From 2bff8f5a9a1e38890d4a4bd2978166efc4681844 Mon Sep 17 00:00:00 2001 From: John Davis Date: Thu, 6 Feb 2025 22:46:04 -0500 Subject: [PATCH 1/2] Create version 24.2.0 --- lib/galaxy/version.py | 2 +- packages/app/HISTORY.rst | 144 ++++++++++++++++++++++++++++- packages/app/setup.cfg | 4 +- packages/auth/HISTORY.rst | 8 +- packages/auth/setup.cfg | 4 +- packages/config/HISTORY.rst | 41 +++++++- packages/config/setup.cfg | 4 +- packages/data/HISTORY.rst | 79 +++++++++++++++- packages/data/setup.cfg | 4 +- packages/files/HISTORY.rst | 18 +++- packages/files/setup.cfg | 4 +- packages/job_execution/HISTORY.rst | 11 ++- packages/job_execution/setup.cfg | 4 +- packages/job_metrics/HISTORY.rst | 11 ++- packages/job_metrics/setup.cfg | 4 +- packages/navigation/HISTORY.rst | 8 +- packages/navigation/setup.cfg | 4 +- packages/objectstore/HISTORY.rst | 24 ++++- packages/objectstore/setup.cfg | 4 +- packages/schema/HISTORY.rst | 42 ++++++++- packages/schema/setup.cfg | 4 +- packages/selenium/HISTORY.rst | 28 +++++- packages/selenium/setup.cfg | 4 +- packages/test_api/HISTORY.rst | 59 +++++++++++- packages/test_api/setup.cfg | 4 +- packages/test_base/HISTORY.rst | 38 +++++++- packages/test_base/setup.cfg | 4 +- packages/test_driver/HISTORY.rst | 18 +++- packages/test_driver/setup.cfg | 4 +- packages/tool_shed/HISTORY.rst | 13 ++- packages/tool_shed/setup.cfg | 4 +- packages/tool_util/HISTORY.rst | 75 ++++++++++++++- packages/tool_util/setup.cfg | 4 +- packages/tours/HISTORY.rst | 11 ++- packages/tours/setup.cfg | 4 +- packages/util/HISTORY.rst | 31 ++++++- packages/util/setup.cfg | 4 +- packages/web_apps/HISTORY.rst | 85 ++++++++++++++++- packages/web_apps/setup.cfg | 4 +- packages/web_framework/HISTORY.rst | 19 +++- packages/web_framework/setup.cfg | 4 +- packages/web_stack/HISTORY.rst | 11 ++- packages/web_stack/setup.cfg | 4 +- 43 files changed, 751 insertions(+), 109 deletions(-) diff --git a/lib/galaxy/version.py b/lib/galaxy/version.py index b6b769c3412..63b7397b554 100644 --- a/lib/galaxy/version.py +++ b/lib/galaxy/version.py @@ -1,3 +1,3 @@ VERSION_MAJOR = "24.2" -VERSION_MINOR = "rc1" +VERSION_MINOR = "0" VERSION = VERSION_MAJOR + (f".{VERSION_MINOR}" if VERSION_MINOR else "") diff --git a/packages/app/HISTORY.rst b/packages/app/HISTORY.rst index 0c53ce33891..4a29f81b0fa 100644 --- a/packages/app/HISTORY.rst +++ b/packages/app/HISTORY.rst @@ -3,11 +3,147 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Drop "Send to cloud" tool and associated cloudauthz code by `@jdavcs `_ in `#18196 `_ +* Dynamics options add library dataset by `@gagayuan `_ in `#18198 `_ +* Fix some deprecations by `@nsoranzo `_ in `#18433 `_ +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ +* Update mercurial by `@mvdbeek `_ in `#18686 `_ +* Replace types-pkg-resources with types-setuptools by `@nsoranzo `_ in `#18708 `_ +* Fix tag processing in library upload by `@davelopez `_ in `#18714 `_ +* Update ruff to 0.6.1 by `@nsoranzo `_ in `#18716 `_ +* Fix new flake8-bugbear B039 and mypy type-var errors by `@nsoranzo `_ in `#18755 `_ +* Fixes and tests for data fetch models. by `@jmchilton `_ in `#18834 `_ +* data_column params: offer same columns with and without use_header_names by `@wm75 `_ in `#18879 `_ +* Fix issue with generating slug for sharing by `@arash77 `_ in `#18986 `_ +* Fix the bioblend test failures by `@arash77 `_ in `#18991 `_ +* Fix job directory not being cleaned up by `@davelopez `_ in `#18997 `_ +* Fixes random job failures in kubernetes by `@mapk-amazon `_ in `#19001 `_ +* Fix numerous issues with tool input format "21.01" by `@jmchilton `_ in `#19030 `_ +* Fix test_stock.py unit test by `@mvdbeek `_ in `#19037 `_ +* quota: do not complain on no-change of default by `@bernt-matthias `_ in `#19045 `_ +* Normalize usernames to lowercase in OIDC authentication by `@arash77 `_ in `#19131 `_ +* 2 small uv config fixes by `@nsoranzo `_ in `#19146 `_ +* Fix invocation metrics usability by providing job context. by `@jmchilton `_ in `#19279 `_ +* Fix import of previously-deleted TRS workflow by `@mvdbeek `_ in `#19311 `_ +* Fix quota usage with user object stores by `@davelopez `_ in `#19323 `_ +* Fix workflows with optional non-default parameter input by `@mvdbeek `_ in `#19332 `_ +* Backport #19001 kubernetes api client fix by `@mvdbeek `_ in `#19338 `_ +* Partial backport of #19331 by `@nsoranzo `_ in `#19342 `_ +* Use select_from_url test data from github, not usegalaxy.org by `@mvdbeek `_ in `#19352 `_ +* Fix to only show ChatGXY when available. by `@dannon `_ in `#19389 `_ +* Fix job parameter summary for inputs without label by `@mvdbeek `_ in `#19427 `_ +* Show Keycloak provider label in UI by `@ahmedhamidawan `_ in `#19447 `_ +* Expression tool format source backport by `@mvdbeek `_ in `#19466 `_ +* backport of defensive refresh tokens by `@martenson `_ in `#19471 `_ +* Improve relabel from file error if file doesn't contain enough lines by `@mvdbeek `_ in `#19480 `_ +* Serialize message exceptions on execution error by `@mvdbeek `_ in `#19483 `_ +* Fail with error message when submitting invalid request by `@mvdbeek `_ in `#19489 `_ +* Fix deleting lddas in batch by `@davelopez `_ in `#19506 `_ +* Skip token refresh without refresh token in psa by `@mvdbeek `_ in `#19514 `_ +* Downgrade 'InteractiveTools are not enabled' to warning by `@mvdbeek `_ in `#19518 `_ +* Fix extracting workflows from purged and deleted histories by `@mvdbeek `_ in `#19525 `_ +* Fix error message when subworkflow input connection missing by `@mvdbeek `_ in `#19526 `_ +* Fix remap for parameter called id by `@mvdbeek `_ in `#19532 `_ +* Fix admin cancel job message not being displayed to the user by `@davelopez `_ in `#19537 `_ +* Use instance wide default ``real_system_username`` if not defined on destination by `@bernt-matthias `_ in `#19544 `_ + +============ +Enhancements +============ + +* Add clean up job working directory as celery task by `@sanjaysrikakulam `_ in `#15816 `_ +* Experimental galactic wizard by `@dannon `_ in `#15860 `_ +* Feature - stdout live reporting by `@gecage952 `_ in `#16975 `_ +* Update Python dependencies by `@galaxybot `_ in `#18226 `_ +* Allow OAuth 2.0 user defined file sources (w/Dropbox integration) by `@jmchilton `_ in `#18272 `_ +* More data access tests, some refactoring and cleanup by `@jdavcs `_ in `#18312 `_ +* Update Python dependencies by `@galaxybot `_ in `#18406 `_ +* Add Python 3.13 support by `@nsoranzo `_ in `#18449 `_ +* Add onedata templates by `@bwalkowi `_ in `#18457 `_ +* Support high-availability setups for the interactive tools proxy by `@kysrpex `_ in `#18481 `_ +* Add unique constraints to the email and username fields in the galaxy_user table by `@jdavcs `_ in `#18493 `_ +* Update Python dependencies by `@galaxybot `_ in `#18505 `_ +* Improvements for K8S deployment (especially ITs) by `@almahmoud `_ in `#18514 `_ +* Add Tool-Centric APIs to the Tool Shed 2.0 by `@jmchilton `_ in `#18524 `_ +* Improvements to Tool Test Parsing by `@jmchilton `_ in `#18560 `_ +* Group tool templating exceptions in sentry by `@mvdbeek `_ in `#18570 `_ +* Update Python dependencies by `@galaxybot `_ in `#18578 `_ +* Record container id and type in core job metrics by `@mvdbeek `_ in `#18579 `_ +* Rev pinned gxformat2. by `@jmchilton `_ in `#18624 `_ +* Better Typing for Tool Execution Plumbing by `@jmchilton `_ in `#18626 `_ +* Remove unused functions in dataset managers by `@jmchilton `_ in `#18631 `_ +* Parameter Model Improvements by `@jmchilton `_ in `#18641 `_ +* Parse stored config details to script-based visualizations by `@guerler `_ in `#18651 `_ +* Another round of parameter model improvements. by `@jmchilton `_ in `#18673 `_ +* Allow access to invocation via shared or published history by `@mvdbeek `_ in `#18707 `_ +* Allow specifying multi-select workflow parameters by `@mvdbeek `_ in `#18715 `_ +* Improvements to help terms & tool help. by `@jmchilton `_ in `#18722 `_ +* Add a retry when deleting a k8s job by `@afgane `_ in `#18744 `_ +* More typing, docs, and decomposition around tool execution by `@jmchilton `_ in `#18758 `_ +* Add Workflow Title and Annotation sections by `@hujambo-dunia `_ in `#18762 `_ +* Refactor ``LibraryDatasetsManager`` and fix type annotation issue by `@nsoranzo `_ in `#18773 `_ +* Backend handling of setting user-role, user-group, and group-role associations by `@jdavcs `_ in `#18777 `_ +* Allow using tracks and groups in visualization xml by `@guerler `_ in `#18779 `_ +* Workflow Landing Requests by `@jmchilton `_ in `#18807 `_ +* Update Mypy to 1.11.2 and fix new signature override errors by `@nsoranzo `_ in `#18811 `_ +* Migrate Library Contents API to FastAPI by `@arash77 `_ in `#18838 `_ +* Update Python dependencies by `@galaxybot `_ in `#18864 `_ +* Implement Pydantic model for workflow test format. by `@jmchilton `_ in `#18884 `_ +* Remove some unused dynamic drill down options. by `@jmchilton `_ in `#18892 `_ +* Enable ``ignore-without-code`` mypy error code by `@nsoranzo `_ in `#18898 `_ +* Update Python dependencies by `@galaxybot `_ in `#18904 `_ +* Type annotations and fixes by `@nsoranzo `_ in `#18911 `_ +* Add filter null collection operation tool by `@mvdbeek `_ in `#18928 `_ +* Remove outdated fimo wrapper and galaxy-sequence-utils dependency by `@nsoranzo `_ in `#18937 `_ +* Update Python dependencies by `@galaxybot `_ in `#18943 `_ +* Allow to overwrite `real_system_username` per destination by `@bernt-matthias `_ in `#18945 `_ +* Assert that `data_column` parameters have a valid `data_ref` by `@bernt-matthias `_ in `#18949 `_ +* Decouple user email from role name by `@jdavcs `_ in `#18966 `_ +* Workflow landing improvements by `@mvdbeek `_ in `#18979 `_ +* Update Python dependencies by `@galaxybot `_ in `#18982 `_ +* Allow recovering a normalized version of workflow request state from API by `@jmchilton `_ in `#18985 `_ +* Enhance relabel_from_file to work with any column pair in mapping file by `@wm75 `_ in `#19022 `_ +* A variety of improvements around tool parameter modeling (second try) by `@jmchilton `_ in `#19027 `_ +* Better logging around tool loading by `@jmchilton `_ in `#19029 `_ +* Update Python dependencies by `@galaxybot `_ in `#19031 `_ +* Silence the quota manager for updates by `@bernt-matthias `_ in `#19046 `_ +* Add job metrics per invocation by `@mvdbeek `_ in `#19048 `_ +* Update Python dependencies by `@galaxybot `_ in `#19062 `_ +* Annotate ``DatasetAssociationManager`` as generic type by `@nsoranzo `_ in `#19063 `_ +* Move TRS import into WorkflowContentManager by `@mvdbeek `_ in `#19070 `_ +* Replace poetry with uv by `@nsoranzo `_ in `#19075 `_ +* Allow deferred datasets to behave as URIs by `@davelopez `_ in `#19077 `_ +* Implement workflow parameter validators. by `@jmchilton `_ in `#19092 `_ +* Allow directory_uri workflow parameters. by `@jmchilton `_ in `#19093 `_ +* Better cleanup of sharing roles on user purge by `@jdavcs `_ in `#19096 `_ +* Support deferred datasets in visualizations by `@davelopez `_ in `#19097 `_ +* uv: Do not recalculate dependencies when exporting by `@nsoranzo `_ in `#19099 `_ +* Access public history in job cache / job search by `@mvdbeek `_ in `#19108 `_ +* Test hash validation also for upload by path by `@nsoranzo `_ in `#19109 `_ +* Always validate hashes when provided by `@nsoranzo `_ in `#19110 `_ +* Add type annotations to ``JobRunnerMapper`` and related code by `@nsoranzo `_ in `#19115 `_ +* Update Python dependencies by `@galaxybot `_ in `#19123 `_ +* Allow a posix file source to prefer linking. by `@jmchilton `_ in `#19132 `_ +* Remove OpenLayers legacy files and add SVG logo by `@guerler `_ in `#19135 `_ +* Update Python dependencies by `@galaxybot `_ in `#19149 `_ +* Fix default value handling for parameters connected to required parameters by `@mvdbeek `_ in `#19219 `_ +* Workflow Inputs Activity by `@ElectronicBlueberry `_ in `#19252 `_ + +============= +Other changes +============= + +* Fix workflow invocation accessibility check by `@mvdbeek `_ in `#18746 `_ +* Fix destentation typo by `@mvdbeek `_ in `#19140 `_ ------------------- 24.1.4 (2024-12-11) @@ -23,7 +159,7 @@ Bug fixes * Fix dropped when_expression on step upgrade by `@mvdbeek `_ in `#18446 `_ * Improve workflow-related exception reporting by `@mvdbeek `_ in `#18447 `_ * Fix subwofklow tags serialization type by `@arash77 `_ in `#18456 `_ -* by `@laperlej `_ in `#18459 `_ +* by `@laperlej `_ in `#18459 `_ * Add input extra files to `get_input_fnames` by `@mvdbeek `_ in `#18462 `_ * Return generic message for password reset email by `@ahmedhamidawan `_ in `#18479 `_ * Increase API robustness to invalid requests, improve compressed data serving by `@mvdbeek `_ in `#18494 `_ diff --git a/packages/app/setup.cfg b/packages/app/setup.cfg index 1e6b7ca57d3..d5a74be86d2 100644 --- a/packages/app/setup.cfg +++ b/packages/app/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-app url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -87,4 +87,4 @@ console_scripts = [options.packages.find] exclude = galaxy.tools.bundled* - tests* + tests* \ No newline at end of file diff --git a/packages/auth/HISTORY.rst b/packages/auth/HISTORY.rst index d1f4ed7c9df..5fbea11db55 100644 --- a/packages/auth/HISTORY.rst +++ b/packages/auth/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc -------- -24.2rc1 -------- - +------------------- +24.2.0 (2025-02-06) +------------------- +No recorded changes since last release ------------------- 24.1.4 (2024-12-11) diff --git a/packages/auth/setup.cfg b/packages/auth/setup.cfg index 9e625b30894..2fd89b68826 100644 --- a/packages/auth/setup.cfg +++ b/packages/auth/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-auth url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -39,4 +39,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/config/HISTORY.rst b/packages/config/HISTORY.rst index 6586add72a0..a905a690cd7 100644 --- a/packages/config/HISTORY.rst +++ b/packages/config/HISTORY.rst @@ -3,11 +3,46 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fix loading error for built in tool `sift` by `@bernt-matthias `_ in `#18357 `_ +* Add gtf to auto_compressed_types by `@mvdbeek `_ in `#19175 `_ +* Partial backport of #19331 by `@nsoranzo `_ in `#19342 `_ +* Fix to only show ChatGXY when available. by `@dannon `_ in `#19389 `_ + +============ +Enhancements +============ + +* Experimental galactic wizard by `@dannon `_ in `#15860 `_ +* Improve usability of Directory datatype by `@wm75 `_ in `#17614 `_ +* Add pod5 datatype by `@TomHarrop `_ in `#18419 `_ +* Add onedata templates by `@bwalkowi `_ in `#18457 `_ +* Support high-availability setups for the interactive tools proxy by `@kysrpex `_ in `#18481 `_ +* Minor config documentation enhancements by `@bgruening `_ in `#18499 `_ +* Add Tool-Centric APIs to the Tool Shed 2.0 by `@jmchilton `_ in `#18524 `_ +* Bring your own file sources: Add the WebDAV template and configuration by `@sanjaysrikakulam `_ in `#18598 `_ +* Add BlobToolkit to the list of interactive tools by `@Delphine-L `_ in `#18630 `_ +* Remove `defaults` channel for conda usage by `@bernt-matthias `_ in `#18757 `_ +* Workflow Landing Requests by `@jmchilton `_ in `#18807 `_ +* Jupyter Interactive Tool 1.0.1/24.07 by `@natefoo `_ in `#18861 `_ +* Allow setting a few global defaults for file source plugin types. by `@jmchilton `_ in `#18909 `_ +* Add filter null collection operation tool by `@mvdbeek `_ in `#18928 `_ +* Add hint to the tool schema about runtime conditional changes by `@martenson `_ in `#18996 `_ +* Irods ssl connection by `@pauldg `_ in `#19014 `_ +* Add some Zarr-based datatypes by `@davelopez `_ in `#19040 `_ +* Run installed Galaxy with no config and a simplified entry point by `@natefoo `_ in `#19050 `_ +* Add XML based `vtk` datatype by `@tStehling `_ in `#19104 `_ +* Allow a posix file source to prefer linking. by `@jmchilton `_ in `#19132 `_ +* Add bcsp datatype by `@SantaMcCloud `_ in `#19365 `_ +* add MuData as subclass of H5 by `@pavanvidem `_ in `#19416 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/config/setup.cfg b/packages/config/setup.cfg index 5249de2ee6a..fd6a2444bbd 100644 --- a/packages/config/setup.cfg +++ b/packages/config/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-config url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -46,4 +46,4 @@ console_scripts = [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/data/HISTORY.rst b/packages/data/HISTORY.rst index 0ef029d424f..ceb6aabd257 100644 --- a/packages/data/HISTORY.rst +++ b/packages/data/HISTORY.rst @@ -3,11 +3,84 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Drop "Send to cloud" tool and associated cloudauthz code by `@jdavcs `_ in `#18196 `_ +* Raise Message Exception when displaying binary data by `@mvdbeek `_ in `#18503 `_ +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ +* Fix new flake8-bugbear B039 and mypy type-var errors by `@nsoranzo `_ in `#18755 `_ +* Fix migration data fixes tests by `@jdavcs `_ in `#18885 `_ +* Fix backend role sharing bug by `@jdavcs `_ in `#18942 `_ +* Add merge migration to merge 2 heads by `@jdavcs `_ in `#19163 `_ +* Record implicitly converted dataset as input dataset by `@mvdbeek `_ in `#19301 `_ +* Fix quota usage with user object stores by `@davelopez `_ in `#19323 `_ +* Fix workflows with optional non-default parameter input by `@mvdbeek `_ in `#19332 `_ +* Fix importing shared workflows with deeply nested subworkflows by `@mvdbeek `_ in `#19335 `_ +* Backport fix from #19396 by `@nsoranzo `_ in `#19399 `_ +* Prevent cycling through failing conversion jobs in trackster by `@mvdbeek `_ in `#19494 `_ +* Fix extracting workflows from purged and deleted histories by `@mvdbeek `_ in `#19525 `_ +* Fix error message when subworkflow input connection missing by `@mvdbeek `_ in `#19526 `_ +* Fix admin cancel job message not being displayed to the user by `@davelopez `_ in `#19537 `_ +* Add tool_id index on job table by `@mvdbeek `_ in `#19543 `_ +* Update 24.2 db revision tags by `@jdavcs `_ in `#19550 `_ +* Provide guidance in case of deadlock during db migration by `@jdavcs `_ in `#19551 `_ + +============ +Enhancements +============ + +* Experimental galactic wizard by `@dannon `_ in `#15860 `_ +* Improve usability of Directory datatype by `@wm75 `_ in `#17614 `_ +* Update Python dependencies by `@galaxybot `_ in `#18226 `_ +* Allow OAuth 2.0 user defined file sources (w/Dropbox integration) by `@jmchilton `_ in `#18272 `_ +* More data access tests, some refactoring and cleanup by `@jdavcs `_ in `#18312 `_ +* Update Python dependencies by `@galaxybot `_ in `#18406 `_ +* Add pod5 datatype by `@TomHarrop `_ in `#18419 `_ +* Prepare for NumPy 2.0 by `@nsoranzo `_ in `#18422 `_ +* Add unique constraints to the email and username fields in the galaxy_user table by `@jdavcs `_ in `#18493 `_ +* Improvements for K8S deployment (especially ITs) by `@almahmoud `_ in `#18514 `_ +* Refactor ``LibraryDatasetsManager`` and fix type annotation issue by `@nsoranzo `_ in `#18773 `_ +* Handle compressed content in dataset preview for all sequence classes by `@PlushZ `_ in `#18776 `_ +* Backend handling of setting user-role, user-group, and group-role associations by `@jdavcs `_ in `#18777 `_ +* Workflow Landing Requests by `@jmchilton `_ in `#18807 `_ +* Update Mypy to 1.11.2 and fix new signature override errors by `@nsoranzo `_ in `#18811 `_ +* Refactor migration testing setup code by `@jdavcs `_ in `#18886 `_ +* Allow setting a few global defaults for file source plugin types. by `@jmchilton `_ in `#18909 `_ +* Type annotations and fixes by `@nsoranzo `_ in `#18911 `_ +* Add filter null collection operation tool by `@mvdbeek `_ in `#18928 `_ +* Fix extra files path type hint by `@davelopez `_ in `#18958 `_ +* Decouple user email from role name by `@jdavcs `_ in `#18966 `_ +* Optimize to_history_dataset_association in create_datasets_from_library_folder by `@arash77 `_ in `#18970 `_ +* Workflow landing improvements by `@mvdbeek `_ in `#18979 `_ +* Allow recovering a normalized version of workflow request state from API by `@jmchilton `_ in `#18985 `_ +* Add some Zarr-based datatypes by `@davelopez `_ in `#19040 `_ +* Run installed Galaxy with no config and a simplified entry point by `@natefoo `_ in `#19050 `_ +* Annotate ``DatasetAssociationManager`` as generic type by `@nsoranzo `_ in `#19063 `_ +* Move TRS import into WorkflowContentManager by `@mvdbeek `_ in `#19070 `_ +* Allow deferred datasets to behave as URIs by `@davelopez `_ in `#19077 `_ +* Better cleanup of sharing roles on user purge by `@jdavcs `_ in `#19096 `_ +* Add XML based `vtk` datatype by `@tStehling `_ in `#19104 `_ +* Access public history in job cache / job search by `@mvdbeek `_ in `#19108 `_ +* Always validate hashes when provided by `@nsoranzo `_ in `#19110 `_ +* Enable specifying dataset hash in test jobs by `@mvdbeek `_ in `#19113 `_ +* Enhance UTF-8 support for filename handling in downloads by `@arash77 `_ in `#19161 `_ +* Backport of Workflow Editor Activity Bar by `@dannon `_ in `#19212 `_ +* Fix default value handling for parameters connected to required parameters by `@mvdbeek `_ in `#19219 `_ + +============= +Other changes +============= + +* Merge 24.1 by `@jdavcs `_ in `#18386 `_ +* Format dev to fix linting. by `@jmchilton `_ in `#18860 `_ +* Add 24.2 migration tags by `@jdavcs `_ in `#19169 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/data/setup.cfg b/packages/data/setup.cfg index 2dd4e7e16b0..0bfe4759fd1 100644 --- a/packages/data/setup.cfg +++ b/packages/data/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-data url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -74,4 +74,4 @@ console_scripts = [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/files/HISTORY.rst b/packages/files/HISTORY.rst index 2e34303f3be..c2a14f4dc47 100644 --- a/packages/files/HISTORY.rst +++ b/packages/files/HISTORY.rst @@ -3,11 +3,23 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +============ +Enhancements +============ + +* Allow OAuth 2.0 user defined file sources (w/Dropbox integration) by `@jmchilton `_ in `#18272 `_ +* Add onedata templates by `@bwalkowi `_ in `#18457 `_ +* Add missing version in the file sources and object store templates by `@sanjaysrikakulam `_ in `#18497 `_ +* Add a new version of the production s3fs file source template with the writable configuration variable added by `@sanjaysrikakulam `_ in `#18575 `_ +* Bring your own file sources: Add the WebDAV template and configuration by `@sanjaysrikakulam `_ in `#18598 `_ +* Allow setting a few global defaults for file source plugin types. by `@jmchilton `_ in `#18909 `_ +* Type annotations and fixes by `@nsoranzo `_ in `#18911 `_ +* Allow a posix file source to prefer linking. by `@jmchilton `_ in `#19132 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/files/setup.cfg b/packages/files/setup.cfg index 81e727080f7..d84a59b8e6a 100644 --- a/packages/files/setup.cfg +++ b/packages/files/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-files url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -40,4 +40,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/job_execution/HISTORY.rst b/packages/job_execution/HISTORY.rst index fd2ac67c246..dad5d9aff83 100644 --- a/packages/job_execution/HISTORY.rst +++ b/packages/job_execution/HISTORY.rst @@ -3,11 +3,16 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/job_execution/setup.cfg b/packages/job_execution/setup.cfg index 827c34922e2..34343af20d0 100644 --- a/packages/job_execution/setup.cfg +++ b/packages/job_execution/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-job-execution url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -49,4 +49,4 @@ console_scripts = [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/job_metrics/HISTORY.rst b/packages/job_metrics/HISTORY.rst index ea4ab1db2e1..78343ecfedd 100644 --- a/packages/job_metrics/HISTORY.rst +++ b/packages/job_metrics/HISTORY.rst @@ -3,11 +3,16 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +============ +Enhancements +============ + +* Record container id and type in core job metrics by `@mvdbeek `_ in `#18579 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/job_metrics/setup.cfg b/packages/job_metrics/setup.cfg index 3d15b9a7686..2a7c4c6a619 100644 --- a/packages/job_metrics/setup.cfg +++ b/packages/job_metrics/setup.cfg @@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-job-metrics url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -39,4 +39,4 @@ python_requires = >=3.7 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/navigation/HISTORY.rst b/packages/navigation/HISTORY.rst index f13959a5653..24d42c15fa7 100644 --- a/packages/navigation/HISTORY.rst +++ b/packages/navigation/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc -------- -24.2rc1 -------- - +------------------- +24.2.0 (2025-02-06) +------------------- +No recorded changes since last release ------------------- 24.1.4 (2024-12-11) diff --git a/packages/navigation/setup.cfg b/packages/navigation/setup.cfg index b8007512bd9..fd7206a9fc4 100644 --- a/packages/navigation/setup.cfg +++ b/packages/navigation/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-navigation url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -39,4 +39,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/objectstore/HISTORY.rst b/packages/objectstore/HISTORY.rst index f3af41f4942..466d3087950 100644 --- a/packages/objectstore/HISTORY.rst +++ b/packages/objectstore/HISTORY.rst @@ -3,11 +3,29 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ +* Fix job directory not being cleaned up by `@davelopez `_ in `#18997 `_ +* Fix quota usage with user object stores by `@davelopez `_ in `#19323 `_ +* Fix object not found handling by `@mvdbeek `_ in `#19468 `_ + +============ +Enhancements +============ + +* Allow OAuth 2.0 user defined file sources (w/Dropbox integration) by `@jmchilton `_ in `#18272 `_ +* Add onedata templates by `@bwalkowi `_ in `#18457 `_ +* Add missing version in the file sources and object store templates by `@sanjaysrikakulam `_ in `#18497 `_ +* Add a retry when deleting a k8s job by `@afgane `_ in `#18744 `_ +* Irods ssl connection by `@pauldg `_ in `#19014 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/objectstore/setup.cfg b/packages/objectstore/setup.cfg index 4f2f0e7148d..2fc4f412d7d 100644 --- a/packages/objectstore/setup.cfg +++ b/packages/objectstore/setup.cfg @@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-objectstore url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -41,4 +41,4 @@ python_requires = >=3.7 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/schema/HISTORY.rst b/packages/schema/HISTORY.rst index 588659654b9..260dd514db4 100644 --- a/packages/schema/HISTORY.rst +++ b/packages/schema/HISTORY.rst @@ -3,11 +3,47 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Drop "Send to cloud" tool and associated cloudauthz code by `@jdavcs `_ in `#18196 `_ +* Fix issue with generating slug for sharing by `@arash77 `_ in `#18986 `_ +* Fix invocation metrics usability by providing job context. by `@jmchilton `_ in `#19279 `_ + +============ +Enhancements +============ + +* Experimental galactic wizard by `@dannon `_ in `#15860 `_ +* Feature - stdout live reporting by `@gecage952 `_ in `#16975 `_ +* Add errors fast api by `@arash77 `_ in `#18093 `_ +* Allow OAuth 2.0 user defined file sources (w/Dropbox integration) by `@jmchilton `_ in `#18272 `_ +* Improve datasets permissions API schema typing by `@davelopez `_ in `#18563 `_ +* Improve typing for archived histories API schema by `@davelopez `_ in `#18586 `_ +* Tighten user notification API response types by `@davelopez `_ in `#18599 `_ +* Improve update user API payload schema by `@davelopez `_ in `#18602 `_ +* Improve update history payload schema by `@davelopez `_ in `#18618 `_ +* Improve types around User in schema and client by `@davelopez `_ in `#18645 `_ +* Improve accept header API schema by `@davelopez `_ in `#18668 `_ +* Migrate Visualizations API to FastAPI by `@arash77 `_ in `#18721 `_ +* Backend handling of setting user-role, user-group, and group-role associations by `@jdavcs `_ in `#18777 `_ +* Update Visualization FastAPI by `@arash77 `_ in `#18792 `_ +* Workflow Landing Requests by `@jmchilton `_ in `#18807 `_ +* Migrate Library Contents API to FastAPI by `@arash77 `_ in `#18838 `_ +* Enable ``ignore-without-code`` mypy error code by `@nsoranzo `_ in `#18898 `_ +* Decouple user email from role name by `@jdavcs `_ in `#18966 `_ +* Workflow landing improvements by `@mvdbeek `_ in `#18979 `_ +* Allow recovering a normalized version of workflow request state from API by `@jmchilton `_ in `#18985 `_ +* Add job metrics per invocation by `@mvdbeek `_ in `#19048 `_ +* Implement workflow parameter validators. by `@jmchilton `_ in `#19092 `_ +* Access public history in job cache / job search by `@mvdbeek `_ in `#19108 `_ +* Always validate hashes when provided by `@nsoranzo `_ in `#19110 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/schema/setup.cfg b/packages/schema/setup.cfg index d2c2e3b1291..f9053433596 100644 --- a/packages/schema/setup.cfg +++ b/packages/schema/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-schema url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -39,4 +39,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/selenium/HISTORY.rst b/packages/selenium/HISTORY.rst index fefa1383bb4..72606a1e08e 100644 --- a/packages/selenium/HISTORY.rst +++ b/packages/selenium/HISTORY.rst @@ -3,11 +3,33 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ +* Fix transiently failing selenium tooltip issues by `@jmchilton `_ in `#18847 `_ +* release testing - UI tests for new workflow parameters by `@jmchilton `_ in `#19182 `_ + +============ +Enhancements +============ + +* Masthead Revision by `@guerler `_ in `#17927 `_ +* Moves Libraries from Masthead to Activity Bar by `@guerler `_ in `#18468 `_ +* Replace History Dataset Picker in Library Folder by `@itisAliRH `_ in `#18518 `_ +* Workflow Invocation view improvements by `@ahmedhamidawan `_ in `#18615 `_ +* Guide users to collection builders by `@ahmedhamidawan `_ in `#18857 `_ +* Workflow license and creator edit keyboard access by `@itisAliRH `_ in `#18936 `_ +* Workflow landing improvements by `@mvdbeek `_ in `#18979 `_ +* Backport of Workflow Editor Activity Bar by `@dannon `_ in `#19212 `_ +* Various list of pairs builder usability fixes. by `@jmchilton `_ in `#19248 `_ +* Workflow Inputs Activity by `@ElectronicBlueberry `_ in `#19252 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/selenium/setup.cfg b/packages/selenium/setup.cfg index 4ca5c5df1a8..fa2da6236f2 100644 --- a/packages/selenium/setup.cfg +++ b/packages/selenium/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-selenium url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -47,4 +47,4 @@ console_scripts = [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/test_api/HISTORY.rst b/packages/test_api/HISTORY.rst index 74c01b20a56..1f91333c269 100644 --- a/packages/test_api/HISTORY.rst +++ b/packages/test_api/HISTORY.rst @@ -3,11 +3,64 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fix tag processing in library upload by `@davelopez `_ in `#18714 `_ +* Fix issue with generating slug for sharing by `@arash77 `_ in `#18986 `_ +* Fix numerous issues with tool input format "21.01" by `@jmchilton `_ in `#19030 `_ +* Record implicitly converted dataset as input dataset by `@mvdbeek `_ in `#19301 `_ +* Expression tool format source backport by `@mvdbeek `_ in `#19466 `_ +* Fail with error message when submitting invalid request by `@mvdbeek `_ in `#19489 `_ +* Fix deleting lddas in batch by `@davelopez `_ in `#19506 `_ +* Fix ``test_storage_show`` API test by `@nsoranzo `_ in `#19522 `_ +* Fix error message when subworkflow input connection missing by `@mvdbeek `_ in `#19526 `_ +* Fix admin cancel job message not being displayed to the user by `@davelopez `_ in `#19537 `_ + +============ +Enhancements +============ + +* Improve usability of Directory datatype by `@wm75 `_ in `#17614 `_ +* Implement Declarative Testing for Workflow Behaviors by `@jmchilton `_ in `#18542 `_ +* More tool test typing. by `@jmchilton `_ in `#18590 `_ +* Better Typing for Tool Execution Plumbing by `@jmchilton `_ in `#18626 `_ +* Parameter Model Improvements by `@jmchilton `_ in `#18641 `_ +* Another round of parameter model improvements. by `@jmchilton `_ in `#18673 `_ +* Allow access to invocation via shared or published history by `@mvdbeek `_ in `#18707 `_ +* Migrate Visualizations API to FastAPI by `@arash77 `_ in `#18721 `_ +* Refactor ``LibraryDatasetsManager`` and fix type annotation issue by `@nsoranzo `_ in `#18773 `_ +* Backend handling of setting user-role, user-group, and group-role associations by `@jdavcs `_ in `#18777 `_ +* 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 `_ +* 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 `_ +* Do not skip CI tests on missing tools. by `@jmchilton `_ in `#19002 `_ +* A variety of improvements around tool parameter modeling (second try) by `@jmchilton `_ in `#19027 `_ +* Add job metrics per invocation by `@mvdbeek `_ in `#19048 `_ +* Move TRS import into WorkflowContentManager by `@mvdbeek `_ in `#19070 `_ +* Allow deferred datasets to behave as URIs by `@davelopez `_ in `#19077 `_ +* Implement workflow parameter validators. by `@jmchilton `_ in `#19092 `_ +* Access public history in job cache / job search by `@mvdbeek `_ in `#19108 `_ +* Always validate hashes when provided by `@nsoranzo `_ in `#19110 `_ +* Enable specifying dataset hash in test jobs by `@mvdbeek `_ in `#19113 `_ +* Enhance UTF-8 support for filename handling in downloads by `@arash77 `_ in `#19161 `_ +* Fix default value handling for parameters connected to required parameters by `@mvdbeek `_ in `#19219 `_ + +============= +Other changes +============= + +* Fix workflow invocation accessibility check by `@mvdbeek `_ in `#18746 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/test_api/setup.cfg b/packages/test_api/setup.cfg index a4e6ce5544c..de31752d55d 100644 --- a/packages/test_api/setup.cfg +++ b/packages/test_api/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-test-api url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -46,4 +46,4 @@ driver = [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/test_base/HISTORY.rst b/packages/test_base/HISTORY.rst index ecbb9fec7af..f84f5e55e18 100644 --- a/packages/test_base/HISTORY.rst +++ b/packages/test_base/HISTORY.rst @@ -3,11 +3,43 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +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) diff --git a/packages/test_base/setup.cfg b/packages/test_base/setup.cfg index 62247a0ae26..7c98e34717c 100644 --- a/packages/test_base/setup.cfg +++ b/packages/test_base/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-test-base url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -45,4 +45,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/test_driver/HISTORY.rst b/packages/test_driver/HISTORY.rst index 75b3c334714..3294792c81a 100644 --- a/packages/test_driver/HISTORY.rst +++ b/packages/test_driver/HISTORY.rst @@ -3,11 +3,23 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ + +============ +Enhancements +============ + +* Implement Declarative Testing for Workflow Behaviors by `@jmchilton `_ in `#18542 `_ +* Allow a posix file source to prefer linking. by `@jmchilton `_ in `#19132 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/test_driver/setup.cfg b/packages/test_driver/setup.cfg index 370525adddd..b00efdc5e5f 100644 --- a/packages/test_driver/setup.cfg +++ b/packages/test_driver/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-test-driver url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -45,4 +45,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/tool_shed/HISTORY.rst b/packages/tool_shed/HISTORY.rst index d4969d60bfb..29a1aa4d032 100644 --- a/packages/tool_shed/HISTORY.rst +++ b/packages/tool_shed/HISTORY.rst @@ -3,11 +3,18 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +============ +Enhancements +============ + +* Add Tool-Centric APIs to the Tool Shed 2.0 by `@jmchilton `_ in `#18524 `_ +* Rip repository_registry out of tool shed 2.0 by `@jmchilton `_ in `#18647 `_ +* Assert that `data_column` parameters have a valid `data_ref` by `@bernt-matthias `_ in `#18949 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/tool_shed/setup.cfg b/packages/tool_shed/setup.cfg index 0e9de75e1a4..4971945f8e6 100644 --- a/packages/tool_shed/setup.cfg +++ b/packages/tool_shed/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-tool-shed url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -64,4 +64,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/tool_util/HISTORY.rst b/packages/tool_util/HISTORY.rst index d7044a36286..ff05e633a73 100644 --- a/packages/tool_util/HISTORY.rst +++ b/packages/tool_util/HISTORY.rst @@ -3,11 +3,80 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fix some deprecations by `@nsoranzo `_ in `#18433 `_ +* Fix handling of v2 hashes by `@bernt-matthias `_ in `#18522 `_ +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ +* Handle output parsing when tool is not available for tool-centric API. by `@jmchilton `_ in `#18643 `_ +* Fix new flake8-bugbear B039 and mypy type-var errors by `@nsoranzo `_ in `#18755 `_ +* Fix commas that shouldn't be in biotools_mappings.tsv by `@jmchilton `_ in `#18919 `_ +* Allow modes `z` and `Z` for docker volumes by `@bernt-matthias `_ in `#18998 `_ +* Add requirement/resource to schema docs by `@bernt-matthias `_ in `#19172 `_ +* Fix mulled_hash by `@bernt-matthias `_ in `#19199 `_ +* Outputs filter linter fixes by `@bernt-matthias `_ in `#19208 `_ +* Replace mambaforge Docker image with miniforge3 by `@nsoranzo `_ in `#19327 `_ +* Partial backport of #19331 by `@nsoranzo `_ in `#19342 `_ +* Backport fix for ``test_singularity_container_test`` test by `@nsoranzo `_ in `#19349 `_ +* Remove unnecessary quoting in conda package specification by `@nsoranzo `_ in `#19382 `_ +* Fix timeout handling for planemo / galaxy-tool-util by `@mvdbeek `_ in `#19384 `_ +* Fix for empty string in regex validator message. by `@jmchilton `_ in `#19387 `_ +* `mulled-build-tool` fix for packages wo version by `@bernt-matthias `_ in `#19450 `_ +* Fix parsing of validators with inf limits by `@mvdbeek `_ in `#19459 `_ +* Remove print statement by `@bernt-matthias `_ in `#19469 `_ +* Downgrade 'InteractiveTools are not enabled' to warning by `@mvdbeek `_ in `#19518 `_ + +============ +Enhancements +============ + +* Add linters for datatypes by `@bernt-matthias `_ in `#17600 `_ +* Update Python dependencies by `@galaxybot `_ in `#18406 `_ +* Stray small changes from structured_tool_state branch. by `@jmchilton `_ in `#18453 `_ +* Add Tool-Centric APIs to the Tool Shed 2.0 by `@jmchilton `_ in `#18524 `_ +* Mixed enhancements from CWL branch by `@nsoranzo `_ in `#18539 `_ +* Implement Declarative Testing for Workflow Behaviors by `@jmchilton `_ in `#18542 `_ +* Improvements to Tool Test Parsing by `@jmchilton `_ in `#18560 `_ +* More tool test typing. by `@jmchilton `_ in `#18590 `_ +* Parameter Model Improvements by `@jmchilton `_ in `#18641 `_ +* Another round of parameter model improvements. by `@jmchilton `_ in `#18673 `_ +* De-couple XML from tool interface for test collections. by `@jmchilton `_ in `#18676 `_ +* Another round of parameter model enhancements and tool tests by `@jmchilton `_ in `#18678 `_ +* Dynamic Models for Tool Test Validation by `@jmchilton `_ in `#18679 `_ +* Improvements to help terms & tool help. by `@jmchilton `_ in `#18722 `_ +* Implement tool upgrade assistant. by `@jmchilton `_ in `#18728 `_ +* Improvements to parameter models for test case inputs by `@jmchilton `_ in `#18743 `_ +* Remove `defaults` channel for conda usage by `@bernt-matthias `_ in `#18757 `_ +* Modelling for Test Assertions by `@jmchilton `_ in `#18787 `_ +* Workflow Landing Requests by `@jmchilton `_ in `#18807 `_ +* Add docs on indexing for filter column by `@bernt-matthias `_ in `#18844 `_ +* Implement Pydantic model for workflow test format. by `@jmchilton `_ in `#18884 `_ +* Improvements to Planemo test format based on feedback/discussions. by `@jmchilton `_ in `#18889 `_ +* Add support for arbitrarily ordered image axes in image content assertions by `@kostrykin `_ in `#18891 `_ +* Remove some unused dynamic drill down options. by `@jmchilton `_ in `#18892 `_ +* Type annotations and fixes by `@nsoranzo `_ in `#18911 `_ +* Add filter null collection operation tool by `@mvdbeek `_ in `#18928 `_ +* Assert that `data_column` parameters have a valid `data_ref` by `@bernt-matthias `_ in `#18949 `_ +* More concise, readable tool execution testing. by `@jmchilton `_ in `#18977 `_ +* Workflow landing improvements by `@mvdbeek `_ in `#18979 `_ +* Add hint to the tool schema about runtime conditional changes by `@martenson `_ in `#18996 `_ +* A variety of improvements around tool parameter modeling (second try) by `@jmchilton `_ in `#19027 `_ +* Better logging around tool loading by `@jmchilton `_ in `#19029 `_ +* Update Python dependencies by `@galaxybot `_ in `#19031 `_ +* Integrate Tool Parameter Modeling into Linting (for Planemo) by `@jmchilton `_ in `#19073 `_ +* Allow deferred datasets to behave as URIs by `@davelopez `_ in `#19077 `_ +* Implement workflow parameter validators. by `@jmchilton `_ in `#19092 `_ +* Enable specifying dataset hash in test jobs by `@mvdbeek `_ in `#19113 `_ +* Add linter to check validity of output filters by `@bernt-matthias `_ in `#19114 `_ +* Also use miniforge docker for container building by `@bernt-matthias `_ in `#19128 `_ +* Fix default value handling for parameters connected to required parameters by `@mvdbeek `_ in `#19219 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/tool_util/setup.cfg b/packages/tool_util/setup.cfg index c0cdb493591..48454928d05 100644 --- a/packages/tool_util/setup.cfg +++ b/packages/tool_util/setup.cfg @@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-tool-util url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -77,4 +77,4 @@ extended-assertions = [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/tours/HISTORY.rst b/packages/tours/HISTORY.rst index ea13cabd148..aaca7834e08 100644 --- a/packages/tours/HISTORY.rst +++ b/packages/tours/HISTORY.rst @@ -3,11 +3,16 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +============ +Enhancements +============ + +* Type annotations and fixes by `@nsoranzo `_ in `#18911 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/tours/setup.cfg b/packages/tours/setup.cfg index 00ae27c407a..f733a88cd7e 100644 --- a/packages/tours/setup.cfg +++ b/packages/tours/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-tours url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -44,4 +44,4 @@ console_scripts = [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/util/HISTORY.rst b/packages/util/HISTORY.rst index 7ba18908e82..118f0bc41ca 100644 --- a/packages/util/HISTORY.rst +++ b/packages/util/HISTORY.rst @@ -3,11 +3,36 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ +* Fix numerous issues with tool input format "21.01" by `@jmchilton `_ in `#19030 `_ +* Partial backport of #19331 by `@nsoranzo `_ in `#19342 `_ +* Fix config template validation for file sources and object store templates by `@davelopez `_ in `#19414 `_ +* Serialize message exceptions on execution error by `@mvdbeek `_ in `#19483 `_ + +============ +Enhancements +============ + +* Allow OAuth 2.0 user defined file sources (w/Dropbox integration) by `@jmchilton `_ in `#18272 `_ +* Add Python 3.13 support by `@nsoranzo `_ in `#18449 `_ +* Add Tool-Centric APIs to the Tool Shed 2.0 by `@jmchilton `_ in `#18524 `_ +* Rip repository_registry out of tool shed 2.0 by `@jmchilton `_ in `#18647 `_ +* Workflow Landing Requests by `@jmchilton `_ in `#18807 `_ +* Update Mypy to 1.11.2 and fix new signature override errors by `@nsoranzo `_ in `#18811 `_ +* Raise exception if CompressedFile used on incompatible file by `@mvdbeek `_ in `#18888 `_ +* Type annotations and fixes by `@nsoranzo `_ in `#18911 `_ +* Workflow landing improvements by `@mvdbeek `_ in `#18979 `_ +* Run installed Galaxy with no config and a simplified entry point by `@natefoo `_ in `#19050 `_ +* Enhance UTF-8 support for filename handling in downloads by `@arash77 `_ in `#19161 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/util/setup.cfg b/packages/util/setup.cfg index 808606b7704..2ff9c1906cb 100644 --- a/packages/util/setup.cfg +++ b/packages/util/setup.cfg @@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-util url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -62,4 +62,4 @@ config_template = [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/web_apps/HISTORY.rst b/packages/web_apps/HISTORY.rst index cb93a673b4f..785ffd76ceb 100644 --- a/packages/web_apps/HISTORY.rst +++ b/packages/web_apps/HISTORY.rst @@ -3,11 +3,90 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Drop "Send to cloud" tool and associated cloudauthz code by `@jdavcs `_ in `#18196 `_ +* Fix some deprecations by `@nsoranzo `_ in `#18433 `_ +* Fix MessageException handling in get_edit by `@mvdbeek `_ in `#18529 `_ +* Fixes for errors reported by mypy 1.11.0 by `@nsoranzo `_ in `#18608 `_ +* Fix new flake8-bugbear B039 and mypy type-var errors by `@nsoranzo `_ in `#18755 `_ +* Fix response if dataset requested by display application is deleted by `@mvdbeek `_ in `#18803 `_ +* Ignore preflight options in API schema by `@jmchilton `_ in `#18983 `_ +* Fix issue with generating slug for sharing by `@arash77 `_ in `#18986 `_ +* Fix auto-detect metadata from Edit Dataset Attributes panel by `@davelopez `_ in `#19025 `_ +* Prevent purged users from logging in by `@jdavcs `_ in `#19094 `_ +* Restore access to saved visualizations by `@guerler `_ in `#19136 `_ +* Fix PSA Redirect by `@dannon `_ in `#19247 `_ +* Login redirect followup by `@dannon `_ in `#19251 `_ +* Fix invocation metrics usability by providing job context. by `@jmchilton `_ in `#19279 `_ +* Fix importing shared workflows with deeply nested subworkflows by `@mvdbeek `_ in `#19335 `_ +* Show Keycloak provider label in UI by `@ahmedhamidawan `_ in `#19447 `_ +* Serialize message exceptions on execution error by `@mvdbeek `_ in `#19483 `_ +* Use visualizations api in trackster by `@mvdbeek `_ in `#19495 `_ +* Set a hard limit of 100 invocations per request in api/invocations by `@mvdbeek `_ in `#19497 `_ +* Fix deleting lddas in batch by `@davelopez `_ in `#19506 `_ +* Fix WSGI response status handling in controller methods by `@mvdbeek `_ in `#19520 `_ +* Fix saved visualization (non-trackster ones) not displaying by `@davelopez `_ in `#19561 `_ + +============ +Enhancements +============ + +* Experimental galactic wizard by `@dannon `_ in `#15860 `_ +* Feature - stdout live reporting by `@gecage952 `_ in `#16975 `_ +* Add errors fast api by `@arash77 `_ in `#18093 `_ +* Update Python dependencies by `@galaxybot `_ in `#18226 `_ +* Allow OAuth 2.0 user defined file sources (w/Dropbox integration) by `@jmchilton `_ in `#18272 `_ +* More data access tests, some refactoring and cleanup by `@jdavcs `_ in `#18312 `_ +* Replace History Dataset Picker in Library Folder by `@itisAliRH `_ in `#18518 `_ +* Update openapi-typescript dependency to version 6.7.6 by `@davelopez `_ in `#18519 `_ +* Improve datasets permissions API schema typing by `@davelopez `_ in `#18563 `_ +* Drop unused datasets controller methods by `@mvdbeek `_ in `#18568 `_ +* Improve typing for archived histories API schema by `@davelopez `_ in `#18586 `_ +* More tool test typing. by `@jmchilton `_ in `#18590 `_ +* Improve update user API payload schema by `@davelopez `_ in `#18602 `_ +* Improve update history payload schema by `@davelopez `_ in `#18618 `_ +* Parameter Model Improvements by `@jmchilton `_ in `#18641 `_ +* Improve accept header API schema by `@davelopez `_ in `#18668 `_ +* Allow access to invocation via shared or published history by `@mvdbeek `_ in `#18707 `_ +* Migrate Visualizations API to FastAPI by `@arash77 `_ in `#18721 `_ +* Improvements to help terms & tool help. by `@jmchilton `_ in `#18722 `_ +* More typing, docs, and decomposition around tool execution by `@jmchilton `_ in `#18758 `_ +* Refactor ``LibraryDatasetsManager`` and fix type annotation issue by `@nsoranzo `_ in `#18773 `_ +* Backend handling of setting user-role, user-group, and group-role associations by `@jdavcs `_ in `#18777 `_ +* Update Visualization FastAPI by `@arash77 `_ in `#18792 `_ +* Workflow Landing Requests by `@jmchilton `_ in `#18807 `_ +* Migrate Library Contents API to FastAPI by `@arash77 `_ in `#18838 `_ +* Enable extra user preferences for remotely authorized users by `@maartenschermer `_ in `#18887 `_ +* Enable ``ignore-without-code`` mypy error code by `@nsoranzo `_ in `#18898 `_ +* 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 `_ +* Optimize to_history_dataset_association in create_datasets_from_library_folder by `@arash77 `_ in `#18970 `_ +* Workflow landing improvements by `@mvdbeek `_ in `#18979 `_ +* Allow recovering a normalized version of workflow request state from API by `@jmchilton `_ in `#18985 `_ +* Update Python dependencies by `@galaxybot `_ in `#19031 `_ +* Silence the quota manager for updates by `@bernt-matthias `_ in `#19046 `_ +* Add job metrics per invocation by `@mvdbeek `_ in `#19048 `_ +* Run installed Galaxy with no config and a simplified entry point by `@natefoo `_ in `#19050 `_ +* Move TRS import into WorkflowContentManager by `@mvdbeek `_ in `#19070 `_ +* Better cleanup of sharing roles on user purge by `@jdavcs `_ in `#19096 `_ +* Always validate hashes when provided by `@nsoranzo `_ in `#19110 `_ +* Backport of Workflow Editor Activity Bar by `@dannon `_ in `#19212 `_ +* Workflow Inputs Activity by `@ElectronicBlueberry `_ in `#19252 `_ + +============= +Other changes +============= + +* Format dev to fix linting. by `@jmchilton `_ in `#18860 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/web_apps/setup.cfg b/packages/web_apps/setup.cfg index 19ddb35ae0b..1e29874d5c0 100644 --- a/packages/web_apps/setup.cfg +++ b/packages/web_apps/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-web-apps url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -75,4 +75,4 @@ console_scripts = [options.packages.find] exclude = tests* - tool_shed.test* + tool_shed.test* \ No newline at end of file diff --git a/packages/web_framework/HISTORY.rst b/packages/web_framework/HISTORY.rst index a62dbe32abe..fda61beaa5f 100644 --- a/packages/web_framework/HISTORY.rst +++ b/packages/web_framework/HISTORY.rst @@ -3,11 +3,24 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +========= +Bug fixes +========= + +* Fix WSGI response status handling in controller methods by `@mvdbeek `_ in `#19520 `_ + +============ +Enhancements +============ + +* Parse stored config details to script-based visualizations by `@guerler `_ in `#18651 `_ +* Enable extra user preferences for remotely authorized users by `@maartenschermer `_ in `#18887 `_ +* Run installed Galaxy with no config and a simplified entry point by `@natefoo `_ in `#19050 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/web_framework/setup.cfg b/packages/web_framework/setup.cfg index c9cc44ab8c4..651656b4c87 100644 --- a/packages/web_framework/setup.cfg +++ b/packages/web_framework/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-web-framework url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -48,4 +48,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file diff --git a/packages/web_stack/HISTORY.rst b/packages/web_stack/HISTORY.rst index 4181276e70e..7ae3caf2dc2 100644 --- a/packages/web_stack/HISTORY.rst +++ b/packages/web_stack/HISTORY.rst @@ -3,11 +3,16 @@ History .. to_doc -------- -24.2rc1 -------- +------------------- +24.2.0 (2025-02-06) +------------------- +============ +Enhancements +============ + +* Update Python dependencies by `@galaxybot `_ in `#18406 `_ ------------------- 24.1.4 (2024-12-11) diff --git a/packages/web_stack/setup.cfg b/packages/web_stack/setup.cfg index 3daf83c89e4..0d57e8ea1d0 100644 --- a/packages/web_stack/setup.cfg +++ b/packages/web_stack/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-web-stack url = https://github.com/galaxyproject/galaxy -version = 24.2.dev0 +version = 24.2.0 [options] include_package_data = True @@ -40,4 +40,4 @@ python_requires = >=3.8 [options.packages.find] exclude = - tests* + tests* \ No newline at end of file From e3b1795275dfec8590b6c935eed85ace56e7500e Mon Sep 17 00:00:00 2001 From: John Davis Date: Thu, 6 Feb 2025 22:46:15 -0500 Subject: [PATCH 2/2] Start work on 24.2.1.dev0 --- lib/galaxy/version.py | 2 +- packages/app/HISTORY.rst | 6 ++++++ packages/app/setup.cfg | 2 +- packages/auth/HISTORY.rst | 6 ++++++ packages/auth/setup.cfg | 2 +- packages/config/HISTORY.rst | 6 ++++++ packages/config/setup.cfg | 2 +- packages/data/HISTORY.rst | 6 ++++++ packages/data/setup.cfg | 2 +- packages/files/HISTORY.rst | 6 ++++++ packages/files/setup.cfg | 2 +- packages/job_execution/HISTORY.rst | 6 ++++++ packages/job_execution/setup.cfg | 2 +- packages/job_metrics/HISTORY.rst | 6 ++++++ packages/job_metrics/setup.cfg | 2 +- packages/navigation/HISTORY.rst | 6 ++++++ packages/navigation/setup.cfg | 2 +- packages/objectstore/HISTORY.rst | 6 ++++++ packages/objectstore/setup.cfg | 2 +- packages/schema/HISTORY.rst | 6 ++++++ packages/schema/setup.cfg | 2 +- packages/selenium/HISTORY.rst | 6 ++++++ packages/selenium/setup.cfg | 2 +- packages/test_api/HISTORY.rst | 6 ++++++ packages/test_api/setup.cfg | 2 +- packages/test_base/HISTORY.rst | 6 ++++++ packages/test_base/setup.cfg | 2 +- packages/test_driver/HISTORY.rst | 6 ++++++ packages/test_driver/setup.cfg | 2 +- packages/tool_shed/HISTORY.rst | 6 ++++++ packages/tool_shed/setup.cfg | 2 +- packages/tool_util/HISTORY.rst | 6 ++++++ packages/tool_util/setup.cfg | 2 +- packages/tours/HISTORY.rst | 6 ++++++ packages/tours/setup.cfg | 2 +- packages/util/HISTORY.rst | 6 ++++++ packages/util/setup.cfg | 2 +- packages/web_apps/HISTORY.rst | 6 ++++++ packages/web_apps/setup.cfg | 2 +- packages/web_framework/HISTORY.rst | 6 ++++++ packages/web_framework/setup.cfg | 2 +- packages/web_stack/HISTORY.rst | 6 ++++++ packages/web_stack/setup.cfg | 2 +- 43 files changed, 148 insertions(+), 22 deletions(-) diff --git a/lib/galaxy/version.py b/lib/galaxy/version.py index 63b7397b554..3ef164ef7c0 100644 --- a/lib/galaxy/version.py +++ b/lib/galaxy/version.py @@ -1,3 +1,3 @@ VERSION_MAJOR = "24.2" -VERSION_MINOR = "0" +VERSION_MINOR = "1.dev0" VERSION = VERSION_MAJOR + (f".{VERSION_MINOR}" if VERSION_MINOR else "") diff --git a/packages/app/HISTORY.rst b/packages/app/HISTORY.rst index 4a29f81b0fa..b1d863ae091 100644 --- a/packages/app/HISTORY.rst +++ b/packages/app/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/app/setup.cfg b/packages/app/setup.cfg index d5a74be86d2..94909dcd903 100644 --- a/packages/app/setup.cfg +++ b/packages/app/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-app url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/auth/HISTORY.rst b/packages/auth/HISTORY.rst index 5fbea11db55..c4fd002b588 100644 --- a/packages/auth/HISTORY.rst +++ b/packages/auth/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/auth/setup.cfg b/packages/auth/setup.cfg index 2fd89b68826..cbd939652a3 100644 --- a/packages/auth/setup.cfg +++ b/packages/auth/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-auth url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/config/HISTORY.rst b/packages/config/HISTORY.rst index a905a690cd7..61c6c75e1eb 100644 --- a/packages/config/HISTORY.rst +++ b/packages/config/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/config/setup.cfg b/packages/config/setup.cfg index fd6a2444bbd..aaa2465aba5 100644 --- a/packages/config/setup.cfg +++ b/packages/config/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-config url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/data/HISTORY.rst b/packages/data/HISTORY.rst index ceb6aabd257..62296cde9b9 100644 --- a/packages/data/HISTORY.rst +++ b/packages/data/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/data/setup.cfg b/packages/data/setup.cfg index 0bfe4759fd1..e6406b1d8e0 100644 --- a/packages/data/setup.cfg +++ b/packages/data/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-data url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/files/HISTORY.rst b/packages/files/HISTORY.rst index c2a14f4dc47..e9abb01e67e 100644 --- a/packages/files/HISTORY.rst +++ b/packages/files/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/files/setup.cfg b/packages/files/setup.cfg index d84a59b8e6a..609a5e9c607 100644 --- a/packages/files/setup.cfg +++ b/packages/files/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-files url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/job_execution/HISTORY.rst b/packages/job_execution/HISTORY.rst index dad5d9aff83..c52ec035048 100644 --- a/packages/job_execution/HISTORY.rst +++ b/packages/job_execution/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/job_execution/setup.cfg b/packages/job_execution/setup.cfg index 34343af20d0..bae606a5511 100644 --- a/packages/job_execution/setup.cfg +++ b/packages/job_execution/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-job-execution url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/job_metrics/HISTORY.rst b/packages/job_metrics/HISTORY.rst index 78343ecfedd..89aea451a0c 100644 --- a/packages/job_metrics/HISTORY.rst +++ b/packages/job_metrics/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/job_metrics/setup.cfg b/packages/job_metrics/setup.cfg index 2a7c4c6a619..bdb1d21eab1 100644 --- a/packages/job_metrics/setup.cfg +++ b/packages/job_metrics/setup.cfg @@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-job-metrics url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/navigation/HISTORY.rst b/packages/navigation/HISTORY.rst index 24d42c15fa7..5eb0de63b4d 100644 --- a/packages/navigation/HISTORY.rst +++ b/packages/navigation/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/navigation/setup.cfg b/packages/navigation/setup.cfg index fd7206a9fc4..e8f37318ff5 100644 --- a/packages/navigation/setup.cfg +++ b/packages/navigation/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-navigation url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/objectstore/HISTORY.rst b/packages/objectstore/HISTORY.rst index 466d3087950..6062b2da709 100644 --- a/packages/objectstore/HISTORY.rst +++ b/packages/objectstore/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/objectstore/setup.cfg b/packages/objectstore/setup.cfg index 2fc4f412d7d..f5b3e08bac4 100644 --- a/packages/objectstore/setup.cfg +++ b/packages/objectstore/setup.cfg @@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-objectstore url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/schema/HISTORY.rst b/packages/schema/HISTORY.rst index 260dd514db4..0bbfe400657 100644 --- a/packages/schema/HISTORY.rst +++ b/packages/schema/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/schema/setup.cfg b/packages/schema/setup.cfg index f9053433596..8b63b8091d3 100644 --- a/packages/schema/setup.cfg +++ b/packages/schema/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-schema url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/selenium/HISTORY.rst b/packages/selenium/HISTORY.rst index 72606a1e08e..d6dd22f19c5 100644 --- a/packages/selenium/HISTORY.rst +++ b/packages/selenium/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/selenium/setup.cfg b/packages/selenium/setup.cfg index fa2da6236f2..0e52ceff213 100644 --- a/packages/selenium/setup.cfg +++ b/packages/selenium/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-selenium url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/test_api/HISTORY.rst b/packages/test_api/HISTORY.rst index 1f91333c269..ab9d0494526 100644 --- a/packages/test_api/HISTORY.rst +++ b/packages/test_api/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/test_api/setup.cfg b/packages/test_api/setup.cfg index de31752d55d..dcbc3e33e37 100644 --- a/packages/test_api/setup.cfg +++ b/packages/test_api/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-test-api url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/test_base/HISTORY.rst b/packages/test_base/HISTORY.rst index f84f5e55e18..58bdb962a7f 100644 --- a/packages/test_base/HISTORY.rst +++ b/packages/test_base/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/test_base/setup.cfg b/packages/test_base/setup.cfg index 7c98e34717c..c28481b00e2 100644 --- a/packages/test_base/setup.cfg +++ b/packages/test_base/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-test-base url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/test_driver/HISTORY.rst b/packages/test_driver/HISTORY.rst index 3294792c81a..b3b45f1c1a2 100644 --- a/packages/test_driver/HISTORY.rst +++ b/packages/test_driver/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/test_driver/setup.cfg b/packages/test_driver/setup.cfg index b00efdc5e5f..b02265f263f 100644 --- a/packages/test_driver/setup.cfg +++ b/packages/test_driver/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-test-driver url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/tool_shed/HISTORY.rst b/packages/tool_shed/HISTORY.rst index 29a1aa4d032..ec53cc0e336 100644 --- a/packages/tool_shed/HISTORY.rst +++ b/packages/tool_shed/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/tool_shed/setup.cfg b/packages/tool_shed/setup.cfg index 4971945f8e6..005060aaad8 100644 --- a/packages/tool_shed/setup.cfg +++ b/packages/tool_shed/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-tool-shed url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/tool_util/HISTORY.rst b/packages/tool_util/HISTORY.rst index ff05e633a73..58043b1a116 100644 --- a/packages/tool_util/HISTORY.rst +++ b/packages/tool_util/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/tool_util/setup.cfg b/packages/tool_util/setup.cfg index 48454928d05..08d0251b237 100644 --- a/packages/tool_util/setup.cfg +++ b/packages/tool_util/setup.cfg @@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-tool-util url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/tours/HISTORY.rst b/packages/tours/HISTORY.rst index aaca7834e08..1538ac80b3e 100644 --- a/packages/tours/HISTORY.rst +++ b/packages/tours/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/tours/setup.cfg b/packages/tours/setup.cfg index f733a88cd7e..b80e4d7ef19 100644 --- a/packages/tours/setup.cfg +++ b/packages/tours/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-tours url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/util/HISTORY.rst b/packages/util/HISTORY.rst index 118f0bc41ca..27c0329fe2b 100644 --- a/packages/util/HISTORY.rst +++ b/packages/util/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/util/setup.cfg b/packages/util/setup.cfg index 2ff9c1906cb..dd701b223e2 100644 --- a/packages/util/setup.cfg +++ b/packages/util/setup.cfg @@ -28,7 +28,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-util url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/web_apps/HISTORY.rst b/packages/web_apps/HISTORY.rst index 785ffd76ceb..118dc21ee06 100644 --- a/packages/web_apps/HISTORY.rst +++ b/packages/web_apps/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/web_apps/setup.cfg b/packages/web_apps/setup.cfg index 1e29874d5c0..d3d0c49b655 100644 --- a/packages/web_apps/setup.cfg +++ b/packages/web_apps/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-web-apps url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/web_framework/HISTORY.rst b/packages/web_framework/HISTORY.rst index fda61beaa5f..86a95ea2512 100644 --- a/packages/web_framework/HISTORY.rst +++ b/packages/web_framework/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/web_framework/setup.cfg b/packages/web_framework/setup.cfg index 651656b4c87..b14df39b13c 100644 --- a/packages/web_framework/setup.cfg +++ b/packages/web_framework/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-web-framework url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True diff --git a/packages/web_stack/HISTORY.rst b/packages/web_stack/HISTORY.rst index 7ae3caf2dc2..033d5137e66 100644 --- a/packages/web_stack/HISTORY.rst +++ b/packages/web_stack/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.2.1.dev0 +----------- + + + ------------------- 24.2.0 (2025-02-06) ------------------- diff --git a/packages/web_stack/setup.cfg b/packages/web_stack/setup.cfg index 0d57e8ea1d0..eadbc781f02 100644 --- a/packages/web_stack/setup.cfg +++ b/packages/web_stack/setup.cfg @@ -27,7 +27,7 @@ long_description = file: README.rst, HISTORY.rst long_description_content_type = text/x-rst name = galaxy-web-stack url = https://github.com/galaxyproject/galaxy -version = 24.2.0 +version = 24.2.1.dev0 [options] include_package_data = True