npm - molstar - Versions diffs - 3.8.2 → 3.10.0 - Mend

molstar 3.8.2 → 3.10.0

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 (596) hide show

package/lib/examples/proteopedia-wrapper/index.html CHANGED Viewed

@@ -1,237 +1,237 @@
-<!DOCTYPE html>
-<html lang="en">
-    <head>
-        <meta charset="utf-8" />
-        <meta name="viewport" content="width=device-width, user-scalable=no, minimum-scale=1.0, maximum-scale=1.0">
-        <title>Mol* Proteopedia Wrapper</title>
-        <style>
-            * {
-                margin: 0;
-                padding: 0;
-                box-sizing: border-box;
-            }
-            #app {
-                position: absolute;
-                left: 160px;
-                top: 100px;
-                width: 600px;
-                height: 600px;
-                border: 1px solid #ccc;
-            }
-            #controls {
-                position: absolute;
-                width: 130px;
-                top: 10px;
-                left: 10px;
-            }
-            #controls > button {
-                display: block;
-                width: 100%;
-                text-align: left;
-            }
-            #controls > hr {
-                margin: 5px 0;
-            }
-            #controls > input, #controls > select {
-                width: 100%;
-                display: block;
-            }
-            #volume-streaming-wrapper {
-                position: absolute;
-                top: 100px;
-                left: 780px;
-                width: 300px;
-            }
-        </style>
-        <link rel="stylesheet" type="text/css" href="molstar.css" />
-        <script type="text/javascript" src="./index.js"></script>
-    </head>
-    <body>
-        <div id='controls'>
-            <h3>Source</h3>
-            <input type='text' id='url' placeholder='url' style='width: 400px' />
-            <input type='text' id='assemblyId' placeholder='assembly id' />
-            <select id='format'>
-                <option value='cif' selected>CIF</option>
-                <option value='pdb'>PDB</option>
-            </select>
-            <input type='checkbox' id='isBinary' style="display: inline-block; width: auto" /> <label for="isBinary"> Binary</label><br />
-        </div>
-        <div id="app"></div>
-        <div id="volume-streaming-wrapper"></div>
-        <script>
-            // it might be a good idea to define these colors in a separate script file
-            var CustomColors = [0x00ff00, 0x0000ff];
-            // create an instance of the plugin
-            var PluginWrapper = new MolStarProteopediaWrapper();
-            console.log('Wrapper version', MolStarProteopediaWrapper.VERSION_MAJOR, MolStarProteopediaWrapper.VERSION_MINOR);
-            function $(id) { return document.getElementById(id); }
-            var pdbId = '1cbs', assemblyId= 'preferred', isBinary = true;
-            var url = 'https://www.ebi.ac.uk/pdbe/entry-files/download/' + pdbId + '.bcif'
-            var format = 'cif';
-            $('url').value = url;
-            $('url').onchange = function (e) { url = e.target.value; }
-            $('assemblyId').value = assemblyId;
-            $('assemblyId').onchange = function (e) { assemblyId = e.target.value; }
-            $('format').value = format;
-            $('format').onchange = function (e) { format = e.target.value; }
-            $('isBinary').checked = isBinary;
-            $('isBinary').onchange = function (e) { isBinary = !!e.target.checked; };
-            function loadAndSnapshot(params) {
-                PluginWrapper.load(params).then(() => {
-                    setTimeout(() => snapshot = PluginWrapper.plugin.state.getSnapshot({ canvas3d: false /* do not save spinning state */ }), 500);
-                });
-            }
-            var representationStyle = {
-                // sequence: { coloring: 'proteopedia-custom' }, // or just { }
-                hetGroups: { kind: 'ball-and-stick' }, // or 'spacefill
-                water: { hide: true },
-                snfg3d: { hide: false }
-            };
-            PluginWrapper.init('app' /** or document.getElementById('app') */, {
-                customColorList: CustomColors
-            }).then(() => {
-                PluginWrapper.setBackground(0xffffff);
-                loadAndSnapshot({ url: url, format: format, isBinary: isBinary, assemblyId: assemblyId, representationStyle: representationStyle });
-                PluginWrapper.toggleSpin();
-            });
-            PluginWrapper.events.modelInfo.subscribe(function (info) {
-                console.log('Model Info', info);
-                listHetGroups(info);
-            });
-            addControl('Load Asym Unit', () => loadAndSnapshot({ url: url, format: format, isBinary }));
-            addControl('Load Assembly', () => loadAndSnapshot({ url: url, format: format, isBinary, assemblyId: assemblyId }));
-            addSeparator();
-            addHeader('Representation');
-            addControl('Custom Chain Colors', () => PluginWrapper.updateStyle({ sequence: { coloring: 'proteopedia-custom' } }, true));
-            addControl('Default Chain Colors', () => PluginWrapper.updateStyle({ sequence: { } }, true));
-            addControl('HET Spacefill', () => PluginWrapper.updateStyle({ hetGroups: { kind: 'spacefill' } }, true));
-            addControl('HET Ball-and-stick', () => PluginWrapper.updateStyle({ hetGroups: { kind: 'ball-and-stick' } }, true));
-            addControl('Hide 3DSNFG', () => PluginWrapper.updateStyle({ snfg3d: { hide: true } }, true));
-            addControl('Show 3DSNFG', () => PluginWrapper.updateStyle({ snfg3d: { hide: false } }, true));
-            addControl('Hide Water', () => PluginWrapper.updateStyle({ water: { hide: true } }, true));
-            addControl('Show Water', () => PluginWrapper.updateStyle({ water: { hide: false } }, true));
-            addSeparator();
-            addHeader('Camera');
-            addControl('Reset Position', () => PluginWrapper.camera.resetPosition());
-            addControl('Toggle Spin', () => PluginWrapper.camera.toggleSpin());
-            // Same as "wheel icon" and Viewport options
-            // addControl('Clip', () => PluginWrapper.viewport.setSettings({ clip: [33, 66] }));
-            // addControl('Reset Clip', () => PluginWrapper.viewport.setSettings({ clip: [1, 100] }));
-            addSeparator();
-            addHeader('Animation');
-            // adjust this number to make the animation faster or slower
-            // requires to "restart" the animation if changed
-            PluginWrapper.animate.modelIndex.targetFps = 30;
-            addControl('Play To End', () => PluginWrapper.animate.modelIndex.onceForward());
-            addControl('Play To Start', () => PluginWrapper.animate.modelIndex.onceBackward());
-            addControl('Play Palindrome', () => PluginWrapper.animate.modelIndex.palindrome());
-            addControl('Play Loop', () => PluginWrapper.animate.modelIndex.loop());
-            addControl('Stop', () => PluginWrapper.animate.modelIndex.stop());
-            addSeparator();
-            addHeader('Misc');
-            addControl('Apply Evo Cons Style', () => PluginWrapper.coloring.evolutionaryConservation());
-            addControl('Apply Evo Cons Colors', () => PluginWrapper.coloring.evolutionaryConservation({ sequence: true, het: false, keepStyle: true }));
-            addControl('Default Visuals', () => PluginWrapper.updateStyle());
-            addSeparator();
-            addHeader('HET Groups');
-            addControl('Reset', () => PluginWrapper.hetGroups.reset());
-            addHetGroupsContainer();
-            addSeparator();
-            addHeader('Exp. Data');
-            addControl('Init', () => PluginWrapper.experimentalData.init($('volume-streaming-wrapper')));
-            addControl('Remove', () => PluginWrapper.experimentalData.remove());
-            addSeparator();
-            addHeader('State');
-            var snapshot;
-            addControl('Set Snapshot', () => {
-                // const options = { data: true, behavior: false, animation: false, interactivity: false, canvas3d: false, camera: false, cameraTransition: false };
-                snapshot = PluginWrapper.plugin.state.getSnapshot(/** options */);
-                // console.log(JSON.stringify(snapshot, null, 2));
-            });
-            addControl('Restore Snapshot', () => {
-                if (!snapshot) return;
-                PluginWrapper.snapshot.set(snapshot);
-            });
-            addControl('Download State', () => {
-                PluginWrapper.snapshot.download('molj');
-            });
-            addControl('Download Session', () => {
-                PluginWrapper.snapshot.download('molx');
-            });
-            ////////////////////////////////////////////////////////
-            function addHetGroupsContainer() {
-                var div = document.createElement('div');
-                div.id = 'het-groups';
-                $('controls').appendChild(div);
-            }
-            function addControl(label, action) {
-                var btn = document.createElement('button');
-                btn.onclick = action;
-                btn.innerText = label;
-                $('controls').appendChild(btn);
-            }
-            function addSeparator() {
-                var hr = document.createElement('hr');
-                $('controls').appendChild(hr);
-            }
-            function addHeader(header) {
-                var h = document.createElement('h3');
-                h.innerText = header;
-                $('controls').appendChild(h);
-            }
-            function listHetGroups(info) {
-                var div = $('het-groups');
-                div.innerHTML = '';
-                info.hetResidues.forEach(function (r) {
-                    var l = document.createElement('button');
-                    l.innerText = r.name;
-                    l.onclick = function () {
-                        PluginWrapper.hetGroups.focusFirst(r.name, { doNotLabelWaters: true });
-                    };
-                    div.appendChild(l);
-                });
-            }
-        </script>
-    </body>
+<!DOCTYPE html>
+<html lang="en">
+    <head>
+        <meta charset="utf-8" />
+        <meta name="viewport" content="width=device-width, user-scalable=no, minimum-scale=1.0, maximum-scale=1.0">
+        <title>Mol* Proteopedia Wrapper</title>
+        <style>
+            * {
+                margin: 0;
+                padding: 0;
+                box-sizing: border-box;
+            }
+            #app {
+                position: absolute;
+                left: 160px;
+                top: 100px;
+                width: 600px;
+                height: 600px;
+                border: 1px solid #ccc;
+            }
+            #controls {
+                position: absolute;
+                width: 130px;
+                top: 10px;
+                left: 10px;
+            }
+            #controls > button {
+                display: block;
+                width: 100%;
+                text-align: left;
+            }
+            #controls > hr {
+                margin: 5px 0;
+            }
+            #controls > input, #controls > select {
+                width: 100%;
+                display: block;
+            }
+            #volume-streaming-wrapper {
+                position: absolute;
+                top: 100px;
+                left: 780px;
+                width: 300px;
+            }
+        </style>
+        <link rel="stylesheet" type="text/css" href="molstar.css" />
+        <script type="text/javascript" src="./index.js"></script>
+    </head>
+    <body>
+        <div id='controls'>
+            <h3>Source</h3>
+            <input type='text' id='url' placeholder='url' style='width: 400px' />
+            <input type='text' id='assemblyId' placeholder='assembly id' />
+            <select id='format'>
+                <option value='cif' selected>CIF</option>
+                <option value='pdb'>PDB</option>
+            </select>
+            <input type='checkbox' id='isBinary' style="display: inline-block; width: auto" /> <label for="isBinary"> Binary</label><br />
+        </div>
+        <div id="app"></div>
+        <div id="volume-streaming-wrapper"></div>
+        <script>
+            // it might be a good idea to define these colors in a separate script file
+            var CustomColors = [0x00ff00, 0x0000ff];
+            // create an instance of the plugin
+            var PluginWrapper = new MolStarProteopediaWrapper();
+            console.log('Wrapper version', MolStarProteopediaWrapper.VERSION_MAJOR, MolStarProteopediaWrapper.VERSION_MINOR);
+            function $(id) { return document.getElementById(id); }
+            var pdbId = '1cbs', assemblyId= 'preferred', isBinary = true;
+            var url = 'https://www.ebi.ac.uk/pdbe/entry-files/download/' + pdbId + '.bcif'
+            var format = 'cif';
+            $('url').value = url;
+            $('url').onchange = function (e) { url = e.target.value; }
+            $('assemblyId').value = assemblyId;
+            $('assemblyId').onchange = function (e) { assemblyId = e.target.value; }
+            $('format').value = format;
+            $('format').onchange = function (e) { format = e.target.value; }
+            $('isBinary').checked = isBinary;
+            $('isBinary').onchange = function (e) { isBinary = !!e.target.checked; };
+            function loadAndSnapshot(params) {
+                PluginWrapper.load(params).then(() => {
+                    setTimeout(() => snapshot = PluginWrapper.plugin.state.getSnapshot({ canvas3d: false /* do not save spinning state */ }), 500);
+                });
+            }
+            var representationStyle = {
+                // sequence: { coloring: 'proteopedia-custom' }, // or just { }
+                hetGroups: { kind: 'ball-and-stick' }, // or 'spacefill
+                water: { hide: true },
+                snfg3d: { hide: false }
+            };
+            PluginWrapper.init('app' /** or document.getElementById('app') */, {
+                customColorList: CustomColors
+            }).then(() => {
+                PluginWrapper.setBackground(0xffffff);
+                loadAndSnapshot({ url: url, format: format, isBinary: isBinary, assemblyId: assemblyId, representationStyle: representationStyle });
+                PluginWrapper.toggleSpin();
+            });
+            PluginWrapper.events.modelInfo.subscribe(function (info) {
+                console.log('Model Info', info);
+                listHetGroups(info);
+            });
+            addControl('Load Asym Unit', () => loadAndSnapshot({ url: url, format: format, isBinary }));
+            addControl('Load Assembly', () => loadAndSnapshot({ url: url, format: format, isBinary, assemblyId: assemblyId }));
+            addSeparator();
+            addHeader('Representation');
+            addControl('Custom Chain Colors', () => PluginWrapper.updateStyle({ sequence: { coloring: 'proteopedia-custom' } }, true));
+            addControl('Default Chain Colors', () => PluginWrapper.updateStyle({ sequence: { } }, true));
+            addControl('HET Spacefill', () => PluginWrapper.updateStyle({ hetGroups: { kind: 'spacefill' } }, true));
+            addControl('HET Ball-and-stick', () => PluginWrapper.updateStyle({ hetGroups: { kind: 'ball-and-stick' } }, true));
+            addControl('Hide 3DSNFG', () => PluginWrapper.updateStyle({ snfg3d: { hide: true } }, true));
+            addControl('Show 3DSNFG', () => PluginWrapper.updateStyle({ snfg3d: { hide: false } }, true));
+            addControl('Hide Water', () => PluginWrapper.updateStyle({ water: { hide: true } }, true));
+            addControl('Show Water', () => PluginWrapper.updateStyle({ water: { hide: false } }, true));
+            addSeparator();
+            addHeader('Camera');
+            addControl('Reset Position', () => PluginWrapper.camera.resetPosition());
+            addControl('Toggle Spin', () => PluginWrapper.camera.toggleSpin());
+            // Same as "wheel icon" and Viewport options
+            // addControl('Clip', () => PluginWrapper.viewport.setSettings({ clip: [33, 66] }));
+            // addControl('Reset Clip', () => PluginWrapper.viewport.setSettings({ clip: [1, 100] }));
+            addSeparator();
+            addHeader('Animation');
+            // adjust this number to make the animation faster or slower
+            // requires to "restart" the animation if changed
+            PluginWrapper.animate.modelIndex.targetFps = 30;
+            addControl('Play To End', () => PluginWrapper.animate.modelIndex.onceForward());
+            addControl('Play To Start', () => PluginWrapper.animate.modelIndex.onceBackward());
+            addControl('Play Palindrome', () => PluginWrapper.animate.modelIndex.palindrome());
+            addControl('Play Loop', () => PluginWrapper.animate.modelIndex.loop());
+            addControl('Stop', () => PluginWrapper.animate.modelIndex.stop());
+            addSeparator();
+            addHeader('Misc');
+            addControl('Apply Evo Cons Style', () => PluginWrapper.coloring.evolutionaryConservation());
+            addControl('Apply Evo Cons Colors', () => PluginWrapper.coloring.evolutionaryConservation({ sequence: true, het: false, keepStyle: true }));
+            addControl('Default Visuals', () => PluginWrapper.updateStyle());
+            addSeparator();
+            addHeader('HET Groups');
+            addControl('Reset', () => PluginWrapper.hetGroups.reset());
+            addHetGroupsContainer();
+            addSeparator();
+            addHeader('Exp. Data');
+            addControl('Init', () => PluginWrapper.experimentalData.init($('volume-streaming-wrapper')));
+            addControl('Remove', () => PluginWrapper.experimentalData.remove());
+            addSeparator();
+            addHeader('State');
+            var snapshot;
+            addControl('Set Snapshot', () => {
+                // const options = { data: true, behavior: false, animation: false, interactivity: false, canvas3d: false, camera: false, cameraTransition: false };
+                snapshot = PluginWrapper.plugin.state.getSnapshot(/** options */);
+                // console.log(JSON.stringify(snapshot, null, 2));
+            });
+            addControl('Restore Snapshot', () => {
+                if (!snapshot) return;
+                PluginWrapper.snapshot.set(snapshot);
+            });
+            addControl('Download State', () => {
+                PluginWrapper.snapshot.download('molj');
+            });
+            addControl('Download Session', () => {
+                PluginWrapper.snapshot.download('molx');
+            });
+            ////////////////////////////////////////////////////////
+            function addHetGroupsContainer() {
+                var div = document.createElement('div');
+                div.id = 'het-groups';
+                $('controls').appendChild(div);
+            }
+            function addControl(label, action) {
+                var btn = document.createElement('button');
+                btn.onclick = action;
+                btn.innerText = label;
+                $('controls').appendChild(btn);
+            }
+            function addSeparator() {
+                var hr = document.createElement('hr');
+                $('controls').appendChild(hr);
+            }
+            function addHeader(header) {
+                var h = document.createElement('h3');
+                h.innerText = header;
+                $('controls').appendChild(h);
+            }
+            function listHetGroups(info) {
+                var div = $('het-groups');
+                div.innerHTML = '';
+                info.hetResidues.forEach(function (r) {
+                    var l = document.createElement('button');
+                    l.innerText = r.name;
+                    l.onclick = function () {
+                        PluginWrapper.hetGroups.focusFirst(r.name, { doNotLabelWaters: true });
+                    };
+                    div.appendChild(l);
+                });
+            }
+        </script>
+    </body>
 </html>

package/lib/extensions/alpha-orbitals/density.d.ts CHANGED Viewed

@@ -1,5 +1,5 @@
 /**
- * Copyright (c) 2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2020-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author David Sehnal <david.sehnal@gmail.com>
  */

package/lib/extensions/alpha-orbitals/density.js CHANGED Viewed

@@ -1,5 +1,5 @@
 /**
- * Copyright (c) 2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2020-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * @author David Sehnal <david.sehnal@gmail.com>
  */
@@ -7,6 +7,7 @@ import { __awaiter, __generator } from "tslib";
 import { sortArray } from '../../mol-data/util';
 import { canComputeGrid3dOnGPU } from '../../mol-gl/compute/grid3d';
 import { Task } from '../../mol-task';
+import { isTimingMode } from '../../mol-util/debug';
 import { createGrid, initCubeGrid } from './data-model';
 import { gpuComputeAlphaOrbitalsDensityGridValues } from './gpu/compute';
 export function createSphericalCollocationDensityGrid(params, orbitals, webgl) {
@@ -18,10 +19,13 @@ export function createSphericalCollocationDensityGrid(params, orbitals, webgl) {
                 case 0:
                     cubeGrid = initCubeGrid(params);
                     if (!canComputeGrid3dOnGPU(webgl)) return [3 /*break*/, 2];
+                    if (isTimingMode)
+                        webgl.timer.mark('createSphericalCollocationDensityGrid');
                     return [4 /*yield*/, gpuComputeAlphaOrbitalsDensityGridValues(ctx, webgl, cubeGrid, orbitals)];
                 case 1:
-                    // console.time('gpu');
                     matrix = _a.sent();
+                    if (isTimingMode)
+                        webgl.timer.markEnd('createSphericalCollocationDensityGrid');
                     return [3 /*break*/, 3];
                 case 2: throw new Error('Missing OES_texture_float WebGL extension.');
                 case 3:

package/lib/extensions/alpha-orbitals/orbitals.d.ts CHANGED Viewed

@@ -1,5 +1,5 @@
 /**
- * Copyright (c) 2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2020-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * Inspired by https://github.com/dgasmith/gau2grid.
  *

package/lib/extensions/alpha-orbitals/orbitals.js CHANGED Viewed

@@ -1,5 +1,5 @@
 /**
- * Copyright (c) 2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
+ * Copyright (c) 2020-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
  *
  * Inspired by https://github.com/dgasmith/gau2grid.
  *
@@ -9,10 +9,10 @@ import { __awaiter, __generator } from "tslib";
 import { sortArray } from '../../mol-data/util';
 import { canComputeGrid3dOnGPU } from '../../mol-gl/compute/grid3d';
 import { Task } from '../../mol-task';
+import { isTimingMode } from '../../mol-util/debug';
 import { sphericalCollocation } from './collocation';
 import { createGrid, initCubeGrid } from './data-model';
 import { gpuComputeAlphaOrbitalsGridValues } from './gpu/compute';
-// setDebugMode(true);
 export function createSphericalCollocationGrid(params, orbital, webgl) {
     var _this = this;
     return Task.create('Spherical Collocation Grid', function (ctx) { return __awaiter(_this, void 0, void 0, function () {
@@ -22,10 +22,13 @@ export function createSphericalCollocationGrid(params, orbital, webgl) {
                 case 0:
                     cubeGrid = initCubeGrid(params);
                     if (!canComputeGrid3dOnGPU(webgl)) return [3 /*break*/, 2];
+                    if (isTimingMode)
+                        webgl.timer.mark('createSphericalCollocationGrid');
                     return [4 /*yield*/, gpuComputeAlphaOrbitalsGridValues(ctx, webgl, cubeGrid, orbital)];
                 case 1:
-                    // console.time('gpu');
                     matrix = _a.sent();
+                    if (isTimingMode)
+                        webgl.timer.markEnd('createSphericalCollocationGrid');
                     return [3 /*break*/, 4];
                 case 2: return [4 /*yield*/, sphericalCollocation(cubeGrid, orbital, ctx)];
                 case 3:

package/lib/extensions/anvil/algorithm.js CHANGED Viewed

@@ -93,7 +93,7 @@ function initialize(structure, props, accessibleSurfaceArea) {
                     eI = elements[j];
                     l.element = eI;
                     // consider only amino acids in chains
-                    if (getElementMoleculeType(unit, eI) !== 5 /* Protein */ || !isPartOfEntity(l)) {
+                    if (getElementMoleculeType(unit, eI) !== 5 /* MoleculeType.Protein */ || !isPartOfEntity(l)) {
                         continue;
                     }
                     // only CA is considered for downstream operations

package/lib/extensions/cellpack/color/generate.js CHANGED Viewed

@@ -69,7 +69,7 @@ export function CellPackGenerateColorTheme(ctx, props) {
 export var CellPackGenerateColorThemeProvider = {
     name: 'cellpack-generate',
     label: 'CellPack Generate',
-    category: "Chain Property" /* Chain */,
+    category: "Chain Property" /* ColorTheme.Category.Chain */,
     factory: CellPackGenerateColorTheme,
     getParams: getCellPackGenerateColorThemeParams,
     defaultValues: PD.getDefaultValues(CellPackGenerateColorThemeParams),

package/lib/extensions/cellpack/color/provided.js CHANGED Viewed

@@ -49,7 +49,7 @@ export function CellPackProvidedColorTheme(ctx, props) {
 export var CellPackProvidedColorThemeProvider = {
     name: 'cellpack-provided',
     label: 'CellPack Provided',
-    category: "Chain Property" /* Chain */,
+    category: "Chain Property" /* ColorTheme.Category.Chain */,
     factory: CellPackProvidedColorTheme,
     getParams: getCellPackProvidedColorThemeParams,
     defaultValues: PD.getDefaultValues(CellPackProvidedColorThemeParams),

package/lib/extensions/cellpack/state.js CHANGED Viewed

@@ -336,7 +336,7 @@ var StructureFromAssemblies = PluginStateTransform.BuiltIn({
                                 invariantId = u.invariantId + offsetInvariantId;
                                 if (u.invariantId > maxInvariantId)
                                     maxInvariantId = u.invariantId;
-                                builder.addUnit(u.kind, u.model, u.conformation.operator, u.elements, 0 /* None */, invariantId);
+                                builder.addUnit(u.kind, u.model, u.conformation.operator, u.elements, 0 /* Unit.Trait.None */, invariantId);
                             }
                             offsetInvariantId += maxInvariantId + 1;
                         }

package/lib/extensions/dnatco/confal-pyramids/color.js CHANGED Viewed

@@ -252,7 +252,7 @@ export function ConfalPyramidsColorTheme(ctx, props) {
 export var ConfalPyramidsColorThemeProvider = {
     name: 'confal-pyramids',
     label: 'Confal Pyramids',
-    category: "Residue Property" /* Residue */,
+    category: "Residue Property" /* ColorTheme.Category.Residue */,
     factory: ConfalPyramidsColorTheme,
     getParams: getConfalPyramidsColorThemeParams,
     defaultValues: PD.getDefaultValues(ConfalPyramidsColorThemeParams),

package/lib/extensions/g3d/model.js CHANGED Viewed

@@ -93,7 +93,7 @@ function getTraj(ctx, data) {
                     for (i = 0; i < rowCount; ++i) {
                         e = normalized.entity_id[i];
                         eName.customName = e;
-                        entityId = entityBuilder.getEntityId(e, 7 /* DNA */, e, eName);
+                        entityId = entityBuilder.getEntityId(e, 7 /* MoleculeType.DNA */, e, eName);
                         entityIds[i] = entityId;
                     }
                     ihm_sphere_obj_site = Table.ofPartialColumns(BasicSchema.ihm_sphere_obj_site, {

package/lib/extensions/geo-export/ui.js CHANGED Viewed

@@ -104,6 +104,7 @@ var GeometryExporterUI = /** @class */ (function (_super) {
     };
     GeometryExporterUI.prototype.componentWillUnmount = function () {
         var _a;
+        _super.prototype.componentWillUnmount.call(this);
         (_a = this._controls) === null || _a === void 0 ? void 0 : _a.dispose();
         this._controls = void 0;
     };

package/lib/extensions/model-archive/quality-assessment/color/plddt.js CHANGED Viewed

@@ -75,7 +75,7 @@ export function PLDDTConfidenceColorTheme(ctx, props) {
 export var PLDDTConfidenceColorThemeProvider = {
     name: 'plddt-confidence',
     label: 'pLDDT Confidence',
-    category: "Validation" /* Validation */,
+    category: "Validation" /* ColorTheme.Category.Validation */,
     factory: PLDDTConfidenceColorTheme,
     getParams: getPLDDTConfidenceColorThemeParams,
     defaultValues: PD.getDefaultValues(getPLDDTConfidenceColorThemeParams({})),