23.04.2

• Docker Image scalableminds/webknossos:23.04.2 🐳
  Run it via export DOCKER_TAG=="23.04.2" && ./start-docker.sh.
• Changelog
• Commits

Fixed

• Fixed rendering problems in orthogonal when working with nodes that were created in flight or oblique mode. #6978

23.04.1

• Docker Image scalableminds/webknossos:23.04.1 🐳
  Run it via export DOCKER_TAG=="23.04.1" && ./start-docker.sh.
• Changelog
• Commits

Fixed

• Fixed missing data during rendering in annotations in which the oblique or flight mode were used before the release of 23.04.0. #6967

23.04.0

• Docker Image scalableminds/webknossos:23.04.0 🐳
  Run it via export DOCKER_TAG=="23.04.0" && ./start-docker.sh.
• Changelog
• Commits

Highlights

• Added email notifications for WK worker jobs. #6918
• Added support for viewing sharded neuroglancer precomputed datasets. #6920

Added

• Added support for datasets where layers are transformed individually (with an affine matrix). Transformations can be specified via datasource-properties.json or via JS API (will be ephemeral, then). #6748
• Added list of all respective team members to the administration page for teams. #6915
• Added support for uploading zip64 files. #6939

Changed

• Interpolation during rendering is now more performance intensive, since the rendering approach was changed. Therefore, interpolation is disabled by default. On the flip side, the rendered quality is often higher than it used to be. #6748
• Updated the styling of the "welcome" screen for new users to be in line with the new branding. #6904
• Improved Terms-of-Service modal (e.g., allow to switch organization even when modal was blocking the remaining usage of WEBKNOSSOS). #6930
• Uploads are now blocked when the organization’s storage quota is exceeded. #6893

Fixed

• Fixed an issue with text hints not being visible on the logout page for dark mode users. #6916
• Fixed creating task types with a selected preferred mode. #6928
• Fixed support for rendering of negative floats. #6895
• Fixed caching issues with webworkers. #6932
• Fixed download button for annotations which was disabled in some cases. #6931
• Fixed antd deprecation warning for Dropdown menus. #6898

23.03.1

• Docker Image scalableminds/webknossos:23.03.1 🐳
  Run it via export DOCKER_TAG=="23.03.1" && ./start-docker.sh.
• Changelog
• Commits

Added

• Added support for remote Zarr datasets with a datasource-properties.json as created by the WEBKNOSSOS Python library. #6879

Changed

• Upgraded antd UI library to v4.24.8 #6865
• The view mode dropdown was slimmed down by using icons to make the toolbar more space efficient. #6900

Fixed

• Fixed a bug where N5 datasets reading with end-chunks that have a chunk size differing from the metadata-supplied chunk size would fail for some areas. #6890
• Fixed potential crash when trying to edit certain annotation properties of a shared annotation. #6892
• Fixed a bug where merging multiple volume annotations would result in inconsistent segment lists. #6882
• Fixed a bug where uploading multiple annotations with volume layers at once would fail. #6882
• Fixed a bug where dates were formatted incorrectly in Voxelytics reports. #6908
• Fixed a rare bug which could cause an incorrectly initialized annotation so that changes were not saved in the current session. #6914

23.03.0

• Docker Image scalableminds/webknossos:23.03.0 🐳
  Run it via export DOCKER_TAG=="23.03.0" && ./start-docker.sh.
• Changelog
• Commits

Highlights

• Remote datasets can now also be streamed from Google Cloud Storage URIs (gs://). #6775
• Remote volume datasets in the neuroglancer precomputed format can now be viewed in WEBKNOSSOS. #6716
• Added new mesh-related menu items to the context menu when a mesh is hovered in the 3d viewport. #6813

Added

• If an annotation that others are allowed to edit is opened, it will now be automatically locked. This prevents conflicts when multiple users try to edit it at the same time. #6819
• Highlight 'organization owner' in Admin>User page. [#6832](#6832
• Added OME-TIFF export for bounding boxes. #6838 #6874
• Added functions to get and set segment colors to the frontend API (api.data.{getSegmentColor,setSegmentColor}). #6853

Changed

• Limit paid team sharing features to respective organization plans. #6767
• Rewrite the database tools in tools/postgres to JavaScript and adding support for non-default Postgres username-password combinations. #6803
• Added owner name to organization page. #6811
• Remove multiline <TextArea> support from . #6839
• Improved the performance of the dataset table in the dashboard. #6834
• Updated the styling and background of login, password reset/change and sign up pages. #6844
• Replaced date handling and formatting library momentjs with dayjs. #6849

Fixed

• Fixed saving allowed teams in dataset settings. #6817
• Fixed log streaming in Voxelytics workflow reports. #6828 #6831
• Fixed some layouting issues with line breaks in segment list/dataset info tab. #6799
• Fixed basic auth for exploring remote http datasets. #6866
• Fixed the layouting in the connectome tab. #6864
• Fixed that the quick-select and floodfill tool didn't update the segment list. #6867
• Fixed deprecation warnings for antd' component in Navbar. #6860
• Fixed that trying to reload a precomputed mesh via context menu could crash webKnossos. #6875

Removed

• Removed the old Datasets tab in favor of the Dataset Folders tab. #6834

23.02.1

• Docker Image scalableminds/webknossos:23.02.1 🐳
  Run it via export DOCKER_TAG=="23.02.1" && ./start-docker.sh.
• Changelog
• Commits

Fixed

• Fixed a benign error message which briefly appeared after logging in. #6810

23.02.0

• Docker Image scalableminds/webknossos:23.02.0 🐳
  Run it via export DOCKER_TAG=="23.02.0" && ./start-docker.sh.
• Changelog
• Commits

Highlights

• Changed branding of WEBKNOSSOS including a new logo, new primary colors, and UPPERCASE name. #6739
• Precomputed meshes can now be loaded even when a mapping is active (HDF5 or an editable mapping produced by the proofreading tool). The precomputed mesh has to be computed without a mapping for this to work. #6569

Added

• The target folder of a dataset can now be specified during upload. Also, clicking "Add Dataset" from an active folder will upload the dataset to that folder by default. #6704
• The storage used by an organization’s datasets can now be measured. #6685

Changed

• For remote datasets that require authentication, credentials are no longer stored in the respective JSON. #6646
• Improved performance of opening a dataset or annotation. #6711
• Redesigned organization page to include more infos on organization users, storage, webKnossos plan and provided opportunities to upgrade. #6602
• Improves performance for ingesting Voxelytics reporting data. #6732
• Implements statistics from combined workflow runs in the Voxelytics reporting. #6732
• Limit paid task/project management features to respective organization plans. 6767
• The dataset list route GET api/datasets no longer respects the isEditable filter. #6759
• Upgrade linter to Rome v11.0.0. #6785

Fixed

• Fixed node selection and context menu for node ids greater than 130813. #6724 and #6731
• Fixed the validation of some neuroglancer URLs during import. #6722
• Fixed a bug where deleting a dataset would fail if its representation on disk was already missing. #6720
• Fixed a bug where a user with multiple organizations could not log in anymore after one of their organization accounts got deactivated. #6719
• Fixed rare crash in new Datasets tab in dashboard. #6750 and #6753
• Fixed toggling "Render missing data black" when being logged out. #6772
• Fixed incorrect loading of precomputed meshes from mesh files that were computed for a specific mapping. #6771
• Fixed a bug where remote datasets without authentication could not be explored. #6764
• Fixed deprecation warnings for antd props. #6765
• Fixed a bug where direct task assignment to a single user would fail. #6777
• Fixed a bug where the dataset folders view would not list public datasets if the requesting user could not also access the dataset for other reasons, like being admin. #6759
• Fixed a bug where zarr-streamed datasets would produce (very rare) rendering errors. #6782
• Fixed a bug where publicly shared annotations were not viewable by users without an account. #6784
• Fixed proofreading when mag 1 doesn't exist for segmentation layer #6795
• Fixed that the proofreading tool allowed to split/merge with segment 0 which led to an inconsistent state. #6793

Breaking Changes

• Changes the storage backend for Voxelytics logging from Elasticsearch to Loki. #6770
• The dataset list route GET api/datasets no longer respects the isEditable filter. #6759

23.01.0

• Docker Image scalableminds/webknossos:23.01.0 🐳
  Run it via export DOCKER_TAG=="23.01.0" && ./start-docker.sh.
• Changelog
• Commits

Highlights

• Added a new datasets tab to the dashboard which supports managing datasets in folders. Folders can be organized hierarchically and datasets can be moved into these folders. Selecting a dataset will show dataset details in a sidebar. #6591
• webKnossos is now able to recover from a lost webGL context. #6663
• Major performance improvements for brushing in coarse magnifications. #6708

Added

• Added sign in via OIDC. #6534
• Added the option to search a specific folder in the new datasets tab. #6677
• The new datasets tab in the dashboard allows multi-selection of datasets so that multiple datasets can be moved to a folder at once. As in typical file explorers, CTRL + left click adds individual datasets to the current selection. Shift + left click selects a range of datasets. #6683

Changed

• Bulk task creation now needs the taskTypeId, the task type summary will no longer be accepted. #6640
• Error handling and reporting is more robust now. #6700
• The Quick-Select settings are opened (and closed) automatically when labeling with the preview mode. That way, bulk labelings with preview mode don't require constantly opening the settings manually. #6706

Fixed

• Fixed import of N5 datasets. #6668
• Fixed a bug where it was possible to create invalid an state by deleting teams that are referenced elsewhere. 6664
• Miscellaneous fixes for the new folder UI. #6674
• Fixed import of remote datasets with multiple layers and differing resolution pyramid. #6670
• Fixed broken Get-new-Task button in task dashboard. #6677
• Fixed access of remote datasets using the Amazon S3 protocol #6679
• Fixed a bug in line measurement that would lead to an infinite loop. #6689
• Fixed a bug where malformed json files could lead to uncaught exceptions.#6691
• Fixed rare crash in publications page. #6700
• Respect the config value mail.smtp.auth (used to be ignored, always using true) #6692

Removed

Breaking Changes

22.12.0

• Docker Image scalableminds/webknossos:22.12.0 🐳
  Run it via export DOCKER_TAG=="22.12.0" && ./start-docker.sh.
• Changelog
• Commits

Highlights

• Added a new Quick-Select tool for volume annotation. This tools allows to draw a rectangle over a segment to annotate it automatically. The tool operates on the intensity data of the visible color layer and automatically fills out the segment starting from the center of the rectangle. Next to the tool, there is a settings button which allows to enable a preview mode and to tweak some other parameters. If the preview is enabled, the parameters can be fine-tuned while the preview updates instantly. #6542
• The scale bar is now included in screenshots of the viewports made using the Q shortcut or the "Screenshot" menu entry. If the scale bar should not be included, disable it using "Settings - Viewport Options - Show Scalebars". #6644

Added

• The largest segment id for a segmentation layer can be computed automatically from the dataset settings page. #6415
• Button for switching organizations for Voxelytics workflows. #6572
• Added ability to shuffle / set colors for a whole tree group. #6586
• Annotation layers can now be removed. #6593
• When adding remote Zarr datasets with multiple channels, channels are converted into layers. #6609
• When adding a remote OME-NGFF dataset with labels, these are added as segmentation layers. #6638
• When creating an annotation from the dataset view, a previously selected mapping of the segmentation layer is now automatically selected in the volume annotation layer fallback segmentation as well. #6647

Changed

• The log viewer in the Voxelytics workflow reporting now uses a virtualized list. #6579
• Node positions are always handled as integers. They have always been persisted as integers by the server, anyway, but the session in which a node was created handled the position as floating point in earlier versions. #6589
• Jobs can no longer be started on datastores without workers. #6595
• When downloading volume annotations with volume data skipped, the nml volume tag is now included anyway (but has no location attribute in this case). #6566
• Re-phrased some backend (error) messages to improve clarity and provide helping hints. #6616
• The layer visibility is now encoded in the sharing link. The user opening the link will see the same layers that were visible when copying the link. #6634
• Voxelytics workflows can now be viewed by anyone with the link who is in the right organization. #6622
• Improve performance for handling of volume annotation data (saving/undo/redo). #6652
• When importing an annotation into an existing annotation, webKnossos ensures that bounding boxes are not duplicated in case they exist in the current and imported annotation. #6648
• Reworked the proofreading mode so that agglomerate skeletons are no longer needed (nor automatically loaded). Instead, segments can be selected by left-clicking onto them, indicated by a small white cross. To merge or split agglomerates, then either use the shortcuts Shift + Leftclick/Ctrl + Leftclick or use the context menu. #6625

Fixed

• Fixed a bug in the dataset import view, where the layer name text field would lose focus after each key press. #6615
• Fixed importing NGFF Zarr datasets with non-scale transforms. #6621
• Fixed a regression in NGFF Zarr import for datasets with no channel axis. #6636
• Fixed broken creation of tasks using base NMLs. #6634
• Fixed that the precomputation of meshes didn't take the active mapping into account. #6651
• Fixed false-positive warning about an outdated annotation version. #6656

22.11.3

Fixed

• Fixed broken creation of tasks using base NMLs. #6634