@vitessce/all 3.9.7 → 3.9.8

package/dist/{OrbitControls-DJu5u6tM.js → OrbitControls-BSs_Q5On.js}

@@ -1,4 +1,4 @@
-import { aG as getDefaultExportFromCjs, aH as Raycaster, W as OrthographicCamera, K as PerspectiveCamera, av as Scene, aI as PCFSoftShadowMap, aJ as VSMShadowMap, aK as PCFShadowMap, aL as BasicShadowMap, aM as NoToneMapping, aN as ACESFilmicToneMapping, e as Vector3, V as Vector2, aO as Clock, aP as WebGLRenderer, aQ as Camera, x as BufferGeometry, r as Material, aR as Layers, a1 as Texture, aC as RGBAFormat, ay as UnsignedByteType, C as Color, aj as _extends, aS as THREE, aT as EventDispatcher, aU as MOUSE, aV as TOUCH, aW as Spherical, Q as Quaternion, an as Ray, ak as Plane } from "./index-C_0Ni_kA.js";
+import { aG as getDefaultExportFromCjs, aH as Raycaster, W as OrthographicCamera, K as PerspectiveCamera, av as Scene, aI as PCFSoftShadowMap, aJ as VSMShadowMap, aK as PCFShadowMap, aL as BasicShadowMap, aM as NoToneMapping, aN as ACESFilmicToneMapping, e as Vector3, V as Vector2, aO as Clock, aP as WebGLRenderer, aQ as Camera, x as BufferGeometry, r as Material, aR as Layers, a1 as Texture, aC as RGBAFormat, ay as UnsignedByteType, C as Color, aj as _extends, aS as THREE, aT as EventDispatcher, aU as MOUSE, aV as TOUCH, aW as Spherical, Q as Quaternion, an as Ray, ak as Plane } from "./index-gbtRLRj5.js";
 import * as React from "react";
 import React__default, { useReducer, useRef, useEffect, useLayoutEffect, useDebugValue, useState, useMemo } from "react";
 var constants = { exports: {} };

package/dist/{ReactNeuroglancer-DC-9NQV1.js → ReactNeuroglancer-x4EMSEcX.js}

@@ -1,4 +1,4 @@
-import { aG as getDefaultExportFromCjs, b1 as requireAssign, b2 as require_export, b3 as require_core, b4 as require_fails, b5 as require_toObject, b6 as require_objectKeys, b7 as require_cof, b8 as require_wks, b9 as require_iterators, ba as requireWeb_dom_iterable, bb as requireEs6_string_iterator, bc as require_anObject, bd as require_hide, be as require_ctx, bf as require_toLength, bg as require_global, bh as require_objectDp, bi as require_descriptors, bj as require_isObject, bk as require_objectCreate, bl as require_iterDefine, bm as require_iterStep, bn as require_meta, bo as require_isArray, bp as require_iobject, bq as require_setToStringTag, br as require_aFunction, bs as requireIterator, bt as require_propertyDesc, a_ as commonjsGlobal, bu as requireEs6_symbol, bv as requireDefineProperty, bw as require_toIobject, bx as require_objectGopd, by as require_html, bz as require_domCreate, bA as require_library, bB as requireSymbol, bC as require_objectPie, bD as require_has, bE as require_redefine, bF as require_objectAssign, bG as diffCameraState, ao as jsxRuntimeExports } from "./index-C_0Ni_kA.js";
+import { aG as getDefaultExportFromCjs, b1 as requireAssign, b2 as require_export, b3 as require_core, b4 as require_fails, b5 as require_toObject, b6 as require_objectKeys, b7 as require_cof, b8 as require_wks, b9 as require_iterators, ba as requireWeb_dom_iterable, bb as requireEs6_string_iterator, bc as require_anObject, bd as require_hide, be as require_ctx, bf as require_toLength, bg as require_global, bh as require_objectDp, bi as require_descriptors, bj as require_isObject, bk as require_objectCreate, bl as require_iterDefine, bm as require_iterStep, bn as require_meta, bo as require_isArray, bp as require_iobject, bq as require_setToStringTag, br as require_aFunction, bs as requireIterator, bt as require_propertyDesc, a_ as commonjsGlobal, bu as requireEs6_symbol, bv as requireDefineProperty, bw as require_toIobject, bx as require_objectGopd, by as require_html, bz as require_domCreate, bA as require_library, bB as requireSymbol, bC as require_objectPie, bD as require_has, bE as require_redefine, bF as require_objectAssign, bG as diffCameraState, ao as jsxRuntimeExports } from "./index-gbtRLRj5.js";
 import React__default from "react";
 var assignExports = requireAssign();
 const _Object$assign = /* @__PURE__ */ getDefaultExportFromCjs(assignExports);
@@ -65441,6 +65441,7 @@ class Neuroglancer extends React__default.Component {
     onVisibleChanged: null,
     onSelectionDetailsStateChanged: null,
     onViewerStateChanged: null,
+    onLayerLoadingChange: null,
     key: null,
     callbacks: [],
     ngServer: "https://neuroglancer-demo.appspot.com/"
@@ -65511,7 +65512,7 @@ class Neuroglancer extends React__default.Component {
     const baseLayers = this.props.viewerState?.layers ?? (this.viewer.state.toJSON().layers || []);
     const newLayers = baseLayers.map((layer) => {
       const layerScope = Object.keys(cellColorMappingByLayer).find((scope) => layer.name?.includes(scope));
-      const selected = { ...cellColorMappingByLayer[layerScope] || {} };
+      const selected = { ...cellColorMappingByLayer[layerScope]?.colors || {} };
       if (!this.allKnownIdsByLayer)
         this.allKnownIdsByLayer = {};
       if (!this.allKnownIdsByLayer[layerScope]) {
@@ -65571,6 +65572,34 @@ class Neuroglancer extends React__default.Component {
     } else {
       viewerNoKey = this.viewer;
     }
+    const { visibleChunksChanged } = this.viewer.chunkQueueManager;
+    let firstChunkLoaded = false;
+    this.disposers.push(visibleChunksChanged.add(() => {
+      if (!firstChunkLoaded) {
+        for (const layer of this.viewer.layerManager.managedLayers) {
+          if (layer.layer instanceof SegmentationUserLayer) {
+            const hasVisibleChunk = layer.layer.renderLayers?.some((rl) => {
+              const { numVisibleChunksAvailable, numVisibleChunksNeeded } = rl.layerChunkProgressInfo || {};
+              if (!numVisibleChunksNeeded || !numVisibleChunksAvailable)
+                return false;
+              return numVisibleChunksAvailable / numVisibleChunksNeeded > 0.25;
+            });
+            if (hasVisibleChunk) {
+              firstChunkLoaded = true;
+              requestAnimationFrame(() => {
+                requestAnimationFrame(() => {
+                  this.props.onLayerLoadingChange?.(true);
+                });
+              });
+              return;
+            }
+          }
+        }
+      }
+    }));
+    this.disposers.push(() => {
+      firstChunkLoaded = false;
+    });
   }
   componentDidUpdate(prevProps, prevState) {
     const { viewerState, cellColorMapping: cellColorMappingByLayer } = this.props;
@@ -65585,6 +65614,20 @@ class Neuroglancer extends React__default.Component {
       if (layer.layer instanceof SegmentationUserLayer) {
         const { segmentSelectionState } = layer.layer.displayState;
         segmentSelectionState.set(selectedSegments[layer.name]);
+        const layerScope = Object.keys(cellColorMappingByLayer).find((scope) => layer.name?.includes(scope));
+        if (layerScope) {
+          const opacity = cellColorMappingByLayer[layerScope]?.opacity ?? 1;
+          layer.layer.displayState.objectAlpha.value = opacity;
+        }
+      }
+      if (layer.layer instanceof AnnotationUserLayer) {
+        const matchingLayer = (viewerState?.layers || []).find((l) => l.name === layer.name);
+        if (matchingLayer?.shader) {
+          const currentShader = layer.layer.annotationDisplayState.shader.value_;
+          if (currentShader !== matchingLayer.shader) {
+            layer.layer.annotationDisplayState.shader.value = matchingLayer.shader;
+          }
+        }
       }
     }
     if (!viewerState)
@@ -65613,8 +65656,8 @@ class Neuroglancer extends React__default.Component {
         }
       });
     }
-    const prevSize = prevProps.cellColorMapping ? Object.keys(prevProps.cellColorMapping).length : 0;
-    const currSize = cellColorMappingByLayer ? Object.keys(cellColorMappingByLayer).length : 0;
+    const prevSize = prevProps.cellColorMapping ? Object.values(prevProps.cellColorMapping).reduce((acc, v) => acc + Object.keys(v?.colors || {}).length, 0) : 0;
+    const currSize = cellColorMappingByLayer ? Object.values(cellColorMappingByLayer).reduce((acc, v) => acc + Object.keys(v?.colors || {}).length, 0) : 0;
     const mappingRefChanged = prevProps.cellColorMapping !== this.props.cellColorMapping;
     if (!this.didLayersChange(prevVS, viewerState) && (mappingRefChanged || prevSize !== currSize)) {
       this.withoutEmitting(() => {
@@ -65624,7 +65667,7 @@ class Neuroglancer extends React__default.Component {
     const stripSegFields = (layers) => (layers || []).map((l) => {
       if (!l)
         return l;
-      const { segments, segmentColors, ...rest } = l;
+      const { segments, segmentColors, objectAlpha, ...rest } = l;
       return rest;
     });
     const prevLayers = prevProps.viewerState?.layers;

package/dist/{deflate-BVXiBwpd.js → deflate-CsmxXIPT.js}

@@ -1,5 +1,5 @@
 import { i as inflate_1 } from "./pako.esm-SxljTded.js";
-import { aX as BaseDecoder } from "./index-C_0Ni_kA.js";
+import { aX as BaseDecoder } from "./index-gbtRLRj5.js";
 class DeflateDecoder extends BaseDecoder {
   decodeBlock(buffer) {
     return inflate_1(new Uint8Array(buffer)).buffer;

package/dist/{higlass-BABKAqJw.js → higlass-wSBrpMhX.js}

@@ -1,7 +1,7 @@
 import * as React$7 from "react";
 import React__default, { isValidElement, PureComponent, Component, createElement, createContext, createRef } from "react";
 import ReactDOM__default, { findDOMNode as findDOMNode$1 } from "react-dom";
-import { a_ as commonjsGlobal$1, a$ as requireObjectAssign, aG as getDefaultExportFromCjs$1, b0 as earcut } from "./index-C_0Ni_kA.js";
+import { a_ as commonjsGlobal$1, a$ as requireObjectAssign, aG as getDefaultExportFromCjs$1, b0 as earcut } from "./index-gbtRLRj5.js";
 var promise = {};
 var hasRequiredPromise;
 function requirePromise() {

package/dist/{index-BA1bwFuv.js → index-BPsHPaJT.js}

@@ -1,6 +1,6 @@
-import { aw as log, ax as isEqual, ar as Data3DTexture, as as RedFormat, ay as UnsignedByteType, l as LinearFilter, az as RedIntegerFormat, aA as UnsignedIntType, m as NearestFilter, e as Vector3, V as Vector2, ag as Vector4, ae as UniformsUtils, aq as CoordinationType, aB as WebGLMultipleRenderTargets, aC as RGBAFormat, av as Scene, W as OrthographicCamera, ad as ShaderMaterial, z as Mesh, aD as PlaneGeometry, aE as useEventCallback, ao as jsxRuntimeExports, aF as GLSL3, am as BackSide } from "./index-C_0Ni_kA.js";
+import { aw as log, ax as isEqual, ar as Data3DTexture, as as RedFormat, ay as UnsignedByteType, l as LinearFilter, az as RedIntegerFormat, aA as UnsignedIntType, m as NearestFilter, e as Vector3, V as Vector2, ag as Vector4, ae as UniformsUtils, aq as CoordinationType, aB as WebGLMultipleRenderTargets, aC as RGBAFormat, av as Scene, W as OrthographicCamera, ad as ShaderMaterial, z as Mesh, aD as PlaneGeometry, aE as useEventCallback, ao as jsxRuntimeExports, aF as GLSL3, am as BackSide } from "./index-gbtRLRj5.js";
 import { useRef, useState, useMemo, useEffect, Suspense } from "react";
-import { u as useThree, a as useFrame, O as OrbitControls, C as Canvas } from "./OrbitControls-DJu5u6tM.js";
+import { u as useThree, a as useFrame, O as OrbitControls, C as Canvas } from "./OrbitControls-BSs_Q5On.js";
 const LogLevel = {
   INFO: "info",
   WARN: "warn",

package/dist/{index-CC-2MyaG.js → index-BstOXuv0.js}

@@ -1,7 +1,7 @@
-import { G as Group, M as Matrix4, T as TrianglesDrawMode, a as TriangleFanDrawMode, b as TriangleStripDrawMode, R as REVISION, L as Loader, c as LoaderUtils, F as FileLoader, d as MeshPhysicalMaterial, V as Vector2, C as Color, S as SpotLight, P as PointLight, D as DirectionalLight, e as Vector3, I as InstancedMesh, Q as Quaternion, O as Object3D, f as TextureLoader, g as ImageBitmapLoader, B as BufferAttribute, h as InterleavedBuffer, i as LinearMipmapLinearFilter, N as NearestMipmapLinearFilter, j as LinearMipmapNearestFilter, k as NearestMipmapNearestFilter, l as LinearFilter, m as NearestFilter, n as RepeatWrapping, o as MirroredRepeatWrapping, p as ClampToEdgeWrapping, q as PointsMaterial, r as Material, s as LineBasicMaterial, t as MeshStandardMaterial, u as DoubleSide, v as MeshBasicMaterial, w as PropertyBinding, x as BufferGeometry, y as SkinnedMesh, z as Mesh, A as LineSegments, E as Line$1, H as LineLoop, J as Points, K as PerspectiveCamera, U as MathUtils, W as OrthographicCamera, X as Skeleton, Y as InterpolateDiscrete, Z as InterpolateLinear, _ as AnimationClip, $ as Bone, a0 as InterleavedBufferAttribute, a1 as Texture, a2 as VectorKeyframeTrack, a3 as QuaternionKeyframeTrack, a4 as NumberKeyframeTrack, a5 as FrontSide, a6 as Interpolant, a7 as Box3, a8 as Sphere, a9 as InstancedBufferGeometry, aa as Float32BufferAttribute, ab as InstancedInterleavedBuffer, ac as WireframeGeometry, ad as ShaderMaterial, ae as UniformsUtils, af as UniformsLib, ag as Vector4, ah as Line3, ai as SphereGeometry, aj as _extends, ak as Plane, al as Triangle, am as BackSide, an as Ray$1, ao as jsxRuntimeExports, ap as Matrix3, aq as CoordinationType, ar as Data3DTexture, as as RedFormat, at as FloatType, au as getImageSize, av as Scene } from "./index-C_0Ni_kA.js";
+import { G as Group, M as Matrix4, T as TrianglesDrawMode, a as TriangleFanDrawMode, b as TriangleStripDrawMode, R as REVISION, L as Loader, c as LoaderUtils, F as FileLoader, d as MeshPhysicalMaterial, V as Vector2, C as Color, S as SpotLight, P as PointLight, D as DirectionalLight, e as Vector3, I as InstancedMesh, Q as Quaternion, O as Object3D, f as TextureLoader, g as ImageBitmapLoader, B as BufferAttribute, h as InterleavedBuffer, i as LinearMipmapLinearFilter, N as NearestMipmapLinearFilter, j as LinearMipmapNearestFilter, k as NearestMipmapNearestFilter, l as LinearFilter, m as NearestFilter, n as RepeatWrapping, o as MirroredRepeatWrapping, p as ClampToEdgeWrapping, q as PointsMaterial, r as Material, s as LineBasicMaterial, t as MeshStandardMaterial, u as DoubleSide, v as MeshBasicMaterial, w as PropertyBinding, x as BufferGeometry, y as SkinnedMesh, z as Mesh, A as LineSegments, E as Line$1, H as LineLoop, J as Points, K as PerspectiveCamera, U as MathUtils, W as OrthographicCamera, X as Skeleton, Y as InterpolateDiscrete, Z as InterpolateLinear, _ as AnimationClip, $ as Bone, a0 as InterleavedBufferAttribute, a1 as Texture, a2 as VectorKeyframeTrack, a3 as QuaternionKeyframeTrack, a4 as NumberKeyframeTrack, a5 as FrontSide, a6 as Interpolant, a7 as Box3, a8 as Sphere, a9 as InstancedBufferGeometry, aa as Float32BufferAttribute, ab as InstancedInterleavedBuffer, ac as WireframeGeometry, ad as ShaderMaterial, ae as UniformsUtils, af as UniformsLib, ag as Vector4, ah as Line3, ai as SphereGeometry, aj as _extends, ak as Plane, al as Triangle, am as BackSide, an as Ray$1, ao as jsxRuntimeExports, ap as Matrix3, aq as CoordinationType, ar as Data3DTexture, as as RedFormat, at as FloatType, au as getImageSize, av as Scene } from "./index-gbtRLRj5.js";
 import * as React from "react";
 import { useRef, useEffect, useState, forwardRef } from "react";
-import { u as useThree, a as useFrame, c as create, e as extend, b as createPortal, O as OrbitControls, C as Canvas } from "./OrbitControls-DJu5u6tM.js";
+import { u as useThree, a as useFrame, c as create, e as extend, b as createPortal, O as OrbitControls, C as Canvas } from "./OrbitControls-BSs_Q5On.js";
 const isPromise = (promise) => typeof promise === "object" && typeof promise.then === "function";
 const globalCache = [];
 function shallowEqualArrays(arrA, arrB, equal = (a, b) => a === b) {
@@ -5027,7 +5027,7 @@ const Text = /* @__PURE__ */ React.forwardRef(({
   const {
     Text: TextMeshImpl,
     preloadFont
-  } = suspend(async () => import("./troika-three-text.esm-C_yrtgNH.js"), []);
+  } = suspend(async () => import("./troika-three-text.esm-DK1u2spU.js"), []);
   const invalidate = useThree(({
     invalidate: invalidate2
   }) => invalidate2);