Package: galaxy-tool-util
OverviewTheGalaxytool utilities.Code:https://github.com/galaxyproject/galaxy/tree/dev/packages/tool_utilHistory23.2.1 (2024-02-21)Bug fixesNever consider_galaxy_conda env as unused by@bernt-matthiasin#16460chore: fix typos by@afuettererin#16851Ruff and flake8 fixes by@nsoranzoin#16884Quote singularity env parameters by@bernt-matthiasin#17055Remove duplicates when copying sections for tool panel view by@bernt-matthiasin#17117Display application fixes and tests by@mvdbeekin#17233EnhancementsImplement default locations for data and collection parameters. by@jmchiltonin#14955Add framework test for profile behavior offormat=”input”by@bernt-matthiasin#15482Tool Shed 2.0 by@jmchiltonin#15639Add ability to assert metadata properties on input dataset parameters by@bernt-matthiasin#15825Migrate a part of the users API to Fast API by@heisner-tillmanin#16341Update Python dependencies by@galaxybotin#16436Tweak tool memory use and optimize shared memory when using preload by@mvdbeekin#16536Document that required text parameters need a validator by@bernt-matthiasin#16538Includeregexwhen linting validators by@davelopezin#16684Refactor Tool Panel views structures and combine ToolBox and ToolBoxWorkflow into one component by@ahmedhamidawanin#16739Replace file_name property with get_file_name function by@SergeyYakubovin#16783Updated path-based interactive tools with entry point path injection, support for ITs with relative links, shortened URLs, doc and config updates including Podman job_conf by@sveinuguin#16795Remove remaining legacy backbone form input elements by@guerlerin#16834Changeapi/tool_paneltoapi/tool_panels/…by@ahmedhamidawanin#16928optimize object store cache operations by@SergeyYakubovin#17025Enhance xsd schema and allow simpler assertion lists by@mvdbeekin#17134Other changesMerge 23.1 into dev by@mvdbeekin#16534Explicitly document default of multiple by@bernt-matthiasin#1662523.1.4 (2024-01-04)Bug fixesSeparate collection and non-collection data element by@mvdbeekin#1723623.1.3 (2023-12-01)No recorded changes since last release23.1.2 (2023-11-29)Bug fixesChange log level for duplicate data table entries to warning by@mvdbeekin#16988Upgrade minimum conda to be compatible with latest conda-build by@bernt-matthiasin#17013Fix duplicated tools in tool panel view section copying by@jmchiltonin#17036EnhancementsAddsbiiias supported xref reference type by@kostrykinin#1695223.1.1 (2023-10-23)Bug fixesFixes for two framework test tools by@bernt-matthiasin#15483add missing f for f-string by@bernt-matthiasin#15584Fix call todocker_cached_container_descriptionby@bernt-matthiasin#15598Fix log message by@bernt-matthiasin#15838add required_files to the tag list for linting by@bernt-matthiasin#16129Handle appending to a results file that does not exists. by@ksudermanin#16233Improve container resolver documentation by@mvdbeekin#16280Add missing singularity_no_mount prop parsing by@mvdbeekin#16367Restore resolution of Conda environments generated from non-lowercase package names by@nsoranzoin#16474Fix up unit tests for local use by@mvdbeekin#16483Fixmultipleremote test data by@davelopezin#16542Don’t usedocker run–user flag on OSX by@mvdbeekin#16573Backport tool mem fixes by@mvdbeekin#16601xsd: allow name attribute of test collections by@bernt-matthiasin#16663Fix short ids in tool panel views.  by@jmchiltonin#16800Fix tool panel views for versionless tool ids by@mvdbeekin#16809EnhancementsDecompress history data for testing assertions by@bernt-matthiasin#15085OIDC tokens by@SergeyYakubovin#15300Fix for new style conda packages by@bernt-matthiasin#15446Move database access code out of tool_util by@jdavcsin#15467Protection against problematic boolean parameters. by@jmchiltonin#15493Implement initial tool/wf test assertions module for JSON data. by@jmchiltonin#15494Explore tool remote test data by@davelopezin#15510xsd: add multiple to the list of attributes for all parameter types deriving from select by@bernt-matthiasin#15534Update Python dependencies by@galaxybotin#15564Container resolvers: add docs, typing and tests by@bernt-matthiasin#15614Migrate to MyST-Parser for Markdown docs by@nsoranzoin#15844Enable per-destinationcontainer_resolver_config_fileby@bernt-matthiasin#15884Updated doc and tests for attribute value filter by@tuncKin#15929Make container builders use mamba by@bernt-matthiasin#15953Code cleanups from ruff and pyupgrade by@nsoranzoin#16035Vendorisepackaging.versions.LegacyVersionby@nsoranzoin#16058MergeTargetclass withCondaTargetby@nsoranzoin#16181Small test decorator improvements. by@jmchiltonin#16220tool_util: switch to mambaforge on non-32bit; add arm64 support by@mr-cin#16223Fix tool remote test data by@davelopezin#16311Other changesRestore tmp mounting by@mvdbeekin#1653323.0.6 (2023-10-23)Bug fixesFixes for extra files handling and cached object stores  by@mvdbeekin#16595Fix create/install commands for conda 23.9.0 by@nsoranzoin#1683123.0.5 (2023-07-29)Bug fixesAllow duplicate labels in linter if outputs contain filters  by@bernt-matthiasin#15933Fix parsing tool metadata from bio.tools by@kysrpexin#16449Linter: fix regex for profile version by@bernt-matthiasin#16480Adjust test_data_download method in GalaxyInteractorApi so an admin user is not required by@simonbrayin#1648223.0.4 (2023-06-30)No recorded changes since last release23.0.3 (2023-06-26)Bug fixesxsd: add missingsepattribute forhas_n_columnsby@bernt-matthiasin#16262Missing init prevents models.py being bundled into tool_util by@nuwangin#16308EnhancementsWhen importing tool data bundles, use the first loc file for the matching table by@natefooin#1624723.0.2 (2023-06-13)Bug fixesDon’t fail CWL tool parsing when Cheetah not installed by@mvdbeekin#16219Allow skippingexpect_num_outputswhenexpect_failureis set in tool test by@bernt-matthiasin#1623723.0.1 (2023-06-08)Bug fixesFix assertion linting to not fail on byte suffixes by@bernt-matthiasin#15873Fixget_test_from_anaconda()andbase_image_for_targets()functions by@nsoranzoin#16125Fix test search for mulled container hashes by@mvdbeekin#16170EnhancementsAllow setting auto_decompress property in staging interface by@mvdbeekin#1601422.1.5 (2022-11-14)Set test status to success on expected failure22.1.4 (2022-10-28)Add missing unittest_utils package to galaxy-tool-util22.1.3 (2022-10-27)Pin minimum pyopenssl version when installing CondaAdd--strict-channel-priorityto conda create/install commands if using conda >=4.7.522.1.2 (2022-08-29)Fix lint context error levelPin galaxy-util to >= 22.1Fix biocontainer resolution without beaker cache22.1.1 (2022-08-22)First release from the 22.01 branch of Galaxy21.9.2 (2021-11-23)Fix linting ofmultiple="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.