22.06.0

• Docker Image scalableminds/webknossos:22.06.0 🐳
  Run it via export DOCKER_TAG=="22.06.0" && ./start-docker.sh.
• Changelog

Highlights

• Added a volume interpolation feature. When triggering the interpolation, the current segment id is interpolated between the current slice and the slice which was annotated last. Note that the feature is forbidden for tasks by default, but can be enabled/recommended. The feature can be used via a button in the toolbar or via the shortcut V. #6162 and #6235
• Removed the feature to copy a segment from the previous/next slice with the V shortcut. Use the new volume interpolation feature instead (also bound to V and available via the toolbar). #6235
• Selecting "Download" from the annotation actions now opens a new modal, which lets the user select data for download, start TIFF export jobs or copy code snippets to get started quickly with the webKonossos Python Client. #6171
• Added a long-running job that materializes annotations as datasets. It merges volume annotations with their base segmentation layer and it applies “merger mode” annotations, allowing to agglomerate segments. Access this feature from the layers sidebar. When merger mode is active, an additional button is shown in the tool bar. #6086

Added

• Added a batching mechanism to the task creation via NML to support uploading more than 100 NMLs at a time. #6216
• Added support to stream zarr files using the corresponding zarr spec. #6144
• Added support to stream volume annotations as a zarr data set. #6203
• Added segmentation layers to the functionality catching the case that more layers are active that the hardware allows. This prevents rendering issue with more than one segmentation layer and multiple color layers. #6211
• Adding a New Volume Layer via the left border tab now gives the option to restrict resolutions for the new layer. #6229
• Added Route to get OME-NGFF Headers for a data layer (.zattrs file) following the corresponding spec. #6226
• Added Route to get OME-NGFF Headers for Volume annotation. #6242

Changed

• When creating a new annotation with a volume layer (without fallback) for a dataset which has an existing segmentation layer, the original segmentation layer is still listed (and viewable) in the left sidebar. Earlier versions simply hid the original segmentation layer. #6186
• Changing the visibility of a layer within an annotation does not change the visibility of the layer when viewing the corresponding dataset. #6186
• While viewing tracings in read-only mode, the options to manipulate the tracing are now disabled. This leads to less confusion as previously the input was silently discarded. #6140.
• Changed default of dynamicSpaceDirection property to false to avoid confusion. #6162
• Changed the internal protocol for requesting image data. The zoomStep parameter has been replaced by mag. This increases the datastore API version to 2.0 #6159
• In annotation list in dashboard, replaced the non-standard word “Trace” by “Open”. #6191
• Tiff export via webknossos-worker is now allowed for all datasets that a (logged-in) user can see, no longer only for datasets of their own organization. #6219

Fixed

• Fixed a bug in the task creation, where creation for some tasks with initial volume data would fail. #6178
• Fixed a rendering bug which could cause an incorrect magnification to be rendered in rare scenarios. #6029
• Fixed a bug which could cause a segmentation layer's "ID mapping" dropdown to disappear. #6215
• Fixed the 3d viewport for datasets with low voxel resolution by making the camera far clipping adaptive to the dataset extent. #6221.
• Fixed a non-critical error message when resizing the browser window while webKnossos loaded a dataset or annotation. #6247

22.05.1

• Docker Image scalableminds/webknossos:22.05.1 🐳
  Run it via export DOCKER_TAG=="22.05.1" && ./start-docker.sh.
• Changelog

Fixed

• Fixed applying recommended settings when starting a task which provides recommended settings. #6175

Removed

• Removed the option to download sample-datasets. To explore webKnossos, use the public sample datasets on webknossos.org. #6151

22.05.0

• Docker Image scalableminds/webknossos:22.05.0 🐳
  Run it via export DOCKER_TAG=="22.05.0" && ./start-docker.sh.
• Changelog

Highlights ✨

• The mouse cursor now changes appearance to indicate the currently selected annotation tool #6132

Changed

• Various changes to the Dataset table in the dashboard #6131:
  • Renamed "Allowed Teams" column to "Access Permissions".
  • Add filter functionality to "Access Permissions" column to filter for public datasets.
  • Removed isActive and isPublic columns to save screen space.
  • Changed data layer entries to display layer names instead of categories, e.g. "color" --> "axons".
• Moved the list of "user with access to the selected dataset" from the dashboard to the respective dataset's settings (Sharing Tab). #6166
• Sped up initial requests for remote zarr dataset by using asynchronous caching. #6165

Fixed

• Fixed a bug that led to an error when drag-'n'-dropping an empty volume annotation in the dataset view. #6116
• Fixed rare callstack overflow when annotating large areas. #6076
• Fixed the "Copy Slice" shortcut (v and shift + v) in resolutions other than the most detailed one. #6130
• Fixed a bug where dataset tags with spaces would be automatically wrapped in quotes. #6159
• Fixed a bug where during dataset upload, un-sorted anisotropic mags in the datasource-properties.json could lead to errors. #6167

Removed

• Removed the functionality to unlink the fallback layer from an existing segmentation layer. Either create an annotation without fallback layer or from within an annotation with a fallback layer, create a new volume layer, instead. #6146

22.04.0

• Docker Image scalableminds/webknossos:22.04.0 🐳
  Run it via export DOCKER_TAG=="22.04.0" && ./start-docker.sh.
• Changelog

Highlights ✨

• The visible meshes are now included in the link copied from the "Share" modal or the "Share" button next to the dataset position. They are automatically loaded for users that open the shared link. #5993
• Added a new "Connectome Tab" which can be used to explore connectomes by visualizing neurites and their synaptic connections. Connectome files need to be placed in a connectomes folder inside of the respective segmentation layer. It is possible to craft links that automatically load specific agglomerates and their synapses when openend. For more information refer to https://docs.webknossos.org/webknossos/sharing.html#sharing-link-format. #5894

Added

• Added a context-menu option when right-clicking on skeleton trees to hide/show all other trees but the selected one. Great for inspecting a single tree in isolation. Identical to keyboard shortcut "2". #6102
• Added support for reading Zarr image data. #6019

Changed

• The maximum brush size now depends on the available magnifications. Consequentially, one can use a larger brush size when the magnifications of a volume layer are restricted. #6066
• Improved stability and speed of volume annotations when annotating large areas. #6055
• In dataset upload, linking layers of existing datasets is no longer restricted to public datasets. #6097
• Deactivating users with currently active tasks is no longer allowed. #6099

Fixed

• Fixed a bug that led to crashing the layer settings once the icon for the downsample modal was clicked. #6058
• Fixed a bug where toggling between not archived and archived annotations in the "My Annotation" of the dashboard led to inconsistent states and duplicates of annotations. #6058
• Fixed a bug where deactivated users would still be listed as allowed to access the datasets of their team. #6070
• Fixed occasionally "disappearing" data. #6055
• Fixed a bug where remote-origin headers were omitted in error case. #6098
• Increased the timeouts for some internal operations like downsampling volume annotations. #6103
• Fixed a bug where there was a suggested change in the datasource-config.json was shown for resolution 1 instead of [1,1,1] or vice-versa. #6104

Removed

• The previously disabled Import Skeleton Button has been removed. The functionality is available via the context menu for datasets with active ID mappings. #6073
• Removes experimental (and hidden) automatic brushing feature. Consequentially, the corresponding feature flag autoBrushReadyDatasets is not used, anymore. #6107

22.03.0

• Docker Image scalableminds/webknossos:22.03.0 🐳
  Run it via export DOCKER_TAG=="22.03.0" && ./start-docker.sh.
• Changelog

Highlights ✨

• Added experimental min-cut feature to split a segment in a volume annotation with two seeds. #5885
• Added a button next to the histogram which adapts the contrast and brightness to the currently visible data. #5961
• Viewport scale bars are now dynamically adjusted to display sensible values. #5418

22.02.0

• Docker Image scalableminds/webknossos:22.02.0 🐳
  Run it via export DOCKER_TAG=="22.02.0" && ./start-docker.sh.
• Changelog

Highlights ✨

• Added the possibility to add additional volume layers to an existing annotation via the left sidebar. #5881

22.01.0

• Docker Image scalableminds/webknossos:22.01.0 🐳
  Run it via export DOCKER_TAG=="22.01.0" && ./start-docker.sh.
• Changelog

Highlights ✨

• Added tagging support for datasets. #5832

21.11.2

• Docker Image scalableminds/webknossos:21.11.2 🐳
  Run it via export DOCKER_TAG=="21.11.2" && ./start-docker.sh.
• Changelog

Highlights ✨

• Fixed a security vulnerability by upgrading log4j to newest version (2.17.0). #5913

21.11.1

Please use 21.11.2 instead, due to another security upgrade

---

• Docker Image scalableminds/webknossos:21.11.1 🐳
  Run it via export DOCKER_TAG=="21.11.1" && ./start-docker.sh.
• Changelog

Highlights ✨

• Fixed a security vulnerability by upgrading log4j to newest version (2.15.0). #5900

21.11.0

• Docker Image scalableminds/webknossos:21.11.0 🐳
  Run it via export DOCKER_TAG=="21.11.0" && ./start-docker.sh.
• Changelog
• Migration Guide

Highlights ✨

• Added a new bounding box tool that allows resizing and creating bounding boxes more easily. Additionally, the context menu now contains options to modify the bounding box close to the clicked position. #5767