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Create version 25.0.0
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‎client/package.json‎

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{
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"name": "@galaxyproject/galaxy-client",
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"version": "24.0.0",
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"version": "25.0.0",
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"description": "Galaxy client application build system",
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"keywords": [
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"galaxy"

‎lib/galaxy/version.py‎

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VERSION_MAJOR = "25.0"
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VERSION_MINOR = "rc1"
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VERSION_MINOR = "0"
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VERSION = VERSION_MAJOR + (f".{VERSION_MINOR}" if VERSION_MINOR else "")

‎package.json‎

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{
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"name": "@galaxyproject/galaxy",
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"version": "24.0.0",
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"version": "25.0.0",
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"description": ".. figure:: https://galaxyproject.org/images/galaxy-logos/galaxy_project_logo.jpg :alt: Galaxy Logo",
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"main": "index.js",
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"scripts": {

‎packages/app/HISTORY.rst‎

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‎packages/app/setup.cfg‎

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long_description_content_type = text/x-rst
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name = galaxy-app
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url = https://github.com/galaxyproject/galaxy
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version = 25.0.dev0
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version = 25.0.0
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include_package_data = True

‎packages/auth/HISTORY.rst‎

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25.0rc1
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-------
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-------------------
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25.0.0 (2025-06-18)
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-------------------
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No recorded changes since last release
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24.2.4 (2025-06-17)

‎packages/auth/setup.cfg‎

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long_description_content_type = text/x-rst
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name = galaxy-auth
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url = https://github.com/galaxyproject/galaxy
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version = 25.0.dev0
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version = 25.0.0
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include_package_data = True

‎packages/config/HISTORY.rst‎

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.. to_doc
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-------
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25.0rc1
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-------------------
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25.0.0 (2025-06-18)
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-------------------
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=========
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Bug fixes
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=========
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* Use ``resource_path()`` to access datatypes_conf.xml.sample as a package resource by `@nsoranzo <https://github.com/nsoranzo>`_ in `#19331 <https://github.com/galaxyproject/galaxy/pull/19331>`_
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* Remove hgv_sift from tool_conf.xml.sample by `@natefoo <https://github.com/natefoo>`_ in `#19972 <https://github.com/galaxyproject/galaxy/pull/19972>`_
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* Add job config variable for singularity `--contain` by `@bernt-matthias <https://github.com/bernt-matthias>`_ in `#20400 <https://github.com/galaxyproject/galaxy/pull/20400>`_
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============
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Enhancements
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============
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* Isolate singularity containers more thoroughly for better reproducibility. by `@rhpvorderman <https://github.com/rhpvorderman>`_ in `#18628 <https://github.com/galaxyproject/galaxy/pull/18628>`_
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* Implement tool markdown reports. by `@jmchilton <https://github.com/jmchilton>`_ in `#19054 <https://github.com/galaxyproject/galaxy/pull/19054>`_
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* Calculate hash for new non-deferred datasets when finishing a job by `@nsoranzo <https://github.com/nsoranzo>`_ in `#19181 <https://github.com/galaxyproject/galaxy/pull/19181>`_
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* eLabFTW integration via Galaxy file source by `@kysrpex <https://github.com/kysrpex>`_ in `#19319 <https://github.com/galaxyproject/galaxy/pull/19319>`_
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* Misc fixes 202412 by `@nsoranzo <https://github.com/nsoranzo>`_ in `#19341 <https://github.com/galaxyproject/galaxy/pull/19341>`_
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* Add Dataverse RDM repository integration by `@KaiOnGitHub <https://github.com/KaiOnGitHub>`_ in `#19367 <https://github.com/galaxyproject/galaxy/pull/19367>`_
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* Clarify that extra_scopes is sometimes non-optional by `@martenson <https://github.com/martenson>`_ in `#19385 <https://github.com/galaxyproject/galaxy/pull/19385>`_
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* Change galaxy system user uid for K8s image by `@afgane <https://github.com/afgane>`_ in `#19403 <https://github.com/galaxyproject/galaxy/pull/19403>`_
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* Prevent users from reusing a banned email after account is purged by `@jdavcs <https://github.com/jdavcs>`_ in `#19413 <https://github.com/galaxyproject/galaxy/pull/19413>`_
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* Add IGB display support for CRAM files by `@paige-kulzer <https://github.com/paige-kulzer>`_ in `#19428 <https://github.com/galaxyproject/galaxy/pull/19428>`_
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* Add config options for tool dependency installs by `@afgane <https://github.com/afgane>`_ in `#19565 <https://github.com/galaxyproject/galaxy/pull/19565>`_
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* Support setting masthead height in a theme by `@ksuderman <https://github.com/ksuderman>`_ in `#19581 <https://github.com/galaxyproject/galaxy/pull/19581>`_
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* Add failed jobs working directory cleanup as a celery periodic task by `@sanjaysrikakulam <https://github.com/sanjaysrikakulam>`_ in `#19594 <https://github.com/galaxyproject/galaxy/pull/19594>`_
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* Enhance OpenAI Chat Integration by `@uwwint <https://github.com/uwwint>`_ in `#19612 <https://github.com/galaxyproject/galaxy/pull/19612>`_
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* Data-source tool for DICED database (https://diced.lerner.ccf.org/) added. by `@jaidevjoshi83 <https://github.com/jaidevjoshi83>`_ in `#19689 <https://github.com/galaxyproject/galaxy/pull/19689>`_
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* Update RStudio IT by `@afgane <https://github.com/afgane>`_ in `#19711 <https://github.com/galaxyproject/galaxy/pull/19711>`_
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* Add bigbed to bed converter and tests by `@d-callan <https://github.com/d-callan>`_ in `#19787 <https://github.com/galaxyproject/galaxy/pull/19787>`_
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* Decrease sentry_sdk.errors log level to INFO by `@natefoo <https://github.com/natefoo>`_ in `#19951 <https://github.com/galaxyproject/galaxy/pull/19951>`_
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* Allow different AI providers (as long as they are openai compatible) by `@uwwint <https://github.com/uwwint>`_ in `#19989 <https://github.com/galaxyproject/galaxy/pull/19989>`_
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* Add vitesscejson datatype by `@guerler <https://github.com/guerler>`_ in `#20027 <https://github.com/galaxyproject/galaxy/pull/20027>`_
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* Add VTK Visualization Toolkit Plugin by `@guerler <https://github.com/guerler>`_ in `#20028 <https://github.com/galaxyproject/galaxy/pull/20028>`_
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* Add docx datatype by `@bgruening <https://github.com/bgruening>`_ in `#20055 <https://github.com/galaxyproject/galaxy/pull/20055>`_
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* Add markdown datatype by `@bgruening <https://github.com/bgruening>`_ in `#20056 <https://github.com/galaxyproject/galaxy/pull/20056>`_
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* Add flac audio format by `@bgruening <https://github.com/bgruening>`_ in `#20057 <https://github.com/galaxyproject/galaxy/pull/20057>`_
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* Add rd datatype by `@richard-burhans <https://github.com/richard-burhans>`_ in `#20060 <https://github.com/galaxyproject/galaxy/pull/20060>`_
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* Enhance external login interface styling by `@ahmedhamidawan <https://github.com/ahmedhamidawan>`_ in `#20100 <https://github.com/galaxyproject/galaxy/pull/20100>`_
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* Add specific datatypes for Cytoscape and Kepler.gl by `@guerler <https://github.com/guerler>`_ in `#20117 <https://github.com/galaxyproject/galaxy/pull/20117>`_
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* Add more metadata, esp `infer_from` to datatypes configuration by `@bgruening <https://github.com/bgruening>`_ in `#20142 <https://github.com/galaxyproject/galaxy/pull/20142>`_
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* Add three AAI providers by `@martenson <https://github.com/martenson>`_ in `#20165 <https://github.com/galaxyproject/galaxy/pull/20165>`_
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* Add replacement_dataset option to collection filter tools by `@simonbray <https://github.com/simonbray>`_ in `#20166 <https://github.com/galaxyproject/galaxy/pull/20166>`_
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* Visualization-First Display functionality by `@dannon <https://github.com/dannon>`_ in `#20190 <https://github.com/galaxyproject/galaxy/pull/20190>`_
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* Deprecate ``enable_tool_document_cache`` by `@nsoranzo <https://github.com/nsoranzo>`_ in `#20433 <https://github.com/galaxyproject/galaxy/pull/20433>`_
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* Add Aladin as standard FITS viewer by `@bgruening <https://github.com/bgruening>`_ in `#20465 <https://github.com/galaxyproject/galaxy/pull/20465>`_
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* Add molstar as default viewer for some molecule formats by `@bgruening <https://github.com/bgruening>`_ in `#20467 <https://github.com/galaxyproject/galaxy/pull/20467>`_
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=============
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Other changes
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=============
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* Make job cache generally available by `@dannon <https://github.com/dannon>`_ in `#19798 <https://github.com/galaxyproject/galaxy/pull/19798>`_
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* Rename vitessce_json file_ext to vitessce.json by `@mvdbeek <https://github.com/mvdbeek>`_ in `#20473 <https://github.com/galaxyproject/galaxy/pull/20473>`_
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‎packages/config/setup.cfg‎

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name = galaxy-config
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url = https://github.com/galaxyproject/galaxy
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version = 25.0.dev0
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version = 25.0.0
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include_package_data = True

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