Uwe Winter
68b4a0c948
Add Config opion disable_local_accounts
2025-09-29 17:40:47 -05:00
Aysam Guerler
8ec885eda0
Merge pull request #20868 from ahmedhamidawan/move_tour_generator_webhook_to_core
...
Replace tour_generator webhook with internal API and frontend
2025-09-26 07:45:08 +03:00
Dannon
8ebc13e047
Merge pull request #20361 from scottcain/update-admin-doc-index
...
Remove 8 year old note that points at a non-existent subdomain
2025-09-23 14:38:38 -04:00
Ahmed Awan and Björn Grüning
e9710be048
set enable_tool_generated_tours to true by default
...
Co-authored-by: Björn Grüning <469983+bgruening@users.noreply.github.com >
2025-09-23 08:41:29 -05:00
Ahmed Awan
8e47e1638d
add enable_tool_generated_tours config option
...
Doesn't do anything yet
2025-09-23 08:41:27 -05:00
mvdbeek
0c09aa9e5c
Add test for proposed prod-like deployment
2025-09-21 17:03:17 +02:00
Ahmed Hamid Awan
2d513e834c
Merge pull request #20911 from ahmedhamidawan/merge_25.0_into_dev_sept
...
Merge 25.0 into dev
2025-09-15 21:06:30 -05:00
marius-mather
1f4cd32967
Rebuild config and skip pre-commit changes
2025-09-16 08:58:52 +10:00
Ahmed Awan
f823afcc2a
Merge remote-tracking branch 'upstream/release_25.0' into merge_25.0_into_dev_sept
2025-09-15 14:46:12 -05:00
marius-mather
c11e7529c8
Merge remote-tracking branch 'upstream/dev' into oidc-pipeline-config
2025-09-15 11:05:44 +10:00
marius-mather
6d7deabdb7
Rebuild config docs
2025-09-15 10:49:45 +10:00
John Davis
ddee1a2a90
Merge branch 'release_24.2' into release_25.0
2025-09-10 09:54:38 -04:00
Tim Kok
cc6da148c1
Add support for hierarchical module systems in lmod + modules dependency resolvers
2025-09-05 09:04:31 +02:00
John Davis
c87d5391d6
Update celery section in docs
2025-09-03 10:57:50 -04:00
mvdbeek
ba5122a724
Drop configfiles not supported from docs
2025-09-01 17:36:10 +02:00
Nicola Soranzo and Marius van den Beek
be6a0dee57
Drop unnecessary "just"
...
Co-authored-by: Marius van den Beek <m.vandenbeek@gmail.com >
2025-08-27 19:18:20 +01:00
Nicola Soranzo
a802727c33
Update docs on debugging tests within GitHub actions
...
Subsets were replaced with shards in commit 992edaa8b4
2025-08-27 16:33:43 +01:00
Nicola Soranzo
7fa47d4ba6
Update Python instructions for admins
2025-08-27 16:30:39 +01:00
John Chilton and Nicola Soranzo
0b7478b1a4
Apply suggestions from code review
...
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com >
2025-08-13 14:43:31 -04:00
John Chilton
d771436dae
Datatype checklist.
2025-08-13 10:59:55 -04:00
Matthias Bernt
70444d3177
Merge branch 'release_25.0' into dev
...
# Conflicts:
# client/package.json
# lib/galaxy/version.py
# package.json
# packages/app/HISTORY.rst
# packages/app/setup.cfg
# packages/auth/HISTORY.rst
# packages/auth/setup.cfg
# packages/config/HISTORY.rst
# packages/config/setup.cfg
# packages/data/HISTORY.rst
# packages/data/setup.cfg
# packages/files/HISTORY.rst
# packages/files/setup.cfg
# packages/job_execution/HISTORY.rst
# packages/job_execution/setup.cfg
# packages/job_metrics/HISTORY.rst
# packages/job_metrics/setup.cfg
# packages/meta/HISTORY.rst
# packages/meta/setup.cfg
# packages/navigation/HISTORY.rst
# packages/navigation/setup.cfg
# packages/objectstore/HISTORY.rst
# packages/objectstore/setup.cfg
# packages/schema/HISTORY.rst
# packages/schema/setup.cfg
# packages/selenium/HISTORY.rst
# packages/selenium/setup.cfg
# packages/test_api/HISTORY.rst
# packages/test_api/setup.cfg
# packages/test_base/HISTORY.rst
# packages/test_base/setup.cfg
# packages/test_driver/HISTORY.rst
# packages/test_driver/setup.cfg
# packages/tool_shed/HISTORY.rst
# packages/tool_shed/setup.cfg
# packages/tool_shed_schema/HISTORY.rst
# packages/tool_shed_schema/setup.cfg
# packages/tool_util/HISTORY.rst
# packages/tool_util/setup.cfg
# packages/tool_util_models/HISTORY.rst
# packages/tool_util_models/setup.cfg
# packages/tours/HISTORY.rst
# packages/tours/setup.cfg
# packages/util/HISTORY.rst
# packages/util/setup.cfg
# packages/web_apps/HISTORY.rst
# packages/web_apps/setup.cfg
# packages/web_client/HISTORY.rst
# packages/web_client/setup.cfg
# packages/web_framework/HISTORY.rst
# packages/web_framework/setup.cfg
# packages/web_stack/HISTORY.rst
# packages/web_stack/setup.cfg
2025-08-13 14:34:10 +02:00
Martin Cech
fe5315d74d
fix docs for nginx
2025-08-11 11:10:50 +02:00
Marius van den Beek
393e005ce9
Merge pull request #20510 from nsoranzo/remove_ToolDocumentCache
...
Remove deprecated tool document cache
2025-07-29 17:03:42 +02:00
Nicola Soranzo
6ec1249584
Merge branch 'release_25.0' into dev
2025-07-10 12:16:38 +01:00
mvdbeek
543b395a43
Clarify how to separate job and workflow scheduling
2025-07-09 10:22:08 +02:00
Michael Schatz
2ddcb77e90
Display the Galaxy Citation within the Export Tool References List
...
This commit implements a new feature to display a user-defined Galaxy Citation
within the "Export Tool References List". By default, this includes
a reference to the NAR paper, but this can be changed at runtime
via a galaxy.yml edit or by rebuilding the client with an updated
config_schma.yml. This feature was proposed and discussed here:
https://github.com/galaxyproject/galaxy/issues/19362
Summary of changes:
- Define a new configuration property for citation_bibtex with a reference to the current main galaxy paper.
- Inject that as a citation within the Export Tool Refernences to diplay alongside other tools used in the current history.
- Uses the Cite() package to format in bibtex or APA as needed (as done for all other tools too)
- Updates the docs, and schema as needed to provide the default value and description
2025-06-30 11:53:11 -05:00
Nicola Soranzo
9007d8692d
Remove deprecated `ToolDocumentCache`
...
Close https://github.com/galaxyproject/galaxy/issues/20432 .
2025-06-24 23:10:53 +01:00
Nicola Soranzo
99e352a3d0
Merge branch 'release_25.0' into dev
2025-06-22 15:26:46 +01:00
Nicola Soranzo
1cc2d6e5e6
Merge branch 'release_24.2' into release_25.0
2025-06-22 12:56:24 +01:00
Nicola Soranzo
414019da34
Fix docs versioning
...
for Galaxy releases (e.g. 24.2 and 25.0) that have only tags with
2 dots.
2025-06-21 20:16:29 +01:00
Nate Coraor
96523d4570
Merge remote-tracking branch 'upstream/release_25.0' into dev
2025-06-20 16:18:47 -04:00
Marius van den Beek
e95a55907f
Merge pull request #20516 from natefoo/web-client-static-fixes
...
[25.0] Fixes for static handling and the web_client package
2025-06-19 11:18:23 +02:00
mvdbeek
cafd0c8c62
Merge branch 'release_25.0' into dev
2025-06-19 10:18:46 +02:00
mvdbeek
39285ff347
Run make config-rebuild
2025-06-19 09:44:39 +02:00
Björn Grüning
af684f2993
fix link in user release notes
2025-06-19 08:33:56 +02:00
Ahmed Awan
3000e4343d
Merge branch 'release_25.0' into dev
...
# Conflicts:
# lib/galaxy/version.py
# packages/app/HISTORY.rst
# packages/auth/HISTORY.rst
# packages/config/HISTORY.rst
# packages/data/HISTORY.rst
# packages/files/HISTORY.rst
# packages/job_execution/HISTORY.rst
# packages/job_metrics/HISTORY.rst
# packages/meta/HISTORY.rst
# packages/navigation/HISTORY.rst
# packages/objectstore/HISTORY.rst
# packages/schema/HISTORY.rst
# packages/selenium/HISTORY.rst
# packages/test_api/HISTORY.rst
# packages/test_base/HISTORY.rst
# packages/test_driver/HISTORY.rst
# packages/tool_shed/HISTORY.rst
# packages/tool_util/HISTORY.rst
# packages/tours/HISTORY.rst
# packages/util/HISTORY.rst
# packages/web_apps/HISTORY.rst
# packages/web_framework/HISTORY.rst
# packages/web_stack/HISTORY.rst
2025-06-18 12:00:07 -05:00
Ahmed Awan
404e34ce42
fix natalie's github username
2025-06-17 15:30:48 -05:00
Ahmed Hamid Awan and José Manuel Domínguez
bcac9bcc10
Update doc/source/releases/25.0_announce.rst
...
Co-authored-by: José Manuel Domínguez <43052541+kysrpex@users.noreply.github.com >
2025-06-17 15:18:16 -05:00
Ahmed Awan
7be1f9e3bd
remove developer section
2025-06-17 15:17:47 -05:00
Ahmed Awan
9f34683d11
add final PRs to release notes
2025-06-17 15:16:12 -05:00
Ahmed Awan
f364304e7e
replace youtube video with latest one for preferred viz display
2025-06-17 14:52:08 -05:00
Ahmed Awan
f16f4e67ed
add latest PRs 06/12
2025-06-17 14:52:08 -05:00
Ahmed Awan
95834d14a4
add communications section
2025-06-17 14:52:08 -05:00
Ahmed Hamid Awan and José Manuel Domínguez
d841082b81
add eLabFTW and RSpace integrations to release notes
...
TODO: Update the blog post URL for RSpace once we publish these notes
Co-authored-by: José Manuel Domínguez <43052541+kysrpex@users.noreply.github.com >
2025-06-17 14:52:08 -05:00
Ahmed Awan
090f258d15
add a 24.2 targeting PR which we missed
2025-06-17 14:52:08 -05:00
Ahmed Awan
4b9d28b96e
add latest PRs 06/11
2025-06-17 14:52:08 -05:00
Ahmed Awan and John Davis
9d9767454b
add links for BRC and IWC to release notes highlight
...
Co-authored-by: John Davis <jdavcs@gmail.com >
2025-06-17 14:52:08 -05:00
Ahmed Awan and Nicola Soranzo
25912ae869
deprecate ToolDocumentCache in release notes
...
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com >
2025-06-17 14:52:08 -05:00
Ahmed Awan
2a6fe21528
add JD as co-manager
2025-06-17 14:52:08 -05:00
6b22b39514
improve wording in user facing notes
...
Co-authored-by: John Davis <jdavcs@gmail.com >
Co-authored-by: David López <46503462+davelopez@users.noreply.github.com >
2025-06-17 14:52:08 -05:00
Uwe Winter