@jbrowse/plugin-wiggle 2.1.0 → 2.1.3

package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js

@@ -1,143 +1,104 @@
 "use strict";
-var __assign = (this && this.__assign) || function () {
-    __assign = Object.assign || function(t) {
-        for (var s, i = 1, n = arguments.length; i < n; i++) {
-            s = arguments[i];
-            for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p))
-                t[p] = s[p];
-        }
-        return t;
-    };
-    return __assign.apply(this, arguments);
-};
-var __read = (this && this.__read) || function (o, n) {
-    var m = typeof Symbol === "function" && o[Symbol.iterator];
-    if (!m) return o;
-    var i = m.call(o), r, ar = [], e;
-    try {
-        while ((n === void 0 || n-- > 0) && !(r = i.next()).done) ar.push(r.value);
-    }
-    catch (error) { e = { error: error }; }
-    finally {
-        try {
-            if (r && !r.done && (m = i["return"])) m.call(i);
-        }
-        finally { if (e) throw e.error; }
-    }
-    return ar;
-};
-var __spreadArray = (this && this.__spreadArray) || function (to, from, pack) {
-    if (pack || arguments.length === 2) for (var i = 0, l = from.length, ar; i < l; i++) {
-        if (ar || !(i in from)) {
-            if (!ar) ar = Array.prototype.slice.call(from, 0, i);
-            ar[i] = from[i];
-        }
-    }
-    return to.concat(ar || Array.prototype.slice.call(from));
-};
 var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.YScaleBar = exports.StatBars = void 0;
-var react_1 = __importDefault(require("react"));
-var util_1 = require("@jbrowse/core/util");
-var configuration_1 = require("@jbrowse/core/configuration");
-var plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
-var mobx_react_1 = require("mobx-react");
-var YScaleBar_1 = __importDefault(require("./YScaleBar"));
+const react_1 = __importDefault(require("react"));
+const util_1 = require("@jbrowse/core/util");
+const configuration_1 = require("@jbrowse/core/configuration");
+const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
+const mobx_react_1 = require("mobx-react");
+const YScaleBar_1 = __importDefault(require("./YScaleBar"));
 exports.YScaleBar = YScaleBar_1.default;
-var trackLabelFontSize = 12.8;
+const trackLabelFontSize = 12.8;
 function getOffset(model) {
-    var prefersOffset = model.prefersOffset;
-    var trackLabels = (0, util_1.getContainingView)(model).trackLabels;
-    var track = (0, util_1.getContainingTrack)(model);
-    var trackName = (0, configuration_1.getConf)(track, 'name');
+    const { prefersOffset } = model;
+    const { trackLabels } = (0, util_1.getContainingView)(model);
+    const track = (0, util_1.getContainingTrack)(model);
+    const trackName = (0, configuration_1.getConf)(track, 'name');
     return trackLabels === 'overlapping' && !prefersOffset
         ? (0, util_1.measureText)(trackName, trackLabelFontSize) + 100
         : 10;
 }
-var Wrapper = (0, mobx_react_1.observer)(function (_a) {
-    var children = _a.children, model = _a.model, exportSVG = _a.exportSVG;
+const Wrapper = (0, mobx_react_1.observer)(({ children, model, exportSVG, }) => {
     if (exportSVG) {
         return react_1.default.createElement(react_1.default.Fragment, null, children);
     }
     else {
-        var height = model.height;
+        const { height } = model;
         return (react_1.default.createElement("svg", { style: {
                 position: 'absolute',
                 top: 0,
                 left: 0,
                 pointerEvents: 'none',
-                height: height,
+                height,
                 width: 1800,
             } }, children));
     }
 });
-var RectBg = function (props) {
-    var _a = props.color, color = _a === void 0 ? 'rgb(255,255,255,0.8)' : _a;
-    return react_1.default.createElement("rect", __assign({}, props, { fill: color }));
+const RectBg = (props) => {
+    const { color = 'rgb(255,255,255,0.8)' } = props;
+    return react_1.default.createElement("rect", { ...props, fill: color });
 };
-var ScoreLegend = (0, mobx_react_1.observer)(function (_a) {
-    var model = _a.model;
-    var ticks = model.ticks, scaleType = model.scaleType;
-    var width = (0, util_1.getContainingView)(model).width;
-    var legend = "[".concat(ticks.values[0], "-").concat(ticks.values[1], "]") +
+const ScoreLegend = (0, mobx_react_1.observer)(({ model }) => {
+    const { ticks, scaleType } = model;
+    const { width } = (0, util_1.getContainingView)(model);
+    const legend = `[${ticks.values[0]}-${ticks.values[1]}]` +
         (scaleType === 'log' ? ' (log scale)' : '');
-    var len = (0, util_1.measureText)(legend, 14);
-    var padding = 25;
-    var xpos = width - len - padding;
+    const len = (0, util_1.measureText)(legend, 14);
+    const padding = 25;
+    const xpos = width - len - padding;
     return (react_1.default.createElement(react_1.default.Fragment, null,
         react_1.default.createElement(RectBg, { y: 0, x: xpos, width: len + 6, height: 16 }),
         react_1.default.createElement("text", { y: 13, x: xpos }, legend)));
 });
-var ColorLegend = (0, mobx_react_1.observer)(function (_a) {
-    var model = _a.model, rowHeight = _a.rowHeight, labelWidth = _a.labelWidth, exportSVG = _a.exportSVG;
-    var needsCustomLegend = model.needsCustomLegend, needsScalebar = model.needsScalebar, needsFullHeightScalebar = model.needsFullHeightScalebar, rowHeightTooSmallForScalebar = model.rowHeightTooSmallForScalebar, renderColorBoxes = model.renderColorBoxes, sources = model.sources;
-    var svgFontSize = Math.min(rowHeight, 12);
-    var canDisplayLabel = rowHeight > 11;
-    var colorBoxWidth = renderColorBoxes ? 15 : 0;
-    var legendWidth = labelWidth + colorBoxWidth + 5;
-    var svgOffset = exportSVG ? 10 : 0;
-    var extraOffset = svgOffset || (needsScalebar && !rowHeightTooSmallForScalebar ? 50 : 0);
+const ColorLegend = (0, mobx_react_1.observer)(({ model, rowHeight, labelWidth, exportSVG, }) => {
+    const { needsCustomLegend, needsScalebar, needsFullHeightScalebar, rowHeightTooSmallForScalebar, renderColorBoxes, sources, } = model;
+    const svgFontSize = Math.min(rowHeight, 12);
+    const canDisplayLabel = rowHeight > 11;
+    const colorBoxWidth = renderColorBoxes ? 15 : 0;
+    const legendWidth = labelWidth + colorBoxWidth + 5;
+    const svgOffset = exportSVG ? 10 : 0;
+    const extraOffset = svgOffset || (needsScalebar && !rowHeightTooSmallForScalebar ? 50 : 0);
     return sources ? (react_1.default.createElement(react_1.default.Fragment, null,
         /* 0.25 for hanging letters like g */
         needsFullHeightScalebar ? (react_1.default.createElement(RectBg, { y: 0, x: extraOffset, width: legendWidth, height: (sources.length + 0.25) * rowHeight })) : null,
-        sources.map(function (source, idx) {
-            var boxHeight = Math.min(20, rowHeight);
+        sources.map((source, idx) => {
+            const boxHeight = Math.min(20, rowHeight);
             return (react_1.default.createElement(react_1.default.Fragment, { key: source.name + '-' + idx },
                 !needsFullHeightScalebar ? (react_1.default.createElement(RectBg, { y: idx * rowHeight + 1, x: extraOffset, width: legendWidth, height: boxHeight })) : null,
                 source.color ? (react_1.default.createElement(RectBg, { y: idx * rowHeight + 1, x: extraOffset, width: colorBoxWidth, height: needsCustomLegend ? rowHeight : boxHeight, color: source.color })) : null,
                 canDisplayLabel ? (react_1.default.createElement("text", { y: idx * rowHeight + 13, x: extraOffset + colorBoxWidth + 2, fontSize: svgFontSize }, source.name)) : null));
         }))) : null;
 });
-exports.StatBars = (0, mobx_react_1.observer)(function (props) {
-    var model = props.model, orientation = props.orientation, exportSVG = props.exportSVG;
-    var stats = model.stats, needsCustomLegend = model.needsCustomLegend, needsFullHeightScalebar = model.needsFullHeightScalebar, rowHeightTooSmallForScalebar = model.rowHeightTooSmallForScalebar, rowHeight = model.rowHeight, sources = model.sources, ticks = model.ticks;
-    var svgFontSize = Math.min(rowHeight, 12);
-    var canDisplayLabel = rowHeight > 11;
-    var viewWidth = (0, util_1.getContainingView)(model).width;
-    var minWidth = 20;
-    var ready = stats && sources;
+exports.StatBars = (0, mobx_react_1.observer)((props) => {
+    const { model, orientation, exportSVG } = props;
+    const { stats, needsCustomLegend, needsFullHeightScalebar, rowHeightTooSmallForScalebar, rowHeight, sources, ticks, } = model;
+    const svgFontSize = Math.min(rowHeight, 12);
+    const canDisplayLabel = rowHeight > 11;
+    const { width: viewWidth } = (0, util_1.getContainingView)(model);
+    const minWidth = 20;
+    const ready = stats && sources;
     if (!ready) {
         return null;
     }
-    var labelWidth = Math.max.apply(Math, __spreadArray([], __read((sources
-        .map(function (s) { return (0, util_1.measureText)(s.name, svgFontSize); })
-        .map(function (width) { return (canDisplayLabel ? width : minWidth); }) || [0])), false));
-    return (react_1.default.createElement(Wrapper, __assign({}, props), needsFullHeightScalebar ? (react_1.default.createElement(react_1.default.Fragment, null,
-        react_1.default.createElement("g", { transform: "translate(".concat(!exportSVG ? getOffset(model) : 0, ",0)") },
+    const labelWidth = Math.max(...(sources
+        .map(s => (0, util_1.measureText)(s.name, svgFontSize))
+        .map(width => (canDisplayLabel ? width : minWidth)) || [0]));
+    return (react_1.default.createElement(Wrapper, { ...props }, needsFullHeightScalebar ? (react_1.default.createElement(react_1.default.Fragment, null,
+        react_1.default.createElement("g", { transform: `translate(${!exportSVG ? getOffset(model) : 0},0)` },
             react_1.default.createElement(YScaleBar_1.default, { model: model, orientation: orientation })),
-        react_1.default.createElement("g", { transform: "translate(".concat(viewWidth - labelWidth - 100, ",0)") },
+        react_1.default.createElement("g", { transform: `translate(${viewWidth - labelWidth - 100},0)` },
             react_1.default.createElement(ColorLegend, { exportSVG: exportSVG, model: model, rowHeight: 12, labelWidth: labelWidth })))) : (react_1.default.createElement(react_1.default.Fragment, null,
         react_1.default.createElement(ColorLegend, { exportSVG: exportSVG, model: model, rowHeight: model.rowHeight, labelWidth: labelWidth }),
-        rowHeightTooSmallForScalebar || needsCustomLegend ? (react_1.default.createElement(ScoreLegend, __assign({}, props))) : (sources.map(function (_source, idx) { return (react_1.default.createElement("g", { transform: "translate(0 ".concat(rowHeight * idx, ")"), key: JSON.stringify(ticks) + '-' + idx },
-            react_1.default.createElement(YScaleBar_1.default, { model: model, orientation: orientation }))); }))))));
+        rowHeightTooSmallForScalebar || needsCustomLegend ? (react_1.default.createElement(ScoreLegend, { ...props })) : (sources.map((_source, idx) => (react_1.default.createElement("g", { transform: `translate(0 ${rowHeight * idx})`, key: JSON.stringify(ticks) + '-' + idx },
+            react_1.default.createElement(YScaleBar_1.default, { model: model, orientation: orientation })))))))));
 });
-var LinearWiggleDisplay = (0, mobx_react_1.observer)(function (props) {
-    var model = props.model;
+const LinearWiggleDisplay = (0, mobx_react_1.observer)((props) => {
+    const { model } = props;
     return (react_1.default.createElement("div", null,
-        react_1.default.createElement(plugin_linear_genome_view_1.BaseLinearDisplayComponent, __assign({}, props)),
+        react_1.default.createElement(plugin_linear_genome_view_1.BaseLinearDisplayComponent, { ...props }),
         react_1.default.createElement(exports.StatBars, { model: model })));
 });
 exports.default = LinearWiggleDisplay;

package/dist/MultiLinearWiggleDisplay/components/WiggleDisplayComponent.js.map

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package/dist/MultiLinearWiggleDisplay/components/YScaleBar.js

@@ -1,26 +1,14 @@
 "use strict";
-var __assign = (this && this.__assign) || function () {
-    __assign = Object.assign || function(t) {
-        for (var s, i = 1, n = arguments.length; i < n; i++) {
-            s = arguments[i];
-            for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p))
-                t[p] = s[p];
-        }
-        return t;
-    };
-    return __assign.apply(this, arguments);
-};
 var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-var react_1 = __importDefault(require("react"));
-var mobx_react_1 = require("mobx-react");
-var react_d3_axis_mod_1 = require("react-d3-axis-mod");
-var YScaleBar = (0, mobx_react_1.observer)(function (_a) {
-    var model = _a.model, orientation = _a.orientation;
-    var ticks = model.ticks;
-    return ticks ? (react_1.default.createElement(react_d3_axis_mod_1.Axis, __assign({}, ticks, { shadow: 2, format: function (n) { return n; }, style: { orient: orientation === 'left' ? react_d3_axis_mod_1.LEFT : react_d3_axis_mod_1.RIGHT } }))) : null;
+const react_1 = __importDefault(require("react"));
+const mobx_react_1 = require("mobx-react");
+const react_d3_axis_mod_1 = require("react-d3-axis-mod");
+const YScaleBar = (0, mobx_react_1.observer)(({ model, orientation, }) => {
+    const { ticks } = model;
+    return ticks ? (react_1.default.createElement(react_d3_axis_mod_1.Axis, { ...ticks, shadow: 2, format: (n) => n, style: { orient: orientation === 'left' ? react_d3_axis_mod_1.LEFT : react_d3_axis_mod_1.RIGHT } })) : null;
 });
 exports.default = YScaleBar;
 //# sourceMappingURL=YScaleBar.js.map

package/dist/MultiLinearWiggleDisplay/components/YScaleBar.js.map

@@ -1 +1 @@
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+{"version":3,"file":"YScaleBar.js","sourceRoot":"","sources":["../../../src/MultiLinearWiggleDisplay/components/YScaleBar.tsx"],"names":[],"mappings":";;;;;AAAA,kDAAyB;AACzB,2CAAqC;AACrC,yDAAqD;AAGrD,MAAM,SAAS,GAAG,IAAA,qBAAQ,EACxB,CAAC,EACC,KAAK,EACL,WAAW,GAIZ,EAAE,EAAE;IACH,MAAM,EAAE,KAAK,EAAE,GAAG,KAAK,CAAA;IACvB,OAAO,KAAK,CAAC,CAAC,CAAC,CACb,8BAAC,wBAAI,OACC,KAAK,EACT,MAAM,EAAE,CAAC,EACT,MAAM,EAAE,CAAC,CAAS,EAAE,EAAE,CAAC,CAAC,EACxB,KAAK,EAAE,EAAE,MAAM,EAAE,WAAW,KAAK,MAAM,CAAC,CAAC,CAAC,wBAAI,CAAC,CAAC,CAAC,yBAAK,EAAE,GACxD,CACH,CAAC,CAAC,CAAC,IAAI,CAAA;AACV,CAAC,CACF,CAAA;AACD,kBAAe,SAAS,CAAA"}

package/dist/MultiLinearWiggleDisplay/components/util.js

@@ -1,15 +1,14 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
 exports.moveDown = exports.moveUp = void 0;
-function moveUp(arr, sel, by) {
-    if (by === void 0) { by = 1; }
-    var idxs = sel
-        .map(function (l) { return arr.findIndex(function (v) { return v.name === l; }); })
-        .sort(function (a, b) { return a - b; });
-    var lastIdx = 0;
-    for (var i = 0; i < idxs.length; i++) {
-        var old = idxs[i];
-        var idx = Math.max(lastIdx, old - by);
+function moveUp(arr, sel, by = 1) {
+    const idxs = sel
+        .map(l => arr.findIndex(v => v.name === l))
+        .sort((a, b) => a - b);
+    let lastIdx = 0;
+    for (let i = 0; i < idxs.length; i++) {
+        const old = idxs[i];
+        const idx = Math.max(lastIdx, old - by);
         if (idx >= lastIdx) {
             arr.splice(idx, 0, arr.splice(old, 1)[0]);
         }
@@ -18,15 +17,14 @@ function moveUp(arr, sel, by) {
     return arr;
 }
 exports.moveUp = moveUp;
-function moveDown(arr, sel, by) {
-    if (by === void 0) { by = 1; }
-    var idxs = sel
-        .map(function (l) { return arr.findIndex(function (v) { return v.name === l; }); })
-        .sort(function (a, b) { return b - a; });
-    var lastIdx = arr.length - 1;
-    for (var i = 0; i < idxs.length; i++) {
-        var old = idxs[i];
-        var idx = Math.min(lastIdx, old + by);
+function moveDown(arr, sel, by = 1) {
+    const idxs = sel
+        .map(l => arr.findIndex(v => v.name === l))
+        .sort((a, b) => b - a);
+    let lastIdx = arr.length - 1;
+    for (let i = 0; i < idxs.length; i++) {
+        const old = idxs[i];
+        const idx = Math.min(lastIdx, old + by);
         if (idx <= lastIdx) {
             arr.splice(idx, 0, arr.splice(old, 1)[0]);
         }

package/dist/MultiLinearWiggleDisplay/components/util.js.map

@@ -1 +1 @@
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package/dist/MultiLinearWiggleDisplay/index.js

@@ -3,21 +3,21 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-var DisplayType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/DisplayType"));
-var configSchema_1 = __importDefault(require("./models/configSchema"));
-var model_1 = __importDefault(require("./models/model"));
-var WiggleDisplayComponent_1 = __importDefault(require("./components/WiggleDisplayComponent"));
-exports.default = (function (pluginManager) {
-    pluginManager.addDisplayType(function () {
-        var configSchema = (0, configSchema_1.default)(pluginManager);
+const DisplayType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/DisplayType"));
+const configSchema_1 = __importDefault(require("./models/configSchema"));
+const model_1 = __importDefault(require("./models/model"));
+const WiggleDisplayComponent_1 = __importDefault(require("./components/WiggleDisplayComponent"));
+exports.default = (pluginManager) => {
+    pluginManager.addDisplayType(() => {
+        const configSchema = (0, configSchema_1.default)(pluginManager);
         return new DisplayType_1.default({
             name: 'MultiLinearWiggleDisplay',
-            configSchema: configSchema,
+            configSchema,
             stateModel: (0, model_1.default)(pluginManager, configSchema),
             trackType: 'MultiQuantitativeTrack',
             viewType: 'LinearGenomeView',
             ReactComponent: WiggleDisplayComponent_1.default,
         });
     });
-});
+};
 //# sourceMappingURL=index.js.map

package/dist/MultiLinearWiggleDisplay/index.js.map

@@ -1 +1 @@
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+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/MultiLinearWiggleDisplay/index.ts"],"names":[],"mappings":";;;;;AACA,kGAAyE;AAEzE,yEAAuD;AACvD,2DAAyC;AACzC,iGAAgE;AAEhE,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,cAAc,CAAC,GAAG,EAAE;QAChC,MAAM,YAAY,GAAG,IAAA,sBAAmB,EAAC,aAAa,CAAC,CAAA;QACvD,OAAO,IAAI,qBAAW,CAAC;YACrB,IAAI,EAAE,0BAA0B;YAChC,YAAY;YACZ,UAAU,EAAE,IAAA,eAAY,EAAC,aAAa,EAAE,YAAY,CAAC;YACrD,SAAS,EAAE,wBAAwB;YACnC,QAAQ,EAAE,kBAAkB;YAC5B,cAAc,EAAd,gCAAc;SACf,CAAC,CAAA;IACJ,CAAC,CAAC,CAAA;AACJ,CAAC,CAAA"}

package/dist/MultiLinearWiggleDisplay/models/configSchema.js

@@ -1,14 +1,14 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-var configuration_1 = require("@jbrowse/core/configuration");
-var plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
-var mobx_state_tree_1 = require("mobx-state-tree");
+const configuration_1 = require("@jbrowse/core/configuration");
+const plugin_linear_genome_view_1 = require("@jbrowse/plugin-linear-genome-view");
+const mobx_state_tree_1 = require("mobx-state-tree");
 function WiggleConfigFactory(pluginManager) {
-    var MultiXYPlotRendererConfigSchema = pluginManager.getRendererType('MultiXYPlotRenderer').configSchema;
-    var MultiDensityRendererConfigSchema = pluginManager.getRendererType('MultiDensityRenderer').configSchema;
-    var MultiRowXYPlotRendererConfigSchema = pluginManager.getRendererType('MultiRowXYPlotRenderer').configSchema;
-    var MultiLineRendererConfigSchema = pluginManager.getRendererType('MultiLineRenderer').configSchema;
-    var MultiRowLineRendererConfigSchema = pluginManager.getRendererType('MultiRowLineRenderer').configSchema;
+    const MultiXYPlotRendererConfigSchema = pluginManager.getRendererType('MultiXYPlotRenderer').configSchema;
+    const MultiDensityRendererConfigSchema = pluginManager.getRendererType('MultiDensityRenderer').configSchema;
+    const MultiRowXYPlotRendererConfigSchema = pluginManager.getRendererType('MultiRowXYPlotRenderer').configSchema;
+    const MultiLineRendererConfigSchema = pluginManager.getRendererType('MultiLineRenderer').configSchema;
+    const MultiRowLineRendererConfigSchema = pluginManager.getRendererType('MultiRowLineRenderer').configSchema;
     return (0, configuration_1.ConfigurationSchema)('MultiLinearWiggleDisplay', {
         autoscale: {
             type: 'stringEnum',

package/dist/MultiLinearWiggleDisplay/models/configSchema.js.map

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