v0.12.4

webknossos

Added

• Group.add_tree now also accepts a tree object as a first parameter (instead of only a string). #891
• Group.remove_tree_by_id was added. #891

Changed

• Upgrades black, mypy, pylint, pytest. #873

Fixed

• Fixed poetry build backend for new versions of Poetry. #899
• Added axis_order fields for Zarr data format. #902

wkcuber

Changed

• Upgrades black, mypy, pylint, pytest. #873

cluster_tools

Changed

• Upgrades black, mypy, pylint, pytest. #873

v0.12.3

webknossos

Added

• Added support to import ImageJ Hyperstack tiff files via Dataset.from_images and dataset.add_layer_from_images. #877

Changed

• Dataset.from_images and dataset.add_layer_from_images now automatically convert big endian dtypes to their little endian counterparts by default. #877

Fixed

• Fixed reading czi files with non-zero axis offsets. #876

v0.12.2

webknossos

Commits

Added

• Added RemoteFolder for assigning remote datasets to a WEBKNOSSOS folder. #868

wkcuber

Fixed

• Fixed Docker container startup, by adding version information during build time. #872

v0.12.1

webknossos

Added

• Added read_only parameter for annotation.temporary_volume_layer_copy. #866

Changed

• in Dataset.layer_from_images, layer names generated from multiple input image channels no longer contain equal signs, yielding better url safety. #867

Fixed

• Fixed a bug where some czi, dm3, dm4 images could not be converted to wkw due to a too-strict check. #865
• Enforce read_only property of datasets also for down- and upsampling. #866

v0.12.0

webknossos

Breaking Changes

• Dropped support for Python 3.7. #833

Added

• Added support for Python 3.10. #833

wkcuber

Breaking Changes

• Dropped support for Python 3.7. #833

Added

• Added support for Python 3.10. #833

v0.11.4

cluster_tools

Fixed

• Fixed the execution of non-array jobs using slurm. #864

v0.11.3

wkcuber

Fixed

• Fixed a bug where converting coarse-mag Knossos data would crash with an assertion error. #857

v0.11.2

webknossos

Fixed

• Fixed a bug, where the image order could be randomized when passing a directory path to Dataset.add_layer_from_images. #854

cluster_tools

Fixed

• Fixed TypeError when aborting a run that occurred under certain circumstances. #851

v0.11.1

webknossos

Added

• Dataset.from_images and dataset.add_layer_from_images have new features: #842
  • dm3 and dm4 datasets can be read without bioformats now.
  • It's possible to completely disable the bioformats adapter by setting use_bioformats to False.
  • Lists of images can now be handled with other readers, before only images supported by skimage worked in lists.

wkcuber

Changed

• Improved perfomance of wkcuber.tile_cubing and making it more robust. #840

cluster_tools

Changed

• When using the slurm or pbs distribution strategy, scheduled jobs are automatically canceled when aborting a run, i.e. if the SIGINT signal is received. #838

v0.11.0

webknossos

Breaking Changes

• Removed the id attribute of the BoundingBox class, also from the constructor. #836

Fixed

• Fixed bounding box serialization in NMLs, so that bounding boxes which are uploaded via annotations are now recognized properly by webKnossos. #836
• Bounding boxes keep their name, color and visibility when transformed via methods, such as bbox.padded_with_margins(). #836