@vitessce/all 3.8.10 → 3.9.0

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (20) hide show
  1. package/dist/{OrbitControls-t9CaxJow.js → OrbitControls-B2DZt-9I.js} +1 -1
  2. package/dist/{ReactNeuroglancer-D662gKgy.js → ReactNeuroglancer-rd4zjvRk.js} +1 -1
  3. package/dist/{deflate-BHuVu6ka.js → deflate-mmlLWSqG.js} +1 -1
  4. package/dist/{higlass-BWjoRZ_l.js → higlass-Chx9S58D.js} +1 -1
  5. package/dist/{index-NBOfpK3S.js → index-Ccs0RkVq.js} +3474 -2058
  6. package/dist/{index-C07z-9Ag.js → index-SH4i0VjQ.js} +3 -3
  7. package/dist/{index-sdWGixZi.js → index-gdPd0Ws9.js} +181 -63
  8. package/dist/index.js +8 -8
  9. package/dist/{jpeg-Bz6F-bB0.js → jpeg-C90IvgAr.js} +1 -1
  10. package/dist/{lerc-C0S_lxM2.js → lerc-cm5d7rjy.js} +1 -1
  11. package/dist/{lzw-D4L-VfX8.js → lzw-BNtf5UsG.js} +1 -1
  12. package/dist/{packbits-CLckyTrz.js → packbits-BaMXgBB6.js} +1 -1
  13. package/dist/{raw-DP5Af32W.js → raw-C5wVKuiu.js} +1 -1
  14. package/dist/{troika-three-text.esm-O9xfslQt.js → troika-three-text.esm-D_LuNiSc.js} +1 -1
  15. package/dist/{webimage-Y7ICR65G.js → webimage-BjAUnP6y.js} +1 -1
  16. package/dist-tsc/base-plugins.d.ts +10 -1
  17. package/dist-tsc/base-plugins.d.ts.map +1 -1
  18. package/dist-tsc/base-plugins.js +11 -2
  19. package/package.json +33 -33
  20. package/src/base-plugins.ts +15 -2
package/dist-tsc/base-plugins.js CHANGED
@@ -253,7 +253,15 @@ export const baseCoordinationTypes = [
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  path: obsSetPath,
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  color: rgbArray,
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  })).nullable()),
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- new PluginCoordinationType(CoordinationType.OBS_COLOR_ENCODING, 'cellSetSelection', z.enum(['geneSelection', 'cellSetSelection', 'spatialChannelColor', 'spatialLayerColor', 'obsLabels'])),
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+ new PluginCoordinationType(CoordinationType.FEATURE_COLOR, null, z.array(z.object({
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+ name: z.string(),
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+ color: rgbArray,
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+ })).nullable()),
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+ new PluginCoordinationType(CoordinationType.OBS_COLOR_ENCODING, 'cellSetSelection', z.enum([
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+ 'geneSelection', 'cellSetSelection', 'spatialChannelColor', 'spatialLayerColor', 'obsLabels',
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+ // For point coloring.
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+ 'random', 'randomByFeature',
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+ ])),
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  new PluginCoordinationType(CoordinationType.FEATURE_FILTER, null, z.array(z.string()).nullable()),
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  new PluginCoordinationType(CoordinationType.FEATURE_HIGHLIGHT, null, z.string().nullable()),
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  new PluginCoordinationType(CoordinationType.FEATURE_SELECTION, null, z.array(z.string()).nullable()),
@@ -267,7 +275,7 @@ export const baseCoordinationTypes = [
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  new PluginCoordinationType(CoordinationType.FEATURE_SET_SELECTION, null, z.array(obsSetPath).nullable()),
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  new PluginCoordinationType(CoordinationType.FEATURE_SELECTION_MODE, null, z.enum(['featureSelection', 'featureSetSelection']).nullable()),
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  new PluginCoordinationType(CoordinationType.FEATURE_SET_FILTER, null, z.array(obsSetPath).nullable()),
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- new PluginCoordinationType(CoordinationType.FEATURE_FILTER_MODE, null, z.enum(['featureFilter', 'featureSetFilter']).nullable()),
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+ new PluginCoordinationType(CoordinationType.FEATURE_FILTER_MODE, null, z.enum(['featureFilter', 'featureSetFilter', 'featureSelection']).nullable()),
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  new PluginCoordinationType(CoordinationType.FEATURE_VALUE_TRANSFORM, null, z.enum(['log1p', 'arcsinh']).nullable()),
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  new PluginCoordinationType(CoordinationType.FEATURE_VALUE_TRANSFORM_COEFFICIENT, 1, z.number()),
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  new PluginCoordinationType(CoordinationType.FEATURE_VALUE_POSITIVITY_THRESHOLD, 0, z.number()),
@@ -301,6 +309,7 @@ export const baseCoordinationTypes = [
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  new PluginCoordinationType(CoordinationType.SPATIAL_CHANNEL_COLOR, [255, 255, 255], z.array(z.number()).length(3).nullable()),
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  new PluginCoordinationType(CoordinationType.SPATIAL_SEGMENTATION_FILLED, true, z.boolean()),
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  new PluginCoordinationType(CoordinationType.SPATIAL_SEGMENTATION_STROKE_WIDTH, 1.0, z.number()),
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+ new PluginCoordinationType(CoordinationType.SPATIAL_LOD_FACTOR, 1.0, z.number()),
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  // Reference: https://www.awaresystems.be/imaging/tiff/tifftags/photometricinterpretation.html
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  new PluginCoordinationType(CoordinationType.PHOTOMETRIC_INTERPRETATION, null, z.enum(['BlackIsZero', 'RGB']).nullable()),
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  new PluginCoordinationType(CoordinationType.SPATIAL_RENDERING_MODE, '2D', z.enum(['2D', '3D']).nullable()),
package/package.json CHANGED
@@ -1,6 +1,6 @@
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  {
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  "name": "@vitessce/all",
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- "version": "3.8.10",
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+ "version": "3.9.0",
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  "author": "HIDIVE Lab at HMS",
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  "homepage": "http://vitessce.io",
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  "repository": {
@@ -17,38 +17,38 @@
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  ],
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  "dependencies": {
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  "zod": "^3.21.4",
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- "@vitessce/styles": "3.8.10",
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- "@vitessce/constants-internal": "3.8.10",
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- "@vitessce/abstract": "3.8.10",
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- "@vitessce/error": "3.8.10",
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- "@vitessce/csv": "3.8.10",
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- "@vitessce/description": "3.8.10",
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- "@vitessce/feature-list": "3.8.10",
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- "@vitessce/genomic-profiles": "3.8.10",
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- "@vitessce/heatmap": "3.8.10",
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- "@vitessce/glb": "3.8.10",
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- "@vitessce/json": "3.8.10",
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- "@vitessce/layer-controller": "3.8.10",
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- "@vitessce/layer-controller-beta": "3.8.10",
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- "@vitessce/link-controller": "3.8.10",
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- "@vitessce/obs-sets-manager": "3.8.10",
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- "@vitessce/ome-tiff": "3.8.10",
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- "@vitessce/plugins": "3.8.10",
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- "@vitessce/scatterplot-embedding": "3.8.10",
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- "@vitessce/scatterplot-gating": "3.8.10",
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- "@vitessce/schemas": "3.8.10",
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- "@vitessce/spatial": "3.8.10",
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- "@vitessce/spatial-beta": "3.8.10",
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- "@vitessce/statistical-plots": "3.8.10",
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- "@vitessce/status": "3.8.10",
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- "@vitessce/vit-s": "3.8.10",
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- "@vitessce/zarr": "3.8.10",
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- "@vitessce/globals": "3.8.10",
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- "@vitessce/spatial-zarr": "3.8.10",
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- "@vitessce/spatial-three": "3.8.10",
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- "@vitessce/spatial-accelerated": "3.8.10",
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- "@vitessce/biomarker-select": "3.8.10",
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- "@vitessce/neuroglancer": "3.8.10"
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+ "@vitessce/styles": "3.9.0",
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+ "@vitessce/abstract": "3.9.0",
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+ "@vitessce/constants-internal": "3.9.0",
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+ "@vitessce/csv": "3.9.0",
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+ "@vitessce/error": "3.9.0",
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+ "@vitessce/description": "3.9.0",
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+ "@vitessce/feature-list": "3.9.0",
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+ "@vitessce/genomic-profiles": "3.9.0",
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+ "@vitessce/glb": "3.9.0",
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+ "@vitessce/json": "3.9.0",
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+ "@vitessce/heatmap": "3.9.0",
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+ "@vitessce/link-controller": "3.9.0",
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+ "@vitessce/layer-controller": "3.9.0",
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+ "@vitessce/layer-controller-beta": "3.9.0",
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+ "@vitessce/obs-sets-manager": "3.9.0",
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+ "@vitessce/ome-tiff": "3.9.0",
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+ "@vitessce/scatterplot-gating": "3.9.0",
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+ "@vitessce/scatterplot-embedding": "3.9.0",
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+ "@vitessce/schemas": "3.9.0",
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+ "@vitessce/spatial": "3.9.0",
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+ "@vitessce/spatial-beta": "3.9.0",
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+ "@vitessce/statistical-plots": "3.9.0",
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+ "@vitessce/status": "3.9.0",
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+ "@vitessce/zarr": "3.9.0",
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+ "@vitessce/vit-s": "3.9.0",
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+ "@vitessce/globals": "3.9.0",
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+ "@vitessce/spatial-zarr": "3.9.0",
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+ "@vitessce/plugins": "3.9.0",
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+ "@vitessce/spatial-three": "3.9.0",
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+ "@vitessce/spatial-accelerated": "3.9.0",
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+ "@vitessce/biomarker-select": "3.9.0",
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+ "@vitessce/neuroglancer": "3.9.0"
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  },
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  "devDependencies": {
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  "@types/react": "^18.0.28",
package/src/base-plugins.ts CHANGED
@@ -480,10 +480,22 @@ export const baseCoordinationTypes = [
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  color: rgbArray,
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  })).nullable(),
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  ),
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+ new PluginCoordinationType(
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+ CoordinationType.FEATURE_COLOR,
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+ null,
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+ z.array(z.object({
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+ name: z.string(),
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+ color: rgbArray,
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+ })).nullable(),
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+ ),
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  new PluginCoordinationType(
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  CoordinationType.OBS_COLOR_ENCODING,
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  'cellSetSelection',
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- z.enum(['geneSelection', 'cellSetSelection', 'spatialChannelColor', 'spatialLayerColor', 'obsLabels']),
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+ z.enum([
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+ 'geneSelection', 'cellSetSelection', 'spatialChannelColor', 'spatialLayerColor', 'obsLabels',
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+ // For point coloring.
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+ 'random', 'randomByFeature',
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+ ]),
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  ),
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  new PluginCoordinationType(CoordinationType.FEATURE_FILTER, null, z.array(z.string()).nullable()),
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  new PluginCoordinationType(CoordinationType.FEATURE_HIGHLIGHT, null, z.string().nullable()),
@@ -510,7 +522,7 @@ export const baseCoordinationTypes = [
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  null,
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  z.array(obsSetPath).nullable(),
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  ),
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- new PluginCoordinationType(CoordinationType.FEATURE_FILTER_MODE, null, z.enum(['featureFilter', 'featureSetFilter']).nullable()),
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+ new PluginCoordinationType(CoordinationType.FEATURE_FILTER_MODE, null, z.enum(['featureFilter', 'featureSetFilter', 'featureSelection']).nullable()),
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  new PluginCoordinationType(
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  CoordinationType.FEATURE_VALUE_TRANSFORM,
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  null,
@@ -576,6 +588,7 @@ export const baseCoordinationTypes = [
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  new PluginCoordinationType(CoordinationType.SPATIAL_CHANNEL_COLOR, [255, 255, 255], z.array(z.number()).length(3).nullable()),
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  new PluginCoordinationType(CoordinationType.SPATIAL_SEGMENTATION_FILLED, true, z.boolean()),
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  new PluginCoordinationType(CoordinationType.SPATIAL_SEGMENTATION_STROKE_WIDTH, 1.0, z.number()),
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+ new PluginCoordinationType(CoordinationType.SPATIAL_LOD_FACTOR, 1.0, z.number()),
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  // Reference: https://www.awaresystems.be/imaging/tiff/tifftags/photometricinterpretation.html
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  new PluginCoordinationType(CoordinationType.PHOTOMETRIC_INTERPRETATION, null, z.enum(['BlackIsZero', 'RGB']).nullable()),
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  new PluginCoordinationType(CoordinationType.SPATIAL_RENDERING_MODE, '2D', z.enum(['2D', '3D']).nullable()),