@jbrowse/plugin-wiggle 2.0.0 → 2.1.2

package/dist/XYPlotRenderer/XYPlotRenderer.js

@@ -1,30 +1,4 @@
 "use strict";
-var __extends = (this && this.__extends) || (function () {
-    var extendStatics = function (d, b) {
-        extendStatics = Object.setPrototypeOf ||
-            ({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) ||
-            function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; };
-        return extendStatics(d, b);
-    };
-    return function (d, b) {
-        if (typeof b !== "function" && b !== null)
-            throw new TypeError("Class extends value " + String(b) + " is not a constructor or null");
-        extendStatics(d, b);
-        function __() { this.constructor = d; }
-        d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __());
-    };
-})();
-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 __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
     if (k2 === undefined) k2 = k;
     var desc = Object.getOwnPropertyDescriptor(m, k);
@@ -48,208 +22,34 @@ var __importStar = (this && this.__importStar) || function (mod) {
     __setModuleDefault(result, mod);
     return result;
 };
-var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
-    function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
-    return new (P || (P = Promise))(function (resolve, reject) {
-        function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
-        function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
-        function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
-        step((generator = generator.apply(thisArg, _arguments || [])).next());
-    });
-};
-var __generator = (this && this.__generator) || function (thisArg, body) {
-    var _ = { label: 0, sent: function() { if (t[0] & 1) throw t[1]; return t[1]; }, trys: [], ops: [] }, f, y, t, g;
-    return g = { next: verb(0), "throw": verb(1), "return": verb(2) }, typeof Symbol === "function" && (g[Symbol.iterator] = function() { return this; }), g;
-    function verb(n) { return function (v) { return step([n, v]); }; }
-    function step(op) {
-        if (f) throw new TypeError("Generator is already executing.");
-        while (_) try {
-            if (f = 1, y && (t = op[0] & 2 ? y["return"] : op[0] ? y["throw"] || ((t = y["return"]) && t.call(y), 0) : y.next) && !(t = t.call(y, op[1])).done) return t;
-            if (y = 0, t) op = [op[0] & 2, t.value];
-            switch (op[0]) {
-                case 0: case 1: t = op; break;
-                case 4: _.label++; return { value: op[1], done: false };
-                case 5: _.label++; y = op[1]; op = [0]; continue;
-                case 7: op = _.ops.pop(); _.trys.pop(); continue;
-                default:
-                    if (!(t = _.trys, t = t.length > 0 && t[t.length - 1]) && (op[0] === 6 || op[0] === 2)) { _ = 0; continue; }
-                    if (op[0] === 3 && (!t || (op[1] > t[0] && op[1] < t[3]))) { _.label = op[1]; break; }
-                    if (op[0] === 6 && _.label < t[1]) { _.label = t[1]; t = op; break; }
-                    if (t && _.label < t[2]) { _.label = t[2]; _.ops.push(op); break; }
-                    if (t[2]) _.ops.pop();
-                    _.trys.pop(); continue;
-            }
-            op = body.call(thisArg, _);
-        } catch (e) { op = [6, e]; y = 0; } finally { f = t = 0; }
-        if (op[0] & 5) throw op[1]; return { value: op[0] ? op[1] : void 0, done: true };
-    }
-};
-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 __values = (this && this.__values) || function(o) {
-    var s = typeof Symbol === "function" && Symbol.iterator, m = s && o[s], i = 0;
-    if (m) return m.call(o);
-    if (o && typeof o.length === "number") return {
-        next: function () {
-            if (o && i >= o.length) o = void 0;
-            return { value: o && o[i++], done: !o };
-        }
-    };
-    throw new TypeError(s ? "Object is not iterable." : "Symbol.iterator is not defined.");
-};
 var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-var configuration_1 = require("@jbrowse/core/configuration");
-var util_1 = require("@jbrowse/core/util");
-var util_2 = require("../util");
-var WiggleBaseRenderer_1 = __importDefault(require("../WiggleBaseRenderer"));
-var model_1 = require("../LinearWiggleDisplay/models/model");
-function fillRect(ctx, x, y, width, height, color) {
-    if (color) {
-        ctx.fillStyle = String(color);
-    }
-    if (width < 0) {
-        x += width;
-        width = -width;
-    }
-    if (height < 0) {
-        y += height;
-        height = -height;
+const configuration_1 = require("@jbrowse/core/configuration");
+const drawxy_1 = require("../drawxy");
+const WiggleBaseRenderer_1 = __importDefault(require("../WiggleBaseRenderer"));
+const util_1 = require("../util");
+class XYPlotRenderer extends WiggleBaseRenderer_1.default {
+    async draw(ctx, props) {
+        const { features, config } = props;
+        // the adjusted height takes into account YSCALEBAR_LABEL_OFFSET from the
+        // wiggle display, and makes the height of the actual drawn area add
+        // "padding" to the top and bottom of the display
+        const pivotValue = (0, configuration_1.readConfObject)(config, 'bicolorPivotValue');
+        const negColor = (0, configuration_1.readConfObject)(config, 'negColor');
+        const posColor = (0, configuration_1.readConfObject)(config, 'posColor');
+        const Color = await Promise.resolve().then(() => __importStar(require('color'))).then(f => f.default);
+        return (0, drawxy_1.drawXY)(ctx, {
+            ...props,
+            colorCallback: (0, configuration_1.readConfObject)(config, 'color') === '#f0f'
+                ? (_, score) => score < pivotValue ? negColor : posColor
+                : (feature, _score) => (0, configuration_1.readConfObject)(config, 'color', { feature }),
+            offset: util_1.YSCALEBAR_LABEL_OFFSET,
+            features: [...features.values()],
+            Color,
+        });
     }
-    ctx.fillRect(x, y, width, height);
 }
-var XYPlotRenderer = /** @class */ (function (_super) {
-    __extends(XYPlotRenderer, _super);
-    function XYPlotRenderer() {
-        return _super !== null && _super.apply(this, arguments) || this;
-    }
-    XYPlotRenderer.prototype.draw = function (ctx, props) {
-        return __awaiter(this, void 0, void 0, function () {
-            var features, bpPerPx, regions, scaleOpts, unadjustedHeight, config, ticks, displayCrossHatches, Color, _a, region, width, rc, offset, height, pivotValue, negColor, posColor, filled, clipColor, highlightColor, summaryScoreMode, scale, originY, _b, niceMin, niceMax, toY, toHeight, colorCallback, crossingOrigin, _c, _d, feature, _e, leftPx, rightPx, score, maxr, minr, lowClipping, highClipping, w, summary, c;
-            var e_1, _f;
-            return __generator(this, function (_g) {
-                switch (_g.label) {
-                    case 0:
-                        features = props.features, bpPerPx = props.bpPerPx, regions = props.regions, scaleOpts = props.scaleOpts, unadjustedHeight = props.height, config = props.config, ticks = props.ticks, displayCrossHatches = props.displayCrossHatches;
-                        return [4 /*yield*/, Promise.resolve().then(function () { return __importStar(require('color')); }).then(function (f) { return f.default; })];
-                    case 1:
-                        Color = _g.sent();
-                        _a = __read(regions, 1), region = _a[0];
-                        width = (region.end - region.start) / bpPerPx;
-                        rc = function (s, rest) {
-                            return (0, configuration_1.readConfObject)(config, s, rest);
-                        };
-                        offset = model_1.YSCALEBAR_LABEL_OFFSET;
-                        height = unadjustedHeight - offset * 2;
-                        pivotValue = rc('bicolorPivotValue');
-                        negColor = rc('negColor');
-                        posColor = rc('posColor');
-                        filled = rc('filled');
-                        clipColor = rc('clipColor');
-                        highlightColor = rc('highlightColor');
-                        summaryScoreMode = rc('summaryScoreMode');
-                        scale = (0, util_2.getScale)(__assign(__assign({}, scaleOpts), { range: [0, height] }));
-                        originY = (0, util_2.getOrigin)(scaleOpts.scaleType);
-                        _b = __read(scale.domain(), 2), niceMin = _b[0], niceMax = _b[1];
-                        toY = function (n) { return height - (scale(n) || 0) + offset; };
-                        toHeight = function (n) { return toY(originY) - toY(n); };
-                        colorCallback = rc('color') === '#f0f'
-                            ? function (_, score) {
-                                return score < pivotValue ? negColor : posColor;
-                            }
-                            : function (feature, _score) { return rc('color', { feature: feature }); };
-                        crossingOrigin = niceMin < pivotValue && niceMax > pivotValue;
-                        try {
-                            for (_c = __values(features.values()), _d = _c.next(); !_d.done; _d = _c.next()) {
-                                feature = _d.value;
-                                _e = __read((0, util_1.featureSpanPx)(feature, region, bpPerPx), 2), leftPx = _e[0], rightPx = _e[1];
-                                score = feature.get('score');
-                                maxr = feature.get('maxScore');
-                                minr = feature.get('minScore');
-                                lowClipping = score < niceMin;
-                                highClipping = score > niceMax;
-                                w = rightPx - leftPx + 0.4 // fudge factor for subpixel rendering
-                                ;
-                                summary = feature.get('summary');
-                                if (summaryScoreMode === 'max') {
-                                    score = summary ? maxr : score;
-                                    fillRect(ctx, leftPx, toY(score), w, filled ? toHeight(score) : 1, colorCallback(feature, score));
-                                }
-                                else if (summaryScoreMode === 'min') {
-                                    score = summary ? minr : score;
-                                    fillRect(ctx, leftPx, toY(score), w, filled ? toHeight(score) : 1, colorCallback(feature, score));
-                                }
-                                else if (summaryScoreMode === 'whiskers') {
-                                    c = colorCallback(feature, score);
-                                    if (summary) {
-                                        fillRect(ctx, leftPx, toY(maxr), w, filled ? toHeight(maxr) - toHeight(score) : 1, crossingOrigin
-                                            ? colorCallback(feature, maxr)
-                                            : Color(c).lighten(0.6));
-                                    }
-                                    // normal
-                                    fillRect(ctx, leftPx, toY(score), w, filled ? toHeight(score) - (summary ? toHeight(minr) : 0) : 1, crossingOrigin && summary
-                                        ? Color(colorCallback(feature, maxr)).mix(Color(colorCallback(feature, minr)))
-                                        : c);
-                                    // min
-                                    if (summary) {
-                                        fillRect(ctx, leftPx, toY(minr), w, filled ? toHeight(minr) : 1, crossingOrigin
-                                            ? colorCallback(feature, minr)
-                                            : Color(c).darken(0.6));
-                                    }
-                                }
-                                else {
-                                    fillRect(ctx, leftPx, toY(score), w, filled ? toHeight(score) : 1, colorCallback(feature, score));
-                                }
-                                if (highClipping) {
-                                    fillRect(ctx, leftPx, 0, w, 4, clipColor);
-                                }
-                                else if (lowClipping && scaleOpts.scaleType !== 'log') {
-                                    fillRect(ctx, leftPx, unadjustedHeight - 4, w, 4, clipColor);
-                                }
-                                if (feature.get('highlighted')) {
-                                    fillRect(ctx, leftPx, 0, w, height, highlightColor);
-                                }
-                            }
-                        }
-                        catch (e_1_1) { e_1 = { error: e_1_1 }; }
-                        finally {
-                            try {
-                                if (_d && !_d.done && (_f = _c.return)) _f.call(_c);
-                            }
-                            finally { if (e_1) throw e_1.error; }
-                        }
-                        if (displayCrossHatches) {
-                            ctx.lineWidth = 1;
-                            ctx.strokeStyle = 'rgba(200,200,200,0.8)';
-                            ticks.values.forEach(function (tick) {
-                                ctx.beginPath();
-                                ctx.moveTo(0, Math.round(toY(tick)));
-                                ctx.lineTo(width, Math.round(toY(tick)));
-                                ctx.stroke();
-                            });
-                        }
-                        return [2 /*return*/];
-                }
-            });
-        });
-    };
-    return XYPlotRenderer;
-}(WiggleBaseRenderer_1.default));
 exports.default = XYPlotRenderer;
 //# sourceMappingURL=XYPlotRenderer.js.map

package/dist/XYPlotRenderer/XYPlotRenderer.js.map

@@ -1 +1 @@
-{"version":3,"file":"XYPlotRenderer.js","sourceRoot":"","sources":["../../src/XYPlotRenderer/XYPlotRenderer.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,6DAA4D;AAC5D,2CAAkD;AAElD,gCAA6C;AAC7C,6EAE8B;AAC9B,6DAA4E;AAE5E,SAAS,QAAQ,CACf,GAA6B,EAC7B,CAAS,EACT,CAAS,EACT,KAAa,EACb,MAAc,EACd,KAAc;IAEd,IAAI,KAAK,EAAE;QACT,GAAG,CAAC,SAAS,GAAG,MAAM,CAAC,KAAK,CAAC,CAAA;KAC9B;IACD,IAAI,KAAK,GAAG,CAAC,EAAE;QACb,CAAC,IAAI,KAAK,CAAA;QACV,KAAK,GAAG,CAAC,KAAK,CAAA;KACf;IACD,IAAI,MAAM,GAAG,CAAC,EAAE;QACd,CAAC,IAAI,MAAM,CAAA;QACX,MAAM,GAAG,CAAC,MAAM,CAAA;KACjB;IACD,GAAG,CAAC,QAAQ,CAAC,CAAC,EAAE,CAAC,EAAE,KAAK,EAAE,MAAM,CAAC,CAAA;AACnC,CAAC;AAED;IAA4C,kCAAkB;IAA9D;;IA6JA,CAAC;IA5JO,6BAAI,GAAV,UACE,GAA6B,EAC7B,KAAyC;;;;;;;wBAGvC,QAAQ,GAQN,KAAK,SARC,EACR,OAAO,GAOL,KAAK,QAPA,EACP,OAAO,GAML,KAAK,QANA,EACP,SAAS,GAKP,KAAK,UALE,EACD,gBAAgB,GAItB,KAAK,OAJiB,EACxB,MAAM,GAGJ,KAAK,OAHD,EACN,KAAK,GAEH,KAAK,MAFF,EACL,mBAAmB,GACjB,KAAK,oBADY,CACZ;wBACK,qBAAM,iEAAO,OAAO,OAAE,IAAI,CAAC,UAAA,CAAC,IAAI,OAAA,CAAC,CAAC,OAAO,EAAT,CAAS,CAAC,EAAA;;wBAAlD,KAAK,GAAG,SAA0C;wBAClD,KAAA,OAAW,OAAO,IAAA,EAAjB,MAAM,QAAA,CAAW;wBAClB,KAAK,GAAG,CAAC,MAAM,CAAC,GAAG,GAAG,MAAM,CAAC,KAAK,CAAC,GAAG,OAAO,CAAA;wBAG7C,EAAE,GAAG,UAAC,CAAS,EAAE,IAA0B;4BAC/C,OAAA,IAAA,8BAAc,EAAC,MAAM,EAAE,CAAC,EAAE,IAAI,CAAC;wBAA/B,CAA+B,CAAA;wBAK3B,MAAM,GAAG,8BAAsB,CAAA;wBAC/B,MAAM,GAAG,gBAAgB,GAAG,MAAM,GAAG,CAAC,CAAA;wBAEtC,UAAU,GAAG,EAAE,CAAC,mBAAmB,CAAC,CAAA;wBACpC,QAAQ,GAAG,EAAE,CAAC,UAAU,CAAC,CAAA;wBACzB,QAAQ,GAAG,EAAE,CAAC,UAAU,CAAC,CAAA;wBACzB,MAAM,GAAG,EAAE,CAAC,QAAQ,CAAC,CAAA;wBACrB,SAAS,GAAG,EAAE,CAAC,WAAW,CAAC,CAAA;wBAC3B,cAAc,GAAG,EAAE,CAAC,gBAAgB,CAAC,CAAA;wBACrC,gBAAgB,GAAG,EAAE,CAAC,kBAAkB,CAAC,CAAA;wBAEzC,KAAK,GAAG,IAAA,eAAQ,wBAAM,SAAS,KAAE,KAAK,EAAE,CAAC,CAAC,EAAE,MAAM,CAAC,IAAG,CAAA;wBACtD,OAAO,GAAG,IAAA,gBAAS,EAAC,SAAS,CAAC,SAAS,CAAC,CAAA;wBACxC,KAAA,OAAqB,KAAK,CAAC,MAAM,EAAE,IAAA,EAAlC,OAAO,QAAA,EAAE,OAAO,QAAA,CAAkB;wBAEnC,GAAG,GAAG,UAAC,CAAS,IAAK,OAAA,MAAM,GAAG,CAAC,KAAK,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,GAAG,MAAM,EAAjC,CAAiC,CAAA;wBACtD,QAAQ,GAAG,UAAC,CAAS,IAAK,OAAA,GAAG,CAAC,OAAO,CAAC,GAAG,GAAG,CAAC,CAAC,CAAC,EAArB,CAAqB,CAAA;wBAE/C,aAAa,GACjB,EAAE,CAAC,OAAO,CAAC,KAAK,MAAM;4BACpB,CAAC,CAAC,UAAC,CAAU,EAAE,KAAa;gCACxB,OAAA,KAAK,GAAG,UAAU,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,QAAQ;4BAAxC,CAAwC;4BAC5C,CAAC,CAAC,UAAC,OAAgB,EAAE,MAAc,IAAK,OAAA,EAAE,CAAC,OAAO,EAAE,EAAE,OAAO,SAAA,EAAE,CAAC,EAAxB,CAAwB,CAAA;wBAE9D,cAAc,GAAG,OAAO,GAAG,UAAU,IAAI,OAAO,GAAG,UAAU,CAAA;;4BACnE,KAAsB,KAAA,SAAA,QAAQ,CAAC,MAAM,EAAE,CAAA,4CAAE;gCAA9B,OAAO;gCACV,KAAA,OAAoB,IAAA,oBAAa,EAAC,OAAO,EAAE,MAAM,EAAE,OAAO,CAAC,IAAA,EAA1D,MAAM,QAAA,EAAE,OAAO,QAAA,CAA2C;gCAC7D,KAAK,GAAG,OAAO,CAAC,GAAG,CAAC,OAAO,CAAC,CAAA;gCAC1B,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,UAAU,CAAC,CAAA;gCAC9B,IAAI,GAAG,OAAO,CAAC,GAAG,CAAC,UAAU,CAAC,CAAA;gCAE9B,WAAW,GAAG,KAAK,GAAG,OAAO,CAAA;gCAC7B,YAAY,GAAG,KAAK,GAAG,OAAO,CAAA;gCAC9B,CAAC,GAAG,OAAO,GAAG,MAAM,GAAG,GAAG,CAAC,sCAAsC;gCAAvC,CAAA;gCAE1B,OAAO,GAAG,OAAO,CAAC,GAAG,CAAC,SAAS,CAAC,CAAA;gCAEtC,IAAI,gBAAgB,KAAK,KAAK,EAAE;oCAC9B,KAAK,GAAG,OAAO,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,KAAK,CAAA;oCAC9B,QAAQ,CACN,GAAG,EACH,MAAM,EACN,GAAG,CAAC,KAAK,CAAC,EACV,CAAC,EACD,MAAM,CAAC,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,EAC5B,aAAa,CAAC,OAAO,EAAE,KAAK,CAAC,CAC9B,CAAA;iCACF;qCAAM,IAAI,gBAAgB,KAAK,KAAK,EAAE;oCACrC,KAAK,GAAG,OAAO,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,KAAK,CAAA;oCAC9B,QAAQ,CACN,GAAG,EACH,MAAM,EACN,GAAG,CAAC,KAAK,CAAC,EACV,CAAC,EACD,MAAM,CAAC,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,EAC5B,aAAa,CAAC,OAAO,EAAE,KAAK,CAAC,CAC9B,CAAA;iCACF;qCAAM,IAAI,gBAAgB,KAAK,UAAU,EAAE;oCACpC,CAAC,GAAG,aAAa,CAAC,OAAO,EAAE,KAAK,CAAC,CAAA;oCACvC,IAAI,OAAO,EAAE;wCACX,QAAQ,CACN,GAAG,EACH,MAAM,EACN,GAAG,CAAC,IAAI,CAAC,EACT,CAAC,EACD,MAAM,CAAC,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,EAC7C,cAAc;4CACZ,CAAC,CAAC,aAAa,CAAC,OAAO,EAAE,IAAI,CAAC;4CAC9B,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,OAAO,CAAC,GAAG,CAAC,CAC1B,CAAA;qCACF;oCAED,SAAS;oCACT,QAAQ,CACN,GAAG,EACH,MAAM,EACN,GAAG,CAAC,KAAK,CAAC,EACV,CAAC,EACD,MAAM,CAAC,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC,GAAG,CAAC,OAAO,CAAC,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,EAC7D,cAAc,IAAI,OAAO;wCACvB,CAAC,CAAC,KAAK,CAAC,aAAa,CAAC,OAAO,EAAE,IAAI,CAAC,CAAC,CAAC,GAAG,CACrC,KAAK,CAAC,aAAa,CAAC,OAAO,EAAE,IAAI,CAAC,CAAC,CACpC;wCACH,CAAC,CAAC,CAAC,CACN,CAAA;oCAED,MAAM;oCACN,IAAI,OAAO,EAAE;wCACX,QAAQ,CACN,GAAG,EACH,MAAM,EACN,GAAG,CAAC,IAAI,CAAC,EACT,CAAC,EACD,MAAM,CAAC,CAAC,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,EAC3B,cAAc;4CACZ,CAAC,CAAC,aAAa,CAAC,OAAO,EAAE,IAAI,CAAC;4CAC9B,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,MAAM,CAAC,GAAG,CAAC,CACzB,CAAA;qCACF;iCACF;qCAAM;oCACL,QAAQ,CACN,GAAG,EACH,MAAM,EACN,GAAG,CAAC,KAAK,CAAC,EACV,CAAC,EACD,MAAM,CAAC,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,EAC5B,aAAa,CAAC,OAAO,EAAE,KAAK,CAAC,CAC9B,CAAA;iCACF;gCAED,IAAI,YAAY,EAAE;oCAChB,QAAQ,CAAC,GAAG,EAAE,MAAM,EAAE,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,SAAS,CAAC,CAAA;iCAC1C;qCAAM,IAAI,WAAW,IAAI,SAAS,CAAC,SAAS,KAAK,KAAK,EAAE;oCACvD,QAAQ,CAAC,GAAG,EAAE,MAAM,EAAE,gBAAgB,GAAG,CAAC,EAAE,CAAC,EAAE,CAAC,EAAE,SAAS,CAAC,CAAA;iCAC7D;gCACD,IAAI,OAAO,CAAC,GAAG,CAAC,aAAa,CAAC,EAAE;oCAC9B,QAAQ,CAAC,GAAG,EAAE,MAAM,EAAE,CAAC,EAAE,CAAC,EAAE,MAAM,EAAE,cAAc,CAAC,CAAA;iCACpD;6BACF;;;;;;;;;wBAED,IAAI,mBAAmB,EAAE;4BACvB,GAAG,CAAC,SAAS,GAAG,CAAC,CAAA;4BACjB,GAAG,CAAC,WAAW,GAAG,uBAAuB,CAAA;4BACzC,KAAK,CAAC,MAAM,CAAC,OAAO,CAAC,UAAA,IAAI;gCACvB,GAAG,CAAC,SAAS,EAAE,CAAA;gCACf,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;gCACpC,GAAG,CAAC,MAAM,CAAC,KAAK,EAAE,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,IAAI,CAAC,CAAC,CAAC,CAAA;gCACxC,GAAG,CAAC,MAAM,EAAE,CAAA;4BACd,CAAC,CAAC,CAAA;yBACH;;;;;KACF;IACH,qBAAC;AAAD,CAAC,AA7JD,CAA4C,4BAAkB,GA6J7D"}
+{"version":3,"file":"XYPlotRenderer.js","sourceRoot":"","sources":["../../src/XYPlotRenderer/XYPlotRenderer.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,+DAA4D;AAE5D,sCAAkC;AAClC,+EAE8B;AAC9B,kCAAgD;AAEhD,MAAqB,cAAe,SAAQ,4BAAkB;IAC5D,KAAK,CAAC,IAAI,CACR,GAA6B,EAC7B,KAAyC;QAEzC,MAAM,EAAE,QAAQ,EAAE,MAAM,EAAE,GAAG,KAAK,CAAA;QAElC,yEAAyE;QACzE,oEAAoE;QACpE,iDAAiD;QACjD,MAAM,UAAU,GAAG,IAAA,8BAAc,EAAC,MAAM,EAAE,mBAAmB,CAAC,CAAA;QAC9D,MAAM,QAAQ,GAAG,IAAA,8BAAc,EAAC,MAAM,EAAE,UAAU,CAAC,CAAA;QACnD,MAAM,QAAQ,GAAG,IAAA,8BAAc,EAAC,MAAM,EAAE,UAAU,CAAC,CAAA;QACnD,MAAM,KAAK,GAAG,MAAM,kDAAO,OAAO,IAAE,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,OAAO,CAAC,CAAA;QAExD,OAAO,IAAA,eAAM,EAAC,GAAG,EAAE;YACjB,GAAG,KAAK;YACR,aAAa,EACX,IAAA,8BAAc,EAAC,MAAM,EAAE,OAAO,CAAC,KAAK,MAAM;gBACxC,CAAC,CAAC,CAAC,CAAU,EAAE,KAAa,EAAE,EAAE,CAC5B,KAAK,GAAG,UAAU,CAAC,CAAC,CAAC,QAAQ,CAAC,CAAC,CAAC,QAAQ;gBAC5C,CAAC,CAAC,CAAC,OAAgB,EAAE,MAAc,EAAE,EAAE,CACnC,IAAA,8BAAc,EAAC,MAAM,EAAE,OAAO,EAAE,EAAE,OAAO,EAAE,CAAC;YACpD,MAAM,EAAE,6BAAsB;YAC9B,QAAQ,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,EAAE,CAAC;YAChC,KAAK;SACN,CAAC,CAAA;IACJ,CAAC;CACF;AA5BD,iCA4BC"}

package/dist/XYPlotRenderer/configSchema.d.ts

@@ -0,0 +1,2 @@
+declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+export default configSchema;

package/dist/XYPlotRenderer/configSchema.js

@@ -0,0 +1,31 @@
+"use strict";
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const configuration_1 = require("@jbrowse/core/configuration");
+const configSchema_1 = __importDefault(require("../configSchema"));
+const mobx_state_tree_1 = require("mobx-state-tree");
+const configSchema = (0, configuration_1.ConfigurationSchema)('XYPlotRenderer', {
+    filled: {
+        type: 'boolean',
+        defaultValue: true,
+    },
+    displayCrossHatches: {
+        type: 'boolean',
+        description: 'choose to draw cross hatches (sideways lines)',
+        defaultValue: false,
+    },
+    summaryScoreMode: {
+        type: 'stringEnum',
+        model: mobx_state_tree_1.types.enumeration('Score type', ['max', 'min', 'avg', 'whiskers']),
+        description: 'choose whether to use max/min/average or whiskers which combines all three into the same rendering',
+        defaultValue: 'whiskers',
+    },
+    minSize: {
+        type: 'number',
+        defaultValue: 0,
+    },
+}, { baseConfiguration: configSchema_1.default, explicitlyTyped: true });
+exports.default = configSchema;
+//# sourceMappingURL=configSchema.js.map

package/dist/XYPlotRenderer/configSchema.js.map

@@ -0,0 +1 @@
+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../../src/XYPlotRenderer/configSchema.ts"],"names":[],"mappings":";;;;;AAAA,+DAAiE;AACjE,mEAA0C;AAC1C,qDAAuC;AAEvC,MAAM,YAAY,GAAG,IAAA,mCAAmB,EACtC,gBAAgB,EAChB;IACE,MAAM,EAAE;QACN,IAAI,EAAE,SAAS;QACf,YAAY,EAAE,IAAI;KACnB;IACD,mBAAmB,EAAE;QACnB,IAAI,EAAE,SAAS;QACf,WAAW,EAAE,+CAA+C;QAC5D,YAAY,EAAE,KAAK;KACpB;IACD,gBAAgB,EAAE;QAChB,IAAI,EAAE,YAAY;QAClB,KAAK,EAAE,uBAAK,CAAC,WAAW,CAAC,YAAY,EAAE,CAAC,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,UAAU,CAAC,CAAC;QACzE,WAAW,EACT,oGAAoG;QACtG,YAAY,EAAE,UAAU;KACzB;IACD,OAAO,EAAE;QACP,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,CAAC;KAChB;CACF,EACD,EAAE,iBAAiB,EAAE,sBAAY,EAAE,eAAe,EAAE,IAAI,EAAE,CAC3D,CAAA;AAED,kBAAe,YAAY,CAAA"}

package/dist/XYPlotRenderer/index.d.ts

@@ -1,3 +1,7 @@
-export { default as ReactComponent } from '../WiggleRendering';
-export { default } from './XYPlotRenderer';
-export declare const configSchema: import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+import ReactComponent from '../WiggleRendering';
+import PluginManager from '@jbrowse/core/PluginManager';
+import XYPlotRenderer from './XYPlotRenderer';
+import configSchema from './configSchema';
+export { XYPlotRenderer, configSchema, ReactComponent };
+declare const _default: (pluginManager: PluginManager) => void;
+export default _default;

package/dist/XYPlotRenderer/index.js

@@ -3,29 +3,19 @@ var __importDefault = (this && this.__importDefault) || function (mod) {
     return (mod && mod.__esModule) ? mod : { "default": mod };
 };
 Object.defineProperty(exports, "__esModule", { value: true });
-exports.configSchema = exports.default = exports.ReactComponent = void 0;
-var configuration_1 = require("@jbrowse/core/configuration");
-var configSchema_1 = __importDefault(require("../configSchema"));
-var mobx_state_tree_1 = require("mobx-state-tree");
-var WiggleRendering_1 = require("../WiggleRendering");
-Object.defineProperty(exports, "ReactComponent", { enumerable: true, get: function () { return __importDefault(WiggleRendering_1).default; } });
-var XYPlotRenderer_1 = require("./XYPlotRenderer");
-Object.defineProperty(exports, "default", { enumerable: true, get: function () { return __importDefault(XYPlotRenderer_1).default; } });
-exports.configSchema = (0, configuration_1.ConfigurationSchema)('XYPlotRenderer', {
-    filled: {
-        type: 'boolean',
-        defaultValue: true,
-    },
-    displayCrossHatches: {
-        type: 'boolean',
-        description: 'choose to draw cross hatches (sideways lines)',
-        defaultValue: false,
-    },
-    summaryScoreMode: {
-        type: 'stringEnum',
-        model: mobx_state_tree_1.types.enumeration('Score type', ['max', 'min', 'avg', 'whiskers']),
-        description: 'choose whether to use max/min/average or whiskers which combines all three into the same rendering',
-        defaultValue: 'whiskers',
-    },
-}, { baseConfiguration: configSchema_1.default, explicitlyTyped: true });
+exports.ReactComponent = exports.configSchema = exports.XYPlotRenderer = void 0;
+const WiggleRendering_1 = __importDefault(require("../WiggleRendering"));
+exports.ReactComponent = WiggleRendering_1.default;
+const XYPlotRenderer_1 = __importDefault(require("./XYPlotRenderer"));
+exports.XYPlotRenderer = XYPlotRenderer_1.default;
+const configSchema_1 = __importDefault(require("./configSchema"));
+exports.configSchema = configSchema_1.default;
+exports.default = (pluginManager) => {
+    pluginManager.addRendererType(() => new XYPlotRenderer_1.default({
+        name: 'XYPlotRenderer',
+        ReactComponent: WiggleRendering_1.default,
+        configSchema: configSchema_1.default,
+        pluginManager,
+    }));
+};
 //# sourceMappingURL=index.js.map

package/dist/XYPlotRenderer/index.js.map

@@ -1 +1 @@
-{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/XYPlotRenderer/index.ts"],"names":[],"mappings":";;;;;;AAAA,6DAAiE;AACjE,iEAA0C;AAC1C,mDAAuC;AACvC,sDAA8D;AAArD,kIAAA,OAAO,OAAkB;AAClC,mDAA0C;AAAjC,0HAAA,OAAO,OAAA;AAEH,QAAA,YAAY,GAAG,IAAA,mCAAmB,EAC7C,gBAAgB,EAChB;IACE,MAAM,EAAE;QACN,IAAI,EAAE,SAAS;QACf,YAAY,EAAE,IAAI;KACnB;IACD,mBAAmB,EAAE;QACnB,IAAI,EAAE,SAAS;QACf,WAAW,EAAE,+CAA+C;QAC5D,YAAY,EAAE,KAAK;KACpB;IACD,gBAAgB,EAAE;QAChB,IAAI,EAAE,YAAY;QAClB,KAAK,EAAE,uBAAK,CAAC,WAAW,CAAC,YAAY,EAAE,CAAC,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,UAAU,CAAC,CAAC;QACzE,WAAW,EACT,oGAAoG;QACtG,YAAY,EAAE,UAAU;KACzB;CACF,EACD,EAAE,iBAAiB,EAAE,sBAAY,EAAE,eAAe,EAAE,IAAI,EAAE,CAC3D,CAAA"}
+{"version":3,"file":"index.js","sourceRoot":"","sources":["../../src/XYPlotRenderer/index.ts"],"names":[],"mappings":";;;;;;AAAA,yEAA+C;AAIR,yBAJhC,yBAAc,CAIgC;AAFrD,sEAA6C;AAEpC,yBAFF,wBAAc,CAEE;AADvB,kEAAyC;AAChB,uBADlB,sBAAY,CACkB;AAErC,kBAAe,CAAC,aAA4B,EAAE,EAAE;IAC9C,aAAa,CAAC,eAAe,CAC3B,GAAG,EAAE,CACH,IAAI,wBAAc,CAAC;QACjB,IAAI,EAAE,gBAAgB;QACtB,cAAc,EAAd,yBAAc;QACd,YAAY,EAAZ,sBAAY;QACZ,aAAa;KACd,CAAC,CACL,CAAA;AACH,CAAC,CAAA"}

package/dist/configSchema.js

@@ -1,7 +1,7 @@
 "use strict";
 Object.defineProperty(exports, "__esModule", { value: true });
-var configuration_1 = require("@jbrowse/core/configuration");
-var mobx_state_tree_1 = require("mobx-state-tree");
+const configuration_1 = require("@jbrowse/core/configuration");
+const mobx_state_tree_1 = require("mobx-state-tree");
 exports.default = (0, configuration_1.ConfigurationSchema)('WiggleRenderer', {
     color: {
         type: 'color',
@@ -18,11 +18,6 @@ exports.default = (0, configuration_1.ConfigurationSchema)('WiggleRenderer', {
         description: 'the color to use when the score is negative',
         defaultValue: 'red',
     },
-    highlightColor: {
-        type: 'color',
-        description: 'the color of highlights over the wiggle track',
-        defaultValue: 'rgba(255,255,0,0.5)',
-    },
     clipColor: {
         type: 'color',
         description: 'the color of the clipping marker',

package/dist/configSchema.js.map

@@ -1 +1 @@
-{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../src/configSchema.ts"],"names":[],"mappings":";;AAAA,6DAAiE;AACjE,mDAAuC;AAEvC,kBAAe,IAAA,mCAAmB,EAChC,gBAAgB,EAChB;IACE,KAAK,EAAE;QACL,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,qDAAqD;QAClE,YAAY,EAAE,MAAM;KACrB;IACD,QAAQ,EAAE;QACR,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,6CAA6C;QAC1D,YAAY,EAAE,MAAM;KACrB;IACD,QAAQ,EAAE;QACR,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,6CAA6C;QAC1D,YAAY,EAAE,KAAK;KACpB;IACD,cAAc,EAAE;QACd,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,+CAA+C;QAC5D,YAAY,EAAE,qBAAqB;KACpC;IACD,SAAS,EAAE;QACT,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,kCAAkC;QAC/C,YAAY,EAAE,KAAK;KACpB;IACD,YAAY,EAAE;QACZ,IAAI,EAAE,YAAY;QAClB,KAAK,EAAE,uBAAK,CAAC,WAAW,CAAC,YAAY,EAAE;YACrC,SAAS;YACT,MAAM;YACN,SAAS;YACT,MAAM;SACP,CAAC;QACF,WAAW,EAAE,uBAAuB;QACpC,YAAY,EAAE,SAAS;KACxB;IACD,iBAAiB,EAAE;QACjB,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,CAAC;QACf,WAAW,EAAE,gCAAgC;KAC9C;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,CAC1B,CAAA"}
+{"version":3,"file":"configSchema.js","sourceRoot":"","sources":["../src/configSchema.ts"],"names":[],"mappings":";;AAAA,+DAAiE;AACjE,qDAAuC;AAEvC,kBAAe,IAAA,mCAAmB,EAChC,gBAAgB,EAChB;IACE,KAAK,EAAE;QACL,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,qDAAqD;QAClE,YAAY,EAAE,MAAM;KACrB;IACD,QAAQ,EAAE;QACR,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,6CAA6C;QAC1D,YAAY,EAAE,MAAM;KACrB;IACD,QAAQ,EAAE;QACR,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,6CAA6C;QAC1D,YAAY,EAAE,KAAK;KACpB;IACD,SAAS,EAAE;QACT,IAAI,EAAE,OAAO;QACb,WAAW,EAAE,kCAAkC;QAC/C,YAAY,EAAE,KAAK;KACpB;IACD,YAAY,EAAE;QACZ,IAAI,EAAE,YAAY;QAClB,KAAK,EAAE,uBAAK,CAAC,WAAW,CAAC,YAAY,EAAE;YACrC,SAAS;YACT,MAAM;YACN,SAAS;YACT,MAAM;SACP,CAAC;QACF,WAAW,EAAE,uBAAuB;QACpC,YAAY,EAAE,SAAS;KACxB;IACD,iBAAiB,EAAE;QACjB,IAAI,EAAE,QAAQ;QACd,YAAY,EAAE,CAAC;QACf,WAAW,EAAE,gCAAgC;KAC9C;CACF,EACD,EAAE,eAAe,EAAE,IAAI,EAAE,CAC1B,CAAA"}

package/dist/drawxy.d.ts

@@ -0,0 +1,50 @@
+import { AnyConfigurationModel } from '@jbrowse/core/configuration';
+import { Feature, Region } from '@jbrowse/core/util';
+import { ScaleOpts } from './util';
+export declare function drawXY(ctx: CanvasRenderingContext2D, props: {
+    features: Map<string, Feature> | Feature[];
+    bpPerPx: number;
+    regions: Region[];
+    scaleOpts: ScaleOpts;
+    height: number;
+    ticks: {
+        values: number[];
+    };
+    config: AnyConfigurationModel;
+    displayCrossHatches: boolean;
+    offset?: number;
+    colorCallback: (f: Feature, score: number) => string;
+    Color: typeof import('color');
+}): {
+    reducedFeatures: Feature[];
+};
+export declare function drawLine(ctx: CanvasRenderingContext2D, props: {
+    features: Map<string, Feature> | Feature[];
+    regions: Region[];
+    bpPerPx: number;
+    scaleOpts: ScaleOpts;
+    height: number;
+    ticks: {
+        values: number[];
+    };
+    displayCrossHatches: boolean;
+    colorCallback: (f: Feature, score: number) => string;
+    config: AnyConfigurationModel;
+    offset?: number;
+}): {
+    reducedFeatures: Feature[];
+};
+export declare function drawDensity(ctx: CanvasRenderingContext2D, props: {
+    features: Map<string, Feature> | Feature[];
+    regions: Region[];
+    bpPerPx: number;
+    scaleOpts: ScaleOpts;
+    height: number;
+    ticks: {
+        values: number[];
+    };
+    displayCrossHatches: boolean;
+    config: AnyConfigurationModel;
+}): {
+    reducedFeatures: Feature[];
+};