molstar 3.0.0 → 3.0.1

package/lib/commonjs/mol-geo/geometry/marker-data.js

@@ -1,103 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2018-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.createEmptyMarkers = exports.createMarkers = exports.getMarkersAverage = void 0;
-var value_cell_1 = require("../../mol-util/value-cell");
-var linear_algebra_1 = require("../../mol-math/linear-algebra");
-var util_1 = require("../../mol-gl/renderable/util");
-var MarkerCountLut = new Uint8Array(0x0303 + 1);
-MarkerCountLut[0x0001] = 1;
-MarkerCountLut[0x0002] = 1;
-MarkerCountLut[0x0003] = 1;
-MarkerCountLut[0x0100] = 1;
-MarkerCountLut[0x0200] = 1;
-MarkerCountLut[0x0300] = 1;
-MarkerCountLut[0x0101] = 2;
-MarkerCountLut[0x0201] = 2;
-MarkerCountLut[0x0301] = 2;
-MarkerCountLut[0x0102] = 2;
-MarkerCountLut[0x0202] = 2;
-MarkerCountLut[0x0302] = 2;
-MarkerCountLut[0x0103] = 2;
-MarkerCountLut[0x0203] = 2;
-MarkerCountLut[0x0303] = 2;
-/**
- * Calculates the average number of entries that have any marker flag set.
- *
- * For alternative implementations and performance tests see
- * `src\perf-tests\markers-average.ts`.
- */
-function getMarkersAverage(array, count) {
-    if (count === 0)
-        return 0;
-    var view = new Uint32Array(array.buffer, 0, array.buffer.byteLength >> 2);
-    var viewEnd = (count - 4) >> 2;
-    var backStart = 4 * viewEnd;
-    var sum = 0;
-    if (viewEnd < 0) {
-        // avoid edge cases with small arrays
-        for (var i = 0; i < count; ++i) {
-            sum += array[i] && 1;
-        }
-    }
-    else {
-        for (var i = 0; i < viewEnd; ++i) {
-            var v = view[i];
-            sum += MarkerCountLut[v & 0xFFFF] + MarkerCountLut[v >> 16];
-        }
-        for (var i = backStart; i < count; ++i) {
-            sum += array[i] && 1;
-        }
-    }
-    return sum / count;
-}
-exports.getMarkersAverage = getMarkersAverage;
-function createMarkers(count, markerData) {
-    var markers = (0, util_1.createTextureImage)(Math.max(1, count), 1, Uint8Array, markerData && markerData.tMarker.ref.value.array);
-    var average = getMarkersAverage(markers.array, count);
-    var status = average === 0 ? 0 : -1;
-    if (markerData) {
-        value_cell_1.ValueCell.updateIfChanged(markerData.uMarker, 0);
-        value_cell_1.ValueCell.update(markerData.tMarker, markers);
-        value_cell_1.ValueCell.update(markerData.uMarkerTexDim, linear_algebra_1.Vec2.create(markers.width, markers.height));
-        value_cell_1.ValueCell.updateIfChanged(markerData.markerAverage, average);
-        value_cell_1.ValueCell.updateIfChanged(markerData.markerStatus, status);
-        return markerData;
-    }
-    else {
-        return {
-            uMarker: value_cell_1.ValueCell.create(0),
-            tMarker: value_cell_1.ValueCell.create(markers),
-            uMarkerTexDim: value_cell_1.ValueCell.create(linear_algebra_1.Vec2.create(markers.width, markers.height)),
-            markerAverage: value_cell_1.ValueCell.create(average),
-            markerStatus: value_cell_1.ValueCell.create(status),
-        };
-    }
-}
-exports.createMarkers = createMarkers;
-var emptyMarkerTexture = { array: new Uint8Array(1), width: 1, height: 1 };
-function createEmptyMarkers(markerData) {
-    if (markerData) {
-        value_cell_1.ValueCell.updateIfChanged(markerData.uMarker, 0);
-        value_cell_1.ValueCell.update(markerData.tMarker, emptyMarkerTexture);
-        value_cell_1.ValueCell.update(markerData.uMarkerTexDim, linear_algebra_1.Vec2.create(1, 1));
-        value_cell_1.ValueCell.updateIfChanged(markerData.markerAverage, 0);
-        value_cell_1.ValueCell.updateIfChanged(markerData.markerStatus, 0);
-        return markerData;
-    }
-    else {
-        return {
-            uMarker: value_cell_1.ValueCell.create(0),
-            tMarker: value_cell_1.ValueCell.create(emptyMarkerTexture),
-            uMarkerTexDim: value_cell_1.ValueCell.create(linear_algebra_1.Vec2.create(1, 1)),
-            markerAverage: value_cell_1.ValueCell.create(0),
-            markerStatus: value_cell_1.ValueCell.create(0),
-        };
-    }
-}
-exports.createEmptyMarkers = createEmptyMarkers;
-//# sourceMappingURL=marker-data.js.map

package/lib/commonjs/mol-geo/geometry/mesh/builder/axes.js

@@ -1,32 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.addAxes = void 0;
-var linear_algebra_1 = require("../../../../mol-math/linear-algebra");
-var mesh_builder_1 = require("../mesh-builder");
-var geometry_1 = require("../../../../mol-math/geometry");
-var cage_1 = require("../../../primitive/cage");
-var tmpVec = (0, linear_algebra_1.Vec3)();
-var tmpMatrix = linear_algebra_1.Mat4.identity();
-var tmpVertices = new Float32Array(6 * 3);
-var tmpEdges = new Uint8Array([0, 1, 2, 3, 4, 5]);
-function addAxes(state, axes, radiusScale, detail, radialSegments) {
-    var origin = axes.origin, dirA = axes.dirA, dirB = axes.dirB, dirC = axes.dirC;
-    linear_algebra_1.Vec3.add(tmpVec, origin, dirA);
-    linear_algebra_1.Vec3.toArray(linear_algebra_1.Vec3.add(tmpVec, origin, dirA), tmpVertices, 0);
-    linear_algebra_1.Vec3.toArray(linear_algebra_1.Vec3.sub(tmpVec, origin, dirA), tmpVertices, 3);
-    linear_algebra_1.Vec3.toArray(linear_algebra_1.Vec3.add(tmpVec, origin, dirB), tmpVertices, 6);
-    linear_algebra_1.Vec3.toArray(linear_algebra_1.Vec3.sub(tmpVec, origin, dirB), tmpVertices, 9);
-    linear_algebra_1.Vec3.toArray(linear_algebra_1.Vec3.add(tmpVec, origin, dirC), tmpVertices, 12);
-    linear_algebra_1.Vec3.toArray(linear_algebra_1.Vec3.sub(tmpVec, origin, dirC), tmpVertices, 15);
-    var cage = (0, cage_1.createCage)(tmpVertices, tmpEdges);
-    var volume = geometry_1.Axes3D.volume(axes);
-    var radius = (Math.cbrt(volume) / 300) * radiusScale;
-    mesh_builder_1.MeshBuilder.addCage(state, tmpMatrix, cage, radius, detail, radialSegments);
-}
-exports.addAxes = addAxes;
-//# sourceMappingURL=axes.js.map

package/lib/commonjs/mol-geo/geometry/mesh/builder/box.js

@@ -1,100 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2018-2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.addOrientedBox = exports.addBoundingBox = void 0;
-var linear_algebra_1 = require("../../../../mol-math/linear-algebra");
-var geometry_1 = require("../../../../mol-math/geometry");
-var mesh_builder_1 = require("../mesh-builder");
-var cylinder_1 = require("./cylinder");
-var sphere_1 = require("./sphere");
-var cage_1 = require("../../../primitive/cage");
-var tmpStart = linear_algebra_1.Vec3.zero();
-var tmpEnd = linear_algebra_1.Vec3.zero();
-var cylinderProps = {};
-function addBoundingBox(state, box, radius, detail, radialSegments) {
-    var min = box.min, max = box.max;
-    cylinderProps.radiusTop = radius;
-    cylinderProps.radiusBottom = radius;
-    cylinderProps.radialSegments = radialSegments;
-    linear_algebra_1.Vec3.set(tmpStart, max[0], max[1], max[2]);
-    (0, sphere_1.addSphere)(state, tmpStart, radius, detail);
-    linear_algebra_1.Vec3.set(tmpEnd, max[0], max[1], min[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpEnd, max[0], min[1], max[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpEnd, min[0], max[1], max[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpStart, min[0], min[1], min[2]);
-    (0, sphere_1.addSphere)(state, tmpStart, radius, detail);
-    linear_algebra_1.Vec3.set(tmpEnd, min[0], min[1], max[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpEnd, min[0], max[1], min[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpEnd, max[0], min[1], min[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpStart, max[0], min[1], min[2]);
-    (0, sphere_1.addSphere)(state, tmpStart, radius, detail);
-    linear_algebra_1.Vec3.set(tmpEnd, max[0], min[1], max[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpEnd, max[0], max[1], min[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpStart, min[0], min[1], max[2]);
-    (0, sphere_1.addSphere)(state, tmpStart, radius, detail);
-    linear_algebra_1.Vec3.set(tmpEnd, min[0], max[1], max[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpEnd, max[0], min[1], max[2]);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpStart, min[0], max[1], min[2]);
-    (0, sphere_1.addSphere)(state, tmpStart, radius, detail);
-    linear_algebra_1.Vec3.set(tmpEnd, max[0], max[1], min[2]);
-    (0, sphere_1.addSphere)(state, tmpEnd, radius, detail);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-    linear_algebra_1.Vec3.set(tmpEnd, min[0], max[1], max[2]);
-    (0, sphere_1.addSphere)(state, tmpEnd, radius, detail);
-    (0, cylinder_1.addCylinder)(state, tmpStart, tmpEnd, 1, cylinderProps);
-}
-exports.addBoundingBox = addBoundingBox;
-//
-var tmpBoxVecCorner = (0, linear_algebra_1.Vec3)();
-var tmpBoxVecA = (0, linear_algebra_1.Vec3)();
-var tmpBoxVecB = (0, linear_algebra_1.Vec3)();
-var tmpBoxVecC = (0, linear_algebra_1.Vec3)();
-var tmpMatrix = linear_algebra_1.Mat4.identity();
-var tmpVertices = new Float32Array(8 * 3);
-var tmpEdges = new Uint8Array([
-    0, 1, 0, 3, 0, 6, 1, 2, 1, 7, 2, 3,
-    2, 4, 3, 5, 4, 5, 4, 7, 5, 6, 6, 7
-]);
-function addOrientedBox(state, axes, radiusScale, detail, radialSegments) {
-    var origin = axes.origin, dirA = axes.dirA, dirB = axes.dirB, dirC = axes.dirC;
-    var negDirA = linear_algebra_1.Vec3.negate(tmpBoxVecA, dirA);
-    var negDirB = linear_algebra_1.Vec3.negate(tmpBoxVecB, dirB);
-    var negDirC = linear_algebra_1.Vec3.negate(tmpBoxVecC, dirC);
-    var offset = 0;
-    var addCornerHelper = function (v1, v2, v3) {
-        linear_algebra_1.Vec3.copy(tmpBoxVecCorner, origin);
-        linear_algebra_1.Vec3.add(tmpBoxVecCorner, tmpBoxVecCorner, v1);
-        linear_algebra_1.Vec3.add(tmpBoxVecCorner, tmpBoxVecCorner, v2);
-        linear_algebra_1.Vec3.add(tmpBoxVecCorner, tmpBoxVecCorner, v3);
-        linear_algebra_1.Vec3.toArray(tmpBoxVecCorner, tmpVertices, offset);
-        offset += 3;
-    };
-    addCornerHelper(dirA, dirB, dirC);
-    addCornerHelper(dirA, dirB, negDirC);
-    addCornerHelper(dirA, negDirB, negDirC);
-    addCornerHelper(dirA, negDirB, dirC);
-    addCornerHelper(negDirA, negDirB, negDirC);
-    addCornerHelper(negDirA, negDirB, dirC);
-    addCornerHelper(negDirA, dirB, dirC);
-    addCornerHelper(negDirA, dirB, negDirC);
-    var cage = (0, cage_1.createCage)(tmpVertices, tmpEdges);
-    var volume = geometry_1.Axes3D.volume(axes);
-    var radius = (Math.cbrt(volume) / 300) * radiusScale;
-    mesh_builder_1.MeshBuilder.addCage(state, tmpMatrix, cage, radius, detail, radialSegments);
-}
-exports.addOrientedBox = addOrientedBox;
-//# sourceMappingURL=box.js.map

package/lib/commonjs/mol-geo/geometry/mesh/builder/cylinder.js

@@ -1,119 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2018-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.addFixedCountDashedCylinder = exports.addDoubleCylinder = exports.addCylinder = exports.addSimpleCylinder = void 0;
-var linear_algebra_1 = require("../../../../mol-math/linear-algebra");
-var mesh_builder_1 = require("../mesh-builder");
-var primitive_1 = require("../../../primitive/primitive");
-var cylinder_1 = require("../../../primitive/cylinder");
-var prism_1 = require("../../../primitive/prism");
-var polygon_1 = require("../../../primitive/polygon");
-var util_1 = require("../../../../mol-data/util");
-var cylinderMap = new Map();
-var up = linear_algebra_1.Vec3.create(0, 1, 0);
-var tmpCylinderDir = (0, linear_algebra_1.Vec3)();
-var tmpCylinderMatDir = (0, linear_algebra_1.Vec3)();
-var tmpCylinderCenter = (0, linear_algebra_1.Vec3)();
-var tmpCylinderMat = (0, linear_algebra_1.Mat4)();
-var tmpCylinderMatRot = (0, linear_algebra_1.Mat4)();
-var tmpCylinderScale = (0, linear_algebra_1.Vec3)();
-var tmpCylinderStart = (0, linear_algebra_1.Vec3)();
-var tmpUp = (0, linear_algebra_1.Vec3)();
-function setCylinderMat(m, start, dir, length, matchDir) {
-    linear_algebra_1.Vec3.setMagnitude(tmpCylinderMatDir, dir, length / 2);
-    linear_algebra_1.Vec3.add(tmpCylinderCenter, start, tmpCylinderMatDir);
-    // ensure the direction used to create the rotation is always pointing in the same
-    // direction so the triangles of adjacent cylinder will line up
-    if (matchDir)
-        linear_algebra_1.Vec3.matchDirection(tmpUp, up, tmpCylinderMatDir);
-    else
-        linear_algebra_1.Vec3.copy(tmpUp, up);
-    linear_algebra_1.Vec3.set(tmpCylinderScale, 1, length, 1);
-    linear_algebra_1.Vec3.makeRotation(tmpCylinderMatRot, tmpUp, tmpCylinderMatDir);
-    linear_algebra_1.Mat4.scale(m, tmpCylinderMatRot, tmpCylinderScale);
-    return linear_algebra_1.Mat4.setTranslation(m, tmpCylinderCenter);
-}
-var tmpPropValues = new Int32Array(9);
-function getCylinderPropsKey(props) {
-    var _a, _b, _c, _d, _e, _f, _g, _h, _j;
-    tmpPropValues[0] = Math.round(1000 * ((_a = props.radiusTop) !== null && _a !== void 0 ? _a : cylinder_1.DefaultCylinderProps.radiusTop));
-    tmpPropValues[1] = Math.round(1000 * ((_b = props.radiusBottom) !== null && _b !== void 0 ? _b : cylinder_1.DefaultCylinderProps.radiusBottom));
-    tmpPropValues[2] = Math.round(1000 * ((_c = props.height) !== null && _c !== void 0 ? _c : cylinder_1.DefaultCylinderProps.height));
-    tmpPropValues[3] = (_d = props.radialSegments) !== null && _d !== void 0 ? _d : cylinder_1.DefaultCylinderProps.radialSegments;
-    tmpPropValues[4] = (_e = props.heightSegments) !== null && _e !== void 0 ? _e : cylinder_1.DefaultCylinderProps.heightSegments;
-    tmpPropValues[5] = ((_f = props.topCap) !== null && _f !== void 0 ? _f : cylinder_1.DefaultCylinderProps.topCap) ? 1 : 0;
-    tmpPropValues[6] = ((_g = props.bottomCap) !== null && _g !== void 0 ? _g : cylinder_1.DefaultCylinderProps.bottomCap) ? 1 : 0;
-    tmpPropValues[7] = Math.round(1000 * ((_h = props.thetaStart) !== null && _h !== void 0 ? _h : cylinder_1.DefaultCylinderProps.thetaStart));
-    tmpPropValues[8] = Math.round(1000 * ((_j = props.thetaLength) !== null && _j !== void 0 ? _j : cylinder_1.DefaultCylinderProps.thetaLength));
-    return (0, util_1.hashFnv32a)(tmpPropValues);
-}
-function getCylinder(props) {
-    var key = getCylinderPropsKey(props);
-    var cylinder = cylinderMap.get(key);
-    if (cylinder === undefined) {
-        if (props.radialSegments && props.radialSegments <= 4) {
-            var sideCount = Math.max(3, props.radialSegments);
-            var prism = (0, prism_1.Prism)((0, polygon_1.polygon)(sideCount, true, props.radiusTop), props);
-            cylinder = (0, primitive_1.transformPrimitive)(prism, linear_algebra_1.Mat4.rotX90);
-        }
-        else {
-            cylinder = (0, cylinder_1.Cylinder)(props);
-        }
-        cylinderMap.set(key, cylinder);
-    }
-    return cylinder;
-}
-function addSimpleCylinder(state, start, end, props) {
-    var d = linear_algebra_1.Vec3.distance(start, end);
-    linear_algebra_1.Vec3.sub(tmpCylinderDir, end, start);
-    setCylinderMat(tmpCylinderMat, start, tmpCylinderDir, d, false);
-    mesh_builder_1.MeshBuilder.addPrimitive(state, tmpCylinderMat, getCylinder(props));
-}
-exports.addSimpleCylinder = addSimpleCylinder;
-function addCylinder(state, start, end, lengthScale, props) {
-    var d = linear_algebra_1.Vec3.distance(start, end) * lengthScale;
-    linear_algebra_1.Vec3.sub(tmpCylinderDir, end, start);
-    setCylinderMat(tmpCylinderMat, start, tmpCylinderDir, d, true);
-    mesh_builder_1.MeshBuilder.addPrimitive(state, tmpCylinderMat, getCylinder(props));
-}
-exports.addCylinder = addCylinder;
-function addDoubleCylinder(state, start, end, lengthScale, shift, props) {
-    var d = linear_algebra_1.Vec3.distance(start, end) * lengthScale;
-    var cylinder = getCylinder(props);
-    linear_algebra_1.Vec3.sub(tmpCylinderDir, end, start);
-    // positivly shifted cylinder
-    linear_algebra_1.Vec3.add(tmpCylinderStart, start, shift);
-    setCylinderMat(tmpCylinderMat, tmpCylinderStart, tmpCylinderDir, d, true);
-    mesh_builder_1.MeshBuilder.addPrimitive(state, tmpCylinderMat, cylinder);
-    // negativly shifted cylinder
-    linear_algebra_1.Vec3.sub(tmpCylinderStart, start, shift);
-    setCylinderMat(tmpCylinderMat, tmpCylinderStart, tmpCylinderDir, d, true);
-    mesh_builder_1.MeshBuilder.addPrimitive(state, tmpCylinderMat, cylinder);
-}
-exports.addDoubleCylinder = addDoubleCylinder;
-function addFixedCountDashedCylinder(state, start, end, lengthScale, segmentCount, props) {
-    var s = Math.floor(segmentCount / 2);
-    var step = 1 / segmentCount;
-    // automatically adjust length so links/bonds that are rendered as two half cylinders
-    // have evenly spaced dashed cylinders
-    if (lengthScale < 1) {
-        var bias = lengthScale / 2 / segmentCount;
-        lengthScale += segmentCount % 2 === 1 ? bias : -bias;
-    }
-    var d = linear_algebra_1.Vec3.distance(start, end) * lengthScale;
-    var cylinder = getCylinder(props);
-    linear_algebra_1.Vec3.sub(tmpCylinderDir, end, start);
-    for (var j = 0; j < s; ++j) {
-        var f = step * (j * 2 + 1);
-        linear_algebra_1.Vec3.setMagnitude(tmpCylinderDir, tmpCylinderDir, d * f);
-        linear_algebra_1.Vec3.add(tmpCylinderStart, start, tmpCylinderDir);
-        setCylinderMat(tmpCylinderMat, tmpCylinderStart, tmpCylinderDir, d * step, false);
-        mesh_builder_1.MeshBuilder.addPrimitive(state, tmpCylinderMat, cylinder);
-    }
-}
-exports.addFixedCountDashedCylinder = addFixedCountDashedCylinder;
-//# sourceMappingURL=cylinder.js.map

package/lib/commonjs/mol-geo/geometry/mesh/builder/ellipsoid.js

@@ -1,24 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2019 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.addEllipsoid = void 0;
-var linear_algebra_1 = require("../../../../mol-math/linear-algebra");
-var mesh_builder_1 = require("../mesh-builder");
-var sphere_1 = require("./sphere");
-var tmpEllipsoidMat = linear_algebra_1.Mat4.identity();
-var tmpVec = (0, linear_algebra_1.Vec3)();
-function setEllipsoidMat(m, center, dirMajor, dirMinor, radiusScale) {
-    linear_algebra_1.Vec3.add(tmpVec, center, dirMajor);
-    linear_algebra_1.Mat4.targetTo(m, center, tmpVec, dirMinor);
-    linear_algebra_1.Mat4.setTranslation(m, center);
-    return linear_algebra_1.Mat4.scale(m, m, radiusScale);
-}
-function addEllipsoid(state, center, dirMajor, dirMinor, radiusScale, detail) {
-    mesh_builder_1.MeshBuilder.addPrimitive(state, setEllipsoidMat(tmpEllipsoidMat, center, dirMajor, dirMinor, radiusScale), (0, sphere_1.getSphere)(detail));
-}
-exports.addEllipsoid = addEllipsoid;
-//# sourceMappingURL=ellipsoid.js.map

package/lib/commonjs/mol-geo/geometry/mesh/builder/ribbon.js

@@ -1,85 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2018-2020 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- * @author David Sehnal <david.sehnal@gmail.com>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.addRibbon = void 0;
-var linear_algebra_1 = require("../../../../mol-math/linear-algebra");
-var util_1 = require("../../../../mol-data/util");
-// avoiding namespace lookup improved performance in Chrome (Aug 2020)
-var v3fromArray = linear_algebra_1.Vec3.fromArray;
-var v3magnitude = linear_algebra_1.Vec3.magnitude;
-var v3sub = linear_algebra_1.Vec3.sub;
-var v3add = linear_algebra_1.Vec3.add;
-var v3scale = linear_algebra_1.Vec3.scale;
-var v3negate = linear_algebra_1.Vec3.negate;
-var v3copy = linear_algebra_1.Vec3.copy;
-var v3cross = linear_algebra_1.Vec3.cross;
-var caAdd3 = util_1.ChunkedArray.add3;
-var caAdd = util_1.ChunkedArray.add;
-var tA = (0, linear_algebra_1.Vec3)();
-var tB = (0, linear_algebra_1.Vec3)();
-var tV = (0, linear_algebra_1.Vec3)();
-var horizontalVector = (0, linear_algebra_1.Vec3)();
-var verticalVector = (0, linear_algebra_1.Vec3)();
-var normalOffset = (0, linear_algebra_1.Vec3)();
-var positionVector = (0, linear_algebra_1.Vec3)();
-var normalVector = (0, linear_algebra_1.Vec3)();
-var torsionVector = (0, linear_algebra_1.Vec3)();
-/** set arrowHeight = 0 for no arrow */
-function addRibbon(state, controlPoints, normalVectors, binormalVectors, linearSegments, widthValues, heightValues, arrowHeight) {
-    var currentGroup = state.currentGroup, vertices = state.vertices, normals = state.normals, indices = state.indices, groups = state.groups;
-    var vertexCount = vertices.elementCount;
-    var offsetLength = 0;
-    if (arrowHeight > 0) {
-        v3fromArray(tA, controlPoints, 0);
-        v3fromArray(tB, controlPoints, linearSegments * 3);
-        offsetLength = arrowHeight / v3magnitude(v3sub(tV, tB, tA));
-    }
-    for (var i = 0; i <= linearSegments; ++i) {
-        var width = widthValues[i];
-        var height = heightValues[i];
-        var actualHeight = arrowHeight === 0 ? height : arrowHeight * (1 - i / linearSegments);
-        var i3 = i * 3;
-        v3fromArray(verticalVector, normalVectors, i3);
-        v3scale(verticalVector, verticalVector, actualHeight);
-        v3fromArray(horizontalVector, binormalVectors, i3);
-        v3scale(horizontalVector, horizontalVector, width);
-        if (arrowHeight > 0) {
-            v3fromArray(tA, normalVectors, i3);
-            v3fromArray(tB, binormalVectors, i3);
-            v3scale(normalOffset, v3cross(normalOffset, tA, tB), offsetLength);
-        }
-        v3fromArray(positionVector, controlPoints, i3);
-        v3fromArray(normalVector, normalVectors, i3);
-        v3fromArray(torsionVector, binormalVectors, i3);
-        v3add(tA, positionVector, verticalVector);
-        v3negate(tB, torsionVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        v3sub(tA, positionVector, verticalVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        v3add(tA, positionVector, verticalVector);
-        v3copy(tB, torsionVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        v3sub(tA, positionVector, verticalVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-    }
-    for (var i = 0; i < linearSegments; ++i) {
-        caAdd3(indices, vertexCount + i * 4, vertexCount + (i + 1) * 4 + 1, vertexCount + i * 4 + 1);
-        caAdd3(indices, vertexCount + i * 4, vertexCount + (i + 1) * 4, vertexCount + (i + 1) * 4 + 1);
-        caAdd3(indices, vertexCount + i * 4 + 2 + 1, vertexCount + (i + 1) * 4 + 2 + 1, vertexCount + i * 4 + 2);
-        caAdd3(indices, vertexCount + i * 4 + 2, vertexCount + (i + 1) * 4 + 2 + 1, vertexCount + (i + 1) * 4 + 2);
-    }
-    var addedVertexCount = (linearSegments + 1) * 4;
-    for (var i = 0, il = addedVertexCount; i < il; ++i)
-        caAdd(groups, currentGroup);
-}
-exports.addRibbon = addRibbon;
-//# sourceMappingURL=ribbon.js.map

package/lib/commonjs/mol-geo/geometry/mesh/builder/sheet.js

@@ -1,187 +0,0 @@
-"use strict";
-/**
- * Copyright (c) 2018-2021 mol* contributors, licensed under MIT, See LICENSE file for more info.
- *
- * @author Alexander Rose <alexander.rose@weirdbyte.de>
- * @author David Sehnal <david.sehnal@gmail.com>
- */
-Object.defineProperty(exports, "__esModule", { value: true });
-exports.addSheet = void 0;
-var linear_algebra_1 = require("../../../../mol-math/linear-algebra");
-var util_1 = require("../../../../mol-data/util");
-var tA = (0, linear_algebra_1.Vec3)();
-var tB = (0, linear_algebra_1.Vec3)();
-var tV = (0, linear_algebra_1.Vec3)();
-var horizontalVector = (0, linear_algebra_1.Vec3)();
-var verticalVector = (0, linear_algebra_1.Vec3)();
-var verticalRightVector = (0, linear_algebra_1.Vec3)();
-var verticalLeftVector = (0, linear_algebra_1.Vec3)();
-var normalOffset = (0, linear_algebra_1.Vec3)();
-var positionVector = (0, linear_algebra_1.Vec3)();
-var normalVector = (0, linear_algebra_1.Vec3)();
-var torsionVector = (0, linear_algebra_1.Vec3)();
-var p1 = (0, linear_algebra_1.Vec3)();
-var p2 = (0, linear_algebra_1.Vec3)();
-var p3 = (0, linear_algebra_1.Vec3)();
-var p4 = (0, linear_algebra_1.Vec3)();
-// avoiding namespace lookup improved performance in Chrome (Aug 2020)
-var v3fromArray = linear_algebra_1.Vec3.fromArray;
-var v3scale = linear_algebra_1.Vec3.scale;
-var v3add = linear_algebra_1.Vec3.add;
-var v3sub = linear_algebra_1.Vec3.sub;
-var v3magnitude = linear_algebra_1.Vec3.magnitude;
-var v3negate = linear_algebra_1.Vec3.negate;
-var v3copy = linear_algebra_1.Vec3.copy;
-var v3cross = linear_algebra_1.Vec3.cross;
-var v3set = linear_algebra_1.Vec3.set;
-var caAdd3 = util_1.ChunkedArray.add3;
-var caAdd = util_1.ChunkedArray.add;
-function addCap(offset, state, controlPoints, normalVectors, binormalVectors, width, leftHeight, rightHeight, flip) {
-    var vertices = state.vertices, normals = state.normals, indices = state.indices;
-    var vertexCount = vertices.elementCount;
-    v3fromArray(tA, normalVectors, offset);
-    v3scale(verticalLeftVector, tA, leftHeight);
-    v3scale(verticalRightVector, tA, rightHeight);
-    v3fromArray(tB, binormalVectors, offset);
-    v3scale(horizontalVector, tB, width);
-    v3cross(normalVector, tB, tA);
-    v3fromArray(positionVector, controlPoints, offset);
-    v3add(p1, v3add(p1, positionVector, horizontalVector), verticalRightVector);
-    v3sub(p2, v3add(p2, positionVector, horizontalVector), verticalLeftVector);
-    v3sub(p3, v3sub(p3, positionVector, horizontalVector), verticalLeftVector);
-    v3add(p4, v3sub(p4, positionVector, horizontalVector), verticalRightVector);
-    if (leftHeight < rightHeight) {
-        caAdd3(vertices, p4[0], p4[1], p4[2]);
-        caAdd3(vertices, p3[0], p3[1], p3[2]);
-        caAdd3(vertices, p2[0], p2[1], p2[2]);
-        caAdd3(vertices, p1[0], p1[1], p1[2]);
-        v3copy(verticalVector, verticalRightVector);
-    }
-    else {
-        caAdd3(vertices, p1[0], p1[1], p1[2]);
-        caAdd3(vertices, p2[0], p2[1], p2[2]);
-        caAdd3(vertices, p3[0], p3[1], p3[2]);
-        caAdd3(vertices, p4[0], p4[1], p4[2]);
-        v3copy(verticalVector, verticalLeftVector);
-    }
-    if (flip) {
-        for (var i = 0; i < 4; ++i) {
-            caAdd3(normals, -normalVector[0], -normalVector[1], -normalVector[2]);
-        }
-        caAdd3(indices, vertexCount, vertexCount + 1, vertexCount + 2);
-        caAdd3(indices, vertexCount + 2, vertexCount + 3, vertexCount);
-    }
-    else {
-        for (var i = 0; i < 4; ++i) {
-            caAdd3(normals, normalVector[0], normalVector[1], normalVector[2]);
-        }
-        caAdd3(indices, vertexCount + 2, vertexCount + 1, vertexCount);
-        caAdd3(indices, vertexCount, vertexCount + 3, vertexCount + 2);
-    }
-}
-/** set arrowHeight = 0 for no arrow */
-function addSheet(state, controlPoints, normalVectors, binormalVectors, linearSegments, widthValues, heightValues, arrowHeight, startCap, endCap) {
-    var currentGroup = state.currentGroup, vertices = state.vertices, normals = state.normals, indices = state.indices, groups = state.groups;
-    var vertexCount = vertices.elementCount;
-    var offsetLength = 0;
-    if (arrowHeight > 0) {
-        v3fromArray(tA, controlPoints, 0);
-        v3fromArray(tB, controlPoints, linearSegments * 3);
-        offsetLength = arrowHeight / v3magnitude(v3sub(tV, tB, tA));
-    }
-    else {
-        v3set(normalOffset, 0, 0, 0);
-    }
-    for (var i = 0; i <= linearSegments; ++i) {
-        var width = widthValues[i];
-        var height = heightValues[i];
-        var actualHeight = arrowHeight === 0 ? height : arrowHeight * (1 - i / linearSegments);
-        var i3 = i * 3;
-        v3fromArray(verticalVector, normalVectors, i3);
-        v3scale(verticalVector, verticalVector, actualHeight);
-        v3fromArray(horizontalVector, binormalVectors, i3);
-        v3scale(horizontalVector, horizontalVector, width);
-        if (arrowHeight > 0) {
-            v3fromArray(tA, normalVectors, i3);
-            v3fromArray(tB, binormalVectors, i3);
-            v3scale(normalOffset, v3cross(normalOffset, tA, tB), offsetLength);
-        }
-        v3fromArray(positionVector, controlPoints, i3);
-        v3fromArray(normalVector, normalVectors, i3);
-        v3fromArray(torsionVector, binormalVectors, i3);
-        v3add(tA, v3add(tA, positionVector, horizontalVector), verticalVector);
-        v3add(tB, normalVector, normalOffset);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        v3add(tA, v3sub(tA, positionVector, horizontalVector), verticalVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        // v3add(tA, v3sub(tA, positionVector, horizontalVector), verticalVector) // reuse tA
-        v3negate(tB, torsionVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        v3sub(tA, v3sub(tA, positionVector, horizontalVector), verticalVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        // v3sub(tA, v3sub(tA, positionVector, horizontalVector), verticalVector) // reuse tA
-        v3add(tB, v3negate(tB, normalVector), normalOffset);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        v3sub(tA, v3add(tA, positionVector, horizontalVector), verticalVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        // v3sub(tA, v3add(tA, positionVector, horizontalVector), verticalVector) // reuse tA
-        v3copy(tB, torsionVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-        v3add(tA, v3add(tA, positionVector, horizontalVector), verticalVector);
-        caAdd3(vertices, tA[0], tA[1], tA[2]);
-        caAdd3(normals, tB[0], tB[1], tB[2]);
-    }
-    for (var i = 0; i < linearSegments; ++i) {
-        // the triangles are arranged such that opposing triangles of the sheet align
-        // which prevents triangle intersection within tight curves
-        for (var j = 0; j < 2; j++) {
-            caAdd3(indices, vertexCount + i * 8 + 2 * j, // a
-            vertexCount + (i + 1) * 8 + 2 * j + 1, // c
-            vertexCount + i * 8 + 2 * j + 1 // b
-            );
-            caAdd3(indices, vertexCount + i * 8 + 2 * j, // a
-            vertexCount + (i + 1) * 8 + 2 * j, // d
-            vertexCount + (i + 1) * 8 + 2 * j + 1 // c
-            );
-        }
-        for (var j = 2; j < 4; j++) {
-            caAdd3(indices, vertexCount + i * 8 + 2 * j, // a
-            vertexCount + (i + 1) * 8 + 2 * j, // d
-            vertexCount + i * 8 + 2 * j + 1);
-            caAdd3(indices, vertexCount + (i + 1) * 8 + 2 * j, // d
-            vertexCount + (i + 1) * 8 + 2 * j + 1, // c
-            vertexCount + i * 8 + 2 * j + 1);
-        }
-    }
-    if (startCap) {
-        var width = widthValues[0];
-        var height = heightValues[0];
-        var h = arrowHeight === 0 ? height : arrowHeight;
-        addCap(0, state, controlPoints, normalVectors, binormalVectors, width, h, h, false);
-    }
-    else if (arrowHeight > 0) {
-        var width = widthValues[0];
-        var height = heightValues[0];
-        addCap(0, state, controlPoints, normalVectors, binormalVectors, width, arrowHeight, -height, false);
-        addCap(0, state, controlPoints, normalVectors, binormalVectors, width, -arrowHeight, height, false);
-    }
-    if (endCap && arrowHeight === 0) {
-        var width = widthValues[linearSegments];
-        var height = heightValues[linearSegments];
-        addCap(linearSegments * 3, state, controlPoints, normalVectors, binormalVectors, width, height, height, true);
-    }
-    var addedVertexCount = (linearSegments + 1) * 8 +
-        (startCap ? 4 : (arrowHeight > 0 ? 8 : 0)) +
-        (endCap && arrowHeight === 0 ? 4 : 0);
-    for (var i = 0, il = addedVertexCount; i < il; ++i)
-        caAdd(groups, currentGroup);
-}
-exports.addSheet = addSheet;
-//# sourceMappingURL=sheet.js.map