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Author SHA1 Message Date
Marius van den BeekandNicola Soranzo 8e181aa465 Add type hint for flush argument 
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com>
 2025-08-19 14:49:36 +02:00
mvdbeek 7c077846f5 Ensure that workflow invocations are persisted with state 2025-08-19 14:49:36 +02:00
Matthias Bernt 2533594f58 Start work on 25.0.3.dev0 2025-08-13 14:34:04 +02:00
Matthias Bernt 34d077d19c Create version 25.0.2 v25.0.2 2025-08-13 14:33:57 +02:00
John Chilton 4acac0ee7e Merge pull request #20757 from martenson/nginx-headr 
[25.0] fix config for nginx in docs
 2025-08-11 15:10:18 -04:00
Martin Cech fe5315d74d fix docs for nginx 2025-08-11 11:10:50 +02:00
Marius van den Beek 14e6456579 Merge pull request #20739 from davelopez/25.0_fix_temp_directory_in_zips 
[25.0] Remove base_dir from zip in make_fast_zipfile
 2025-08-05 21:00:33 +02:00
davelopez f1e8f019e8 Remove base_dir from zip in make_fast_zipfile 
This seems to just add an empty temp directory to the zip archive.
 2025-08-05 09:46:52 +02:00
John Chilton 39a1b2c265 Merge pull request #20727 from mvdbeek/update_galaxy_release_util 
[25.0] Update galaxy-release-util
 2025-08-04 09:54:32 -04:00
Marius van den Beek 1ce0634a51 Merge pull request #20729 from mvdbeek/max_duration_test_fix 
[25.0] Fix maximum workflow invocation duration test
 2025-08-01 16:27:13 +02:00
mvdbeek e0c6cc398f Fix maximum workflow invocation duration test 
Broke this in https://github.com/galaxyproject/galaxy/pull/20522 ... the
functionality still works, it's just that we'd have to wait for the 5
minute backfill.
 2025-08-01 15:01:26 +02:00
mvdbeek 17dd85d361 Update galaxy-release-util 2025-08-01 11:54:15 +02:00
Marius van den Beek 50d2eb399c Merge pull request #20721 from dannon/dsview-text-wrap 
[25.0] DatasetView Header - fixes text wrapping issues on small screens
 2025-08-01 11:52:42 +02:00
Nicola Soranzo ea3e74b8ab Merge pull request #20662 from nsoranzo/release_25.0_empty_meta_requirements.txt 
[25.0] Remove content from ``packages/meta/requirements.txt``
 2025-08-01 10:47:50 +01:00
Marius van den Beek 27fa54355e Merge pull request #20705 from jmchilton/color_param_fix 
[25.0] Fix parameter models for optional color params.
 2025-08-01 11:35:02 +02:00
Marius van den Beek b15ae2cda1 Merge pull request #20522 from mvdbeek/improve_workflow_scheduling_iteration_loop 
[25.0] Improve workflow monitor loop times
 2025-08-01 10:34:29 +02:00
Marius van den Beek 1e2737a4bc Merge pull request #20650 from jmchilton/deferred_multiple_25_0 
[25.0] Fix deferred datasets in multiple dataset parameters.
 2025-08-01 08:26:09 +02:00
Dannon Baker 14833d47fe Add explicit display names to dataset states, minor cleanup 2025-07-31 15:32:48 -04:00
Nicola Soranzo 21d827f678 Merge branch 'release_24.2' into release_25.0 2025-07-30 17:33:15 +01:00
Marius van den Beek dfbb3d89a7 Merge pull request #20713 from nsoranzo/release_24.2_fix_test_base_image_for_targets 
[24.2] Fix ``test_base_image_for_targets`` mulled test to use mzmine
 2025-07-30 18:16:04 +02:00
Marius van den Beek abacf1bd34 Merge pull request #20710 from mvdbeek/fix_click_to_edit_link 
[25.0] Fix click to edit link
 2025-07-30 18:02:09 +02:00
John Chilton a2af62966d Fix parameter models for optional color params. 2025-07-30 11:37:12 -04:00
Dannon Baker b08984866d Improve responsiveness of DatasetView header 
dataset name takes priority for horizontal space and state will now kick
to a second line when needed.
 2025-07-30 10:40:44 -04:00
Dannon Baker bb447e1747 DatasetView header display improvements for small screens 
Use shorter names for state tag (only in datasetview currently)
add a tooltip with the full state description
Try to adjust wrapping for smaller screens.
 2025-07-30 10:40:09 -04:00
Nicola Soranzo f28450cb75 Fix `test_base_image_for_targets` mulled test to use mzmine 
maker is not using the ``extended-base`` image since
https://github.com/bioconda/bioconda-recipes/commit/ce27c583fdd8fcaa60166fa3b0173083e352fd6b
 2025-07-30 14:53:04 +01:00
Marius van den Beek 52afa61149 Merge pull request #20575 from mvdbeek/fix_planemo_serve 
[24.2] Fix planemo serve, need user list
 2025-07-30 14:57:59 +02:00
Marius van den Beek efd860dc4d Merge pull request #20708 from davelopez/25.0_ensure_history_count_non-negative_offset 
[25.0] Prevent negative offset in historyStore handleTotalCountChange
 2025-07-30 12:19:56 +02:00
mvdbeek f9ec53c34e Fix click to edit link 
Fixes https://github.com/galaxyproject/galaxy/issues/20689.

To test try
https://iwc.galaxyproject.org/workflow/annotation-helixer-main/ with the
client devserver pointing to usegalaxy.org
 2025-07-30 12:16:40 +02:00
davelopez 9ad099a163 Prevent negative offset in historyStore handleTotalCountChange 2025-07-30 10:37:05 +02:00
Ahmed Hamid Awan 96080208fd Merge pull request #20684 from dannon/fix-scratchbook-display 
[25.0] Fix scratchbook display
 2025-07-29 16:44:31 -05:00
Dannon Baker e634402a05 Add ts interface for RouterPushOptions for better typing 
Fixes vue-tsc issues related to DatasetDisplay improvements.
 2025-07-29 16:38:16 -04:00
Dannon Baker e7dc06c48e rename windowManager prop to displayOnly to be more descriptive 
we may want to use this in other contexts where a viz-informed preview is desired
 2025-07-29 16:38:16 -04:00
Dannon Baker 3333f8225d fix: Enable window manager view of Datasets 
This reuses the DatasetView component but adds a minimal view for use in
display contexts
 2025-07-29 16:38:16 -04:00
Marius van den Beek 86939344c4 Merge pull request #20703 from ahmedhamidawan/fix_all_pages_by_user_link 
[25.0] Add username filter to published pages grid
 2025-07-29 16:49:57 +02:00
John Chilton 7769f6379d Merge pull request #20553 from mvdbeek/live_fix_cry_emoji 
[25.0] Propagate cached job output replacement to copies of outputs
 2025-07-29 10:26:42 -04:00
Nicola Soranzo 02179acbef Merge pull request #20586 from Smeds/add-lexicmap-datatype 
[25.0] Add datatype for LexicMap index
 2025-07-29 11:04:57 +01:00
Marius van den Beek b6a40b07c2 Merge pull request #20694 from arash77/fix_encoded_id_datasets_on_release_25.0 
[25.0] Fix dataset serializers and response models
 2025-07-29 10:35:53 +02:00
Ahmed Awan b002f32627 turn published grids' username fields to filter links 2025-07-28 12:46:26 -05:00
Ahmed Awan 1473ed1f91 add username filter to published visualizations grid 2025-07-28 12:45:56 -05:00
Ahmed Awan f62c8ff4c9 [25.0] Add username filter to published pages grid 
Fixes https://github.com/galaxyproject/galaxy/issues/20481
 2025-07-28 12:26:23 -05:00
Arash ce52a72ebf Update HDASerializer test to validate copied_from_history_dataset_association_id with assertNullableEncodedId 2025-07-28 09:15:22 +02:00
John Davis 62f6ab3367 Merge pull request #20523 from natefoo/update-gravity-24.2 
[24.2] Update Gravity to 1.0.8
 2025-07-25 15:25:02 -04:00
Arash b5d27075fb Add tests for copying datasets with copied_from fields in history and library 2025-07-25 15:28:27 +02:00
Arash e54bc97640 Refactor HDASerializer to use serialize_id for copied_from_ldda_id 2025-07-24 16:51:21 +02:00
Arash f20ba93bdb Refactor HDASerializer to simplify copied_from_ldda_id serialization 2025-07-24 16:44:24 +02:00
Arash a6dcc8612f Add copied_from_library_dataset_dataset_association_id field to schema and update descriptions 2025-07-24 16:39:45 +02:00
Arash 421a2962b1 Only fix id problems 2025-07-24 16:37:02 +02:00
Marius van den Beek 48a3dd6c40 Merge pull request #20693 from bernt-matthias/lint-sort-by-reverse 
[25.0] Input linter: add missing attribute to `sort_by`
 2025-07-24 16:16:32 +02:00
Arash 4251f78578 Refactor dataset response models to use EncodedDatabaseIdField and update references 2025-07-24 15:38:33 +02:00
Arash 348a5f5749 Refactors dataset serializers and extends dataset schema 2025-07-24 15:38:32 +02:00