From 2f1b6e2a36c5bd910e559fad70e4cef2df6c6cea Mon Sep 17 00:00:00 2001 From: mvdbeek Date: Tue, 24 Sep 2024 15:18:35 +0200 Subject: [PATCH 1/3] Limit max number of items in dataproviders that support pagination to 10000. Clients can always request more data via offset requests, but since this is not a streaming API we need to build the response in memory before we can start sending. --- client/src/api/schema/schema.ts | 8 ++++++-- lib/galaxy/datatypes/dataproviders/base.py | 14 ++++++------- lib/galaxy/webapps/galaxy/api/datasets.py | 24 +++++++++++++++++++--- 3 files changed, 34 insertions(+), 12 deletions(-) diff --git a/client/src/api/schema/schema.ts b/client/src/api/schema/schema.ts index 0659ad0d08d9..0e1e42008a65 100644 --- a/client/src/api/schema/schema.ts +++ b/client/src/api/schema/schema.ts @@ -127,7 +127,7 @@ export interface paths { "/api/datasets/{dataset_id}": { /** * Displays information about and/or content of a dataset. - * @description **Note**: Due to the multipurpose nature of this endpoint, which can receive a wild variety of parameters + * @description **Note**: Due to the multipurpose nature of this endpoint, which can receive a wide variety of parameters * and return different kinds of responses, the documentation here will be limited. * To get more information please check the source code. */ @@ -14366,18 +14366,22 @@ export interface operations { show_api_datasets__dataset_id__get: { /** * Displays information about and/or content of a dataset. - * @description **Note**: Due to the multipurpose nature of this endpoint, which can receive a wild variety of parameters + * @description **Note**: Due to the multipurpose nature of this endpoint, which can receive a wide variety of parameters * and return different kinds of responses, the documentation here will be limited. * To get more information please check the source code. */ parameters: { /** @description The type of information about the dataset to be requested. */ /** @description The type of information about the dataset to be requested. Each of these values may require additional parameters in the request and may return different responses. */ + /** @description Maximum number of items to return. Currently only applies to `data_type=raw_data` requests */ + /** @description Starts at the beginning skip the first ( offset - 1 ) items and begin returning at the Nth item. Currently only applies to `data_type=raw_data` requests */ /** @description View to be passed to the serializer */ /** @description Comma-separated list of keys to be passed to the serializer */ query?: { hda_ldda?: components["schemas"]["DatasetSourceType"]; data_type?: components["schemas"]["RequestDataType"] | null; + limit?: number | null; + offset?: number | null; view?: string | null; keys?: string | null; }; diff --git a/lib/galaxy/datatypes/dataproviders/base.py b/lib/galaxy/datatypes/dataproviders/base.py index c1239f86b9ff..a271437f184e 100644 --- a/lib/galaxy/datatypes/dataproviders/base.py +++ b/lib/galaxy/datatypes/dataproviders/base.py @@ -36,6 +36,7 @@ def stop( self ): self.endpoint = source.tell(); raise StopIteration() Building a giant list by sweeping all possible dprov classes doesn't make sense For now - I'm burying them in the class __init__s - but I don't like that """ +MAX_LIMIT = 10000 # ----------------------------------------------------------------------------- base classes @@ -233,21 +234,20 @@ class LimitedOffsetDataProvider(FilteredDataProvider): settings = {"limit": "int", "offset": "int"} # TODO: may want to squash this into DataProvider - def __init__(self, source, offset=0, limit=None, **kwargs): + def __init__(self, source, offset=0, limit=MAX_LIMIT, **kwargs): """ :param offset: the number of data to skip before providing. :param limit: the final number of data to provide. """ super().__init__(source, **kwargs) - # how many valid data to skip before we start outputing data - must be positive - # (diff to support neg. indeces - must be pos.) - self.offset = max(offset, 0) + # how many valid data to skip before we start outputting data - must be positive + self.offset = offset - # how many valid data to return - must be positive (None indicates no limit) + # how many valid data to return - must be positive + if limit is None: + limit = MAX_LIMIT self.limit = limit - if self.limit is not None: - self.limit = max(self.limit, 0) def __iter__(self): """ diff --git a/lib/galaxy/webapps/galaxy/api/datasets.py b/lib/galaxy/webapps/galaxy/api/datasets.py index 53006b4ee8c1..9859f7a7b686 100644 --- a/lib/galaxy/webapps/galaxy/api/datasets.py +++ b/lib/galaxy/webapps/galaxy/api/datasets.py @@ -29,6 +29,7 @@ ) from typing_extensions import Annotated +from galaxy.datatypes.dataproviders.base import MAX_LIMIT from galaxy.schema import ( FilterQueryParams, SerializationParams, @@ -432,18 +433,35 @@ def show( "may return different responses." ), ), + limit: Annotated[ + Optional[int], + Query( + ge=1, + le=MAX_LIMIT, + description="Maximum number of items to return. Currently only applies to `data_type=raw_data` requests", + ), + ] = MAX_LIMIT, + offset: Annotated[ + Optional[int], + Query( + ge=0, + description="Starts at the beginning skip the first ( offset - 1 ) items and begin returning at the Nth item. Currently only applies to `data_type=raw_data` requests", + ), + ] = 0, serialization_params: SerializationParams = Depends(query_serialization_params), ): """ - **Note**: Due to the multipurpose nature of this endpoint, which can receive a wild variety of parameters + **Note**: Due to the multipurpose nature of this endpoint, which can receive a wide variety of parameters and return different kinds of responses, the documentation here will be limited. To get more information please check the source code. """ - exclude_params = {"hda_ldda", "data_type"} + exclude_params = {"hda_ldda", "data_type", "limit", "offset"} exclude_params.update(SerializationParams.model_fields.keys()) extra_params = get_query_parameters_from_request_excluding(request, exclude_params) - return self.service.show(trans, dataset_id, hda_ldda, serialization_params, data_type, **extra_params) + return self.service.show( + trans, dataset_id, hda_ldda, serialization_params, data_type, limit=limit, offset=offset, **extra_params + ) @router.get( "/api/datasets/{dataset_id}/content/{content_type}", From b34611f42285e9ebbf3fefb51950e7db6d56e8ba Mon Sep 17 00:00:00 2001 From: Matthias Bernt Date: Wed, 25 Sep 2024 14:29:26 +0200 Subject: [PATCH 2/3] Create version 24.1.2 --- lib/galaxy/version.py | 2 +- packages/app/HISTORY.rst | 51 ++++++++++++++++++++++++++++-- packages/app/setup.cfg | 2 +- packages/auth/HISTORY.rst | 8 ++--- packages/auth/setup.cfg | 2 +- packages/config/HISTORY.rst | 26 +++++++++++++-- packages/config/setup.cfg | 2 +- packages/data/HISTORY.rst | 32 +++++++++++++++++-- packages/data/setup.cfg | 2 +- packages/files/HISTORY.rst | 8 ++--- packages/files/setup.cfg | 2 +- packages/job_execution/HISTORY.rst | 11 +++++-- packages/job_execution/setup.cfg | 2 +- packages/job_metrics/HISTORY.rst | 8 ++--- packages/job_metrics/setup.cfg | 2 +- packages/navigation/HISTORY.rst | 8 ++--- packages/navigation/setup.cfg | 2 +- packages/objectstore/HISTORY.rst | 11 +++++-- packages/objectstore/setup.cfg | 2 +- packages/schema/HISTORY.rst | 22 +++++++++++-- packages/schema/setup.cfg | 2 +- packages/selenium/HISTORY.rst | 8 ++--- packages/selenium/setup.cfg | 2 +- packages/test_api/HISTORY.rst | 23 ++++++++++++-- packages/test_api/setup.cfg | 2 +- packages/test_base/HISTORY.rst | 13 ++++++-- packages/test_base/setup.cfg | 2 +- packages/test_driver/HISTORY.rst | 8 ++--- packages/test_driver/setup.cfg | 2 +- packages/tool_shed/HISTORY.rst | 8 ++--- packages/tool_shed/setup.cfg | 2 +- packages/tool_util/HISTORY.rst | 18 +++++++++-- packages/tool_util/setup.cfg | 2 +- packages/tours/HISTORY.rst | 8 ++--- packages/tours/setup.cfg | 2 +- packages/util/HISTORY.rst | 18 +++++++++-- packages/util/setup.cfg | 2 +- packages/web_apps/HISTORY.rst | 38 ++++++++++++++++++++-- packages/web_apps/setup.cfg | 2 +- packages/web_framework/HISTORY.rst | 13 ++++++-- packages/web_framework/setup.cfg | 2 +- packages/web_stack/HISTORY.rst | 8 ++--- packages/web_stack/setup.cfg | 2 +- 43 files changed, 298 insertions(+), 94 deletions(-) diff --git a/lib/galaxy/version.py b/lib/galaxy/version.py index 127856da436f..8447b0537e06 100644 --- a/lib/galaxy/version.py +++ b/lib/galaxy/version.py @@ -1,3 +1,3 @@ VERSION_MAJOR = "24.1" -VERSION_MINOR = "2.dev0" +VERSION_MINOR = "2" VERSION = VERSION_MAJOR + (f".{VERSION_MINOR}" if VERSION_MINOR else "") diff --git a/packages/app/HISTORY.rst b/packages/app/HISTORY.rst index a01c8a3a25c1..6b4fe789a1f3 100644 --- a/packages/app/HISTORY.rst +++ b/packages/app/HISTORY.rst @@ -3,11 +3,56 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= + +* 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 `_ +* Prevent job submission if input collection element is deleted by `@mvdbeek `_ in `#18517 `_ +* Strip unicode null from tool stdio by `@mvdbeek `_ in `#18527 `_ +* Fix map over calculation for runtime inputs by `@mvdbeek `_ in `#18535 `_ +* Fix for not-null in 'column_list' object by `@hujambo-dunia `_ in `#18553 `_ +* Also fail ``ensure_dataset_on_disk`` if dataset is in new state by `@mvdbeek `_ in `#18559 `_ +* Fix sqlalchemy statement in tooltagmanager reset output by `@dannon `_ in `#18591 `_ +* Set minimum weasyprint version by `@mvdbeek `_ in `#18606 `_ +* Improve relabel identifiers message when number of columns is not 2 by `@mvdbeek `_ in `#18634 `_ +* Fix extract workflow from history when implicit collection has no jobs by `@mvdbeek `_ in `#18661 `_ +* Make sure we set file size also for purged outputs by `@mvdbeek `_ in `#18681 `_ +* File source and object store instance api fixes by `@mvdbeek `_ in `#18685 `_ +* Fix change datatype PJA on expression tool data outputs by `@mvdbeek `_ in `#18691 `_ +* Fill in missing help for cross product tools. by `@jmchilton `_ in `#18698 `_ +* Fix subworkflow scheduling for delayed subworkflow steps connected to data inputs by `@mvdbeek `_ in `#18731 `_ +* Catch and display exceptions when importing malformatted yaml workflows by `@mvdbeek `_ in `#18734 `_ +* Fix infinitely delayed workflow scheduling if skipped step creates HDCA by `@mvdbeek `_ in `#18751 `_ +* Fix directory get or create logic by `@mvdbeek `_ in `#18752 `_ +* Fix job summary for optional unset job data inputs by `@mvdbeek `_ in `#18754 `_ +* Allow to change only the description of a quota by `@bernt-matthias `_ in `#18775 `_ +* Fix wrong extension on pick data output by `@mvdbeek `_ in `#18798 `_ +* Fix unspecified ``oidc_endpoint`` variable overwriting specified ``redirect_url`` by `@bgruening `_ in `#18818 `_ +* Fix wrong celery_app config on job and workflow handlers by `@mvdbeek `_ in `#18819 `_ +* Fix ``named cursor is not valid anymore`` by `@mvdbeek `_ in `#18825 `_ +* Tighten TRS url check by `@mvdbeek `_ in `#18841 `_ +* Fix Workflow index bookmark filter by `@itisAliRH `_ in `#18842 `_ +* Skip metric collection if job working directory doesn't exist by `@mvdbeek `_ in `#18845 `_ +* Extend on disk checks to running, queued and error states by `@mvdbeek `_ in `#18846 `_ +* Raise MessageException instead of assertions on rerun problems by `@mvdbeek `_ in `#18858 `_ +* Fix data_column ref to nested collection by `@mvdbeek `_ in `#18875 `_ +* Fix loading very old workflows with data inputs by `@mvdbeek `_ in `#18876 `_ + +============ +Enhancements +============ +* Include workflow invocation id in exception logs by `@mvdbeek `_ in `#18594 `_ +* Implemented the generic OIDC backend from python-social-auth into Gal… by `@Edmontosaurus `_ in `#18670 `_ +* Collect job metrics also when job failed by `@mvdbeek `_ in `#18809 `_ +* prevent "missing refresh_token" errors by supporting also with Keycloak backend by `@ljocha `_ in `#18826 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/app/setup.cfg b/packages/app/setup.cfg index cb942f671857..8d067b1afe6d 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/auth/HISTORY.rst b/packages/auth/HISTORY.rst index c0cbc0c0d8c3..72450a70903e 100644 --- a/packages/auth/HISTORY.rst +++ b/packages/auth/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/auth/setup.cfg b/packages/auth/setup.cfg index 44bac91c764a..25b71dc16efa 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/config/HISTORY.rst b/packages/config/HISTORY.rst index f9cf20c3f0f6..ecf0f191d0e4 100644 --- a/packages/config/HISTORY.rst +++ b/packages/config/HISTORY.rst @@ -3,11 +3,31 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + + +========= +Bug fixes +========= + +* Strip whitespace when listifying admin users by `@jdavcs `_ in `#18656 `_ +============ +Enhancements +============ + +* Make `default_panel_view` a `_by_host` option by `@natefoo `_ in `#18471 `_ +* More datatype deprecation warnings by `@mvdbeek `_ in `#18612 `_ +* Implemented the generic OIDC backend from python-social-auth into Gal… by `@Edmontosaurus `_ in `#18670 `_ + +============= +Other changes +============= +* Backport pod5 datatype by `@TomHarrop `_ in `#18507 `_ +* Backport PR 18630 "Add BlobToolkit to the list of interactive tools" to release_24.1 by `@cat-bro `_ in `#18784 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/config/setup.cfg b/packages/config/setup.cfg index 8b66d4c8be59..e4bfd764fdef 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/data/HISTORY.rst b/packages/data/HISTORY.rst index 5092affb1e05..5a6e54d4e89d 100644 --- a/packages/data/HISTORY.rst +++ b/packages/data/HISTORY.rst @@ -3,11 +3,37 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= + +* Increase API robustness to invalid requests, improve compressed data serving by `@mvdbeek `_ in `#18494 `_ +* Prevent job submission if input collection element is deleted by `@mvdbeek `_ in `#18517 `_ +* Fix shared caches with extended metadata collection. by `@jmchilton `_ in `#18520 `_ +* Also check dataset.deleted when determining if data can be displayed by `@mvdbeek `_ in `#18547 `_ +* Fix for not-null in 'column_list' object by `@hujambo-dunia `_ in `#18553 `_ +* Fix h5ad metadata by `@nilchia `_ in `#18635 `_ +* Don't set file size to zero by `@mvdbeek `_ in `#18653 `_ +* Make sure we set file size also for purged outputs by `@mvdbeek `_ in `#18681 `_ +* Fix wrong extension on pick data output by `@mvdbeek `_ in `#18798 `_ +* Fix copying workflow with subworkflow step for step that you own by `@mvdbeek `_ in `#18802 `_ +* Make pylibmagic import optional by `@mvdbeek `_ in `#18813 `_ +* Ignore converted datasets in invalid input states by `@mvdbeek `_ in `#18850 `_ +* Fix discovered outputs with directory metadata and distributed object by `@mvdbeek `_ in `#18855 `_ +* Raise MessageException instead of assertions on rerun problems by `@mvdbeek `_ in `#18858 `_ +* Fix wrong final state when init_from is used by `@mvdbeek `_ in `#18871 `_ +* Fix history import when parent_hda not serialized by `@mvdbeek `_ in `#18873 `_ + +============= +Other changes +============= +* Backport pod5 datatype by `@TomHarrop `_ in `#18507 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/data/setup.cfg b/packages/data/setup.cfg index 4d8cee887fd9..450a66916897 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/files/HISTORY.rst b/packages/files/HISTORY.rst index 0827590918d1..a1c537b77345 100644 --- a/packages/files/HISTORY.rst +++ b/packages/files/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/files/setup.cfg b/packages/files/setup.cfg index 198052e2cc25..eabac412a0a8 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/job_execution/HISTORY.rst b/packages/job_execution/HISTORY.rst index c43f9b0c30dc..409df54e7732 100644 --- a/packages/job_execution/HISTORY.rst +++ b/packages/job_execution/HISTORY.rst @@ -3,11 +3,16 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= +* Retry container monitor POST if it fails (don't assume it succeeded) by `@natefoo `_ in `#18863 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/job_execution/setup.cfg b/packages/job_execution/setup.cfg index d5f7f2bf4379..295f6528b505 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/job_metrics/HISTORY.rst b/packages/job_metrics/HISTORY.rst index 76b0afce976b..65672b77b3a0 100644 --- a/packages/job_metrics/HISTORY.rst +++ b/packages/job_metrics/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/job_metrics/setup.cfg b/packages/job_metrics/setup.cfg index bb20a15f6637..a46a3685f144 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/navigation/HISTORY.rst b/packages/navigation/HISTORY.rst index e1fcd22d984f..bf47150055bb 100644 --- a/packages/navigation/HISTORY.rst +++ b/packages/navigation/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/navigation/setup.cfg b/packages/navigation/setup.cfg index 6dbcdaafcb19..5875c9eaafe8 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/objectstore/HISTORY.rst b/packages/objectstore/HISTORY.rst index ffcff6f795dc..3eef2e167999 100644 --- a/packages/objectstore/HISTORY.rst +++ b/packages/objectstore/HISTORY.rst @@ -3,11 +3,16 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= +* Fix shared caches with extended metadata collection. by `@jmchilton `_ in `#18520 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/objectstore/setup.cfg b/packages/objectstore/setup.cfg index 38a0e8cf40b8..d700c8e59f2b 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/schema/HISTORY.rst b/packages/schema/HISTORY.rst index 0fafdcb684cd..5f30f1ec9783 100644 --- a/packages/schema/HISTORY.rst +++ b/packages/schema/HISTORY.rst @@ -3,11 +3,27 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= + +* Handle error when workflow is unowned in Invocation view by `@ahmedhamidawan `_ in `#18730 `_ +* Fix datatype validation of newly built collection by `@mvdbeek `_ in `#18738 `_ +* Fix job summary for optional unset job data inputs by `@mvdbeek `_ in `#18754 `_ +* Fix ``TypeError`` from Pydantic 2.9.0 by `@nsoranzo `_ in `#18788 `_ +* Fix wrong extension on pick data output by `@mvdbeek `_ in `#18798 `_ +* Make all fields optional for HelpForumPost by `@davelopez `_ in `#18839 `_ + +============ +Enhancements +============ +* Include workflow invocation id in exception logs by `@mvdbeek `_ in `#18594 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/schema/setup.cfg b/packages/schema/setup.cfg index 21987bc30fb4..c6bbf4ec1778 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/selenium/HISTORY.rst b/packages/selenium/HISTORY.rst index 1b5017e44597..16a90b5b1249 100644 --- a/packages/selenium/HISTORY.rst +++ b/packages/selenium/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/selenium/setup.cfg b/packages/selenium/setup.cfg index 799669cc8903..d90a94698378 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/test_api/HISTORY.rst b/packages/test_api/HISTORY.rst index 5e9ebad174f1..b45d74ca3ebb 100644 --- a/packages/test_api/HISTORY.rst +++ b/packages/test_api/HISTORY.rst @@ -3,11 +3,28 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= +* Prevent job submission if input collection element is deleted by `@mvdbeek `_ in `#18517 `_ +* Fix view parameter type in Job index API by `@davelopez `_ in `#18521 `_ +* Fix map over calculation for runtime inputs by `@mvdbeek `_ in `#18535 `_ +* Fix Archive header encoding by `@arash77 `_ in `#18583 `_ +* Don't set file size to zero by `@mvdbeek `_ in `#18653 `_ +* Fix extract workflow from history when implicit collection has no jobs by `@mvdbeek `_ in `#18661 `_ +* Fix change datatype PJA on expression tool data outputs by `@mvdbeek `_ in `#18691 `_ +* Fix subworkflow scheduling for delayed subworkflow steps connected to data inputs by `@mvdbeek `_ in `#18731 `_ +* Catch and display exceptions when importing malformatted yaml workflows by `@mvdbeek `_ in `#18734 `_ +* Fix infinitely delayed workflow scheduling if skipped step creates HDCA by `@mvdbeek `_ in `#18751 `_ +* Fix copying workflow with subworkflow step for step that you own by `@mvdbeek `_ in `#18802 `_ +* Raise MessageException instead of assertions on rerun problems by `@mvdbeek `_ in `#18858 `_ +* Fix data_column ref to nested collection by `@mvdbeek `_ in `#18875 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/test_api/setup.cfg b/packages/test_api/setup.cfg index 8fc3a5dbc334..680f9b59e788 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/test_base/HISTORY.rst b/packages/test_base/HISTORY.rst index 7867cc9a8686..65168be1c061 100644 --- a/packages/test_base/HISTORY.rst +++ b/packages/test_base/HISTORY.rst @@ -3,11 +3,18 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= +* Fix infinitely delayed workflow scheduling if skipped step creates HDCA by `@mvdbeek `_ in `#18751 `_ +* Fix wrong extension on pick data output by `@mvdbeek `_ in `#18798 `_ +* Fix data_column ref to nested collection by `@mvdbeek `_ in `#18875 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/test_base/setup.cfg b/packages/test_base/setup.cfg index 497247d478d5..26939a4cb6ba 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/test_driver/HISTORY.rst b/packages/test_driver/HISTORY.rst index 77740d14fb96..1a7fb845bbc4 100644 --- a/packages/test_driver/HISTORY.rst +++ b/packages/test_driver/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/test_driver/setup.cfg b/packages/test_driver/setup.cfg index c1de1fed8578..02c0ae6c17f6 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/tool_shed/HISTORY.rst b/packages/tool_shed/HISTORY.rst index efd9ed446874..404fb4d6db11 100644 --- a/packages/tool_shed/HISTORY.rst +++ b/packages/tool_shed/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/tool_shed/setup.cfg b/packages/tool_shed/setup.cfg index bb38254a06b8..a85c3bce1b7c 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/tool_util/HISTORY.rst b/packages/tool_util/HISTORY.rst index 16fa70ea4b66..0e630494bed2 100644 --- a/packages/tool_util/HISTORY.rst +++ b/packages/tool_util/HISTORY.rst @@ -3,11 +3,23 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= + +* Handle all requests error in ``ApiBiotoolsMetadataSource._raw_get_metadata`` by `@nsoranzo `_ in `#18510 `_ +* xsd: allow `change_format` and `actions` also in statically defined collection elements, and break recursion by `@bernt-matthias `_ in `#18605 `_ + +============ +Enhancements +============ +* Make `default_panel_view` a `_by_host` option by `@natefoo `_ in `#18471 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/tool_util/setup.cfg b/packages/tool_util/setup.cfg index 194481687d64..3ab01b2ce843 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/tours/HISTORY.rst b/packages/tours/HISTORY.rst index ebc29d06751a..ff76ec68d04b 100644 --- a/packages/tours/HISTORY.rst +++ b/packages/tours/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/tours/setup.cfg b/packages/tours/setup.cfg index c236c2202b8b..981707752a62 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/util/HISTORY.rst b/packages/util/HISTORY.rst index fed3f29e564a..472ce37790b7 100644 --- a/packages/util/HISTORY.rst +++ b/packages/util/HISTORY.rst @@ -3,11 +3,23 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= + +* Fix Archive header encoding by `@arash77 `_ in `#18583 `_ +* File source and object store instance api fixes by `@mvdbeek `_ in `#18685 `_ + +============ +Enhancements +============ +* Use smtplib send_message to support utf-8 chars in to and from by `@mvdbeek `_ in `#18805 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/util/setup.cfg b/packages/util/setup.cfg index 08067a739317..f8ed152bcaeb 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/web_apps/HISTORY.rst b/packages/web_apps/HISTORY.rst index a8daf79a97af..de7face2bee5 100644 --- a/packages/web_apps/HISTORY.rst +++ b/packages/web_apps/HISTORY.rst @@ -3,11 +3,43 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + + +========= +Bug fixes +========= + +* Return generic message for password reset email by `@ahmedhamidawan `_ in `#18479 `_ +* Fix view parameter type in Job index API by `@davelopez `_ in `#18521 `_ +* Check if dataset has any data before running provider checks by `@mvdbeek `_ in `#18526 `_ +* Raise appropriate exception if ldda not found by `@mvdbeek `_ in `#18569 `_ +* Close install model session when request ends by `@mvdbeek `_ in `#18629 `_ +* Fix resume_paused_jobs if no session provided by `@mvdbeek `_ in `#18640 `_ +* Fix extract workflow from history when implicit collection has no jobs by `@mvdbeek `_ in `#18661 `_ +* Return error when following a link to a non-ready display application by `@mvdbeek `_ in `#18672 `_ +* Only load authnz routes when oidc enabled by `@mvdbeek `_ in `#18683 `_ +* File source and object store instance api fixes by `@mvdbeek `_ in `#18685 `_ +* Fix sorting users in admin by last login by `@jdavcs `_ in `#18694 `_ +* Fix resume paused jobs response handling by `@dannon `_ in `#18733 `_ +* Fix wrong extension on pick data output by `@mvdbeek `_ in `#18798 `_ +* Tighten TRS url check by `@mvdbeek `_ in `#18841 `_ +* Fix Workflow index bookmark filter by `@itisAliRH `_ in `#18842 `_ +* Extend on disk checks to running, queued and error states by `@mvdbeek `_ in `#18846 `_ +============ +Enhancements +============ + +* Make `default_panel_view` a `_by_host` option by `@natefoo `_ in `#18471 `_ + +============= +Other changes +============= +* Fix check dataset check by `@mvdbeek `_ in `#18856 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/web_apps/setup.cfg b/packages/web_apps/setup.cfg index dfbb85e86dc0..ceb404777818 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/web_framework/HISTORY.rst b/packages/web_framework/HISTORY.rst index f09158a5f388..cc4a2f4b5d34 100644 --- a/packages/web_framework/HISTORY.rst +++ b/packages/web_framework/HISTORY.rst @@ -3,11 +3,18 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ +------------------- +24.1.2 (2024-09-25) +------------------- + +========= +Bug fixes +========= +* Increase API robustness to invalid requests, improve compressed data serving by `@mvdbeek `_ in `#18494 `_ +* Apply statsd arg sanitization to all pages by `@mvdbeek `_ in `#18509 `_ +* Close install model session when request ends by `@mvdbeek `_ in `#18629 `_ ------------------- 24.1.1 (2024-07-02) diff --git a/packages/web_framework/setup.cfg b/packages/web_framework/setup.cfg index 083f8622406d..0291ca017c09 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True diff --git a/packages/web_stack/HISTORY.rst b/packages/web_stack/HISTORY.rst index 91460bc9610d..be5f02f07a0a 100644 --- a/packages/web_stack/HISTORY.rst +++ b/packages/web_stack/HISTORY.rst @@ -3,11 +3,11 @@ History .. to_doc ------------ -24.1.2.dev0 ------------ - +------------------- +24.1.2 (2024-09-25) +------------------- +No recorded changes since last release ------------------- 24.1.1 (2024-07-02) diff --git a/packages/web_stack/setup.cfg b/packages/web_stack/setup.cfg index 2974323c3b3f..b709dc1f6e80 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 = 24.1.2.dev0 +version = 24.1.2 [options] include_package_data = True From c80ce1d431ebd296439a06452f4057ca72305d88 Mon Sep 17 00:00:00 2001 From: Matthias Bernt Date: Wed, 25 Sep 2024 14:29:29 +0200 Subject: [PATCH 3/3] Start work on 24.1.3.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 8447b0537e06..d7d7f3f7f491 100644 --- a/lib/galaxy/version.py +++ b/lib/galaxy/version.py @@ -1,3 +1,3 @@ VERSION_MAJOR = "24.1" -VERSION_MINOR = "2" +VERSION_MINOR = "3.dev0" VERSION = VERSION_MAJOR + (f".{VERSION_MINOR}" if VERSION_MINOR else "") diff --git a/packages/app/HISTORY.rst b/packages/app/HISTORY.rst index 6b4fe789a1f3..27a82fd91ccd 100644 --- a/packages/app/HISTORY.rst +++ b/packages/app/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/app/setup.cfg b/packages/app/setup.cfg index 8d067b1afe6d..80e4d38c3d85 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/auth/HISTORY.rst b/packages/auth/HISTORY.rst index 72450a70903e..b46693de1bb3 100644 --- a/packages/auth/HISTORY.rst +++ b/packages/auth/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/auth/setup.cfg b/packages/auth/setup.cfg index 25b71dc16efa..ab82a95b3be2 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/config/HISTORY.rst b/packages/config/HISTORY.rst index ecf0f191d0e4..e36fc636cb1f 100644 --- a/packages/config/HISTORY.rst +++ b/packages/config/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/config/setup.cfg b/packages/config/setup.cfg index e4bfd764fdef..68a09c9de456 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/data/HISTORY.rst b/packages/data/HISTORY.rst index 5a6e54d4e89d..3b7ca75f5722 100644 --- a/packages/data/HISTORY.rst +++ b/packages/data/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/data/setup.cfg b/packages/data/setup.cfg index 450a66916897..809981ea6394 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/files/HISTORY.rst b/packages/files/HISTORY.rst index a1c537b77345..8777207afa0f 100644 --- a/packages/files/HISTORY.rst +++ b/packages/files/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/files/setup.cfg b/packages/files/setup.cfg index eabac412a0a8..85b2493e0f5b 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/job_execution/HISTORY.rst b/packages/job_execution/HISTORY.rst index 409df54e7732..3f2f246b5331 100644 --- a/packages/job_execution/HISTORY.rst +++ b/packages/job_execution/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/job_execution/setup.cfg b/packages/job_execution/setup.cfg index 295f6528b505..1dfa56e605e2 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/job_metrics/HISTORY.rst b/packages/job_metrics/HISTORY.rst index 65672b77b3a0..025d1cb59bcf 100644 --- a/packages/job_metrics/HISTORY.rst +++ b/packages/job_metrics/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/job_metrics/setup.cfg b/packages/job_metrics/setup.cfg index a46a3685f144..83ce8bebcf0e 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/navigation/HISTORY.rst b/packages/navigation/HISTORY.rst index bf47150055bb..7c2eb4dde9ff 100644 --- a/packages/navigation/HISTORY.rst +++ b/packages/navigation/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/navigation/setup.cfg b/packages/navigation/setup.cfg index 5875c9eaafe8..63851150c254 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/objectstore/HISTORY.rst b/packages/objectstore/HISTORY.rst index 3eef2e167999..bbf9af4264fa 100644 --- a/packages/objectstore/HISTORY.rst +++ b/packages/objectstore/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/objectstore/setup.cfg b/packages/objectstore/setup.cfg index d700c8e59f2b..986fd23622e0 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/schema/HISTORY.rst b/packages/schema/HISTORY.rst index 5f30f1ec9783..eab78124ea70 100644 --- a/packages/schema/HISTORY.rst +++ b/packages/schema/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/schema/setup.cfg b/packages/schema/setup.cfg index c6bbf4ec1778..d8d9801ffcd5 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/selenium/HISTORY.rst b/packages/selenium/HISTORY.rst index 16a90b5b1249..514f1cd8b30d 100644 --- a/packages/selenium/HISTORY.rst +++ b/packages/selenium/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/selenium/setup.cfg b/packages/selenium/setup.cfg index d90a94698378..6e6e3028e5a0 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/test_api/HISTORY.rst b/packages/test_api/HISTORY.rst index b45d74ca3ebb..9c111a54405c 100644 --- a/packages/test_api/HISTORY.rst +++ b/packages/test_api/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/test_api/setup.cfg b/packages/test_api/setup.cfg index 680f9b59e788..e12a23480d30 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/test_base/HISTORY.rst b/packages/test_base/HISTORY.rst index 65168be1c061..8ff6be4ce45b 100644 --- a/packages/test_base/HISTORY.rst +++ b/packages/test_base/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/test_base/setup.cfg b/packages/test_base/setup.cfg index 26939a4cb6ba..10bf9226dfce 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/test_driver/HISTORY.rst b/packages/test_driver/HISTORY.rst index 1a7fb845bbc4..3c7b1543b69a 100644 --- a/packages/test_driver/HISTORY.rst +++ b/packages/test_driver/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/test_driver/setup.cfg b/packages/test_driver/setup.cfg index 02c0ae6c17f6..7b17e7629764 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/tool_shed/HISTORY.rst b/packages/tool_shed/HISTORY.rst index 404fb4d6db11..4bbe31d51aa5 100644 --- a/packages/tool_shed/HISTORY.rst +++ b/packages/tool_shed/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/tool_shed/setup.cfg b/packages/tool_shed/setup.cfg index a85c3bce1b7c..7a0edb5c9b86 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/tool_util/HISTORY.rst b/packages/tool_util/HISTORY.rst index 0e630494bed2..d82cb227c96a 100644 --- a/packages/tool_util/HISTORY.rst +++ b/packages/tool_util/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/tool_util/setup.cfg b/packages/tool_util/setup.cfg index 3ab01b2ce843..321d9bbfb8e5 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/tours/HISTORY.rst b/packages/tours/HISTORY.rst index ff76ec68d04b..7a53137118c6 100644 --- a/packages/tours/HISTORY.rst +++ b/packages/tours/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/tours/setup.cfg b/packages/tours/setup.cfg index 981707752a62..a3dc6338c312 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/util/HISTORY.rst b/packages/util/HISTORY.rst index 472ce37790b7..befaeb6789f5 100644 --- a/packages/util/HISTORY.rst +++ b/packages/util/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/util/setup.cfg b/packages/util/setup.cfg index f8ed152bcaeb..fdef15f66594 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/web_apps/HISTORY.rst b/packages/web_apps/HISTORY.rst index de7face2bee5..4444fe0f88e6 100644 --- a/packages/web_apps/HISTORY.rst +++ b/packages/web_apps/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/web_apps/setup.cfg b/packages/web_apps/setup.cfg index ceb404777818..e1b5a1b3df03 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/web_framework/HISTORY.rst b/packages/web_framework/HISTORY.rst index cc4a2f4b5d34..a0bd6b14bb14 100644 --- a/packages/web_framework/HISTORY.rst +++ b/packages/web_framework/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/web_framework/setup.cfg b/packages/web_framework/setup.cfg index 0291ca017c09..818b3bef6076 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True diff --git a/packages/web_stack/HISTORY.rst b/packages/web_stack/HISTORY.rst index be5f02f07a0a..e7ebb3235a0a 100644 --- a/packages/web_stack/HISTORY.rst +++ b/packages/web_stack/HISTORY.rst @@ -3,6 +3,12 @@ History .. to_doc +----------- +24.1.3.dev0 +----------- + + + ------------------- 24.1.2 (2024-09-25) ------------------- diff --git a/packages/web_stack/setup.cfg b/packages/web_stack/setup.cfg index b709dc1f6e80..dd04dc39fe43 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 = 24.1.2 +version = 24.1.3.dev0 [options] include_package_data = True