Galaxy tool and tool dependency utilities
Project description
Overview
The Galaxy tool utilities.
History
23.1.3 (2023-12-01)
No recorded changes since last release
23.1.2 (2023-11-29)
Bug fixes
Change log level for duplicate data table entries to warning by @mvdbeek in #16988
Upgrade minimum conda to be compatible with latest conda-build by @bernt-matthias in #17013
Fix duplicated tools in tool panel view section copying by @jmchilton in #17036
Enhancements
Adds biii as supported xref reference type by @kostrykin in #16952
23.1.1 (2023-10-23)
Bug fixes
Fixes for two framework test tools by @bernt-matthias in #15483
add missing f for f-string by @bernt-matthias in #15584
Fix call to docker_cached_container_description by @bernt-matthias in #15598
Fix log message by @bernt-matthias in #15838
add required_files to the tag list for linting by @bernt-matthias in #16129
Handle appending to a results file that does not exists. by @ksuderman in #16233
Improve container resolver documentation by @mvdbeek in #16280
Add missing singularity_no_mount prop parsing by @mvdbeek in #16367
Restore resolution of Conda environments generated from non-lowercase package names by @nsoranzo in #16474
Fix multiple remote test data by @davelopez in #16542
Don’t use docker run –user flag on OSX by @mvdbeek in #16573
xsd: allow name attribute of test collections by @bernt-matthias in #16663
Fix short ids in tool panel views. by @jmchilton in #16800
Fix tool panel views for versionless tool ids by @mvdbeek in #16809
Enhancements
Decompress history data for testing assertions by @bernt-matthias in #15085
OIDC tokens by @SergeyYakubov in #15300
Fix for new style conda packages by @bernt-matthias in #15446
Move database access code out of tool_util by @jdavcs in #15467
Protection against problematic boolean parameters. by @jmchilton in #15493
Implement initial tool/wf test assertions module for JSON data. by @jmchilton in #15494
Explore tool remote test data by @davelopez in #15510
xsd: add multiple to the list of attributes for all parameter types deriving from select by @bernt-matthias in #15534
Update Python dependencies by @galaxybot in #15564
Container resolvers: add docs, typing and tests by @bernt-matthias in #15614
Migrate to MyST-Parser for Markdown docs by @nsoranzo in #15844
Enable per-destination container_resolver_config_file by @bernt-matthias in #15884
Updated doc and tests for attribute value filter by @tuncK in #15929
Make container builders use mamba by @bernt-matthias in #15953
Code cleanups from ruff and pyupgrade by @nsoranzo in #16035
Vendorise packaging.versions.LegacyVersion by @nsoranzo in #16058
Small test decorator improvements. by @jmchilton in #16220
tool_util: switch to mambaforge on non-32bit; add arm64 support by @mr-c in #16223
Fix tool remote test data by @davelopez in #16311
Other changes
23.0.6 (2023-10-23)
Bug fixes
23.0.5 (2023-07-29)
Bug fixes
Allow duplicate labels in linter if outputs contain filters by @bernt-matthias in #15933
Fix parsing tool metadata from bio.tools by @kysrpex in #16449
Linter: fix regex for profile version by @bernt-matthias in #16480
Adjust test_data_download method in GalaxyInteractorApi so an admin user is not required by @simonbray in #16482
23.0.4 (2023-06-30)
No recorded changes since last release
23.0.3 (2023-06-26)
Bug fixes
xsd: add missing sep attribute for has_n_columns by @bernt-matthias in #16262
Missing init prevents models.py being bundled into tool_util by @nuwang in #16308
Enhancements
23.0.2 (2023-06-13)
Bug fixes
Don’t fail CWL tool parsing when Cheetah not installed by @mvdbeek in #16219
Allow skipping expect_num_outputs when expect_failure is set in tool test by @bernt-matthias in #16237
23.0.1 (2023-06-08)
Bug fixes
Enhancements
22.1.5 (2022-11-14)
Set test status to success on expected failure
22.1.4 (2022-10-28)
Add missing unittest_utils package to galaxy-tool-util
22.1.3 (2022-10-27)
Pin minimum pyopenssl version when installing Conda
Add --strict-channel-priority to conda create/install commands if using conda >=4.7.5
22.1.2 (2022-08-29)
Fix lint context error level
Pin galaxy-util to >= 22.1
Fix biocontainer resolution without beaker cache
22.1.1 (2022-08-22)
First release from the 22.01 branch of Galaxy
21.9.2 (2021-11-23)
Fix linting of multiple="true" select inputs.
21.9.1 (2021-11-03)
Fix tool linting.
21.9.0 (2021-11-03)
First release from the 21.09 branch of Galaxy.
21.1.2 (2021-06-23)
21.1.1 (2021-05-21)
21.1.0 (2021-03-19)
First release from the 21.01 branch of Galaxy.
20.9.1 (2020-10-28)
Bugfixes to work around & annotate expected tool test failures.
20.9.0 (2020-10-28)
First release from the 20.09 branch of Galaxy.
20.9.0.dev2 (2020-08-02)
First release from the 20.09 branch of Galaxy.
20.5.0 (2020-07-04)
First release from the 20.05 branch of Galaxy.
20.1.0 (2020-07-04)
First release from the 20.01 branch of Galaxy.
19.9.1 (2019-12-28)
Fix declared dependency problem with package.
19.9.0 (2019-12-16)
Initial import from dev branch of Galaxy during 19.09 development cycle.
Release history Release notifications | RSS feed
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
Built Distribution
File details
Details for the file galaxy-tool-util-23.1.3.tar.gz.
File metadata
- Download URL: galaxy-tool-util-23.1.3.tar.gz
- Upload date:
- Size: 346.5 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/4.0.2 CPython/3.7.17
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | f5303bc4bd6d84b6492166639beaff9fc8102f963d5aee3e62925eae6555976e |
|
| MD5 | 9dca3e329694efbd2e21b25c8b34d8d9 |
|
| BLAKE2b-256 | b73063a25d96da74474a15bf1d8d8f66d1054dcadf96f3f2d9e192f64dc24cfe |
File details
Details for the file galaxy_tool_util-23.1.3-py3-none-any.whl.
File metadata
- Download URL: galaxy_tool_util-23.1.3-py3-none-any.whl
- Upload date:
- Size: 405.3 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via: twine/4.0.2 CPython/3.7.17
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 | f40cbba3a6d141367ddfbabf0a91a06a333a164b9f85ad3acf7105e61042aa38 |
|
| MD5 | 661941b60f684577e48cf0b6409529fc |
|
| BLAKE2b-256 | 99064d6b069ad1fe99e21c80b231cdfd6ebc27e3f12149366d30256ddfb64777 |
