Webknossos

webknossos

Fixed

- Fixed a bug where the server’s error message during dataset upload was not displayed to the user. [702](https://github.com/scalableminds/webknossos-libs/pull/702)


wkcuber

Breaking Changes
- Deprecated `--wkw_file_len` flags in favor of `--chunks_per_shard`. [679](https://github.com/scalableminds/webknossos-libs/pull/679)
- Deprecated `wkcuber.api` in favor of the high-level `webknososs.Dataset` API. [679](https://github.com/scalableminds/webknossos-libs/pull/679)
- Deprecated external use of `wkcuber.utils`. [679](https://github.com/scalableminds/webknossos-libs/pull/679)
- Remove the deprecated modules `wkcuber.downsampling_utils` and `wkcuber.upsampling_utils`. Use the high-level `Layer.downsample` and `Layer.upsample` methods in the `webknossos` package instead. [679](https://github.com/scalableminds/webknossos-libs/pull/679)

Added
- Added Zarr support for `wkcuber`, `wkcuber.cubing`, `wkcuber.converter`, `wkcuber.convert_knossos`, `wkcuber.convert_image_stack_to_wkw`, `wkcuber.convert_nifti`, `wkcuber.convert_raw`, `wkcuber.convert_zarr`, and `wkcuber.recubing`. These commands now take a `--data_format` flag that can either be `wkw` or `zarr`. Additionally, `--chunk_size` and `--chunks_per_shard` flag are available and take either a single number or a 3-tuple (e.g. `32,32,32`). [689](https://github.com/scalableminds/webknossos-libs/pull/679)

wkcuber

Added
- Added support for converting `.bmp` image files. [689](https://github.com/scalableminds/webknossos-libs/pull/689)


cluster_tools

Fixed
- Fixed that the ProcessPoolExecutor by the cluster tools would also create a checkpoint if the job failed. This was a regression introduced by 686. [692](https://github.com/scalableminds/webknossos-libs/pull/692)

cluster_tools

Breaking Changes
- The cluster-tools serialize the output of a job in the format `(wasSuccessful, result_value)` to a pickle file if `output_pickle_path` is provided and multiprocessing is used. This is consistent with how it is already done when using a cluster executor (e.g., slurm). [686](https://github.com/scalableminds/webknossos-libs/pull/686)

webknossos

Breaking Changes
- `Dataset.download`: The argument `dataset_name` was renamed to `dataset_name_or_url`. [660](https://github.com/scalableminds/webknossos-libs/pull/660)

Added
- `Dataset.download` now also accepts a URL, as well as a `sharing_token`, which can also be part of the URL. [660](https://github.com/scalableminds/webknossos-libs/pull/660)