@jbrowse/plugin-alignments 2.4.2 → 2.6.0

package/esm/LinearReadArcsDisplay/configSchema.d.ts

@@ -2,5 +2,63 @@ import PluginManager from '@jbrowse/core/PluginManager';
 /**
  * #config LinearReadArcsDisplay
  */
-declare function configSchemaF(pluginManager: PluginManager): import("@jbrowse/core/configuration").AnyConfigurationSchemaType;
+declare function configSchemaF(pluginManager: PluginManager): import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    /**
+     * #slot
+     */
+    maxFeatureScreenDensity: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    /**
+     * #slot
+     */
+    lineWidth: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    /**
+     * #slot
+     */
+    jitter: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    /**
+     * #slot
+     */
+    colorScheme: {
+        type: string;
+        model: import("mobx-state-tree").ISimpleType<string>;
+        description: string;
+        defaultValue: string;
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    renderer: import("mobx-state-tree").IAnyModelType;
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaType<{
+    maxFeatureScreenDensity: {
+        type: string;
+        description: string;
+        defaultValue: number;
+    };
+    fetchSizeLimit: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    height: {
+        type: string;
+        defaultValue: number;
+        description: string;
+    };
+    mouseover: {
+        type: string;
+        description: string;
+        defaultValue: string;
+        contextVariable: string[];
+    };
+}, import("@jbrowse/core/configuration/configurationSchema").ConfigurationSchemaOptions<undefined, "displayId">>, undefined>>, undefined>>;
 export default configSchemaF;

package/esm/LinearReadArcsDisplay/drawFeats.d.ts

@@ -1,15 +1,2 @@
-import { ChainData } from '../shared/fetchChains';
-export declare function hasPairedReads(features: ChainData): boolean;
-export default function drawFeats(self: {
-    setLastDrawnOffsetPx: (n: number) => void;
-    drawInter?: boolean;
-    drawLongRange?: boolean;
-    setError: (e: unknown) => void;
-    colorBy?: {
-        type: string;
-    };
-    height: number;
-    chainData?: ChainData;
-    lineWidthSetting: number;
-    jitterVal: number;
-}, ctx: CanvasRenderingContext2D): Promise<void>;
+import { LinearReadArcsDisplayModel } from './model';
+export declare function drawFeats(self: LinearReadArcsDisplayModel, ctx: CanvasRenderingContext2D, width: number, height: number): void;

package/esm/LinearReadArcsDisplay/drawFeats.js

@@ -1,63 +1,56 @@
 import { getContainingView, getSession } from '@jbrowse/core/util';
 // locals
-import { getOrientationColor, getInsertSizeColor, getInsertSizeAndOrientationColor, } from '../shared/color';
+import { getPairedOrientationColor, getPairedInsertSizeColor, getPairedInsertSizeAndOrientationColor, } from '../shared/color';
 import { featurizeSA } from '../MismatchParser';
-export function hasPairedReads(features) {
-    for (const f of features.chains.values()) {
-        if (f[0].flags & 1) {
-            return true;
-        }
-    }
-    return false;
-}
+import { hasPairedReads } from '../shared/util';
 function jitter(n) {
     return Math.random() * 2 * n - n;
 }
-export default async function drawFeats(self, ctx) {
-    const { chainData, height, colorBy, drawInter, drawLongRange, lineWidthSetting, jitterVal, } = self;
+function drawLineAtOffset(ctx, offset, height, color) {
+    // draws a vertical line off to middle of nowhere if the second end not found
+    ctx.strokeStyle = color;
+    ctx.beginPath();
+    ctx.moveTo(offset, 0);
+    ctx.lineTo(offset, height);
+    ctx.stroke();
+}
+export function drawFeats(self, ctx, width, height) {
+    const { chainData, colorBy, drawInter, drawLongRange, lineWidthSetting, jitterVal, } = self;
     if (!chainData) {
         return;
     }
     const view = getContainingView(self);
     const { assemblyManager } = getSession(self);
-    self.setLastDrawnOffsetPx(view.offsetPx);
-    ctx.lineWidth = lineWidthSetting;
     const { chains, stats } = chainData;
     const hasPaired = hasPairedReads(chainData);
-    const assemblyName = view.assemblyNames[0];
-    const asm = assemblyManager.get(assemblyName);
+    const asm = assemblyManager.get(view.assemblyNames[0]);
     const type = (colorBy === null || colorBy === void 0 ? void 0 : colorBy.type) || 'insertSizeAndOrientation';
     if (!asm) {
         return;
     }
-    function drawLineAtOffset(p, c) {
-        // draws a vertical line off to middle of nowhere if the second end not found
-        ctx.strokeStyle = c;
-        ctx.beginPath();
-        ctx.moveTo(p, 0);
-        ctx.lineTo(p, height);
-        ctx.stroke();
-    }
+    ctx.lineWidth = lineWidthSetting;
     function draw(k1, k2, assembly, longRange) {
+        var _a, _b, _c;
         const s1 = k1.strand;
         const s2 = k2.strand;
         const f1 = s1 === -1;
         const f2 = s2 === -1;
         const p1 = f1 ? k1.start : k1.end;
         const p2 = hasPaired ? (f2 ? k2.start : k2.end) : f2 ? k2.end : k2.start;
-        const ra1 = assembly.getCanonicalRefName(k1.refName);
-        const ra2 = assembly.getCanonicalRefName(k2.refName);
-        const r1 = view.bpToPx({ refName: ra1, coord: p1 });
-        const r2 = view.bpToPx({ refName: ra2, coord: p2 });
-        if (r1 && r2) {
-            const radius = (r2.offsetPx - r1.offsetPx) / 2;
+        const ra1 = assembly.getCanonicalRefName(k1.refName) || k1.refName;
+        const ra2 = assembly.getCanonicalRefName(k2.refName) || k2.refName;
+        const r1 = (_a = view.bpToPx({ refName: ra1, coord: p1 })) === null || _a === void 0 ? void 0 : _a.offsetPx;
+        const r2 = (_b = view.bpToPx({ refName: ra2, coord: p2 })) === null || _b === void 0 ? void 0 : _b.offsetPx;
+        if (r1 !== undefined && r2 !== undefined) {
+            const radius = (r2 - r1) / 2;
             const absrad = Math.abs(radius);
-            const p = r1.offsetPx - view.offsetPx;
-            const p2 = r2.offsetPx - view.offsetPx;
+            const p = r1 - view.offsetPx;
+            const p2 = r2 - view.offsetPx;
+            const drawArcInsteadOfBezier = absrad > 10000;
             // bezier (used for non-long-range arcs) requires moveTo before beginPath
             // arc (used for long-range) requires moveTo after beginPath (or else a
             // unwanted line at y=0 is rendered along with the arc)
-            if (longRange) {
+            if (longRange && drawArcInsteadOfBezier) {
                 ctx.moveTo(p, 0);
                 ctx.beginPath();
             }
@@ -65,19 +58,20 @@ export default async function drawFeats(self, ctx) {
                 ctx.beginPath();
                 ctx.moveTo(p, 0);
             }
-            if (longRange) {
+            if (longRange && drawArcInsteadOfBezier) {
                 ctx.strokeStyle = 'red';
             }
             else {
                 if (hasPaired) {
                     if (type === 'insertSizeAndOrientation') {
-                        ctx.strokeStyle = getInsertSizeAndOrientationColor(k1, k2, stats);
+                        ctx.strokeStyle = getPairedInsertSizeAndOrientationColor(k1, k2, stats)[0];
                     }
                     else if (type === 'orientation') {
-                        ctx.strokeStyle = getOrientationColor(k1);
+                        ctx.strokeStyle = getPairedOrientationColor(k1)[0];
                     }
                     else if (type === 'insertSize') {
-                        ctx.strokeStyle = getInsertSizeColor(k1, k2, stats) || 'grey';
+                        ctx.strokeStyle =
+                            ((_c = getPairedInsertSizeColor(k1, k2, stats)) === null || _c === void 0 ? void 0 : _c[0]) || 'grey';
                     }
                     else if (type === 'gradient') {
                         ctx.strokeStyle = `hsl(${Math.log10(absrad) * 10},50%,50%)`;
@@ -106,13 +100,17 @@ export default async function drawFeats(self, ctx) {
                 // avoid drawing gigantic circles that glitch out the rendering,
                 // instead draw vertical lines
                 if (absrad > 100000) {
-                    drawLineAtOffset(p + jitter(jitterVal), 'red');
-                    drawLineAtOffset(p2 + jitter(jitterVal), 'red');
+                    drawLineAtOffset(ctx, p + jitter(jitterVal), height, 'red');
+                    drawLineAtOffset(ctx, p2 + jitter(jitterVal), height, 'red');
                 }
-                else {
+                else if (drawArcInsteadOfBezier) {
                     ctx.arc(p + radius + jitter(jitterVal), 0, absrad, 0, Math.PI);
                     ctx.stroke();
                 }
+                else {
+                    ctx.bezierCurveTo(p + jitter(jitterVal), destY, destX, destY, destX + jitter(jitterVal), 0);
+                    ctx.stroke();
+                }
             }
             else {
                 ctx.bezierCurveTo(p + jitter(jitterVal), destY, destX, destY, destX + jitter(jitterVal), 0);
@@ -120,26 +118,24 @@ export default async function drawFeats(self, ctx) {
             }
         }
         else if (r1 && drawInter) {
-            drawLineAtOffset(r1.offsetPx - view.offsetPx, 'purple');
+            drawLineAtOffset(ctx, r1 - view.offsetPx, height, 'purple');
         }
     }
-    for (let i = 0; i < chains.length; i++) {
-        let chain = chains[i];
+    for (const chain of chains) {
+        // chain.length === 1, singleton (other pairs/mates not in view)
         if (chain.length === 1 && drawLongRange) {
-            // singleton feature
             const f = chain[0];
-            // special case where we look at RPOS/RNEXT
-            if (hasPaired) {
-                // eslint-disable-next-line @typescript-eslint/no-non-null-assertion
-                const refName = f.next_ref;
-                // eslint-disable-next-line @typescript-eslint/no-non-null-assertion
-                const coord = f.next_pos;
-                draw(f, { refName, start: coord, end: coord, strand: f.strand }, asm, true);
+            if (hasPaired && !(f.flags & 8)) {
+                const mate = {
+                    refName: f.next_ref || '',
+                    start: f.next_pos || 0,
+                    end: f.next_pos || 0,
+                    strand: f.strand,
+                };
+                draw(f, mate, asm, true);
             }
-            // special case where we look at SA
             else {
-                const suppAlns = featurizeSA(f.SA, f.id, f.strand, f.name);
-                const features = [f, ...suppAlns].sort((a, b) => a.clipPos - b.clipPos);
+                const features = [f, ...featurizeSA(f.SA, f.id, f.strand, f.name)].sort((a, b) => a.clipPos - b.clipPos);
                 for (let i = 0; i < features.length - 1; i++) {
                     const f = features[i];
                     const v1 = features[i + 1];
@@ -148,16 +144,13 @@ export default async function drawFeats(self, ctx) {
             }
         }
         else {
-            if (!hasPaired) {
-                chain.sort((a, b) => a.clipPos - b.clipPos);
-                chain = chain.filter(f => !(f.flags & 256));
-            }
-            else {
-                // ignore split/supplementary reads for hasPaired=true for now
-                chain = chain.filter(f => !(f.flags & 2048));
-            }
-            for (let i = 0; i < chain.length - 1; i++) {
-                draw(chain[i], chain[i + 1], asm, false);
+            const res = hasPaired
+                ? chain.filter(f => !(f.flags & 2048) && !(f.flags & 8))
+                : chain
+                    .sort((a, b) => a.clipPos - b.clipPos)
+                    .filter(f => !(f.flags & 256));
+            for (let i = 0; i < res.length - 1; i++) {
+                draw(res[i], res[i + 1], asm, false);
             }
         }
     }

package/esm/LinearReadArcsDisplay/drawFeats.js.map

@@ -1 +1 @@
-{"version":3,"file":"drawFeats.js","sourceRoot":"","sources":["../../src/LinearReadArcsDisplay/drawFeats.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,iBAAiB,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAA;AAGlE,SAAS;AACT,OAAO,EACL,mBAAmB,EACnB,kBAAkB,EAClB,gCAAgC,GACjC,MAAM,iBAAiB,CAAA;AAExB,OAAO,EAAE,WAAW,EAAE,MAAM,mBAAmB,CAAA;AAG/C,MAAM,UAAU,cAAc,CAAC,QAAmB;IAChD,KAAK,MAAM,CAAC,IAAI,QAAQ,CAAC,MAAM,CAAC,MAAM,EAAE,EAAE;QACxC,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,CAAC,EAAE;YAClB,OAAO,IAAI,CAAA;SACZ;KACF;IACD,OAAO,KAAK,CAAA;AACd,CAAC;AAID,SAAS,MAAM,CAAC,CAAS;IACvB,OAAO,IAAI,CAAC,MAAM,EAAE,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,CAAA;AAClC,CAAC;AASD,MAAM,CAAC,OAAO,CAAC,KAAK,UAAU,SAAS,CACrC,IAUC,EACD,GAA6B;IAE7B,MAAM,EACJ,SAAS,EACT,MAAM,EACN,OAAO,EACP,SAAS,EACT,aAAa,EACb,gBAAgB,EAChB,SAAS,GACV,GAAG,IAAI,CAAA;IACR,IAAI,CAAC,SAAS,EAAE;QACd,OAAM;KACP;IACD,MAAM,IAAI,GAAG,iBAAiB,CAAC,IAAI,CAAQ,CAAA;IAC3C,MAAM,EAAE,eAAe,EAAE,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;IAC5C,IAAI,CAAC,oBAAoB,CAAC,IAAI,CAAC,QAAQ,CAAC,CAAA;IACxC,GAAG,CAAC,SAAS,GAAG,gBAAgB,CAAA;IAChC,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,SAAS,CAAA;IACnC,MAAM,SAAS,GAAG,cAAc,CAAC,SAAS,CAAC,CAAA;IAC3C,MAAM,YAAY,GAAG,IAAI,CAAC,aAAa,CAAC,CAAC,CAAC,CAAA;IAC1C,MAAM,GAAG,GAAG,eAAe,CAAC,GAAG,CAAC,YAAY,CAAC,CAAA;IAC7C,MAAM,IAAI,GAAG,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,IAAI,KAAI,0BAA0B,CAAA;IACxD,IAAI,CAAC,GAAG,EAAE;QACR,OAAM;KACP;IAED,SAAS,gBAAgB,CAAC,CAAS,EAAE,CAAS;QAC5C,6EAA6E;QAC7E,GAAG,CAAC,WAAW,GAAG,CAAC,CAAA;QACnB,GAAG,CAAC,SAAS,EAAE,CAAA;QACf,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;QAChB,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,MAAM,CAAC,CAAA;QACrB,GAAG,CAAC,MAAM,EAAE,CAAA;IACd,CAAC;IAED,SAAS,IAAI,CACX,EAA2D,EAC3D,EAAY,EACZ,QAAkB,EAClB,SAAmB;QAEnB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,KAAK,CAAC,CAAC,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,KAAK,CAAC,CAAC,CAAA;QAEpB,MAAM,EAAE,GAAG,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAA;QACjC,MAAM,EAAE,GAAG,SAAS,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAA;QACxE,MAAM,GAAG,GAAG,QAAQ,CAAC,mBAAmB,CAAC,EAAE,CAAC,OAAO,CAAC,CAAA;QACpD,MAAM,GAAG,GAAG,QAAQ,CAAC,mBAAmB,CAAC,EAAE,CAAC,OAAO,CAAC,CAAA;QACpD,MAAM,EAAE,GAAG,IAAI,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE,EAAE,CAAC,CAAA;QACnD,MAAM,EAAE,GAAG,IAAI,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE,EAAE,CAAC,CAAA;QAEnD,IAAI,EAAE,IAAI,EAAE,EAAE;YACZ,MAAM,MAAM,GAAG,CAAC,EAAE,CAAC,QAAQ,GAAG,EAAE,CAAC,QAAQ,CAAC,GAAG,CAAC,CAAA;YAC9C,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;YAC/B,MAAM,CAAC,GAAG,EAAE,CAAC,QAAQ,GAAG,IAAI,CAAC,QAAQ,CAAA;YACrC,MAAM,EAAE,GAAG,EAAE,CAAC,QAAQ,GAAG,IAAI,CAAC,QAAQ,CAAA;YAEtC,yEAAyE;YACzE,uEAAuE;YACvE,uDAAuD;YACvD,IAAI,SAAS,EAAE;gBACb,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;gBAChB,GAAG,CAAC,SAAS,EAAE,CAAA;aAChB;iBAAM;gBACL,GAAG,CAAC,SAAS,EAAE,CAAA;gBACf,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;aACjB;YAED,IAAI,SAAS,EAAE;gBACb,GAAG,CAAC,WAAW,GAAG,KAAK,CAAA;aACxB;iBAAM;gBACL,IAAI,SAAS,EAAE;oBACb,IAAI,IAAI,KAAK,0BAA0B,EAAE;wBACvC,GAAG,CAAC,WAAW,GAAG,gCAAgC,CAAC,EAAE,EAAE,EAAE,EAAE,KAAK,CAAC,CAAA;qBAClE;yBAAM,IAAI,IAAI,KAAK,aAAa,EAAE;wBACjC,GAAG,CAAC,WAAW,GAAG,mBAAmB,CAAC,EAAE,CAAC,CAAA;qBAC1C;yBAAM,IAAI,IAAI,KAAK,YAAY,EAAE;wBAChC,GAAG,CAAC,WAAW,GAAG,kBAAkB,CAAC,EAAE,EAAE,EAAE,EAAE,KAAK,CAAC,IAAI,MAAM,CAAA;qBAC9D;yBAAM,IAAI,IAAI,KAAK,UAAU,EAAE;wBAC9B,GAAG,CAAC,WAAW,GAAG,OAAO,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,EAAE,WAAW,CAAA;qBAC5D;iBACF;qBAAM;oBACL,IAAI,IAAI,KAAK,aAAa,IAAI,IAAI,KAAK,0BAA0B,EAAE;wBACjE,IAAI,EAAE,KAAK,CAAC,CAAC,IAAI,EAAE,KAAK,CAAC,EAAE;4BACzB,GAAG,CAAC,WAAW,GAAG,MAAM,CAAA;yBACzB;6BAAM,IAAI,EAAE,KAAK,CAAC,IAAI,EAAE,KAAK,CAAC,CAAC,EAAE;4BAChC,GAAG,CAAC,WAAW,GAAG,OAAO,CAAA;yBAC1B;6BAAM;4BACL,GAAG,CAAC,WAAW,GAAG,MAAM,CAAA;yBACzB;qBACF;yBAAM,IAAI,IAAI,KAAK,UAAU,EAAE;wBAC9B,GAAG,CAAC,WAAW,GAAG,OAAO,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,EAAE,WAAW,CAAA;qBAC5D;iBACF;aACF;YAED,MAAM,KAAK,GAAG,CAAC,GAAG,MAAM,GAAG,CAAC,CAAA;YAC5B,MAAM,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,MAAM,CAAC,CAAA;YAC1D,IAAI,SAAS,EAAE;gBACb,gEAAgE;gBAChE,8BAA8B;gBAC9B,IAAI,MAAM,GAAG,MAAO,EAAE;oBACpB,gBAAgB,CAAC,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,KAAK,CAAC,CAAA;oBAC9C,gBAAgB,CAAC,EAAE,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,KAAK,CAAC,CAAA;iBAChD;qBAAM;oBACL,GAAG,CAAC,GAAG,CAAC,CAAC,GAAG,MAAM,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,CAAC,EAAE,MAAM,EAAE,CAAC,EAAE,IAAI,CAAC,EAAE,CAAC,CAAA;oBAC9D,GAAG,CAAC,MAAM,EAAE,CAAA;iBACb;aACF;iBAAM;gBACL,GAAG,CAAC,aAAa,CACf,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,EACrB,KAAK,EACL,KAAK,EACL,KAAK,EACL,KAAK,GAAG,MAAM,CAAC,SAAS,CAAC,EACzB,CAAC,CACF,CAAA;gBACD,GAAG,CAAC,MAAM,EAAE,CAAA;aACb;SACF;aAAM,IAAI,EAAE,IAAI,SAAS,EAAE;YAC1B,gBAAgB,CAAC,EAAE,CAAC,QAAQ,GAAG,IAAI,CAAC,QAAQ,EAAE,QAAQ,CAAC,CAAA;SACxD;IACH,CAAC;IAED,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,MAAM,CAAC,MAAM,EAAE,CAAC,EAAE,EAAE;QACtC,IAAI,KAAK,GAAG,MAAM,CAAC,CAAC,CAAC,CAAA;QACrB,IAAI,KAAK,CAAC,MAAM,KAAK,CAAC,IAAI,aAAa,EAAE;YACvC,oBAAoB;YACpB,MAAM,CAAC,GAAG,KAAK,CAAC,CAAC,CAAC,CAAA;YAElB,2CAA2C;YAC3C,IAAI,SAAS,EAAE;gBACb,oEAAoE;gBACpE,MAAM,OAAO,GAAG,CAAC,CAAC,QAAS,CAAA;gBAC3B,oEAAoE;gBACpE,MAAM,KAAK,GAAG,CAAC,CAAC,QAAS,CAAA;gBACzB,IAAI,CACF,CAAC,EACD,EAAE,OAAO,EAAE,KAAK,EAAE,KAAK,EAAE,GAAG,EAAE,KAAK,EAAE,MAAM,EAAE,CAAC,CAAC,MAAM,EAAE,EACvD,GAAG,EACH,IAAI,CACL,CAAA;aACF;YAED,mCAAmC;iBAC9B;gBACH,MAAM,QAAQ,GAAG,WAAW,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,IAAI,CAAC,CAAA;gBAC1D,MAAM,QAAQ,GAAG,CAAC,CAAC,EAAE,GAAG,QAAQ,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,OAAO,CAAC,CAAA;gBACvE,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;oBAC5C,MAAM,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAA;oBACrB,MAAM,EAAE,GAAG,QAAQ,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA;oBAC1B,IAAI,CAAC,CAAC,EAAE,EAAE,EAAE,GAAG,EAAE,IAAI,CAAC,CAAA;iBACvB;aACF;SACF;aAAM;YACL,IAAI,CAAC,SAAS,EAAE;gBACd,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,OAAO,CAAC,CAAA;gBAC3C,KAAK,GAAG,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,GAAG,CAAC,CAAC,CAAA;aAC5C;iBAAM;gBACL,8DAA8D;gBAC9D,KAAK,GAAG,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,CAAC,CAAC,CAAA;aAC7C;YACD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,KAAK,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;gBACzC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,KAAK,CAAC,CAAC,GAAG,CAAC,CAAC,EAAE,GAAG,EAAE,KAAK,CAAC,CAAA;aACzC;SACF;KACF;AACH,CAAC"}
+{"version":3,"file":"drawFeats.js","sourceRoot":"","sources":["../../src/LinearReadArcsDisplay/drawFeats.ts"],"names":[],"mappings":"AAAA,OAAO,EAAE,iBAAiB,EAAE,UAAU,EAAE,MAAM,oBAAoB,CAAA;AAIlE,SAAS;AACT,OAAO,EACL,yBAAyB,EACzB,wBAAwB,EACxB,sCAAsC,GACvC,MAAM,iBAAiB,CAAA;AACxB,OAAO,EAAE,WAAW,EAAE,MAAM,mBAAmB,CAAA;AAE/C,OAAO,EAAE,cAAc,EAAE,MAAM,gBAAgB,CAAA;AAI/C,SAAS,MAAM,CAAC,CAAS;IACvB,OAAO,IAAI,CAAC,MAAM,EAAE,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,CAAA;AAClC,CAAC;AASD,SAAS,gBAAgB,CACvB,GAA6B,EAC7B,MAAc,EACd,MAAc,EACd,KAAa;IAEb,6EAA6E;IAC7E,GAAG,CAAC,WAAW,GAAG,KAAK,CAAA;IACvB,GAAG,CAAC,SAAS,EAAE,CAAA;IACf,GAAG,CAAC,MAAM,CAAC,MAAM,EAAE,CAAC,CAAC,CAAA;IACrB,GAAG,CAAC,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAA;IAC1B,GAAG,CAAC,MAAM,EAAE,CAAA;AACd,CAAC;AAED,MAAM,UAAU,SAAS,CACvB,IAAgC,EAChC,GAA6B,EAC7B,KAAa,EACb,MAAc;IAEd,MAAM,EACJ,SAAS,EACT,OAAO,EACP,SAAS,EACT,aAAa,EACb,gBAAgB,EAChB,SAAS,GACV,GAAG,IAAI,CAAA;IACR,IAAI,CAAC,SAAS,EAAE;QACd,OAAM;KACP;IACD,MAAM,IAAI,GAAG,iBAAiB,CAAC,IAAI,CAAQ,CAAA;IAC3C,MAAM,EAAE,eAAe,EAAE,GAAG,UAAU,CAAC,IAAI,CAAC,CAAA;IAC5C,MAAM,EAAE,MAAM,EAAE,KAAK,EAAE,GAAG,SAAS,CAAA;IACnC,MAAM,SAAS,GAAG,cAAc,CAAC,SAAS,CAAC,CAAA;IAC3C,MAAM,GAAG,GAAG,eAAe,CAAC,GAAG,CAAC,IAAI,CAAC,aAAa,CAAC,CAAC,CAAC,CAAC,CAAA;IACtD,MAAM,IAAI,GAAG,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,IAAI,KAAI,0BAA0B,CAAA;IACxD,IAAI,CAAC,GAAG,EAAE;QACR,OAAM;KACP;IACD,GAAG,CAAC,SAAS,GAAG,gBAAgB,CAAA;IAEhC,SAAS,IAAI,CACX,EAA2D,EAC3D,EAAY,EACZ,QAAkB,EAClB,SAAmB;;QAEnB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,CAAC,MAAM,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,KAAK,CAAC,CAAC,CAAA;QACpB,MAAM,EAAE,GAAG,EAAE,KAAK,CAAC,CAAC,CAAA;QAEpB,MAAM,EAAE,GAAG,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAA;QACjC,MAAM,EAAE,GAAG,SAAS,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,CAAC,KAAK,CAAA;QACxE,MAAM,GAAG,GAAG,QAAQ,CAAC,mBAAmB,CAAC,EAAE,CAAC,OAAO,CAAC,IAAI,EAAE,CAAC,OAAO,CAAA;QAClE,MAAM,GAAG,GAAG,QAAQ,CAAC,mBAAmB,CAAC,EAAE,CAAC,OAAO,CAAC,IAAI,EAAE,CAAC,OAAO,CAAA;QAClE,MAAM,EAAE,GAAG,MAAA,IAAI,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE,EAAE,CAAC,0CAAE,QAAQ,CAAA;QAC7D,MAAM,EAAE,GAAG,MAAA,IAAI,CAAC,MAAM,CAAC,EAAE,OAAO,EAAE,GAAG,EAAE,KAAK,EAAE,EAAE,EAAE,CAAC,0CAAE,QAAQ,CAAA;QAE7D,IAAI,EAAE,KAAK,SAAS,IAAI,EAAE,KAAK,SAAS,EAAE;YACxC,MAAM,MAAM,GAAG,CAAC,EAAE,GAAG,EAAE,CAAC,GAAG,CAAC,CAAA;YAC5B,MAAM,MAAM,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,CAAC,CAAA;YAC/B,MAAM,CAAC,GAAG,EAAE,GAAG,IAAI,CAAC,QAAQ,CAAA;YAC5B,MAAM,EAAE,GAAG,EAAE,GAAG,IAAI,CAAC,QAAQ,CAAA;YAC7B,MAAM,sBAAsB,GAAG,MAAM,GAAG,KAAM,CAAA;YAE9C,yEAAyE;YACzE,uEAAuE;YACvE,uDAAuD;YACvD,IAAI,SAAS,IAAI,sBAAsB,EAAE;gBACvC,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;gBAChB,GAAG,CAAC,SAAS,EAAE,CAAA;aAChB;iBAAM;gBACL,GAAG,CAAC,SAAS,EAAE,CAAA;gBACf,GAAG,CAAC,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;aACjB;YAED,IAAI,SAAS,IAAI,sBAAsB,EAAE;gBACvC,GAAG,CAAC,WAAW,GAAG,KAAK,CAAA;aACxB;iBAAM;gBACL,IAAI,SAAS,EAAE;oBACb,IAAI,IAAI,KAAK,0BAA0B,EAAE;wBACvC,GAAG,CAAC,WAAW,GAAG,sCAAsC,CACtD,EAAE,EACF,EAAE,EACF,KAAK,CACN,CAAC,CAAC,CAAC,CAAA;qBACL;yBAAM,IAAI,IAAI,KAAK,aAAa,EAAE;wBACjC,GAAG,CAAC,WAAW,GAAG,yBAAyB,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAA;qBACnD;yBAAM,IAAI,IAAI,KAAK,YAAY,EAAE;wBAChC,GAAG,CAAC,WAAW;4BACb,CAAA,MAAA,wBAAwB,CAAC,EAAE,EAAE,EAAE,EAAE,KAAK,CAAC,0CAAG,CAAC,CAAC,KAAI,MAAM,CAAA;qBACzD;yBAAM,IAAI,IAAI,KAAK,UAAU,EAAE;wBAC9B,GAAG,CAAC,WAAW,GAAG,OAAO,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,EAAE,WAAW,CAAA;qBAC5D;iBACF;qBAAM;oBACL,IAAI,IAAI,KAAK,aAAa,IAAI,IAAI,KAAK,0BAA0B,EAAE;wBACjE,IAAI,EAAE,KAAK,CAAC,CAAC,IAAI,EAAE,KAAK,CAAC,EAAE;4BACzB,GAAG,CAAC,WAAW,GAAG,MAAM,CAAA;yBACzB;6BAAM,IAAI,EAAE,KAAK,CAAC,IAAI,EAAE,KAAK,CAAC,CAAC,EAAE;4BAChC,GAAG,CAAC,WAAW,GAAG,OAAO,CAAA;yBAC1B;6BAAM;4BACL,GAAG,CAAC,WAAW,GAAG,MAAM,CAAA;yBACzB;qBACF;yBAAM,IAAI,IAAI,KAAK,UAAU,EAAE;wBAC9B,GAAG,CAAC,WAAW,GAAG,OAAO,IAAI,CAAC,KAAK,CAAC,MAAM,CAAC,GAAG,EAAE,WAAW,CAAA;qBAC5D;iBACF;aACF;YAED,MAAM,KAAK,GAAG,CAAC,GAAG,MAAM,GAAG,CAAC,CAAA;YAC5B,MAAM,KAAK,GAAG,IAAI,CAAC,GAAG,CAAC,MAAM,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,MAAM,CAAC,CAAA;YAC1D,IAAI,SAAS,EAAE;gBACb,gEAAgE;gBAChE,8BAA8B;gBAC9B,IAAI,MAAM,GAAG,MAAO,EAAE;oBACpB,gBAAgB,CAAC,GAAG,EAAE,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,CAAA;oBAC3D,gBAAgB,CAAC,GAAG,EAAE,EAAE,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,MAAM,EAAE,KAAK,CAAC,CAAA;iBAC7D;qBAAM,IAAI,sBAAsB,EAAE;oBACjC,GAAG,CAAC,GAAG,CAAC,CAAC,GAAG,MAAM,GAAG,MAAM,CAAC,SAAS,CAAC,EAAE,CAAC,EAAE,MAAM,EAAE,CAAC,EAAE,IAAI,CAAC,EAAE,CAAC,CAAA;oBAC9D,GAAG,CAAC,MAAM,EAAE,CAAA;iBACb;qBAAM;oBACL,GAAG,CAAC,aAAa,CACf,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,EACrB,KAAK,EACL,KAAK,EACL,KAAK,EACL,KAAK,GAAG,MAAM,CAAC,SAAS,CAAC,EACzB,CAAC,CACF,CAAA;oBACD,GAAG,CAAC,MAAM,EAAE,CAAA;iBACb;aACF;iBAAM;gBACL,GAAG,CAAC,aAAa,CACf,CAAC,GAAG,MAAM,CAAC,SAAS,CAAC,EACrB,KAAK,EACL,KAAK,EACL,KAAK,EACL,KAAK,GAAG,MAAM,CAAC,SAAS,CAAC,EACzB,CAAC,CACF,CAAA;gBACD,GAAG,CAAC,MAAM,EAAE,CAAA;aACb;SACF;aAAM,IAAI,EAAE,IAAI,SAAS,EAAE;YAC1B,gBAAgB,CAAC,GAAG,EAAE,EAAE,GAAG,IAAI,CAAC,QAAQ,EAAE,MAAM,EAAE,QAAQ,CAAC,CAAA;SAC5D;IACH,CAAC;IAED,KAAK,MAAM,KAAK,IAAI,MAAM,EAAE;QAC1B,gEAAgE;QAChE,IAAI,KAAK,CAAC,MAAM,KAAK,CAAC,IAAI,aAAa,EAAE;YACvC,MAAM,CAAC,GAAG,KAAK,CAAC,CAAC,CAAC,CAAA;YAClB,IAAI,SAAS,IAAI,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,EAAE;gBAC/B,MAAM,IAAI,GAAG;oBACX,OAAO,EAAE,CAAC,CAAC,QAAQ,IAAI,EAAE;oBACzB,KAAK,EAAE,CAAC,CAAC,QAAQ,IAAI,CAAC;oBACtB,GAAG,EAAE,CAAC,CAAC,QAAQ,IAAI,CAAC;oBACpB,MAAM,EAAE,CAAC,CAAC,MAAM;iBACjB,CAAA;gBACD,IAAI,CAAC,CAAC,EAAE,IAAI,EAAE,GAAG,EAAE,IAAI,CAAC,CAAA;aACzB;iBAAM;gBACL,MAAM,QAAQ,GAAG,CAAC,CAAC,EAAE,GAAG,WAAW,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,MAAM,EAAE,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,IAAI,CACrE,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,OAAO,CAChC,CAAA;gBACD,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;oBAC5C,MAAM,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAA;oBACrB,MAAM,EAAE,GAAG,QAAQ,CAAC,CAAC,GAAG,CAAC,CAAC,CAAA;oBAC1B,IAAI,CAAC,CAAC,EAAE,EAAE,EAAE,GAAG,EAAE,IAAI,CAAC,CAAA;iBACvB;aACF;SACF;aAAM;YACL,MAAM,GAAG,GAAG,SAAS;gBACnB,CAAC,CAAC,KAAK,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,IAAI,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,CAAC;gBACxD,CAAC,CAAC,KAAK;qBACF,IAAI,CAAC,CAAC,CAAC,EAAE,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,OAAO,GAAG,CAAC,CAAC,OAAO,CAAC;qBACrC,MAAM,CAAC,CAAC,CAAC,EAAE,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,GAAG,GAAG,CAAC,CAAC,CAAA;YACpC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,GAAG,CAAC,MAAM,GAAG,CAAC,EAAE,CAAC,EAAE,EAAE;gBACvC,IAAI,CAAC,GAAG,CAAC,CAAC,CAAC,EAAE,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC,EAAE,GAAG,EAAE,KAAK,CAAC,CAAA;aACrC;SACF;KACF;AACH,CAAC"}