Lincbrain WebKNOSSOS upstream sync #15
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* make login, registration and forgot password view more responsive to mobile devices - includes adding a link back to login for password reset view * make dashboard dataset view less awful * add changelog entry
* allow viewing a mapping * WIP: enable setting default active mappings in default view configuration * add default active mapping to default view configuration - add config settings to dataset settings default view config tab - auto load initial default mapping * fix bottom margin of layer settings - was broken in view mode with multiple segmentation layers; the "Save View Config..." Button had no spacing to towards * fix having the mapping settings enabled for layers with default mapping * WIP: move default mapping store proeprty to dataset layer config - undo moving mapping selection to a shared component * moved default active mapping from separate select to view config layer config - Also added validation check whether the mapping exists in the dataset view config settings * allow saving no default active mapping from view mode & model init to new dataset config version * rename defaultMapping to mapping * cache available mappings fetched from backend when checking config in dataset settings * remove logging statements * clean up * add changelog entry * apply pr feedback
* fix animation modal color layer validation * changelog * rename variable * apply pr feedback * improve error message of uint24 layers in animation modal --------- Co-authored-by: Michael Büßemeyer <[email protected]>
* validate BB size to be larger then 0 * changelog * appy PR feedback
Co-authored-by: MichaelBuessemeyer <[email protected]>
* default state wording to indicate loading * update nml tests --------- Co-authored-by: Michael Büßemeyer <[email protected]>
* Remove suggestion route * Remove WKWDataFormat * Lint * wip remove in frontend * unify readInboxDataSource * remove datasource suggestion - but keep isEditMode prop due to onboarding process needing this prop * remove left over code line linking to dataset import and clean up code * remove unused imports in backend * always show edit settings for datasets the user can edit * remove unused type * er-add dataset actions (show error & delete dataset) for broken datasets in dataset table * adapt wording in messages * add changelog entry * update migrationguide,changelog,docs --------- Co-authored-by: Florian M <[email protected]> Co-authored-by: Michael Büßemeyer <[email protected]> Co-authored-by: Florian M <[email protected]>
… split-off segments (scalableminds#7877) * combine custom names of merged agglomerates & transfer custom name to split off segment * add changelog entry * also keep custom name in split from all neighbors action * Update CHANGELOG.unreleased.md Co-authored-by: Philipp Otto <[email protected]> --------- Co-authored-by: Philipp Otto <[email protected]>
…calableminds#7887) * correctly use base mapping in FullMeshRequest when forwarding from TS to DS * changelog --------- Co-authored-by: MichaelBuessemeyer <[email protected]>
…7889) * Fix dataset composition when only one dataset is used * update changelog
* WIP: adding unit setting to datasource settings * WIP: backend: voxel size as object * WIP: Adding unit to dataset scale [ci skip] - make keep the base unit internally to nm - use configured unit for 3d space / voxel space - WIP: post fix all relevant function with Nm or Vx depending on their unit to make this as explicit as possible * finish migrating to new datasetscale format [ci skip] - current state: broken; nothing is rendered * adjust nml schema to backend changes * Fix initial dataset loading with scale in mircometers - add a lot of debugging output for testing [ci skip] * Fix td viewport camera init ( calulate in datasource unit not always in nm) - [ci skip] - Dont ignore far plane calculation * undo accidental semantic change * support conversion between larger and smaller units in 1d-3d - Full support for uncommon units is missing for 2d and 3d * format 1d length units in datasource unit to avoid precision loss * WIP: Support formatting for 2d and 3d values without always converting to nm [ci skip] * unify format function to work with multi dimensional values and not only in 1d && fix lots of tests [ci skip] * finish writing more tests for format utils * include all unit format in the datasource json validation in the frontend * Add support to convert to cm - WIP: Fix tests now that cm is supported * Add tests for uncommon units [ci skip] * rename "datasourceUnit" to "unit" everywhere * WIP: remove complex tests and add example based tests [ci skip] * add more format utils tests and fix some tests * fix / remove introduced todos of this pr * remove debugging console.logs * fix datasets e2e test * redo: use shorter decimals in scalebar * WIP: voxel unit support backend * fix vx distance calculation of shortest path between nodes * improve previous vx length calculation fix * use voxel size unit in more spots * schema, evolutions * snapshots * rename LengthUnit to Unit in frontend * further clean up of frontend code * more code cleanup frontend * update datasource json frontend validation * add changelog entry * log warning in case a mesh is loaded whose scale does not match the dataset's scale * bump api version to 7, drop 1 and 2 * document that ad-hoc meshing uses voxel size factor only * unused imports * WIP: use ngff units during explore * read ngff voxel size unit during explore * implement backend pr feedback part 1 * update nml spec snapshot * report unit in ngff streaming. change composeRequest to expect full voxel size with unit * format * unused import * Fix uploading zipped tiff (should set needsConversion=true) * changelog * rephrase code comment * WIP apply feedback * Add unit to params of wkw conversion job for dataset upload * apply pr feedback * fix adhoc mesh computation * rename datasetScale to voxelSize in frontend And remove datasetScale/voxelSize uniform from shaders as it was unused * power-of-two check on all mag dimensions * adapt voxelSize to nanometer for worker for now * use term REST API in changelog after all * use long lengthUnit names as default format * snapshots * migrate frontend to use long unit names except for format utils * rename UnitShortMap to LongUnitToShortUnitMap * fix flycam reducer tests --------- Co-authored-by: Florian M <[email protected]> Co-authored-by: Florian M <[email protected]>
* make file paths for reserve upload route optional * add changelog entry * apply feedback --------- Co-authored-by: Michael Büßemeyer <[email protected]>
* updated biome to v1.8 * foo * fromating? * fixed remaing biome errors * format package.json with two spaces * Update frontend/javascripts/oxalis/controller.tsx Co-authored-by: Philipp Otto <[email protected]> --------- Co-authored-by: Philipp Otto <[email protected]>
…s#8046) * remove vit_l_0b3195_decoder_quantized.onnx * remove public/images/original * avoid assets appearing twice in output jars * remove copy models instruction from webpack
* add warning if opacity is zero * improve layout, color and icon * add changelog * fix typo * remove exclamation mark --------- Co-authored-by: Philipp Otto <[email protected]>
* add missing migration to migrations guide * also fix cloning a tag in ci * fix syntax
* add new text and application.conf entry * improve styling * improve styling when wkorg shouldnt be recommended * add changelog * hopefully fix tests and improve check * remove entry for knossos format * update snapshots * fix APIFeatureToggles * update migration guide * fix line height * fix link to commits * fix link * stop event propagation for links
* fix layout of buttons in 3d viewport * fix too large margin in 3d viewport buttons * tmp: execute nightlies on push * tmp: only run xyz nightly * update screenshots for nightly * zip and upload screenshots for easier download * fix yaml syntax * fix yaml syntax * Revert "tmp: only run xyz nightly" This reverts commit 43144b9. * Revert "tmp: execute nightlies on push" This reverts commit c064579.
* update screenshots * also bundle screenshots in error case * naming
…inds#8049) * swap change color and center BB buttons * Revert "swap change color and center BB buttons" This reverts commit 6784852. * center bbox on click * fix that clicking any context menu entry centered bbox * add changelog * change cursor style for bbox row * fix that click event and cursor didnt work in padded space of bbox row --------- Co-authored-by: Philipp Otto <[email protected]>
* add focus bbox to context menu * focus on click and highlight on hover BBox in move mode * improve controls for bbox selection in move mode * improve var naming * add changelog --------- Co-authored-by: Philipp Otto <[email protected]>
* updated yarn to version 4 * update readme * update docker iamge for CI * create a tmp dir for yarn stuff during asset compilation * CI? * replace deprecated yarn --frozen-lock flag with --immutable * CI? * CI * remove yarn caching from CI * fix CI * add PR feedback * add yarn 4.4.1 to docker.dev image
* update libs to react 18.3 * update reactDom to createRoot * remove antd resolutions in package.json * update antd to version 5.17.4 * updated redux to v4.0.5 * updated react.router-dom to v5.3.4 * replace react-virtualized with react-virtualized-auto-sizer lib * replace react-sortable-hoc with dnd-kit 1/2 * replace react-sortable-hoc with dnd-kit 2/2 * fix typescript errors * updated yarn lock * updated tanstack/query * updated tanstack/query * update flex layout * update react-json-tree * fix remaining typescript errors * mock renderIndenpently in unit tests * formatting * fix unit tests * fix dark mode overwrite for flex layout * changelog * apply PR feedback for TS typing * fix dark mode layer handles * format
…n update routes (scalableminds#8069) * add assertion for no duplicated keys in dataset and folder metadata * format backend * add changelog entry * move MetadataAssertions to utils --------- Co-authored-by: Michael Büßemeyer <[email protected]>
* Script to find json mappings * skip dot dirs * add explaining comment --------- Co-authored-by: MichaelBuessemeyer <[email protected]>
…#8072) * temporarily disable ci * disable sbt and target caches * move commander into new tools/postgres/package.json; copy node_modules in dockerfile * don't copy node_modules in dockerfile because assetsGenerationTask copies whole postgres folder anyway * undo changes to docker ignore * remove last circleci caching as it did more harm than good (reproducibility and performance) * re-enable ci
Bumps [express](https://github.com/expressjs/express) from 4.18.3 to 4.21.0. - [Release notes](https://github.com/expressjs/express/releases) - [Changelog](https://github.com/expressjs/express/blob/4.21.0/History.md) - [Commits](expressjs/express@4.18.3...4.21.0) --- updated-dependencies: - dependency-name: express dependency-type: indirect ... Signed-off-by: dependabot[bot] <[email protected]> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
… enough (scalableminds#7643) * Do not require binaryData dir to be writable for Compose, orga dir is enough * don't filter according to ds.allowsUpdate when composing datasets * unify writable check * Update webknossos-datastore/app/com/scalableminds/webknossos/datastore/services/DataSourceService.scala Co-authored-by: Philipp Otto <[email protected]> --------- Co-authored-by: Philipp Otto <[email protected]> Co-authored-by: Philipp Otto <[email protected]>
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