diff --git a/packages/app/HISTORY.rst b/packages/app/HISTORY.rst index c68d6c7dbe2..b8575a4023e 100644 --- a/packages/app/HISTORY.rst +++ b/packages/app/HISTORY.rst @@ -3,12 +3,62 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Raise exception if collection elements missing during download by `@jdavcs `_ in `#18094 `_ +* Allow purge query param, deprecate purge body param by `@mvdbeek `_ in `#18105 `_ +* Backport OIDC schema fix by `@mvdbeek `_ in `#18111 `_ +* Don't log exception if cancelled slurm job doesn't have stderr file by `@mvdbeek `_ in `#18121 `_ +* Downgrade missing output file in working directory to warning for failed jobs by `@mvdbeek `_ in `#18123 `_ +* Fix data default values not getting added to history by `@mvdbeek `_ in `#18132 `_ +* Drop redundant error message by `@mvdbeek `_ in `#18156 `_ +* Emit warning when user-cancelled job already complete by `@mvdbeek `_ in `#18178 `_ +* Avoid object store path lookup when constructing JobState object by `@mvdbeek `_ in `#18190 `_ +* Add string cast for dbkey / genome_build by `@mvdbeek `_ in `#18207 `_ +* Check dataset state when attempting to acces dataset contents by `@mvdbeek `_ in `#18214 `_ +* Don't set dataset peek for errored jobs by `@mvdbeek `_ in `#18231 `_ +* Raise exception when extracting dataset from collection without datasets by `@mvdbeek `_ in `#18249 `_ +* Skip tests if toolshed, dx.doi not responding by `@mvdbeek `_ in `#18250 `_ +* Don't attempt to download purged datasets by `@mvdbeek `_ in `#18278 `_ +* Check various preconditions in FeatureLocationIndexDataProvider by `@davelopez `_ in `#18283 `_ +* Don't serialize display application links for deleted datasets by `@mvdbeek `_ in `#18307 `_ +* Downgrade doi fetch error to debug by `@mvdbeek `_ in `#18330 `_ +* Fix authentication error for anonymous users querying jobs by `@davelopez `_ in `#18333 `_ +* Fix seek in slurm memory check by `@mvdbeek `_ in `#18338 `_ +* Do not copy purged outputs to object store by `@mvdbeek `_ in `#18342 `_ +* Kill pulsar job if job stopped on galaxy side by `@mvdbeek `_ in `#18348 `_ +* Allow DCE as outer input to to_cwl by `@mvdbeek `_ in `#18349 `_ +* Fix anonymous user job retrieval logic by `@davelopez `_ in `#18358 `_ +* Fix update group API payload model by `@davelopez `_ in `#18374 `_ +* Fix user's private role can be missing by `@davelopez `_ in `#18381 `_ +* Fix null inputs in database operation tools by `@mvdbeek `_ in `#18385 `_ +* Assign default ``data`` extension on discovered collection output by `@mvdbeek `_ in `#18389 `_ +* Fix ``get_accessible_job`` if called without session by `@mvdbeek `_ in `#18400 `_ +* Fix invocation step_job_summary for new collections by `@mvdbeek `_ in `#18402 `_ +* Really allow in-range validator for txt by `@bernt-matthias `_ in `#18411 `_ +* Fix collection map over status for dragged collections by `@mvdbeek `_ in `#18416 `_ +* Serialize purged flag for datasets in collections by `@davelopez `_ in `#18420 `_ + +============= +Other changes +============= + +* Minor linting cleanup by `@mvdbeek `_ in `#18421 `_ +* Replace busybox:ubuntu-14.04 image with busybox:1.36.1-glibc by `@mvdbeek `_ in `#18428 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/auth/HISTORY.rst b/packages/auth/HISTORY.rst index e87c36a5240..c5d433026ae 100644 --- a/packages/auth/HISTORY.rst +++ b/packages/auth/HISTORY.rst @@ -3,12 +3,18 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + +No recorded changes since last release + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/config/HISTORY.rst b/packages/config/HISTORY.rst index 746ecf383fc..d92bd04d97d 100644 --- a/packages/config/HISTORY.rst +++ b/packages/config/HISTORY.rst @@ -3,12 +3,30 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Backport OIDC schema fix by `@mvdbeek `_ in `#18111 `_ +* Minor fix to enable external hgweb process by `@mvdbeek `_ in `#18256 `_ + +============= +Other changes +============= + +* Replace busybox:ubuntu-14.04 image with busybox:1.36.1-glibc by `@mvdbeek `_ in `#18428 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/data/HISTORY.rst b/packages/data/HISTORY.rst index 1d3a447f88b..baf0ef4ac16 100644 --- a/packages/data/HISTORY.rst +++ b/packages/data/HISTORY.rst @@ -3,12 +3,37 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Downgrade count lines error to warning by `@mvdbeek `_ in `#18175 `_ +* Don't set dataset peek for errored jobs by `@mvdbeek `_ in `#18231 `_ +* Transparently open compressed files in DatasetDataProvider by `@mvdbeek `_ in `#18248 `_ +* Raise exception when extracting dataset from collection without datasets by `@mvdbeek `_ in `#18249 `_ +* Set page importable to false when serializing by `@mvdbeek `_ in `#18263 `_ +* Fix first_dataset_element type hint by `@mvdbeek `_ in `#18284 `_ +* Do not copy purged outputs to object store by `@mvdbeek `_ in `#18342 `_ +* Fix user's private role can be missing by `@davelopez `_ in `#18381 `_ +* Assign default ``data`` extension on discovered collection output by `@mvdbeek `_ in `#18389 `_ + +============= +Other changes +============= + +* Replace busybox:ubuntu-14.04 image with busybox:1.36.1-glibc by `@mvdbeek `_ in `#18428 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/files/HISTORY.rst b/packages/files/HISTORY.rst index 2fc21b40fea..698db21f7ba 100644 --- a/packages/files/HISTORY.rst +++ b/packages/files/HISTORY.rst @@ -3,12 +3,27 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Fix listing possibly untitled records in Invenio Plugin by `@davelopez `_ in `#18130 `_ +* Raise ``RequestParameterInvalidException`` when url is invalid by `@mvdbeek `_ in `#18155 `_ +* Fix error message when accessing restricted Zenodo records by `@davelopez `_ in `#18169 `_ +* Raise ``RequestParameterInvalidException`` if url can't be verified by `@mvdbeek `_ in `#18230 `_ +* Fix Invenio credentials handling by `@davelopez `_ in `#18255 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/job_execution/HISTORY.rst b/packages/job_execution/HISTORY.rst index 65d9d424461..7b117b84015 100644 --- a/packages/job_execution/HISTORY.rst +++ b/packages/job_execution/HISTORY.rst @@ -3,12 +3,27 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Include traceback when logging email PJA exception by `@mvdbeek `_ in `#18122 `_ +* Don't commit in ``DeleteIntermediatesAction`` by `@mvdbeek `_ in `#18131 `_ +* Don't fail metadata if we only have an extra output files dir by `@mvdbeek `_ in `#18179 `_ +* Don't set dataset peek for errored jobs by `@mvdbeek `_ in `#18231 `_ +* Do not copy purged outputs to object store by `@mvdbeek `_ in `#18342 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/job_metrics/HISTORY.rst b/packages/job_metrics/HISTORY.rst index aa0c39f3599..3d9a6b3a6fa 100644 --- a/packages/job_metrics/HISTORY.rst +++ b/packages/job_metrics/HISTORY.rst @@ -3,12 +3,18 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + +No recorded changes since last release + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/navigation/HISTORY.rst b/packages/navigation/HISTORY.rst index 0db4ab93679..9ec77a0ee90 100644 --- a/packages/navigation/HISTORY.rst +++ b/packages/navigation/HISTORY.rst @@ -3,12 +3,18 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + +No recorded changes since last release + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/objectstore/HISTORY.rst b/packages/objectstore/HISTORY.rst index 2f6dc31f61a..7887ac6d8de 100644 --- a/packages/objectstore/HISTORY.rst +++ b/packages/objectstore/HISTORY.rst @@ -3,12 +3,25 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Include stack when reporting delete error by `@mvdbeek `_ in `#18208 `_ +* Only log error if deleting directory really failed by `@mvdbeek `_ in `#18236 `_ +* Do not copy purged outputs to object store by `@mvdbeek `_ in `#18342 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/schema/HISTORY.rst b/packages/schema/HISTORY.rst index 16def6b775a..ba88e02d53e 100644 --- a/packages/schema/HISTORY.rst +++ b/packages/schema/HISTORY.rst @@ -3,12 +3,28 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* do not expand datasets that are known to be inaccessible by `@martenson `_ in `#17818 `_ +* Allow purge query param, deprecate purge body param by `@mvdbeek `_ in `#18105 `_ +* Fix deprecated `deprecated` argument by `@mvdbeek `_ in `#18119 `_ +* Fix users API serialization when listing users by `@davelopez `_ in `#18329 `_ +* Fix update group API payload model by `@davelopez `_ in `#18374 `_ +* Serialize purged flag for datasets in collections by `@davelopez `_ in `#18420 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/selenium/HISTORY.rst b/packages/selenium/HISTORY.rst index 5beab1aae25..8c4921ee9da 100644 --- a/packages/selenium/HISTORY.rst +++ b/packages/selenium/HISTORY.rst @@ -3,12 +3,18 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + +No recorded changes since last release + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/test_api/HISTORY.rst b/packages/test_api/HISTORY.rst index 792c69a9334..40c1b9ca9cb 100644 --- a/packages/test_api/HISTORY.rst +++ b/packages/test_api/HISTORY.rst @@ -3,12 +3,26 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Allow purge query param, deprecate purge body param by `@mvdbeek `_ in `#18105 `_ +* Prevent anonymous and inactive users from running workflows by `@ahmedhamidawan `_ in `#18192 `_ +* Check dataset state when attempting to acces dataset contents by `@mvdbeek `_ in `#18214 `_ +* Fix update group API payload model by `@davelopez `_ in `#18374 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/test_base/HISTORY.rst b/packages/test_base/HISTORY.rst index 29b15902729..f1263c27fdf 100644 --- a/packages/test_base/HISTORY.rst +++ b/packages/test_base/HISTORY.rst @@ -3,12 +3,23 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Fix submitted value in workflow run form if data is constrained by tag filter by `@mvdbeek `_ in `#18193 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/test_driver/HISTORY.rst b/packages/test_driver/HISTORY.rst index 35bc848859c..b00f3c6277e 100644 --- a/packages/test_driver/HISTORY.rst +++ b/packages/test_driver/HISTORY.rst @@ -3,12 +3,24 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Skip tests if toolshed, dx.doi not responding by `@mvdbeek `_ in `#18250 `_ +* Move tool shed specific driver function to tool_shed.test by `@mvdbeek `_ in `#18296 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/tool_shed/HISTORY.rst b/packages/tool_shed/HISTORY.rst index 4d37ec4ce31..9a1b9b823de 100644 --- a/packages/tool_shed/HISTORY.rst +++ b/packages/tool_shed/HISTORY.rst @@ -3,12 +3,25 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Add ``hgweb_repo_prefix`` attribute to ``TestToolShedConfig`` by `@nsoranzo `_ in `#18268 `_ +* Fix tool_shed package unit tests by `@mvdbeek `_ in `#18327 `_ +* Fix one more tool shed unit test by `@mvdbeek `_ in `#18328 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/tool_util/HISTORY.rst b/packages/tool_util/HISTORY.rst index 1192cd5b732..aa255df56c7 100644 --- a/packages/tool_util/HISTORY.rst +++ b/packages/tool_util/HISTORY.rst @@ -3,12 +3,26 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Allow purge query param, deprecate purge body param by `@mvdbeek `_ in `#18105 `_ +* Make sure that all Linter subclasses are imported for listing them by `@bernt-matthias `_ in `#18339 `_ +* Assign default ``data`` extension on discovered collection output by `@mvdbeek `_ in `#18389 `_ +* Allow in_range validator for selects by `@bernt-matthias `_ in `#18403 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/tours/HISTORY.rst b/packages/tours/HISTORY.rst index 98b94ca159c..5360198d146 100644 --- a/packages/tours/HISTORY.rst +++ b/packages/tours/HISTORY.rst @@ -3,12 +3,18 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + +No recorded changes since last release + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/util/HISTORY.rst b/packages/util/HISTORY.rst index f181c3c71bc..983c2c9f0db 100644 --- a/packages/util/HISTORY.rst +++ b/packages/util/HISTORY.rst @@ -3,12 +3,23 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Use config_section to distinguish between galaxy and ts or other apps by `@jdavcs `_ in `#18215 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/web_apps/HISTORY.rst b/packages/web_apps/HISTORY.rst index 364d1133a1d..5f235fa2f35 100644 --- a/packages/web_apps/HISTORY.rst +++ b/packages/web_apps/HISTORY.rst @@ -3,12 +3,45 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* do not expand datasets that are known to be inaccessible by `@martenson `_ in `#17818 `_ +* Raise exception if collection elements missing during download by `@jdavcs `_ in `#18094 `_ +* Allow purge query param, deprecate purge body param by `@mvdbeek `_ in `#18105 `_ +* Prevent anonymous and inactive users from running workflows by `@ahmedhamidawan `_ in `#18192 `_ +* Fix `make all histories private` with immutable histories by `@davelopez `_ in `#18200 `_ +* Fix pca 3d rendering of tabular files and visualization error handling in general by `@mvdbeek `_ in `#18211 `_ +* Check dataset state when attempting to acces dataset contents by `@mvdbeek `_ in `#18214 `_ +* Restrict job_files access to jobs that are not terminal by `@mvdbeek `_ in `#18217 `_ +* Raise appropriate exception if accessing deleted input file by `@mvdbeek `_ in `#18223 `_ +* Fix element serialization for collections that aren't populated yet by `@mvdbeek `_ in `#18235 `_ +* Skip new history creation if user is anonymous and login is required by `@mvdbeek `_ in `#18319 `_ +* Fix users API serialization when listing users by `@davelopez `_ in `#18329 `_ +* Fix authentication error for anonymous users querying jobs by `@davelopez `_ in `#18333 `_ +* Do not copy purged outputs to object store by `@mvdbeek `_ in `#18342 `_ +* Fix anonymous user job retrieval logic by `@davelopez `_ in `#18358 `_ +* Fix update group API payload model by `@davelopez `_ in `#18374 `_ +* Drop unnecessary escaping for workflow name and annotation by `@mvdbeek `_ in `#18376 `_ + +============= +Other changes +============= + +* Decrease log level for expected visualization errors by `@mvdbeek `_ in `#18229 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/web_framework/HISTORY.rst b/packages/web_framework/HISTORY.rst index f3bb5f762ef..751ff2d0c48 100644 --- a/packages/web_framework/HISTORY.rst +++ b/packages/web_framework/HISTORY.rst @@ -3,12 +3,24 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + + +========= +Bug fixes +========= + +* Reset content-length for unhandled exceptions by `@mvdbeek `_ in `#18233 `_ +* More fixes for running the TS with external hgweb by `@mvdbeek `_ in `#18279 `_ + ------------------- 24.0.2 (2024-05-07) ------------------- diff --git a/packages/web_stack/HISTORY.rst b/packages/web_stack/HISTORY.rst index bcb6837658c..81960228e06 100644 --- a/packages/web_stack/HISTORY.rst +++ b/packages/web_stack/HISTORY.rst @@ -3,12 +3,18 @@ History .. to_doc ---------- -24.1.dev0 ---------- +----------- +24.1.0.dev0 +----------- +------------------- +24.0.3 (2024-06-28) +------------------- + +No recorded changes since last release + ------------------- 24.0.2 (2024-05-07) -------------------