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37221 Commits
Author SHA1 Message Date
Matthias Bernt b7ca5258a3 add unit test for Tabular.set_meta for empty files 2024-02-19 12:05:09 +01:00
Marius van den Beek 74a1b02fa0 Merge pull request #17081 from bernt-matthias/topic/linter-overhaul 
Split linters in separate classes
 2024-02-16 17:41:44 +01:00
Marius van den Beek 061993a0fd Merge pull request #16607 from itisAliRH/workflow-card 
New Workflow List and Card View
 2024-02-16 15:49:33 +01:00
Marius van den Beek 8f956cb838 Merge pull request #17437 from jmchilton/change_os_gui 
UI for "relocating" a dataset to a new object store (when safe)
 2024-02-16 15:35:55 +01:00
mvdbeek 35c0fd21cb Merge branch 'release_23.2' into dev 2024-02-16 15:28:57 +01:00
Marius van den Beek 29f7a29345 Merge pull request #17481 from mvdbeek/succes_typo_fix 
[23.2] Fix succces typo
 2024-02-16 15:25:25 +01:00
Alireza Heidari 060960c871 fix input tag selector in workflow_index_click_tag_display with the new headless tag component selector 2024-02-16 12:02:59 +01:00
Alireza Heidari eeae4b4013 fix WorkflowCreate issue 2024-02-16 12:02:55 +01:00
Alireza Heidari f2b13e33a5 fix workflow related selenium tests 2024-02-16 12:02:49 +01:00
Alireza Heidari 4c4e83a1d5 fix Selenium and Integration Selenium tests 2024-02-16 12:02:49 +01:00
Alireza Heidari 362fe07467 fix some workflow selenium tests 2024-02-16 12:02:49 +01:00
Alireza Heidari a247f402bd update workflow selenium navigation selectors and methods 2024-02-16 12:02:47 +01:00
Alireza Heidari dca644aedc fix some workflow tests 2024-02-16 12:02:47 +01:00
Alireza Heidari d237b3fcea update workflows lists routes 2024-02-16 12:02:34 +01:00
Nicola Soranzo dcd739a063 Type annotation and cleanup of `GalaxyTestDriver and integration_module_instance()` 2024-02-16 10:53:04 +00:00
Nicola Soranzo 0c07166c82 Merge pull request #17305 from bernt-matthias/topic/ldap3-fix 
LDAP3 fix for attributes returned as strings
 2024-02-16 10:47:49 +00:00
Ahmed Hamid Awan c862527e5e Merge pull request #17449 from guerler/align_published_histories 
Adds published histories to grid list
 2024-02-15 17:25:16 -06:00
John Chilton c7094925f8 Fix can_change_object_store for anonymous users. 2024-02-15 14:16:40 -05:00
John Chilton 28694ac3a7 UI for "relocating" a dataset's object store. 2024-02-15 14:16:39 -05:00
Matthias Bernt 80c7cc22b0 remove two print statements 
that I likely forgot the remove
 2024-02-15 18:35:29 +01:00
mvdbeek e781140ff1 Fix succces typo 2024-02-15 18:34:44 +01:00
Marius van den Beek c94997719d Merge pull request #17420 from galaxybot/dev_auto_update_dependencies 
Update Python dependencies
 2024-02-15 18:20:12 +01:00
Matthias Bernt 101a8a97cb Merge branch 'topic/linter-overhaul' of https://github.com/bernt-matthias/galaxy into topic/linter-overhaul 2024-02-15 16:39:07 +01:00
Matthias Bernt a0b25b5647 new lines 2024-02-15 16:31:02 +01:00
guerler 0a404983a7 Avoid duplicate entries in history index api response 2024-02-15 10:18:49 -05:00
guerler cb6b5b1251 Adjust published history selenium test cases 2024-02-15 10:18:49 -05:00
M BerntandNicola Soranzo ed8eb6e4ea Add type ignore 
Co-authored-by: Nicola Soranzo <nicola.soranzo@gmail.com>
 2024-02-15 16:03:46 +01:00
Matthias Bernt 368f3e8cb9 Revert "use types-lxml instead of lxml-stubs" 
This reverts commit 46ff3f2c05.
 2024-02-15 16:00:18 +01:00
Marius van den Beek 9415df899e Merge pull request #17422 from wm75/data_source_tools_fixes 
Fix data_source and data_source_async bugs
 2024-02-15 12:36:25 +01:00
mvdbeek 513ca7494d Drop overly complicated state setter logic 
I doubt anyone instinctively know when to use `._state`, `.state`,
`.raw_set_dataset_state` or `.set_dataset_state` and I think that was
part of what led to this bug.
 2024-02-15 11:28:37 +01:00
Matthias Bernt 46ff3f2c05 use types-lxml instead of lxml-stubs 2024-02-15 10:55:27 +01:00
M Bernt 2428b9db97 Merge branch 'dev' into topic/linter-overhaul 2024-02-15 09:40:48 +01:00
Martin Cech 8c52b9274f Merge pull request #17436 from jmchilton/modernize_storage 
Modernize bits and pieces of storage display
 2024-02-14 21:42:24 +01:00
mvdbeek 6d0212518b Set metadata states on dataset association, not dataset 2024-02-14 19:09:16 +01:00
Marius van den Beek ddabba7c2f Merge pull request #17087 from mvdbeek/from_url_option 
Add select parameter with options from remote resources
 2024-02-14 18:47:40 +01:00
mvdbeek 84604bd2cb Merge branch 'release_23.2' into dev 2024-02-14 18:44:36 +01:00
Nuwan Goonasekera 3b4768504d Merge pull request #17467 from nuwang/update_tpv_shared_db_link 
Use short link for TPV shared database
 2024-02-14 21:37:53 +05:30
mvdbeek ccb3e9021c Merge branch 'release_23.1' into release_23.2 2024-02-14 15:31:26 +01:00
Marius van den Beek 03b0dd86f4 Merge pull request #17465 from bernt-matthias/topic/doc-add-xsd-collection-data 
Add tool XML schema documention for outputs - collection - data
 2024-02-14 14:41:21 +01:00
nuwang 74f9fd6ebf Use short link for TPV shared database 2024-02-14 15:10:31 +05:30
galaxybot 1efa675241 Update Python dependencies 2024-02-14 00:57:47 +00:00
Martin Cech f62d5b47e9 Merge pull request #17403 from guerler/allow_removing_last_value 
Allow removing last value from multi select field
 2024-02-13 23:41:44 +01:00
Matthias Bernt bc016388d7 add doc for tool xml outputs - collection - data 
fixes https://github.com/galaxyproject/galaxy/issues/11833
 2024-02-13 22:39:17 +01:00
Nicola Soranzo f4229aad0a Merge pull request #17440 from mvdbeek/fix_it_templating 
[23.2] Build param dict before creating entrypoint
 2024-02-13 16:41:44 +00:00
Ahmed Awan d18003e661 add api test for hdcas in public histories being accessible 2024-02-13 15:01:58 +01:00
Ahmed Awan 4eab971489 remove check_ownership from dataset_collections.contents 
... since this api only needs to `check_accessible` as it is not modifying a collection
 2024-02-13 15:01:56 +01:00
Ahmed Awan 8c3d967ad3 fix published history collections are empty on expand 
Only check ownership in `__get_history_collection_instance` if:
`collection_instance.history.published` = False
 2024-02-13 15:00:39 +01:00
mvdbeek 9eebb60647 Sandwich IT entry point creating after param_dict building and env var creation 2024-02-13 14:57:12 +01:00
Marius van den Beek be90acce3a Merge pull request #17444 from ahmedhamidawan/published_collection_accessible 
Only check ownership for HDCAs in non-public histories
 2024-02-13 14:55:59 +01:00
mvdbeek e02dd32b0e Add documentation for from_url options 2024-02-13 14:51:17 +01:00