galaxy-test-base 26.0.1.dev0

Galaxy testing utilities

Overview

The Galaxy testing base package.

• Code: https://github.com/galaxyproject/galaxy

History

26.0.1.dev0

26.0.0 (2026-04-08)

Bug fixes

• Accept 404 as valid intermediate state when waiting for dataset purge by @mvdbeek in #21521

• Backport paired or unpaired mapping fix by @mvdbeek in #21936

• Fix HDCA lost in tool form on rerun by @mvdbeek in #22258

• Fix purge for anon histories by @mvdbeek in #22275

• Improve timeout and error handling in /api/proxy endpoint by @mvdbeek in #22297

• Fix HideDatasetAction not applied for cached workflow jobs by @mvdbeek in #22360

Enhancements

• Tool Request API by @jmchilton in #20935

• Selenium test exercising workflow debug, failed jobs, etc… (20912) by @jmchilton in #21058

• Implement GA4GH WES API by @jmchilton in #21335

• Enable attaching sample sheet to landing requests by @mvdbeek in #21489

• Implement workflow completion monitoring with extensible hooks by @mvdbeek in #21532

• Clean up code with pyupgrade by @nsoranzo in #21540

• Add discarded_data option to model store import API by @mvdbeek in #21582

• Drop support for Python 3.9 by @nsoranzo in #21583

• Type annotations and refactorings by @nsoranzo in #21673

• Use mock test server when tests don’t target external galaxy server by @mvdbeek in #22103

Other changes

• Backport: Fix dbkey filter returning no options when dbkey unset by @bernt-matthias in #21945

25.1.2 (2026-03-09)

Bug fixes

• Add selenium test and fix inline images in workflow report tables by @mvdbeek in #21698

• Fix tool credentials on containerized (Singularity/Docker) destinations by @arash77 in #21821

25.1.1 (2026-02-03)

Bug fixes

• Sample sheet column fix by @mvdbeek in #21446

• Usability fixes for sample sheet selection. by @jmchilton in #21503

Enhancements

• Add database operation tool to convert sample sheets to list collections by @mvdbeek in #21625

25.1.0 (2025-12-12)

Bug fixes

• Test and fix CORS on exceptions by @mvdbeek in #21105

Enhancements

• Implement Sample Sheets by @jmchilton in #19305

• Empower Users to More Pragmatically Import Datasets & Collections From Tables by @jmchilton in #20288

• Prepare ToolBox.dynamic_tool_to_tool() for CWL formats by @nsoranzo in #20364

• Implement Data Landing Requests by @jmchilton in #20592

• Clean up code from pyupgrade by @nsoranzo in #20642

• Attempt to reuse previously materialized datasets by @mvdbeek in #20718

• Add small improvements for running CWL tools by @nsoranzo in #20826

• Allow addressing user defined tools in job config by @mvdbeek in #20932

• Use workflow-style payload in data landing request by @mvdbeek in #21107

Other changes

• Sample Sheet Bug Fixes around Preserving Collection Metadata by @jmchilton in #20749

25.0.4 (2025-11-18)

Bug fixes

• Run landing request state through validator by @mvdbeek in #21087

25.0.3 (2025-09-23)

No recorded changes since last release

25.0.2 (2025-08-13)

Bug fixes

• Fix deferred datasets in multiple dataset parameters. by @jmchilton in #20650

25.0.1 (2025-06-20)

No recorded changes since last release

25.0.0 (2025-06-18)

Bug fixes

• Use resource_path() to access datatypes_conf.xml.sample as a package resource by @nsoranzo in #19331

• Fix ownership check in history contents update route by @mvdbeek in #19969

• Add test for workflow instance download fix by @ahmedhamidawan in #20326

Enhancements

• Calculate hash for new non-deferred datasets when finishing a job by @nsoranzo in #19181

• Empower Users to Build More Kinds of Collections, More Intelligently by @jmchilton in #19377

• Add User-Defined Tools by @mvdbeek in #19434

• Format code with black 25.1.0 by @nsoranzo in #19625

• Improved simplicity and isolation in transiently failing test. by @jmchilton in #19709

• Implement dataset collection support in workflow landing requests by @mvdbeek in #20004

24.2.4 (2025-06-17)

Bug fixes

• Restrict job cache to terminal jobs (and other fixes) by @mvdbeek in #19978

• Job cache backports by @mvdbeek in #20078

24.2.3 (2025-03-16)

No recorded changes since last release

24.2.2 (2025-03-08)

Enhancements

• Add bwa_mem2_index directory datatype, framework enhancements for testing directories by @mvdbeek in #19694

24.2.1 (2025-02-28)

No recorded changes since last release

24.2.0 (2025-02-11)

Bug fixes

• Fix some deprecations by @nsoranzo in #18433

• Fix tag processing in library upload by @davelopez in #18714

Enhancements

• Mixed enhancements from CWL branch by @nsoranzo in #18539

• Workflow Landing Requests by @jmchilton in #18807

• Migrate Library Contents API to FastAPI by @arash77 in #18838

• Implement Pydantic model for workflow test format. by @jmchilton in #18884

• Type annotations and fixes by @nsoranzo in #18911

• Allow CORS requests to /api/workflow_landings by @mvdbeek in #18963

• Decouple user email from role name by @jdavcs in #18966

• More concise, readable tool execution testing. by @jmchilton in #18977

• Workflow landing improvements by @mvdbeek in #18979

• Allow recovering a normalized version of workflow request state from API by @jmchilton in #18985

• A variety of improvements around tool parameter modeling (second try) by @jmchilton in #19027

• Access public history in job cache / job search by @mvdbeek in #19108

• Always validate hashes when provided by @nsoranzo in #19110

• Fix default value handling for parameters connected to required parameters by @mvdbeek in #19219

• Release testing - selenium tests for workflow invocation export. by @jmchilton in #19262

Other changes

• Fix workflow invocation accessibility check by @mvdbeek in #18746

24.1.4 (2024-12-11)

Bug fixes

• Fix subwofklow tags serialization type by @arash77 in #18456

• Fix infinitely delayed workflow scheduling if skipped step creates HDCA by @mvdbeek in #18751

• Fix wrong extension on pick data output by @mvdbeek in #18798

• Fix data_column ref to nested collection by @mvdbeek in #18875

• Access tool data table filters in workflow building mode by @mvdbeek in #18900

24.1.3 (2024-10-25)

Bug fixes

• Fix subwofklow tags serialization type by @arash77 in #18456

• Fix infinitely delayed workflow scheduling if skipped step creates HDCA by @mvdbeek in #18751

• Fix wrong extension on pick data output by @mvdbeek in #18798

• Fix data_column ref to nested collection by @mvdbeek in #18875

• Access tool data table filters in workflow building mode by @mvdbeek in #18900

24.1.2 (2024-09-25)

Bug fixes

• Fix infinitely delayed workflow scheduling if skipped step creates HDCA by @mvdbeek in #18751

• Fix wrong extension on pick data output by @mvdbeek in #18798

• Fix data_column ref to nested collection by @mvdbeek in #18875

24.1.1 (2024-07-02)

Bug fixes

• Revert some requests import changes by @nsoranzo in #18199

• Fix subwofklow tags serialization type by @arash77 in #18456

Enhancements

• Remove deprecated BCO export endpoint by @martenson in #16645

• Enable all-vs-all collection analysis patterns. by @jmchilton in #17366

• Code cleanups from ruff and pyupgrade by @nsoranzo in #17654

• Error reporting unit tests by @jmchilton in #17968

• Add galaxy to user agent by @mvdbeek in #18003

• Empower users to bring their own storage and file sources by @jmchilton in #18127

• More structured indexing for user data objects. by @jmchilton in #18291

24.0.3 (2024-06-28)

Bug fixes

• Fix submitted value in workflow run form if data is constrained by tag filter by @mvdbeek in #18193

24.0.2 (2024-05-07)

No recorded changes since last release

24.0.1 (2024-05-02)

Bug fixes

• Make wait_for_history_jobs look at jobs, not datasets by @mvdbeek in #17892

• Fix missing implicit conversion for mapped over jobs by @mvdbeek in #17952

24.0.0 (2024-04-02)

Enhancements

• port invocation API to fastapi by @martenson in #16707

• Python 3.8 as minimum by @mr-c in #16954

• Support for OIDC API Auth and OIDC integration tests by @nuwang in #16977

• Reuse test instance during non-integration tests by @mvdbeek in #17234

• API endpoint that allows “changing” the objectstore for “safe” scenarios. by @jmchilton in #17329

• Update to black 2024 stable style by @nsoranzo in #17391

• Allow filtering history datasets by object store ID and quota source. by @jmchilton in #17460

• Refactor Workflow API routes - Part 1 by @heisner-tillman in #17463

• Filter out subworkflow invocations by @mvdbeek in #17558

23.2.1 (2024-02-21)

Bug fixes

• Restore ToolsApi and create new api route for new panel structure by @ahmedhamidawan in #16872

Enhancements

• Implement default locations for data and collection parameters. by @jmchilton in #14955

• Delete non-terminal jobs and subworkflow invocations when cancelling invocation by @mvdbeek in #16252

• Augment pgcleanup to allow periodically deleting old datasets. by @jmchilton in #16340

• Refactor Tool Panel views structures and combine ToolBox and ToolBoxWorkflow into one component by @ahmedhamidawan in #16739

• Change api/tool_panel to api/tool_panels/… by @ahmedhamidawan in #16928

23.1.4 (2024-01-04)

No recorded changes since last release

23.1.3 (2023-12-01)

No recorded changes since last release

23.1.2 (2023-11-29)

Bug fixes

• Fix duplicated tools in tool panel view section copying by @jmchilton in #17036

23.1.1 (2023-10-23)

Bug fixes

• Ensure session is request-scoped for legacy endpoints by @jdavcs in #16207

Enhancements

• Empower Users to Select Storage Destination by @jmchilton in #14073

• Outline Deployment Tests by @jmchilton in #15420

• Update Python dependencies by @galaxybot in #15890

• Add History Archival feature by @davelopez in #16003

• Dataset chunking tests (and small fixes) by @jmchilton in #16069

• Improve histories and datasets immutability checks by @davelopez in #16143

• bring grids for (published) pages on par with workflows by @martenson in #16209

• Small test decorator improvements. by @jmchilton in #16220

Other changes

• Tweaks to new object store and quota APIs by @jmchilton in #15709

23.0.6 (2023-10-23)

No recorded changes since last release

23.0.5 (2023-07-29)

No recorded changes since last release

23.0.4 (2023-06-30)

No recorded changes since last release

23.0.3 (2023-06-26)

No recorded changes since last release

23.0.2 (2023-06-13)

No recorded changes since last release

23.0.1 (2023-06-08)

Bug fixes

• Ensure history export contains all expected datasets by @davelopez in #16013

• Fix extended metadata file size handling by @mvdbeek in #16109

20.9.0 (2020-10-15)

• Initial release from the 20.09 branch of Galaxy.

20.5.0 (2020-07-04)

• Initial import from the 20.05 branch of Galaxy.