v0.16.4

webknossos

Added

• Added list_bounding_boxes() for Zarr-based datasets. #1238

v0.16.3

webknossos

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

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

Changed

• Updated to WEBKNOSSOS API version 9. This includes support for the new url structure for datasets and the usage of dataset_id. #1231

Fixed

• Fixed Mag setup for non-public datasets. #1222
• Fixed an issue when shallow copying datasets with a remote mag. #1224

v0.16.2

webknossos

Breaking Changes

• MagView.get_zarr_array now returns a tensorstore array instead of a zarr-python array. #1174

Changed

• Updated to WEBKNOSSOS API version 8. #1185
• Using tensorstore for reading and writing zarr 2 and 3 arrays. Removed zarrita and zarr dependency. #1174

v0.16.1

webknossos

Added

• Added .nrrd and .nhdr to supported suffixes. #1228
• Added more docstrings for many public classes and methods. #1225

Changed

• Removes vcr-py from developer dependencies for testing and adds proxay for recording and replaying API requests. #1198
• Removed the CZI installation extra from pip install webknossos[all] by default. Users need to manually install it with pip install --extra-index-url https://pypi.scm.io/simple/ webknossos[czi]. #1219
• Refactored the PimsTiffReader to read the data directly from the tiff file without creating a memmap-able copy first. This greatly reduces the time and storage requirements for converting large tiff files. #1212

Fixed

• Fixed unpickling of the SSL_Context to allow for a second or third pickling. #1223

v0.16.0

cluster_tools

Breaking Changes

• Removed the map_unordered function of executors. #1193

Changed

• Deprecated the test_pickling and debug_sequential executor strategies. The strategies multiprocessing_with_pickling and sequential should be used instead. #1193
• The sequential executor strategy no longer uses multiprocessing functionality internally and instead executes functions sequentially and synchronously in the same process. #1193

v0.15.11

webknossos

Fixed

• Fixed pickling issue that has been introduced in 0.15.9. #1218

v0.15.10

webknossos

Fixed

• Fixed pickling issue that has been introduced in 0.15.9. #1218

v0.15.9

webknossos

Changed

Removed the CZI installation extra from pip install webknossos[all] by default. Users need to manually install it with pip install --extra-index-url https://pypi.scm.io/simple/ webknossos[czi]. #1219

v0.15.8

webknossos

Changed

• Fixes SSL certificate verification for remote datasets by adding CA certificates using certifi. #1211

v0.15.7

webknossos

Added

• Added --coarsest-mag argument to the webknossos downsample command. #1203

Fixed

• Fixed an issue with merging annotations with compressed fallback layers.