyproject/galaxy/pull/21810>`_
* Update ``get_definitions()`` to FastAPI 0.128.8 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21834 <https://github.com/galaxyproject/galaxy/pull/21834>`_
* Fix selenium test test_rename_history by `@davelopez <https://github.com/davelopez>`_ in `#21835 <https://github.com/galaxyproject/galaxy/pull/21835>`_
* When getting tool by uuid, get that exact tool by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21844 <https://github.com/galaxyproject/galaxy/pull/21844>`_
* Fix OMERO file source download multi channel TIFF by `@davelopez <https://github.com/davelopez>`_ in `#21856 <https://github.com/galaxyproject/galaxy/pull/21856>`_
* Fix ascp download retries by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21857 <https://github.com/galaxyproject/galaxy/pull/21857>`_
* Fix infinite request loop on dataset preview fetch failure by `@dannon <https://github.com/dannon>`_ in `#21881 <https://github.com/galaxyproject/galaxy/pull/21881>`_
* Fixes some more optional fields in templates by `@davelopez <https://github.com/davelopez>`_ in `#21891 <https://github.com/galaxyproject/galaxy/pull/21891>`_
* Fix missing sharable link URL in TS2.0 emails by `@jmchilton <https://github.com/jmchilton>`_ in `#21892 <https://github.com/galaxyproject/galaxy/pull/21892>`_
* Parse input collections as well in markdown editor by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#21913 <https://github.com/galaxyproject/galaxy/pull/21913>`_
* Fix collection step Job markdown elements not rendering by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#21917 <https://github.com/galaxyproject/galaxy/pull/21917>`_
* Fix Pydantic UnsupportedFieldAttributeWarning for Field defaults in Annotated by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21923 <https://github.com/galaxyproject/galaxy/pull/21923>`_
* Remove unused handle_tool_shed_url_protocol by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21925 <https://github.com/galaxyproject/galaxy/pull/21925>`_
* Backport paired or unpaired mapping fix by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21936 <https://github.com/galaxyproject/galaxy/pull/21936>`_
* Fix HTML dataset extra files 404 in preview by `@dannon <https://github.com/dannon>`_ in `#21981 <https://github.com/galaxyproject/galaxy/pull/21981>`_
* Fix dict leaking to process_dataset() during workflow execution by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21982 <https://github.com/galaxyproject/galaxy/pull/21982>`_
* Fix dataset collection tag duplication when copying a history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21984 <https://github.com/galaxyproject/galaxy/pull/21984>`_
* Use inference_services config for plugin chat proxy by `@dannon <https://github.com/dannon>`_ in `#21986 <https://github.com/galaxyproject/galaxy/pull/21986>`_
* Restore file doesn't match sniffed datatype message by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21988 <https://github.com/galaxyproject/galaxy/pull/21988>`_
* Fix repo metadata persistence in fix_tool_config_paths.py by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22012 <https://github.com/galaxyproject/galaxy/pull/22012>`_
* Fix uncaught `ImplicitConversionRequired` by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22027 <https://github.com/galaxyproject/galaxy/pull/22027>`_
* Fix toolshed "copy page link" copying relative URL instead of absolute by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22028 <https://github.com/galaxyproject/galaxy/pull/22028>`_
* Fix AttributeError when fetching citations for missing tools by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22029 <https://github.com/galaxyproject/galaxy/pull/22029>`_
* Fix invalid function schema error for tools with None parameters by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22030 <https://github.com/galaxyproject/galaxy/pull/22030>`_
* AttributeError when history is None during tool execution by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22031 <https://github.com/galaxyproject/galaxy/pull/22031>`_
* Fix subworkflow editing navigation and enable e2e test by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22032 <https://github.com/galaxyproject/galaxy/pull/22032>`_
* Fix AttributeError when export_metadata is a string instead of dict by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22033 <https://github.com/galaxyproject/galaxy/pull/22033>`_
* Fix AttributeError serializing implicit output collections during job prep by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22034 <https://github.com/galaxyproject/galaxy/pull/22034>`_
* Fix ToolExpressionOutput.to_model() for boolean type. by `@jmchilton <https://github.com/jmchilton>`_ in `#22038 <https://github.com/galaxyproject/galaxy/pull/22038>`_
* Fix ``preferred_object_store_id`` not respected for discovered outputs with extended metadata by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22056 <https://github.com/galaxyproject/galaxy/pull/22056>`_
* Fix TypeError when column_names metadata is None by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22057 <https://github.com/galaxyproject/galaxy/pull/22057>`_
* Fail job gracefully when output name exceeds 255 character DB limit by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22059 <https://github.com/galaxyproject/galaxy/pull/22059>`_
* Fix FileNotFoundError when workflow references purged HDA by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22060 <https://github.com/galaxyproject/galaxy/pull/22060>`_
* Fix AttributeError when dataset in inheritance chain has no user by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22062 <https://github.com/galaxyproject/galaxy/pull/22062>`_
* Add check_database_connection to workflow scheduling path by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22063 <https://github.com/galaxyproject/galaxy/pull/22063>`_
* Use base64 URL instead of GitHub URL in test_stage_fetch_decompress_true by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22069 <https://github.com/galaxyproject/galaxy/pull/22069>`_
* Store tool shed search index test data in repo by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22071 <https://github.com/galaxyproject/galaxy/pull/22071>`_
* Move history panel expand button to top by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#22076 <https://github.com/galaxyproject/galaxy/pull/22076>`_
* Fix subworkflow editing navigation and enable e2e test by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22082 <https://github.com/galaxyproject/galaxy/pull/22082>`_
* Fix workflow search broken after auto layout by `@dannon <https://github.com/dannon>`_ in `#22093 <https://github.com/galaxyproject/galaxy/pull/22093>`_
* Fix legacy_expose_api error callable returning str instead of bytes by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22106 <https://github.com/galaxyproject/galaxy/pull/22106>`_
* Fix WSGI middlewares returning strings by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22108 <https://github.com/galaxyproject/galaxy/pull/22108>`_
* Model hidden_data params as optional data in tool meta-models. by `@jmchilton <https://github.com/jmchilton>`_ in `#22116 <https://github.com/galaxyproject/galaxy/pull/22116>`_
* Fix nested collection query performance by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22119 <https://github.com/galaxyproject/galaxy/pull/22119>`_
* Fix CardinalityViolation in nested collection ARRAY walk scalar subqueries by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22123 <https://github.com/galaxyproject/galaxy/pull/22123>`_
* Fix unhandled exceptions in tool form model population by `@guerler <https://github.com/guerler>`_ in `#22129 <https://github.com/galaxyproject/galaxy/pull/22129>`_
* Use skip_locked also when updating collection by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22133 <https://github.com/galaxyproject/galaxy/pull/22133>`_
* Backport transient CI fixes from #22102 to release_26.0 by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22135 <https://github.com/galaxyproject/galaxy/pull/22135>`_
* Do not render hide button on non-optional activities in activity bar by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#22140 <https://github.com/galaxyproject/galaxy/pull/22140>`_
* Fix redundant empty collection elements by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22154 <https://github.com/galaxyproject/galaxy/pull/22154>`_
* Do not queue paused jobs by `@martenson <https://github.com/martenson>`_ in `#22156 <https://github.com/galaxyproject/galaxy/pull/22156>`_
* Fix AmbiguousColumn error in job search for tools with long input names by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22167 <https://github.com/galaxyproject/galaxy/pull/22167>`_
* Bump tiffviewer visualization to v0.0.4 by `@davelopez <https://github.com/davelopez>`_ in `#22168 <https://github.com/galaxyproject/galaxy/pull/22168>`_
* Fix make all histories private controller None id bug by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#22174 <https://github.com/galaxyproject/galaxy/pull/22174>`_
* Fixes for gxformat2 by `@jmchilton <https://github.com/jmchilton>`_ in `#22179 <https://github.com/galaxyproject/galaxy/pull/22179>`_
* Add batch celery task for history dataset purging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22180 <https://github.com/galaxyproject/galaxy/pull/22180>`_
* Include missing tools in stock_tool_paths. by `@jmchilton <https://github.com/jmchilton>`_ in `#22181 <https://github.com/galaxyproject/galaxy/pull/22181>`_
* Don't fail on probable delete race by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22183 <https://github.com/galaxyproject/galaxy/pull/22183>`_
* Throw ParameterValueError instead of generic error by `@guerler <https://github.com/guerler>`_ in `#22188 <https://github.com/galaxyproject/galaxy/pull/22188>`_
* Back port collection fixes from #22170. by `@jmchilton <https://github.com/jmchilton>`_ in `#22193 <https://github.com/galaxyproject/galaxy/pull/22193>`_
* Cache url path lookup by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22198 <https://github.com/galaxyproject/galaxy/pull/22198>`_
* Fix event loop blocking in async API routes by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22202 <https://github.com/galaxyproject/galaxy/pull/22202>`_
* Update fastmcp requirement to 3.0.2 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#22221 <https://github.com/galaxyproject/galaxy/pull/22221>`_
* Fix race condition in history list when rapidly changing search filters by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22223 <https://github.com/galaxyproject/galaxy/pull/22223>`_
* Fix missing focus helper by `@guerler <https://github.com/guerler>`_ in `#22225 <https://github.com/galaxyproject/galaxy/pull/22225>`_
* Use ``/api/tool_data`` endpoints in DataTables.vue & DataManagerTable.vue by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22229 <https://github.com/galaxyproject/galaxy/pull/22229>`_
* Optimize dataset get_edit API by deferring expensive role queries by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22232 <https://github.com/galaxyproject/galaxy/pull/22232>`_
* Fix TypeError in ExternalIdentities by always including provider_label in authnz response by `@guerler <https://github.com/guerler>`_ in `#22234 <https://github.com/galaxyproject/galaxy/pull/22234>`_
* Add optional dataset collection mode to harmonize tool by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22236 <https://github.com/galaxyproject/galaxy/pull/22236>`_
* Fix batch history purge not updating user's update_time by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22238 <https://github.com/galaxyproject/galaxy/pull/22238>`_
* Fix import order error from ESLint by `@nsoranzo <https://github.com/nsoranzo>`_ in `#22240 <https://github.com/galaxyproject/galaxy/pull/22240>`_
* Delete dummy error controller, fix type error on invalid requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22245 <https://github.com/galaxyproject/galaxy/pull/22245>`_
* Fix file source removal by `@davelopez <https://github.com/davelopez>`_ in `#22246 <https://github.com/galaxyproject/galaxy/pull/22246>`_
* Make sure origins for data landings are persisted by `@d-callan <https://github.com/d-callan>`_ in `#22248 <https://github.com/galaxyproject/galaxy/pull/22248>`_
* Validate replacement_params values are strings before storing by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22250 <https://github.com/galaxyproject/galaxy/pull/22250>`_
* Fix N+1 queries in fetch_job_states for jobs_summary endpoints by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22251 <https://github.com/galaxyproject/galaxy/pull/22251>`_
* Fix oauth2 template validation by `@davelopez <https://github.com/davelopez>`_ in `#22253 <https://github.com/galaxyproject/galaxy/pull/22253>`_
* Drop stored workflow menu entries from user serialization by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22254 <https://github.com/galaxyproject/galaxy/pull/22254>`_
* Replace BaseHTTPMiddleware with pure ASGI middleware for X-Frame-Options by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22255 <https://github.com/galaxyproject/galaxy/pull/22255>`_
* Batch-prefetch HDCA job_state_summary in history contents listing by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22256 <https://github.com/galaxyproject/galaxy/pull/22256>`_
* Fixes optional integer form handling in templates by `@davelopez <https://github.com/davelopez>`_ in `#22257 <https://github.com/galaxyproject/galaxy/pull/22257>`_
* Fix HDCA lost in tool form on rerun by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22258 <https://github.com/galaxyproject/galaxy/pull/22258>`_
* Fix OMERO temp directory handling by `@davelopez <https://github.com/davelopez>`_ in `#22262 <https://github.com/galaxyproject/galaxy/pull/22262>`_
* Fix DOMPurify sanitize TypeError in Library components by `@dannon <https://github.com/dannon>`_ in `#22263 <https://github.com/galaxyproject/galaxy/pull/22263>`_
* Fix purge for anon histories by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22275 <https://github.com/galaxyproject/galaxy/pull/22275>`_
* Sequence datatypes: only read first character per line for setting metadata by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#22276 <https://github.com/galaxyproject/galaxy/pull/22276>`_
* Raise error when API client sends invalid parameter keys by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22277 <https://github.com/galaxyproject/galaxy/pull/22277>`_
* Fix refresh time in object store caches by `@bgruening <https://github.com/bgruening>`_ in `#22279 <https://github.com/galaxyproject/galaxy/pull/22279>`_
* Fix validation of certain classes of text validators in tools. by `@jmchilton <https://github.com/jmchilton>`_ in `#22280 <https://github.com/galaxyproject/galaxy/pull/22280>`_
* Fail early wehn no route match is found by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22284 <https://github.com/galaxyproject/galaxy/pull/22284>`_
* Raise MessageException instead of generic Exception in rules_dsl by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22285 <https://github.com/galaxyproject/galaxy/pull/22285>`_
* Fix toolshed static image url encoding by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22286 <https://github.com/galaxyproject/galaxy/pull/22286>`_
* Fix nested DatasetCollectionElement in dynamic options by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22287 <https://github.com/galaxyproject/galaxy/pull/22287>`_
* Fix flaky job search for HDCA inputs on PostgreSQL by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22290 <https://github.com/galaxyproject/galaxy/pull/22290>`_
* Fix HDCA shown as unavailable on tool form rerun by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22291 <https://github.com/galaxyproject/galaxy/pull/22291>`_
* Fix AttributeError when anonymous user searches workflows with ``is:bookmarked`` by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22296 <https://github.com/galaxyproject/galaxy/pull/22296>`_
* Improve timeout and error handling in ``/api/proxy`` endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22297 <https://github.com/galaxyproject/galaxy/pull/22297>`_
* Downgrade authnz OAuth callback errors from ERROR/EXCEPTION to WARNING by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22300 <https://github.com/galaxyproject/galaxy/pull/22300>`_
* Skip WorkflowHub tests when workflowhub.eu is down by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22302 <https://github.com/galaxyproject/galaxy/pull/22302>`_
* Delay workflow scheduling when collection has unresolved 'auto' extension by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22303 <https://github.com/galaxyproject/galaxy/pull/22303>`_
* Fix atomicity issues when pulling files into object store cache by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22304 <https://github.com/galaxyproject/galaxy/pull/22304>`_
* Fix slow get_private_role_user_emails_dict query by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22307 <https://github.com/galaxyproject/galaxy/pull/22307>`_
* Pass tool_uuid as proper query parameter instead of reusing URL path id by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22309 <https://github.com/galaxyproject/galaxy/pull/22309>`_
* Strip content-length and accept-ranges headers from proxied streaming responses by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22314 <https://github.com/galaxyproject/galaxy/pull/22314>`_
* Mark dataset collections as deleted when purging a history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22315 <https://github.com/galaxyproject/galaxy/pull/22315>`_
* Wrap webhook scripts in IIFE to prevent redeclaration errors by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22320 <https://github.com/galaxyproject/galaxy/pull/22320>`_
* Handle inaccessible history errors in route-level components by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22323 <https://github.com/galaxyproject/galaxy/pull/22323>`_
* Ignore aborted requests in rethrowSimple by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22325 <https://github.com/galaxyproject/galaxy/pull/22325>`_
* Fix AbortSignal being serialized as dataset view query parameter by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22326 <https://github.com/galaxyproject/galaxy/pull/22326>`_
* Discard rest of line in chunks in iter_start_of_line by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22332 <https://github.com/galaxyproject/galaxy/pull/22332>`_
* Fix tool "Copy Link" generating broken /root?tool_id= URLs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22339 <https://github.com/galaxyproject/galaxy/pull/22339>`_
* Backport: Fix tool discovery help data race condition and stale results by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22340 <https://github.com/galaxyproject/galaxy/pull/22340>`_
* Harden API parameter validation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22351 <https://github.com/galaxyproject/galaxy/pull/22351>`_
* Throw RequestAbortedError instead of returning undefined by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22352 <https://github.com/galaxyproject/galaxy/pull/22352>`_
* Remove broken serialize_urls from HDASerializer by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22358 <https://github.com/galaxyproject/galaxy/pull/22358>`_
* Fix HideDatasetAction not applied for cached workflow jobs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22360 <https://github.com/galaxyproject/galaxy/pull/22360>`_
* Fix timestamp parsing in job import/export by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22372 <https://github.com/galaxyproject/galaxy/pull/22372>`_
* Don't retry JobNotReadyException in job destination mapping by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22377 <https://github.com/galaxyproject/galaxy/pull/22377>`_
* Fix Content-Disposition header with trailing whitespace by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22379 <https://github.com/galaxyproject/galaxy/pull/22379>`_
* Fix workflow extract NoneType on LDDA leaf in implicit collection by `@jmchilton <https://github.com/jmchilton>`_ in `#22381 <https://github.com/galaxyproject/galaxy/pull/22381>`_
* Show error message when display action not ready by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22383 <https://github.com/galaxyproject/galaxy/pull/22383>`_
* Ensure ``x-content-truncated`` header is string by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22386 <https://github.com/galaxyproject/galaxy/pull/22386>`_
* Validate workflow invocation parameters values are dicts by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22388 <https://github.com/galaxyproject/galaxy/pull/22388>`_
* Fix invalid request error for get_metadata_file endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22389 <https://github.com/galaxyproject/galaxy/pull/22389>`_
* Offload AsyncClient construction to worker thread by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22392 <https://github.com/galaxyproject/galaxy/pull/22392>`_
* Fix dataset preview rendering to preserve newlines by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22397 <https://github.com/galaxyproject/galaxy/pull/22397>`_
* Serialize data provider errors as MessageException subclasses by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22398 <https://github.com/galaxyproject/galaxy/pull/22398>`_
* Handle ``MaxDiscoveredFilesExceededError`` for dynamic collections by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22402 <https://github.com/galaxyproject/galaxy/pull/22402>`_
* Silence social_core's noisy handle_http_errors logging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22403 <https://github.com/galaxyproject/galaxy/pull/22403>`_
* Unwrap HDCAs/DCEs nested in multi data input lists by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22405 <https://github.com/galaxyproject/galaxy/pull/22405>`_
* Reject HDCA submitted to single data parameter by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22406 <https://github.com/galaxyproject/galaxy/pull/22406>`_
* Fix headings in selenium package readme by `@guerler <https://github.com/guerler>`_ in `#22411 <https://github.com/galaxyproject/galaxy/pull/22411>`_
============
Enhancements
============
* Refactor display application handling by `@guerler <https://github.com/guerler>`_ in `#15076 <https://github.com/galaxyproject/galaxy/pull/15076>`_
* Replace Copy Dataset Mako with Vue Component by `@guerler <https://github.com/guerler>`_ in `#17507 <https://github.com/galaxyproject/galaxy/pull/17507>`_
* Blur input path instead of requiring explicit enter in FormDirectory input by `@dannon <https://github.com/dannon>`_ in `#20047 <https://github.com/galaxyproject/galaxy/pull/20047>`_
* Standardize FontAwesome usage by `@dannon <https://github.com/dannon>`_ in `#20334 <https://github.com/galaxyproject/galaxy/pull/20334>`_
* Add DRS compact identifier support by `@dannon <https://github.com/dannon>`_ in `#20410 <https://github.com/galaxyproject/galaxy/pull/20410>`_
* Fix output dataset collection visualizations by `@mvdbeek <https://github.com/mvdbeek>`_ in `#20544 <https://github.com/galaxyproject/galaxy/pull/20544>`_
* Improve docs for `invalidjobexception_state` and `_retry` of DRMAA runners by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#20612 <https://github.com/galaxyproject/galaxy/pull/20612>`_
* Refactor/cleanup admin_cleanup_datasets.py script by `@ccoulombe <https://github.com/ccoulombe>`_ in `#20819 <https://github.com/galaxyproject/galaxy/pull/20819>`_
* Upload user defined tools from url by `@mvdbeek <https://github.com/mvdbeek>`_ in `#20860 <https://github.com/galaxyproject/galaxy/pull/20860>`_
* Add Support for HTTP Headers in URL Fetch Requests with Secure Storage for Landing Requests by `@davelopez <https://github.com/davelopez>`_ in `#20924 <https://github.com/galaxyproject/galaxy/pull/20924>`_
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Remove Trackster by `@guerler <https://github.com/guerler>`_ in `#20974 <https://github.com/galaxyproject/galaxy/pull/20974>`_
* Move database revision tags to separate file by `@guerler <https://github.com/guerler>`_ in `#20998 <https://github.com/galaxyproject/galaxy/pull/20998>`_
* Integrate 'uv' for enhanced package management by `@arash77 <https://github.com/arash77>`_ in `#21002 <https://github.com/galaxyproject/galaxy/pull/21002>`_
* Add service account support for Google Cloud Storage client initialization by `@dannon <https://github.com/dannon>`_ in `#21027 <https://github.com/galaxyproject/galaxy/pull/21027>`_
* Selenium test cases for IGV. by `@jmchilton <https://github.com/jmchilton>`_ in `#21034 <https://github.com/galaxyproject/galaxy/pull/21034>`_
* Remove History Panel proxy by `@guerler <https://github.com/guerler>`_ in `#21037 <https://github.com/galaxyproject/galaxy/pull/21037>`_
* Convert Modal to plain JavaScript and remove from Galaxy object by `@guerler <https://github.com/guerler>`_ in `#21038 <https://github.com/galaxyproject/galaxy/pull/21038>`_
* Selenium test for the new storage delete confirm dialog. by `@jmchilton <https://github.com/jmchilton>`_ in `#21039 <https://github.com/galaxyproject/galaxy/pull/21039>`_
* Selenium test for #20886 (sharing private histories) by `@jmchilton <https://github.com/jmchilton>`_ in `#21040 <https://github.com/galaxyproject/galaxy/pull/21040>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21043 <https://github.com/galaxyproject/galaxy/pull/21043>`_
* Bump github/codeql-action from 3 to 4 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21048 <https://github.com/galaxyproject/galaxy/pull/21048>`_
* Improve type annotation of job runners by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21050 <https://github.com/galaxyproject/galaxy/pull/21050>`_
* Selenium test exercising workflow debug, failed jobs, etc... (20912) by `@jmchilton <https://github.com/jmchilton>`_ in `#21058 <https://github.com/galaxyproject/galaxy/pull/21058>`_
* Selenium test case for basic tools list functionality. by `@jmchilton <https://github.com/jmchilton>`_ in `#21059 <https://github.com/galaxyproject/galaxy/pull/21059>`_
* Remove jquery from legacy onload helpers and Rule Builder by `@guerler <https://github.com/guerler>`_ in `#21063 <https://github.com/galaxyproject/galaxy/pull/21063>`_
* Remove Job.params by `@jdavcs <https://github.com/jdavcs>`_ in `#21075 <https://github.com/galaxyproject/galaxy/pull/21075>`_
* Remove Reports Application by `@guerler <https://github.com/guerler>`_ in `#21076 <https://github.com/galaxyproject/galaxy/pull/21076>`_
* Add Playwright Backend Support to Galaxy Browser Automation Framework by `@jmchilton <https://github.com/jmchilton>`_ in `#21102 <https://github.com/galaxyproject/galaxy/pull/21102>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21104 <https://github.com/galaxyproject/galaxy/pull/21104>`_
* Remove tabular chunked, binary and large file mako by `@guerler <https://github.com/guerler>`_ in `#21106 <https://github.com/galaxyproject/galaxy/pull/21106>`_
* Enhance Confirm Dialog Types and More by `@itisAliRH <https://github.com/itisAliRH>`_ in `#21108 <https://github.com/galaxyproject/galaxy/pull/21108>`_
* Bump actions/setup-node from 5 to 6 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21116 <https://github.com/galaxyproject/galaxy/pull/21116>`_
* Pulsar relay implementation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21118 <https://github.com/galaxyproject/galaxy/pull/21118>`_
* Add `select all`, simple search and pagination to Zip file selector by `@davelopez <https://github.com/davelopez>`_ in `#21120 <https://github.com/galaxyproject/galaxy/pull/21120>`_
* Remove legacy Visualization Mako and Controllers by `@guerler <https://github.com/guerler>`_ in `#21133 <https://github.com/galaxyproject/galaxy/pull/21133>`_
* Add Custom Validation for User-Configured Templates by `@davelopez <https://github.com/davelopez>`_ in `#21155 <https://github.com/galaxyproject/galaxy/pull/21155>`_
* Fix various bugs/hacks with tool_data_table handling. by `@jmchilton <https://github.com/jmchilton>`_ in `#21163 <https://github.com/galaxyproject/galaxy/pull/21163>`_
* Add type annotations to job handling code by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21171 <https://github.com/galaxyproject/galaxy/pull/21171>`_
* Add plotly pie charts by `@guerler <https://github.com/guerler>`_ in `#21174 <https://github.com/galaxyproject/galaxy/pull/21174>`_
* Bump actions/upload-artifact from 4 to 5 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21176 <https://github.com/galaxyproject/galaxy/pull/21176>`_
* Refactor client imports for better ES module compatibility by `@dannon <https://github.com/dannon>`_ in `#21194 <https://github.com/galaxyproject/galaxy/pull/21194>`_
* Replace tuswsgi with tuspyserver by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21201 <https://github.com/galaxyproject/galaxy/pull/21201>`_
* Add an easy to access/obvious button to hide history panel by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#21207 <https://github.com/galaxyproject/galaxy/pull/21207>`_
* Richer tracking of transient failures. by `@jmchilton <https://github.com/jmchilton>`_ in `#21227 <https://github.com/galaxyproject/galaxy/pull/21227>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21229 <https://github.com/galaxyproject/galaxy/pull/21229>`_
* Consolidate Dataset State Display by `@guerler <https://github.com/guerler>`_ in `#21231 <https://github.com/galaxyproject/galaxy/pull/21231>`_
* Reimplement keycloak/cilogon as PSA providers and remove custos by `@nuwang <https://github.com/nuwang>`_ in `#21234 <https://github.com/galaxyproject/galaxy/pull/21234>`_
* Remove Tool Runner mako by `@guerler <https://github.com/guerler>`_ in `#21235 <https://github.com/galaxyproject/galaxy/pull/21235>`_
* Bump actions/checkout from 4 to 5 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21236 <https://github.com/galaxyproject/galaxy/pull/21236>`_
* Allow filtering job searches by history ID by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21257 <https://github.com/galaxyproject/galaxy/pull/21257>`_
* Slight improvement of mztab2 datatype by `@nguilhot <https://github.com/nguilhot>`_ in `#21258 <https://github.com/galaxyproject/galaxy/pull/21258>`_
* Add "show in multiview" to mutiple history selection by `@davelopez <https://github.com/davelopez>`_ in `#21260 <https://github.com/galaxyproject/galaxy/pull/21260>`_
* Move js-client bootstrapping to FastAPI by `@guerler <https://github.com/guerler>`_ in `#21264 <https://github.com/galaxyproject/galaxy/pull/21264>`_
* Smoke test and PR by `@ksuderman <https://github.com/ksuderman>`_ in `#21277 <https://github.com/galaxyproject/galaxy/pull/21277>`_
* Update last queue process handler by `@guerler <https://github.com/guerler>`_ in `#21288 <https://github.com/galaxyproject/galaxy/pull/21288>`_
* Update error message handling for OIDC by `@uwwint <https://github.com/uwwint>`_ in `#21297 <https://github.com/galaxyproject/galaxy/pull/21297>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21301 <https://github.com/galaxyproject/galaxy/pull/21301>`_
* Add workflow dispatch to artifact building workflow by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21323 <https://github.com/galaxyproject/galaxy/pull/21323>`_
* Implement GA4GH WES API by `@jmchilton <https://github.com/jmchilton>`_ in `#21335 <https://github.com/galaxyproject/galaxy/pull/21335>`_
* Add Beta Upload Activity - User Interface Redesign by `@davelopez <https://github.com/davelopez>`_ in `#21338 <https://github.com/galaxyproject/galaxy/pull/21338>`_
* Annotates archive explorer tests as Selenium-only by `@davelopez <https://github.com/davelopez>`_ in `#21341 <https://github.com/galaxyproject/galaxy/pull/21341>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21345 <https://github.com/galaxyproject/galaxy/pull/21345>`_
* Add citation reminder to job completion email by `@Syrinx55 <https://github.com/Syrinx55>`_ in `#21347 <https://github.com/galaxyproject/galaxy/pull/21347>`_
* Migrate client tests from Jest to Vitest by `@dannon <https://github.com/dannon>`_ in `#21348 <https://github.com/galaxyproject/galaxy/pull/21348>`_
* Bump peter-evans/create-pull-request from 6 to 7 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21352 <https://github.com/galaxyproject/galaxy/pull/21352>`_
* Bump actions/checkout from 5 to 6 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21353 <https://github.com/galaxyproject/galaxy/pull/21353>`_
* Bump actions/setup-python from 4 to 6 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21354 <https://github.com/galaxyproject/galaxy/pull/21354>`_
* Bump jupyterhub/action-k3s-helm from 3 to 4 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21355 <https://github.com/galaxyproject/galaxy/pull/21355>`_
* Link to an external profile when user accounts are managed by a single OIDC provider by `@marius-mather <https://github.com/marius-mather>`_ in `#21356 <https://github.com/galaxyproject/galaxy/pull/21356>`_
* Ascp plugin by `@d-callan <https://github.com/d-callan>`_ in `#21357 <https://github.com/galaxyproject/galaxy/pull/21357>`_
* Vitest followup: switch to happy-dom, cleanup/fixes to mocks by `@dannon <https://github.com/dannon>`_ in `#21359 <https://github.com/galaxyproject/galaxy/pull/21359>`_
* Migrate rate limiter tests from Jest to Vitest by `@davelopez <https://github.com/davelopez>`_ in `#21361 <https://github.com/galaxyproject/galaxy/pull/21361>`_
* Add OMERO File Source Plugin by `@davelopez <https://github.com/davelopez>`_ in `#21367 <https://github.com/galaxyproject/galaxy/pull/21367>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21368 <https://github.com/galaxyproject/galaxy/pull/21368>`_
* Replace Webpack with Vite for client build by `@dannon <https://github.com/dannon>`_ in `#21369 <https://github.com/galaxyproject/galaxy/pull/21369>`_
* Replace gulp with native Node.js build script by `@dannon <https://github.com/dannon>`_ in `#21370 <https://github.com/galaxyproject/galaxy/pull/21370>`_
* Fix: tool execution typing improvements/fixes by `@jmchilton <https://github.com/jmchilton>`_ in `#21374 <https://github.com/galaxyproject/galaxy/pull/21374>`_
* More use of base64 to improve test stability. by `@jmchilton <https://github.com/jmchilton>`_ in `#21383 <https://github.com/galaxyproject/galaxy/pull/21383>`_
* Update fastapi to 0.123.4 and ``get_openapi()`` fork by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21384 <https://github.com/galaxyproject/galaxy/pull/21384>`_
* Add initial support for the DICOM format by `@kostrykin <https://github.com/kostrykin>`_ in `#21385 <https://github.com/galaxyproject/galaxy/pull/21385>`_
* Add new Azure Flat object store file source by `@guerler <https://github.com/guerler>`_ in `#21398 <https://github.com/galaxyproject/galaxy/pull/21398>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21400 <https://github.com/galaxyproject/galaxy/pull/21400>`_
* Redesign TS landing page with prominent search box. by `@jmchilton <https://github.com/jmchilton>`_ in `#21430 <https://github.com/galaxyproject/galaxy/pull/21430>`_
* A couple more tool shed fixes. by `@jmchilton <https://github.com/jmchilton>`_ in `#21433 <https://github.com/galaxyproject/galaxy/pull/21433>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Add Google Batch job runner by `@ksuderman <https://github.com/ksuderman>`_ in `#21443 <https://github.com/galaxyproject/galaxy/pull/21443>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21449 <https://github.com/galaxyproject/galaxy/pull/21449>`_
* Add toolshed metadata fixing script by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21456 <https://github.com/galaxyproject/galaxy/pull/21456>`_
* Bump actions/upload-artifact from 5 to 6 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21460 <https://github.com/galaxyproject/galaxy/pull/21460>`_
* Bump actions/cache from 4 to 5 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21461 <https://github.com/galaxyproject/galaxy/pull/21461>`_
* Bump peter-evans/create-pull-request from 7 to 8 by `@dependabot[bot] <https://github.com/dependabot[bot]>`_ in `#21462 <https://github.com/galaxyproject/galaxy/pull/21462>`_
* Add Jupyternaut adapter for JupyterLite integration by `@guerler <https://github.com/guerler>`_ in `#21463 <https://github.com/galaxyproject/galaxy/pull/21463>`_
* Add support for Python 3.14 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21486 <https://github.com/galaxyproject/galaxy/pull/21486>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Modernize UrlTracker into a Typescript composable by `@davelopez <https://github.com/davelopez>`_ in `#21490 <https://github.com/galaxyproject/galaxy/pull/21490>`_
* Tool testing: add min/max attributes to test output collections by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21495 <https://github.com/galaxyproject/galaxy/pull/21495>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21500 <https://github.com/galaxyproject/galaxy/pull/21500>`_
* Add functional test for filtering outputs by parameters in repeats by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21501 <https://github.com/galaxyproject/galaxy/pull/21501>`_
* Various test documentation updates. by `@jmchilton <https://github.com/jmchilton>`_ in `#21507 <https://github.com/galaxyproject/galaxy/pull/21507>`_
* Raise ConfigurationError instead etree.ParseError by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21509 <https://github.com/galaxyproject/galaxy/pull/21509>`_
* Discriminate decompression tools by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21510 <https://github.com/galaxyproject/galaxy/pull/21510>`_
* Include subworkflow jobs in invocation metrics by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21511 <https://github.com/galaxyproject/galaxy/pull/21511>`_
* Implement subworkflow invocation export by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21512 <https://github.com/galaxyproject/galaxy/pull/21512>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21513 <https://github.com/galaxyproject/galaxy/pull/21513>`_
* Fix use of function, method and argument names deprecated in pyparsing 3.0.0 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21517 <https://github.com/galaxyproject/galaxy/pull/21517>`_
* Add workflow API test for use_cached_job with sample sheet collections by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21522 <https://github.com/galaxyproject/galaxy/pull/21522>`_
* Add `ruff --check` to pre-commit sample config by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21523 <https://github.com/galaxyproject/galaxy/pull/21523>`_
* Add support for workflow landing requests using simple URLs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21525 <https://github.com/galaxyproject/galaxy/pull/21525>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21526 <https://github.com/galaxyproject/galaxy/pull/21526>`_
* Extend `image_diff` and image content assertions to handle boolean images by `@kostrykin <https://github.com/kostrykin>`_ in `#21527 <https://github.com/galaxyproject/galaxy/pull/21527>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Migrate client package manager from Yarn to pnpm by `@dannon <https://github.com/dannon>`_ in `#21539 <https://github.com/galaxyproject/galaxy/pull/21539>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Update dependencies for IGV and Plotly by `@guerler <https://github.com/guerler>`_ in `#21543 <https://github.com/galaxyproject/galaxy/pull/21543>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21552 <https://github.com/galaxyproject/galaxy/pull/21552>`_
* Add Claude Code slash commands for GitHub issue triage by `@jmchilton <https://github.com/jmchilton>`_ in `#21579 <https://github.com/galaxyproject/galaxy/pull/21579>`_
* Add discarded_data option to model store import API by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21582 <https://github.com/galaxyproject/galaxy/pull/21582>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Adds Vintent visualization plugin by `@guerler <https://github.com/guerler>`_ in `#21586 <https://github.com/galaxyproject/galaxy/pull/21586>`_
* Sort data managers using case-insensitive order for display in admin UI by `@jdavcs <https://github.com/jdavcs>`_ in `#21587 <https://github.com/galaxyproject/galaxy/pull/21587>`_
* Adds vue-eslint-parser as a dev dependency by `@davelopez <https://github.com/davelopez>`_ in `#21588 <https://github.com/galaxyproject/galaxy/pull/21588>`_
* Switch Google Cloud Storage file source from fs-gcsfs to gcsfs (fsspec) by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21590 <https://github.com/galaxyproject/galaxy/pull/21590>`_
* Unify extensions of file source templates by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21594 <https://github.com/galaxyproject/galaxy/pull/21594>`_
* Use ``fail-on-cache-miss`` when restoring the client cache by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21597 <https://github.com/galaxyproject/galaxy/pull/21597>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21606 <https://github.com/galaxyproject/galaxy/pull/21606>`_
* Update to gravity 1.2.0 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21608 <https://github.com/galaxyproject/galaxy/pull/21608>`_
* Move legacy Visualization Plugins API to FastAPI by `@guerler <https://github.com/guerler>`_ in `#21612 <https://github.com/galaxyproject/galaxy/pull/21612>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
* Remove unused js-dependencies by `@guerler <https://github.com/guerler>`_ in `#21621 <https://github.com/galaxyproject/galaxy/pull/21621>`_
* Migrate remaining vitest tests from `axios-mock-adapter` to `useServerMock` by `@dannon <https://github.com/dannon>`_ in `#21634 <https://github.com/galaxyproject/galaxy/pull/21634>`_
* Fix slow startup regression by `@ksuderman <https://github.com/ksuderman>`_ in `#21637 <https://github.com/galaxyproject/galaxy/pull/21637>`_
* Remove sanitization from built-in grep tool by `@wm75 <https://github.com/wm75>`_ in `#21648 <https://github.com/galaxyproject/galaxy/pull/21648>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21653 <https://github.com/galaxyproject/galaxy/pull/21653>`_
* Add tests for oidc usernames by `@nuwang <https://github.com/nuwang>`_ in `#21655 <https://github.com/galaxyproject/galaxy/pull/21655>`_
* Add agent based AI tool recommendation by `@dannon <https://github.com/dannon>`_ in `#21661 <https://github.com/galaxyproject/galaxy/pull/21661>`_
* Improve ruff configuration to mimic our isort settings by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21666 <https://github.com/galaxyproject/galaxy/pull/21666>`_
* Type annotations and refactorings by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21673 <https://github.com/galaxyproject/galaxy/pull/21673>`_
* Check file source template config files for determining conditional dependencies + add constraint for zero-ice by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21688 <https://github.com/galaxyproject/galaxy/pull/21688>`_
* Standardize agent API schemas and response metadata by `@dannon <https://github.com/dannon>`_ in `#21692 <https://github.com/galaxyproject/galaxy/pull/21692>`_
* Various fixes to file source template's validation system by `@davelopez <https://github.com/davelopez>`_ in `#21704 <https://github.com/galaxyproject/galaxy/pull/21704>`_
* Revert startup probe timeout by `@ksuderman <https://github.com/ksuderman>`_ in `#21748 <https://github.com/galaxyproject/galaxy/pull/21748>`_
* Send a Slack notification if the Docker image build or smoke test fails by `@ksuderman <https://github.com/ksuderman>`_ in `#21751 <https://github.com/galaxyproject/galaxy/pull/21751>`_
* Adds indicator to show if upload target history is current by `@davelopez <https://github.com/davelopez>`_ in `#21830 <https://github.com/galaxyproject/galaxy/pull/21830>`_
* Replaced deprecated actions with modern equivalents by `@ksuderman <https://github.com/ksuderman>`_ in `#21849 <https://github.com/galaxyproject/galaxy/pull/21849>`_
* Allow connecting sample sheet inputs to compatible collection inputs in editor by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21859 <https://github.com/galaxyproject/galaxy/pull/21859>`_
* Adds ImageJ metadata support to TIFF export by `@davelopez <https://github.com/davelopez>`_ in `#21882 <https://github.com/galaxyproject/galaxy/pull/21882>`_
* Backports: Return redirection instead of a JSON with the redirect URI by `@davelopez <https://github.com/davelopez>`_ in `#21902 <https://github.com/galaxyproject/galaxy/pull/21902>`_
* Update qiskit interactive tool by `@thepineapplepirate <https://github.com/thepineapplepirate>`_ in `#21948 <https://github.com/galaxyproject/galaxy/pull/21948>`_
* Backport chat API improvements by `@dannon <https://github.com/dannon>`_ in `#21973 <https://github.com/galaxyproject/galaxy/pull/21973>`_
* Use ParameterValueError for dataset count validation to reduce Sentry noise by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22058 <https://github.com/galaxyproject/galaxy/pull/22058>`_
* Add linter to validate required_files include paths exist by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22061 <https://github.com/galaxyproject/galaxy/pull/22061>`_
* Use mock test server when tests don't target external galaxy server by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22103 <https://github.com/galaxyproject/galaxy/pull/22103>`_
* Add new datatypes: .taf and .taf.gz by `@Maed0x <https://github.com/Maed0x>`_ in `#22242 <https://github.com/galaxyproject/galaxy/pull/22242>`_
* Add _F/_R auto-pairing filter for forward/reverse datasets by `@jmchilton <https://github.com/jmchilton>`_ in `#22267 <https://github.com/galaxyproject/galaxy/pull/22267>`_
=============
Other changes
=============
* Version 26.0.dev by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#21020 <https://github.com/galaxyproject/galaxy/pull/21020>`_
* Update revision tags for release 25.1 by `@arash77 <https://github.com/arash77>`_ in `#21022 <https://github.com/galaxyproject/galaxy/pull/21022>`_
* Update client API schema by `@davelopez <https://github.com/davelopez>`_ in `#21147 <https://github.com/galaxyproject/galaxy/pull/21147>`_
* Merge 25.1 into dev, fix openapi schema generation for TypedDict by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21168 <https://github.com/galaxyproject/galaxy/pull/21168>`_
* Remove unused javascript from toolshed test makos by `@guerler <https://github.com/guerler>`_ in `#21387 <https://github.com/galaxyproject/galaxy/pull/21387>`_
* Fix tool request API for multiple select parameters with defaults. by `@jmchilton <https://github.com/jmchilton>`_ in `#21416 <https://github.com/galaxyproject/galaxy/pull/21416>`_
* Merge 25.1 into dev and create alembic merge revision by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21440 <https://github.com/galaxyproject/galaxy/pull/21440>`_
* Merge 25.1 into dev by `@jmchilton <https://github.com/jmchilton>`_ in `#21505 <https://github.com/galaxyproject/galaxy/pull/21505>`_
* Add automated npm publishing for client-api package by `@dannon <https://github.com/dannon>`_ in `#21533 <https://github.com/galaxyproject/galaxy/pull/21533>`_
* Don't return 404 when file name can't be serialized by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21577 <https://github.com/galaxyproject/galaxy/pull/21577>`_
* Bump default milestone to 26.1 by `@guerler <https://github.com/guerler>`_ in `#21628 <https://github.com/galaxyproject/galaxy/pull/21628>`_
* Reduce completion monitor logging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21674 <https://github.com/galaxyproject/galaxy/pull/21674>`_
* Add Database Revision for 26.0 by `@guerler <https://github.com/guerler>`_ in `#21675 <https://github.com/galaxyproject/galaxy/pull/21675>`_
* Version 26.1.dev by `@guerler <https://github.com/guerler>`_ in `#21685 <https://github.com/galaxyproject/galaxy/pull/21685>`_
* Fix `test_value_restriction_with_select_from_multiple_subworkflow_inputs` formatting by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21723 <https://github.com/galaxyproject/galaxy/pull/21723>`_
* Fix on_complete column type mismatch by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21765 <https://github.com/galaxyproject/galaxy/pull/21765>`_
* Fix bad merge by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21790 <https://github.com/galaxyproject/galaxy/pull/21790>`_
* Use 1-based step index in invocation metric UI by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21799 <https://github.com/galaxyproject/galaxy/pull/21799>`_
* Backport: Fix dbkey filter returning no options when dbkey unset by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21945 <https://github.com/galaxyproject/galaxy/pull/21945>`_
* backport MIT license change by `@mr-c <https://github.com/mr-c>`_ in `#21999 <https://github.com/galaxyproject/galaxy/pull/21999>`_
* Show invalid tool error reasons in Tool Shed UI by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22040 <https://github.com/galaxyproject/galaxy/pull/22040>`_
* Backport of 21939 by `@jdavcs <https://github.com/jdavcs>`_ in `#22265 <https://github.com/galaxyproject/galaxy/pull/22265>`_
-------------------
25.1.2 (2026-03-09)
packages/meta/setup.cfg
+1 -1
View File
@@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/navigation/HISTORY.rst
+4 -4
View File
@@ -3,11 +3,11 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
No recorded changes since last release
-------------------
25.1.2 (2026-03-09)
packages/navigation/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-navigation
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options.extras_require]
test =
packages/objectstore/HISTORY.rst
+18 -3
View File
@@ -3,11 +3,26 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Fix refresh time in object store caches by `@bgruening <https://github.com/bgruening>`_ in `#22279 <https://github.com/galaxyproject/galaxy/pull/22279>`_
* Fix atomicity issues when pulling files into object store cache by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22304 <https://github.com/galaxyproject/galaxy/pull/22304>`_
* Harden API parameter validation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22351 <https://github.com/galaxyproject/galaxy/pull/22351>`_
============
Enhancements
============
* Add Playwright Backend Support to Galaxy Browser Automation Framework by `@jmchilton <https://github.com/jmchilton>`_ in `#21102 <https://github.com/galaxyproject/galaxy/pull/21102>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
* Various fixes to file source template's validation system by `@davelopez <https://github.com/davelopez>`_ in `#21704 <https://github.com/galaxyproject/galaxy/pull/21704>`_
-------------------
25.1.2 (2026-03-09)
packages/objectstore/setup.cfg
+1 -1
View File
@@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-objectstore
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/schema/HISTORY.rst
+43 -3
View File
@@ -3,11 +3,51 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Provide more accurate step hints for failing subworkflow steps by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21514 <https://github.com/galaxyproject/galaxy/pull/21514>`_
* Add missing types to visualization model by `@guerler <https://github.com/guerler>`_ in `#21672 <https://github.com/galaxyproject/galaxy/pull/21672>`_
* Fix Pydantic UnsupportedFieldAttributeWarning for Field defaults in Annotated by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21923 <https://github.com/galaxyproject/galaxy/pull/21923>`_
* Fix dict leaking to process_dataset() during workflow execution by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21982 <https://github.com/galaxyproject/galaxy/pull/21982>`_
* Fix AttributeError when fetching citations for missing tools by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22029 <https://github.com/galaxyproject/galaxy/pull/22029>`_
* Add batch celery task for history dataset purging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22180 <https://github.com/galaxyproject/galaxy/pull/22180>`_
* Fix batch history purge not updating user's update_time by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22238 <https://github.com/galaxyproject/galaxy/pull/22238>`_
* Validate workflow invocation parameters values are dicts by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22388 <https://github.com/galaxyproject/galaxy/pull/22388>`_
============
Enhancements
============
* Replace Copy Dataset Mako with Vue Component by `@guerler <https://github.com/guerler>`_ in `#17507 <https://github.com/galaxyproject/galaxy/pull/17507>`_
* Add Support for HTTP Headers in URL Fetch Requests with Secure Storage for Landing Requests by `@davelopez <https://github.com/davelopez>`_ in `#20924 <https://github.com/galaxyproject/galaxy/pull/20924>`_
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21043 <https://github.com/galaxyproject/galaxy/pull/21043>`_
* Remove legacy Visualization Mako and Controllers by `@guerler <https://github.com/guerler>`_ in `#21133 <https://github.com/galaxyproject/galaxy/pull/21133>`_
* Allow filtering job searches by history ID by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21257 <https://github.com/galaxyproject/galaxy/pull/21257>`_
* Implement GA4GH WES API by `@jmchilton <https://github.com/jmchilton>`_ in `#21335 <https://github.com/galaxyproject/galaxy/pull/21335>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Include subworkflow jobs in invocation metrics by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21511 <https://github.com/galaxyproject/galaxy/pull/21511>`_
* Add support for workflow landing requests using simple URLs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21525 <https://github.com/galaxyproject/galaxy/pull/21525>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Add discarded_data option to model store import API by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21582 <https://github.com/galaxyproject/galaxy/pull/21582>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Standardize agent API schemas and response metadata by `@dannon <https://github.com/dannon>`_ in `#21692 <https://github.com/galaxyproject/galaxy/pull/21692>`_
* Backport chat API improvements by `@dannon <https://github.com/dannon>`_ in `#21973 <https://github.com/galaxyproject/galaxy/pull/21973>`_
=============
Other changes
=============
* Merge 25.1 into dev, fix openapi schema generation for TypedDict by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21168 <https://github.com/galaxyproject/galaxy/pull/21168>`_
-------------------
25.1.2 (2026-03-09)
packages/schema/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-schema
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/selenium/HISTORY.rst
+22 -3
View File
@@ -3,11 +3,30 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Attempt to fix transiently failing tests that click this tab. by `@jmchilton <https://github.com/jmchilton>`_ in `#21376 <https://github.com/galaxyproject/galaxy/pull/21376>`_
* Fix selenium test test_rename_history by `@davelopez <https://github.com/davelopez>`_ in `#21835 <https://github.com/galaxyproject/galaxy/pull/21835>`_
============
Enhancements
============
* Replace Copy Dataset Mako with Vue Component by `@guerler <https://github.com/guerler>`_ in `#17507 <https://github.com/galaxyproject/galaxy/pull/17507>`_
* Selenium test cases for IGV. by `@jmchilton <https://github.com/jmchilton>`_ in `#21034 <https://github.com/galaxyproject/galaxy/pull/21034>`_
* Selenium test for #20886 (sharing private histories) by `@jmchilton <https://github.com/jmchilton>`_ in `#21040 <https://github.com/galaxyproject/galaxy/pull/21040>`_
* Remove jquery from legacy onload helpers and Rule Builder by `@guerler <https://github.com/guerler>`_ in `#21063 <https://github.com/galaxyproject/galaxy/pull/21063>`_
* Add Playwright Backend Support to Galaxy Browser Automation Framework by `@jmchilton <https://github.com/jmchilton>`_ in `#21102 <https://github.com/galaxyproject/galaxy/pull/21102>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
-------------------
25.1.2 (2026-03-09)
packages/selenium/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-selenium
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/test_api/HISTORY.rst
+70 -3
View File
@@ -3,11 +3,78 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Attempt to fix transient API test failure for jobs search. by `@jmchilton <https://github.com/jmchilton>`_ in `#20898 <https://github.com/galaxyproject/galaxy/pull/20898>`_
* Drop down revision for drop_job_params migration by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21122 <https://github.com/galaxyproject/galaxy/pull/21122>`_
* Plumbing for tracking potential fixes for transient failures (and a fix demonstrating it) by `@jmchilton <https://github.com/jmchilton>`_ in `#21243 <https://github.com/galaxyproject/galaxy/pull/21243>`_
* Attempt to fix transient failure in list_list_copy by `@jmchilton <https://github.com/jmchilton>`_ in `#21381 <https://github.com/galaxyproject/galaxy/pull/21381>`_
* Provide more accurate step hints for failing subworkflow steps by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21514 <https://github.com/galaxyproject/galaxy/pull/21514>`_
* Fix input tags not being copied when using copy_inputs_to_history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21529 <https://github.com/galaxyproject/galaxy/pull/21529>`_
* Fix storing origin for workflow landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21696 <https://github.com/galaxyproject/galaxy/pull/21696>`_
* Backport paired or unpaired mapping fix by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21936 <https://github.com/galaxyproject/galaxy/pull/21936>`_
* Fix dict leaking to process_dataset() during workflow execution by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21982 <https://github.com/galaxyproject/galaxy/pull/21982>`_
* Fix dataset collection tag duplication when copying a history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21984 <https://github.com/galaxyproject/galaxy/pull/21984>`_
* Restore file doesn't match sniffed datatype message by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21988 <https://github.com/galaxyproject/galaxy/pull/21988>`_
* Fail job gracefully when output name exceeds 255 character DB limit by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22059 <https://github.com/galaxyproject/galaxy/pull/22059>`_
* Use base64 URL instead of GitHub URL in test_stage_fetch_decompress_true by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22069 <https://github.com/galaxyproject/galaxy/pull/22069>`_
* Fixes for gxformat2 by `@jmchilton <https://github.com/jmchilton>`_ in `#22179 <https://github.com/galaxyproject/galaxy/pull/22179>`_
* Make sure origins for data landings are persisted by `@d-callan <https://github.com/d-callan>`_ in `#22248 <https://github.com/galaxyproject/galaxy/pull/22248>`_
* Validate replacement_params values are strings before storing by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22250 <https://github.com/galaxyproject/galaxy/pull/22250>`_
* Fix HDCA lost in tool form on rerun by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22258 <https://github.com/galaxyproject/galaxy/pull/22258>`_
* Fix purge for anon histories by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22275 <https://github.com/galaxyproject/galaxy/pull/22275>`_
* Fix validation of certain classes of text validators in tools. by `@jmchilton <https://github.com/jmchilton>`_ in `#22280 <https://github.com/galaxyproject/galaxy/pull/22280>`_
* Fix nested DatasetCollectionElement in dynamic options by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22287 <https://github.com/galaxyproject/galaxy/pull/22287>`_
* Fix AttributeError when anonymous user searches workflows with ``is:bookmarked`` by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22296 <https://github.com/galaxyproject/galaxy/pull/22296>`_
* Improve timeout and error handling in ``/api/proxy`` endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22297 <https://github.com/galaxyproject/galaxy/pull/22297>`_
* Strip content-length and accept-ranges headers from proxied streaming responses by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22314 <https://github.com/galaxyproject/galaxy/pull/22314>`_
* Fix HideDatasetAction not applied for cached workflow jobs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22360 <https://github.com/galaxyproject/galaxy/pull/22360>`_
* Validate workflow invocation parameters values are dicts by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22388 <https://github.com/galaxyproject/galaxy/pull/22388>`_
* Fix dataset preview rendering to preserve newlines by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22397 <https://github.com/galaxyproject/galaxy/pull/22397>`_
* Serialize data provider errors as MessageException subclasses by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22398 <https://github.com/galaxyproject/galaxy/pull/22398>`_
* Unwrap HDCAs/DCEs nested in multi data input lists by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22405 <https://github.com/galaxyproject/galaxy/pull/22405>`_
* Reject HDCA submitted to single data parameter by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22406 <https://github.com/galaxyproject/galaxy/pull/22406>`_
============
Enhancements
============
* Refactor display application handling by `@guerler <https://github.com/guerler>`_ in `#15076 <https://github.com/galaxyproject/galaxy/pull/15076>`_
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Selenium test exercising workflow debug, failed jobs, etc... (20912) by `@jmchilton <https://github.com/jmchilton>`_ in `#21058 <https://github.com/galaxyproject/galaxy/pull/21058>`_
* Richer tracking of transient failures. by `@jmchilton <https://github.com/jmchilton>`_ in `#21227 <https://github.com/galaxyproject/galaxy/pull/21227>`_
* Remove Tool Runner mako by `@guerler <https://github.com/guerler>`_ in `#21235 <https://github.com/galaxyproject/galaxy/pull/21235>`_
* Allow filtering job searches by history ID by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21257 <https://github.com/galaxyproject/galaxy/pull/21257>`_
* Implement GA4GH WES API by `@jmchilton <https://github.com/jmchilton>`_ in `#21335 <https://github.com/galaxyproject/galaxy/pull/21335>`_
* More use of base64 to improve test stability. by `@jmchilton <https://github.com/jmchilton>`_ in `#21383 <https://github.com/galaxyproject/galaxy/pull/21383>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Include subworkflow jobs in invocation metrics by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21511 <https://github.com/galaxyproject/galaxy/pull/21511>`_
* Implement subworkflow invocation export by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21512 <https://github.com/galaxyproject/galaxy/pull/21512>`_
* Add workflow API test for use_cached_job with sample sheet collections by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21522 <https://github.com/galaxyproject/galaxy/pull/21522>`_
* Add support for workflow landing requests using simple URLs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21525 <https://github.com/galaxyproject/galaxy/pull/21525>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Add discarded_data option to model store import API by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21582 <https://github.com/galaxyproject/galaxy/pull/21582>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
* Type annotations and refactorings by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21673 <https://github.com/galaxyproject/galaxy/pull/21673>`_
* Use mock test server when tests don't target external galaxy server by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22103 <https://github.com/galaxyproject/galaxy/pull/22103>`_
=============
Other changes
=============
* Fix tool request API for multiple select parameters with defaults. by `@jmchilton <https://github.com/jmchilton>`_ in `#21416 <https://github.com/galaxyproject/galaxy/pull/21416>`_
* Reduce completion monitor logging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21674 <https://github.com/galaxyproject/galaxy/pull/21674>`_
* Fix `test_value_restriction_with_select_from_multiple_subworkflow_inputs` formatting by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21723 <https://github.com/galaxyproject/galaxy/pull/21723>`_
* Backport: Fix dbkey filter returning no options when dbkey unset by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21945 <https://github.com/galaxyproject/galaxy/pull/21945>`_
-------------------
25.1.2 (2026-03-09)
packages/test_api/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-test-api
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/test_base/HISTORY.rst
+34 -3
View File
@@ -3,11 +3,42 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Accept 404 as valid intermediate state when waiting for dataset purge by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21521 <https://github.com/galaxyproject/galaxy/pull/21521>`_
* Backport paired or unpaired mapping fix by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21936 <https://github.com/galaxyproject/galaxy/pull/21936>`_
* Fix HDCA lost in tool form on rerun by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22258 <https://github.com/galaxyproject/galaxy/pull/22258>`_
* Fix purge for anon histories by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22275 <https://github.com/galaxyproject/galaxy/pull/22275>`_
* Improve timeout and error handling in ``/api/proxy`` endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22297 <https://github.com/galaxyproject/galaxy/pull/22297>`_
* Fix HideDatasetAction not applied for cached workflow jobs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22360 <https://github.com/galaxyproject/galaxy/pull/22360>`_
============
Enhancements
============
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Selenium test exercising workflow debug, failed jobs, etc... (20912) by `@jmchilton <https://github.com/jmchilton>`_ in `#21058 <https://github.com/galaxyproject/galaxy/pull/21058>`_
* Implement GA4GH WES API by `@jmchilton <https://github.com/jmchilton>`_ in `#21335 <https://github.com/galaxyproject/galaxy/pull/21335>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Add discarded_data option to model store import API by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21582 <https://github.com/galaxyproject/galaxy/pull/21582>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Type annotations and refactorings by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21673 <https://github.com/galaxyproject/galaxy/pull/21673>`_
* Use mock test server when tests don't target external galaxy server by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22103 <https://github.com/galaxyproject/galaxy/pull/22103>`_
=============
Other changes
=============
* Backport: Fix dbkey filter returning no options when dbkey unset by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21945 <https://github.com/galaxyproject/galaxy/pull/21945>`_
-------------------
25.1.2 (2026-03-09)
packages/test_base/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-test-base
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/test_driver/HISTORY.rst
+12 -3
View File
@@ -3,11 +3,20 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
============
Enhancements
============
* Add Support for HTTP Headers in URL Fetch Requests with Secure Storage for Landing Requests by `@davelopez <https://github.com/davelopez>`_ in `#20924 <https://github.com/galaxyproject/galaxy/pull/20924>`_
* Pulsar relay implementation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21118 <https://github.com/galaxyproject/galaxy/pull/21118>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
-------------------
25.1.2 (2026-03-09)
packages/test_driver/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-test-driver
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/tool_shed/HISTORY.rst
+10 -3
View File
@@ -3,11 +3,18 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Fix missing sharable link URL in TS2.0 emails by `@jmchilton <https://github.com/jmchilton>`_ in `#21892 <https://github.com/galaxyproject/galaxy/pull/21892>`_
* Store tool shed search index test data in repo by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22071 <https://github.com/galaxyproject/galaxy/pull/22071>`_
* Fix toolshed static image url encoding by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22286 <https://github.com/galaxyproject/galaxy/pull/22286>`_
-------------------
25.1.2 (2026-03-09)
packages/tool_shed/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-tool-shed
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/tool_shed_schema/HISTORY.rst
+4 -4
View File
@@ -3,11 +3,11 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
No recorded changes since last release
-------------------
25.1.2 (2026-03-09)
packages/tool_shed_schema/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-tool-shed-schema
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/tool_util/HISTORY.rst
+37 -3
View File
@@ -3,11 +3,45 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* When getting tool by uuid, get that exact tool by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21844 <https://github.com/galaxyproject/galaxy/pull/21844>`_
* Fix Pydantic UnsupportedFieldAttributeWarning for Field defaults in Annotated by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21923 <https://github.com/galaxyproject/galaxy/pull/21923>`_
* Backport paired or unpaired mapping fix by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21936 <https://github.com/galaxyproject/galaxy/pull/21936>`_
* Fix ToolExpressionOutput.to_model() for boolean type. by `@jmchilton <https://github.com/jmchilton>`_ in `#22038 <https://github.com/galaxyproject/galaxy/pull/22038>`_
* Model hidden_data params as optional data in tool meta-models. by `@jmchilton <https://github.com/jmchilton>`_ in `#22116 <https://github.com/galaxyproject/galaxy/pull/22116>`_
* Fix validation of certain classes of text validators in tools. by `@jmchilton <https://github.com/jmchilton>`_ in `#22280 <https://github.com/galaxyproject/galaxy/pull/22280>`_
============
Enhancements
============
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Remove Trackster by `@guerler <https://github.com/guerler>`_ in `#20974 <https://github.com/galaxyproject/galaxy/pull/20974>`_
* Add Playwright Backend Support to Galaxy Browser Automation Framework by `@jmchilton <https://github.com/jmchilton>`_ in `#21102 <https://github.com/galaxyproject/galaxy/pull/21102>`_
* Fix various bugs/hacks with tool_data_table handling. by `@jmchilton <https://github.com/jmchilton>`_ in `#21163 <https://github.com/galaxyproject/galaxy/pull/21163>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21368 <https://github.com/galaxyproject/galaxy/pull/21368>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Tool testing: add min/max attributes to test output collections by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#21495 <https://github.com/galaxyproject/galaxy/pull/21495>`_
* Extend `image_diff` and image content assertions to handle boolean images by `@kostrykin <https://github.com/kostrykin>`_ in `#21527 <https://github.com/galaxyproject/galaxy/pull/21527>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
* Fix slow startup regression by `@ksuderman <https://github.com/ksuderman>`_ in `#21637 <https://github.com/galaxyproject/galaxy/pull/21637>`_
* Remove sanitization from built-in grep tool by `@wm75 <https://github.com/wm75>`_ in `#21648 <https://github.com/galaxyproject/galaxy/pull/21648>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21653 <https://github.com/galaxyproject/galaxy/pull/21653>`_
* Add linter to validate required_files include paths exist by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22061 <https://github.com/galaxyproject/galaxy/pull/22061>`_
=============
Other changes
=============
* Fix tool request API for multiple select parameters with defaults. by `@jmchilton <https://github.com/jmchilton>`_ in `#21416 <https://github.com/galaxyproject/galaxy/pull/21416>`_
-------------------
25.1.2 (2026-03-09)
packages/tool_util/setup.cfg
+1 -1
View File
@@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-tool-util
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/tool_util_models/HISTORY.rst
+26 -3
View File
@@ -3,11 +3,34 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Fix Pydantic UnsupportedFieldAttributeWarning for Field defaults in Annotated by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21923 <https://github.com/galaxyproject/galaxy/pull/21923>`_
* Backport paired or unpaired mapping fix by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21936 <https://github.com/galaxyproject/galaxy/pull/21936>`_
* Fix validation of certain classes of text validators in tools. by `@jmchilton <https://github.com/jmchilton>`_ in `#22280 <https://github.com/galaxyproject/galaxy/pull/22280>`_
============
Enhancements
============
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Update fastapi to 0.123.4 and ``get_openapi()`` fork by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21384 <https://github.com/galaxyproject/galaxy/pull/21384>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
=============
Other changes
=============
* Merge 25.1 into dev, fix openapi schema generation for TypedDict by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21168 <https://github.com/galaxyproject/galaxy/pull/21168>`_
* Fix tool request API for multiple select parameters with defaults. by `@jmchilton <https://github.com/jmchilton>`_ in `#21416 <https://github.com/galaxyproject/galaxy/pull/21416>`_
-------------------
25.1.2 (2026-03-09)
packages/tool_util_models/setup.cfg
+1 -1
View File
@@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-tool-util-models
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/tours/HISTORY.rst
+4 -4
View File
@@ -3,11 +3,11 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
No recorded changes since last release
-------------------
25.1.2 (2026-03-09)
packages/tours/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-tours
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/util/HISTORY.rst
+30 -3
View File
@@ -3,11 +3,38 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Plumbing for tracking potential fixes for transient failures (and a fix demonstrating it) by `@jmchilton <https://github.com/jmchilton>`_ in `#21243 <https://github.com/galaxyproject/galaxy/pull/21243>`_
* Remove unused handle_tool_shed_url_protocol by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21925 <https://github.com/galaxyproject/galaxy/pull/21925>`_
* Raise MessageException instead of generic Exception in rules_dsl by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22285 <https://github.com/galaxyproject/galaxy/pull/22285>`_
* Improve timeout and error handling in ``/api/proxy`` endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22297 <https://github.com/galaxyproject/galaxy/pull/22297>`_
* Skip WorkflowHub tests when workflowhub.eu is down by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22302 <https://github.com/galaxyproject/galaxy/pull/22302>`_
* Discard rest of line in chunks in iter_start_of_line by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22332 <https://github.com/galaxyproject/galaxy/pull/22332>`_
* Fix Content-Disposition header with trailing whitespace by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22379 <https://github.com/galaxyproject/galaxy/pull/22379>`_
============
Enhancements
============
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21043 <https://github.com/galaxyproject/galaxy/pull/21043>`_
* Add Playwright Backend Support to Galaxy Browser Automation Framework by `@jmchilton <https://github.com/jmchilton>`_ in `#21102 <https://github.com/galaxyproject/galaxy/pull/21102>`_
* Add Custom Validation for User-Configured Templates by `@davelopez <https://github.com/davelopez>`_ in `#21155 <https://github.com/galaxyproject/galaxy/pull/21155>`_
* Add type annotations to job handling code by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21171 <https://github.com/galaxyproject/galaxy/pull/21171>`_
* Richer tracking of transient failures. by `@jmchilton <https://github.com/jmchilton>`_ in `#21227 <https://github.com/galaxyproject/galaxy/pull/21227>`_
* Update fastapi to 0.123.4 and ``get_openapi()`` fork by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21384 <https://github.com/galaxyproject/galaxy/pull/21384>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Fix use of function, method and argument names deprecated in pyparsing 3.0.0 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21517 <https://github.com/galaxyproject/galaxy/pull/21517>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
* Add tests for oidc usernames by `@nuwang <https://github.com/nuwang>`_ in `#21655 <https://github.com/galaxyproject/galaxy/pull/21655>`_
* Various fixes to file source template's validation system by `@davelopez <https://github.com/davelopez>`_ in `#21704 <https://github.com/galaxyproject/galaxy/pull/21704>`_
-------------------
25.1.2 (2026-03-09)
packages/util/setup.cfg
+1 -1
View File
@@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-util
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/web_apps/HISTORY.rst
+84 -3
View File
@@ -3,11 +3,92 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Preserve assistant messages with tool calls by `@guerler <https://github.com/guerler>`_ in `#21545 <https://github.com/galaxyproject/galaxy/pull/21545>`_
* Fix incorrect router tag in plugins API by `@dannon <https://github.com/dannon>`_ in `#21669 <https://github.com/galaxyproject/galaxy/pull/21669>`_
* Fix redirect upon impersonation by `@guerler <https://github.com/guerler>`_ in `#21810 <https://github.com/galaxyproject/galaxy/pull/21810>`_
* Update ``get_definitions()`` to FastAPI 0.128.8 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21834 <https://github.com/galaxyproject/galaxy/pull/21834>`_
* Fix dataset collection tag duplication when copying a history by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21984 <https://github.com/galaxyproject/galaxy/pull/21984>`_
* Use inference_services config for plugin chat proxy by `@dannon <https://github.com/dannon>`_ in `#21986 <https://github.com/galaxyproject/galaxy/pull/21986>`_
* Fix AttributeError when fetching citations for missing tools by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22029 <https://github.com/galaxyproject/galaxy/pull/22029>`_
* Fix invalid function schema error for tools with None parameters by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22030 <https://github.com/galaxyproject/galaxy/pull/22030>`_
* AttributeError when history is None during tool execution by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22031 <https://github.com/galaxyproject/galaxy/pull/22031>`_
* Fix AttributeError when export_metadata is a string instead of dict by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22033 <https://github.com/galaxyproject/galaxy/pull/22033>`_
* Fix AttributeError when dataset in inheritance chain has no user by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22062 <https://github.com/galaxyproject/galaxy/pull/22062>`_
* Fix make all histories private controller None id bug by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#22174 <https://github.com/galaxyproject/galaxy/pull/22174>`_
* Add batch celery task for history dataset purging by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22180 <https://github.com/galaxyproject/galaxy/pull/22180>`_
* Cache url path lookup by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22198 <https://github.com/galaxyproject/galaxy/pull/22198>`_
* Fix event loop blocking in async API routes by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22202 <https://github.com/galaxyproject/galaxy/pull/22202>`_
* Update fastmcp requirement to 3.0.2 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#22221 <https://github.com/galaxyproject/galaxy/pull/22221>`_
* Use ``/api/tool_data`` endpoints in DataTables.vue & DataManagerTable.vue by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22229 <https://github.com/galaxyproject/galaxy/pull/22229>`_
* Optimize dataset get_edit API by deferring expensive role queries by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22232 <https://github.com/galaxyproject/galaxy/pull/22232>`_
* Fix TypeError in ExternalIdentities by always including provider_label in authnz response by `@guerler <https://github.com/guerler>`_ in `#22234 <https://github.com/galaxyproject/galaxy/pull/22234>`_
* Delete dummy error controller, fix type error on invalid requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22245 <https://github.com/galaxyproject/galaxy/pull/22245>`_
* Make sure origins for data landings are persisted by `@d-callan <https://github.com/d-callan>`_ in `#22248 <https://github.com/galaxyproject/galaxy/pull/22248>`_
* Replace BaseHTTPMiddleware with pure ASGI middleware for X-Frame-Options by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22255 <https://github.com/galaxyproject/galaxy/pull/22255>`_
* Fix toolshed static image url encoding by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22286 <https://github.com/galaxyproject/galaxy/pull/22286>`_
* Improve timeout and error handling in ``/api/proxy`` endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22297 <https://github.com/galaxyproject/galaxy/pull/22297>`_
* Downgrade authnz OAuth callback errors from ERROR/EXCEPTION to WARNING by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22300 <https://github.com/galaxyproject/galaxy/pull/22300>`_
* Fix slow get_private_role_user_emails_dict query by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22307 <https://github.com/galaxyproject/galaxy/pull/22307>`_
* Pass tool_uuid as proper query parameter instead of reusing URL path id by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22309 <https://github.com/galaxyproject/galaxy/pull/22309>`_
* Strip content-length and accept-ranges headers from proxied streaming responses by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22314 <https://github.com/galaxyproject/galaxy/pull/22314>`_
* Fix tool "Copy Link" generating broken /root?tool_id= URLs by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22339 <https://github.com/galaxyproject/galaxy/pull/22339>`_
* Harden API parameter validation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22351 <https://github.com/galaxyproject/galaxy/pull/22351>`_
* Show error message when display action not ready by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22383 <https://github.com/galaxyproject/galaxy/pull/22383>`_
* Fix invalid request error for get_metadata_file endpoint by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22389 <https://github.com/galaxyproject/galaxy/pull/22389>`_
* Offload AsyncClient construction to worker thread by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22392 <https://github.com/galaxyproject/galaxy/pull/22392>`_
============
Enhancements
============
* Refactor display application handling by `@guerler <https://github.com/guerler>`_ in `#15076 <https://github.com/galaxyproject/galaxy/pull/15076>`_
* Replace Copy Dataset Mako with Vue Component by `@guerler <https://github.com/guerler>`_ in `#17507 <https://github.com/galaxyproject/galaxy/pull/17507>`_
* Tool Request API by `@jmchilton <https://github.com/jmchilton>`_ in `#20935 <https://github.com/galaxyproject/galaxy/pull/20935>`_
* Remove Trackster by `@guerler <https://github.com/guerler>`_ in `#20974 <https://github.com/galaxyproject/galaxy/pull/20974>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21043 <https://github.com/galaxyproject/galaxy/pull/21043>`_
* Remove Reports Application by `@guerler <https://github.com/guerler>`_ in `#21076 <https://github.com/galaxyproject/galaxy/pull/21076>`_
* Remove legacy Visualization Mako and Controllers by `@guerler <https://github.com/guerler>`_ in `#21133 <https://github.com/galaxyproject/galaxy/pull/21133>`_
* Replace tuswsgi with tuspyserver by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21201 <https://github.com/galaxyproject/galaxy/pull/21201>`_
* Consolidate Dataset State Display by `@guerler <https://github.com/guerler>`_ in `#21231 <https://github.com/galaxyproject/galaxy/pull/21231>`_
* Reimplement keycloak/cilogon as PSA providers and remove custos by `@nuwang <https://github.com/nuwang>`_ in `#21234 <https://github.com/galaxyproject/galaxy/pull/21234>`_
* Remove Tool Runner mako by `@guerler <https://github.com/guerler>`_ in `#21235 <https://github.com/galaxyproject/galaxy/pull/21235>`_
* Allow filtering job searches by history ID by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21257 <https://github.com/galaxyproject/galaxy/pull/21257>`_
* Move js-client bootstrapping to FastAPI by `@guerler <https://github.com/guerler>`_ in `#21264 <https://github.com/galaxyproject/galaxy/pull/21264>`_
* Update error message handling for OIDC by `@uwwint <https://github.com/uwwint>`_ in `#21297 <https://github.com/galaxyproject/galaxy/pull/21297>`_
* Implement GA4GH WES API by `@jmchilton <https://github.com/jmchilton>`_ in `#21335 <https://github.com/galaxyproject/galaxy/pull/21335>`_
* Add Beta Upload Activity - User Interface Redesign by `@davelopez <https://github.com/davelopez>`_ in `#21338 <https://github.com/galaxyproject/galaxy/pull/21338>`_
* Link to an external profile when user accounts are managed by a single OIDC provider by `@marius-mather <https://github.com/marius-mather>`_ in `#21356 <https://github.com/galaxyproject/galaxy/pull/21356>`_
* Update fastapi to 0.123.4 and ``get_openapi()`` fork by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21384 <https://github.com/galaxyproject/galaxy/pull/21384>`_
* Add AI Agent Framework and ChatGXY 2.0 by `@dannon <https://github.com/dannon>`_ in `#21434 <https://github.com/galaxyproject/galaxy/pull/21434>`_
* Add Jupyternaut adapter for JupyterLite integration by `@guerler <https://github.com/guerler>`_ in `#21463 <https://github.com/galaxyproject/galaxy/pull/21463>`_
* Add support for Python 3.14 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21486 <https://github.com/galaxyproject/galaxy/pull/21486>`_
* Enable attaching sample sheet to landing requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21489 <https://github.com/galaxyproject/galaxy/pull/21489>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21500 <https://github.com/galaxyproject/galaxy/pull/21500>`_
* Update Python dependencies by `@galaxybot <https://github.com/galaxybot>`_ in `#21526 <https://github.com/galaxyproject/galaxy/pull/21526>`_
* Implement workflow completion monitoring with extensible hooks by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21532 <https://github.com/galaxyproject/galaxy/pull/21532>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Sort data managers using case-insensitive order for display in admin UI by `@jdavcs <https://github.com/jdavcs>`_ in `#21587 <https://github.com/galaxyproject/galaxy/pull/21587>`_
* Move legacy Visualization Plugins API to FastAPI by `@guerler <https://github.com/guerler>`_ in `#21612 <https://github.com/galaxyproject/galaxy/pull/21612>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
* Standardize agent API schemas and response metadata by `@dannon <https://github.com/dannon>`_ in `#21692 <https://github.com/galaxyproject/galaxy/pull/21692>`_
* Backports: Return redirection instead of a JSON with the redirect URI by `@davelopez <https://github.com/davelopez>`_ in `#21902 <https://github.com/galaxyproject/galaxy/pull/21902>`_
* Backport chat API improvements by `@dannon <https://github.com/dannon>`_ in `#21973 <https://github.com/galaxyproject/galaxy/pull/21973>`_
=============
Other changes
=============
* Merge 25.1 into dev, fix openapi schema generation for TypedDict by `@mvdbeek <https://github.com/mvdbeek>`_ in `#21168 <https://github.com/galaxyproject/galaxy/pull/21168>`_
-------------------
25.1.2 (2026-03-09)
packages/web_apps/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-web-apps
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/web_client/HISTORY.rst
+4 -4
View File
@@ -3,11 +3,11 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
No recorded changes since last release
-------------------
25.1.2 (2026-03-09)
packages/web_client/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-web-client
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/web_framework/HISTORY.rst
+20 -3
View File
@@ -3,11 +3,28 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Fix WSGI middlewares returning strings by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22108 <https://github.com/galaxyproject/galaxy/pull/22108>`_
* Delete dummy error controller, fix type error on invalid requests by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22245 <https://github.com/galaxyproject/galaxy/pull/22245>`_
* Fail early wehn no route match is found by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22284 <https://github.com/galaxyproject/galaxy/pull/22284>`_
* Harden API parameter validation by `@mvdbeek <https://github.com/mvdbeek>`_ in `#22351 <https://github.com/galaxyproject/galaxy/pull/22351>`_
============
Enhancements
============
* Remove Reports Application by `@guerler <https://github.com/guerler>`_ in `#21076 <https://github.com/galaxyproject/galaxy/pull/21076>`_
* Replace Webpack with Vite for client build by `@dannon <https://github.com/dannon>`_ in `#21369 <https://github.com/galaxyproject/galaxy/pull/21369>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
* Apply 2026 black style by `@galaxybot <https://github.com/galaxybot>`_ in `#21618 <https://github.com/galaxyproject/galaxy/pull/21618>`_
-------------------
25.1.2 (2026-03-09)
packages/web_framework/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-web-framework
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True
packages/web_stack/HISTORY.rst
+16 -3
View File
@@ -3,11 +3,24 @@ History
.. to_doc
-------
26.0rc1
-------
-------------------
26.0.0 (2026-04-08)
-------------------
=========
Bug fixes
=========
* Fix differentiation between single handler and handler tag by `@natefoo <https://github.com/natefoo>`_ in `#21252 <https://github.com/galaxyproject/galaxy/pull/21252>`_
============
Enhancements
============
* Add type annotations to job handling code by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21171 <https://github.com/galaxyproject/galaxy/pull/21171>`_
* Clean up code with pyupgrade by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21540 <https://github.com/galaxyproject/galaxy/pull/21540>`_
* Drop support for Python 3.9 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#21583 <https://github.com/galaxyproject/galaxy/pull/21583>`_
-------------------
25.1.2 (2026-03-09)
packages/web_stack/setup.cfg
+1 -1
View File
@@ -26,7 +26,7 @@ long_description = file: README.rst, HISTORY.rst
long_description_content_type = text/x-rst
name = galaxy-web-stack
url = https://github.com/galaxyproject/galaxy
version = 25.1.dev0
version = 26.0.0
[options]
include_package_data = True