Merge remote-tracking branch 'origin/master' into zarr-list-bboxes

cluster_tools/Changelog.md

@@ -7,7 +7,7 @@ and this project adheres to [Semantic Versioning](http://semver.org/) `MAJOR.MIN
 For upgrade instructions, please check the respective *Breaking Changes* sections.
 
 ## Unreleased
-[Commits](https://github.com/scalableminds/webknossos-libs/compare/v0.16.2...HEAD)
+[Commits](https://github.com/scalableminds/webknossos-libs/compare/v0.16.3...HEAD)
 
 ### Breaking Changes
 
@@ -18,6 +18,10 @@ For upgrade instructions, please check the respective *Breaking Changes* section
 ### Fixed
 
 
+## [0.16.3](https://github.com/scalableminds/webknossos-libs/releases/tag/v0.16.3) - 2025-01-21
+[Commits](https://github.com/scalableminds/webknossos-libs/compare/v0.16.2...v0.16.3)
+
+
 ## [0.16.2](https://github.com/scalableminds/webknossos-libs/releases/tag/v0.16.2) - 2024-12-18
 [Commits](https://github.com/scalableminds/webknossos-libs/compare/v0.16.1...v0.16.2)
 

cluster_tools/cluster_tools/remote.py

@@ -115,10 +115,7 @@ def setup_logging(
         )
         meta_data["logging_setup_fn"](log_file_path)
     else:
-        logging_config = meta_data.get(
-            "logging_config",
-            {"level": logging.DEBUG, "format": "%(asctime)s %(levelname)s %(message)s"},
-        )
+        logging_config = meta_data.get("logging_config", dict())
 
         logging.debug(
             "Setting up logging.basicConfig (potentially overwriting logging configuration of the main script). Config: {}".format(

cluster_tools/pyproject.toml

@@ -6,6 +6,9 @@ authors = [{name= "scalable minds", email="[email protected]"}]
 readme = "README.md"
 license = {text = "MIT"}
 requires-python = ">=3.9"
+dependencies = [
+    "typing-extensions ~=4.12.0",
+]
 
 [project.urls]
 Repository = "https://github.com/scalableminds/webknossos-libs"
@@ -19,7 +22,6 @@ all=["cluster_tools[kubernetes]", "cluster_tools[dask]"]
 
 [tool.uv]
 dev-dependencies = [
-    "typing-extensions ~=4.12.0",
     "icecream ~=2.1.1",
     "mypy ~=1.0.0",
     "pytest ~=8.3.3",

webknossos/Changelog.md

@@ -10,16 +10,39 @@ and this project adheres to [Semantic Versioning](http://semver.org/) `MAJOR.MIN
 For upgrade instructions, please check the respective _Breaking Changes_ sections.
 
 ## Unreleased
-[Commits](https://github.com/scalableminds/webknossos-libs/compare/v0.16.2...HEAD)
+[Commits](https://github.com/scalableminds/webknossos-libs/compare/v0.16.3...HEAD)
 
 ### Breaking Changes
 
 ### Added
 
 ### Changed
 
+### Fixed
+
+
+## [0.16.3](https://github.com/scalableminds/webknossos-libs/releases/tag/v0.16.3) - 2025-01-21
+[Commits](https://github.com/scalableminds/webknossos-libs/compare/v0.16.2...v0.16.3)
+
+### Breaking Changes
+- `RemoteDataset.display_name` is deprecated. To change the name of a dataset use the `name` property instead.
+- `Dataset.get_remote_datasets()` returns a mapping. The keys of this mapping changed from datasets name to datasets id.
+- `Task.create()` needs a `dataset_id` now instead of a `dataset_name`. Alternativly a `RemoteDataset` object can be used. The `dataset_name` is marked as deprecated. As `dataset_name` is an optional argument now its position has changed, this is important if `create()` is called only with positional arguments.
+- When uploading an Annotation the organization_id is neccessary now. The organization_id might be stored in the Annotation object or it is inferred from the current webknossos_context. [#1155](https://github.com/scalableminds/webknossos-libs/pull/1155)
+
+### Added
+- `Dataset` method `get_remote_datasets()` accepts `name` and `folder_id` as arguments now to filter remote datasets.
+- `RemoteDataset` got an additional property: `created`.
+- `Annotation` got an additional property: `dataset_id`.
+- `Dataset.trigger_dataset_import()` was added to refresh the datastore to register a newly added dataset. [#1236](https://github.com/scalableminds/webknossos-libs/pull/1236)
+
+### Changed
+- Updated to WEBKNOSSOS API version 9. This includes support for the new url structure for datasets and the usage of `dataset_id`. [#1231](https://github.com/scalableminds/webknossos-libs/pull/1231)
+
 ### Fixed
 - Fixed Mag setup for non-public datasets. [#1222](https://github.com/scalableminds/webknossos-libs/pull/1222)
+- Fixed an issue when shallow copying datasets with a remote mag. [#1224](https://github.com/scalableminds/webknossos-libs/pull/1224)
+
 
 
 ## [0.16.2](https://github.com/scalableminds/webknossos-libs/releases/tag/v0.16.2) - 2024-12-18