@jbrowse/bandage-core 0.1.15 → 0.1.16

package/dist/index.js

@@ -2147,6 +2147,7 @@ var LAYOUT_MODES = [
     description: "x is reference bp, one row per stable rank. Needs rGFA tags or a reference path.",
     run: anchoredLayout,
     cutMargins: true,
+    wholeWalks: false,
     available: hasBackbone,
     drawsLocally: hasBackbone
   },
@@ -2156,6 +2157,7 @@ var LAYOUT_MODES = [
     description: "x is reference bp, one row per contributing assembly. Needs rGFA tags or a reference path.",
     run: sampleRowLayout,
     cutMargins: true,
+    wholeWalks: false,
     available: hasAlleles,
     drawsLocally: hasAlleles
   },
@@ -2165,6 +2167,7 @@ var LAYOUT_MODES = [
     description: "x is each walk's own bp: one bar per haplotype, sequence the reference also carries in blue and sequence it does not in purple, so a repeat expansion reads as bar length. Needs W or P lines.",
     run: walkRowLayout,
     cutMargins: false,
+    wholeWalks: true,
     available: hasWalks,
     drawsLocally: hasWalks
   },
@@ -2174,6 +2177,7 @@ var LAYOUT_MODES = [
     description: "x is reference order, not bp: every node gets room, bubbles read as lenses. Needs rGFA tags or a reference path.",
     run: orderedLayout,
     cutMargins: false,
+    wholeWalks: false,
     available: hasBackbone,
     drawsLocally: hasBackbone
   },
@@ -2183,6 +2187,7 @@ var LAYOUT_MODES = [
     description: "sequenceTubeMap: every path a coloured tube through boxed nodes, columns in node order and node widths log-scaled. Needs P or W lines.",
     run: tubeMapLayout,
     cutMargins: false,
+    wholeWalks: false,
     available: hasTubeMapPaths,
     drawsLocally: hasTubeMapPaths
   },
@@ -2192,6 +2197,7 @@ var LAYOUT_MODES = [
     description: "The tube map with each column at the reference bp it covers, so the tubes line up with the tracks around them. Needs P or W lines and a reference path.",
     run: tubeMapReferenceLayout,
     cutMargins: true,
+    wholeWalks: false,
     available: hasTubeMapBackbone,
     drawsLocally: hasTubeMapBackbone
   },
@@ -2201,6 +2207,7 @@ var LAYOUT_MODES = [
     description: "OGDF FMMM, via the external Bandage engine.",
     run: () => void 0,
     cutMargins: false,
+    wholeWalks: false,
     available: () => true,
     drawsLocally: () => false
   }

package/dist/types/layoutModes.d.ts

@@ -15,6 +15,7 @@ export interface LayoutMode {
     }, keepRows?: readonly string[]) => LayoutResult | undefined;
     available: (graph: Graph) => boolean;
     cutMargins: boolean;
+    wholeWalks: boolean;
     drawsLocally: (graph: Graph) => boolean;
 }
 export declare const LAYOUT_MODES: readonly [{
@@ -23,6 +24,7 @@ export declare const LAYOUT_MODES: readonly [{
     readonly description: "x is reference bp, one row per stable rank. Needs rGFA tags or a reference path.";
     readonly run: typeof anchoredLayout;
     readonly cutMargins: true;
+    readonly wholeWalks: false;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 }, {
@@ -31,6 +33,7 @@ export declare const LAYOUT_MODES: readonly [{
     readonly description: "x is reference bp, one row per contributing assembly. Needs rGFA tags or a reference path.";
     readonly run: typeof sampleRowLayout;
     readonly cutMargins: true;
+    readonly wholeWalks: false;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 }, {
@@ -39,6 +42,7 @@ export declare const LAYOUT_MODES: readonly [{
     readonly description: "x is each walk's own bp: one bar per haplotype, sequence the reference also carries in blue and sequence it does not in purple, so a repeat expansion reads as bar length. Needs W or P lines.";
     readonly run: typeof walkRowLayout;
     readonly cutMargins: false;
+    readonly wholeWalks: true;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 }, {
@@ -47,6 +51,7 @@ export declare const LAYOUT_MODES: readonly [{
     readonly description: "x is reference order, not bp: every node gets room, bubbles read as lenses. Needs rGFA tags or a reference path.";
     readonly run: typeof orderedLayout;
     readonly cutMargins: false;
+    readonly wholeWalks: false;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 }, {
@@ -55,6 +60,7 @@ export declare const LAYOUT_MODES: readonly [{
     readonly description: "sequenceTubeMap: every path a coloured tube through boxed nodes, columns in node order and node widths log-scaled. Needs P or W lines.";
     readonly run: typeof tubeMapLayout;
     readonly cutMargins: false;
+    readonly wholeWalks: false;
     readonly available: typeof hasTubeMapPaths;
     readonly drawsLocally: typeof hasTubeMapPaths;
 }, {
@@ -63,6 +69,7 @@ export declare const LAYOUT_MODES: readonly [{
     readonly description: "The tube map with each column at the reference bp it covers, so the tubes line up with the tracks around them. Needs P or W lines and a reference path.";
     readonly run: typeof tubeMapReferenceLayout;
     readonly cutMargins: true;
+    readonly wholeWalks: false;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 }, {
@@ -71,6 +78,7 @@ export declare const LAYOUT_MODES: readonly [{
     readonly description: "OGDF FMMM, via the external Bandage engine.";
     readonly run: () => undefined;
     readonly cutMargins: false;
+    readonly wholeWalks: false;
     readonly available: () => true;
     readonly drawsLocally: () => false;
 }];
@@ -83,6 +91,7 @@ export declare function layoutModeByValue(value: string): {
     readonly description: "x is reference bp, one row per stable rank. Needs rGFA tags or a reference path.";
     readonly run: typeof anchoredLayout;
     readonly cutMargins: true;
+    readonly wholeWalks: false;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 } | {
@@ -91,6 +100,7 @@ export declare function layoutModeByValue(value: string): {
     readonly description: "x is reference bp, one row per contributing assembly. Needs rGFA tags or a reference path.";
     readonly run: typeof sampleRowLayout;
     readonly cutMargins: true;
+    readonly wholeWalks: false;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 } | {
@@ -99,6 +109,7 @@ export declare function layoutModeByValue(value: string): {
     readonly description: "x is each walk's own bp: one bar per haplotype, sequence the reference also carries in blue and sequence it does not in purple, so a repeat expansion reads as bar length. Needs W or P lines.";
     readonly run: typeof walkRowLayout;
     readonly cutMargins: false;
+    readonly wholeWalks: true;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 } | {
@@ -107,6 +118,7 @@ export declare function layoutModeByValue(value: string): {
     readonly description: "x is reference order, not bp: every node gets room, bubbles read as lenses. Needs rGFA tags or a reference path.";
     readonly run: typeof orderedLayout;
     readonly cutMargins: false;
+    readonly wholeWalks: false;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 } | {
@@ -115,6 +127,7 @@ export declare function layoutModeByValue(value: string): {
     readonly description: "sequenceTubeMap: every path a coloured tube through boxed nodes, columns in node order and node widths log-scaled. Needs P or W lines.";
     readonly run: typeof tubeMapLayout;
     readonly cutMargins: false;
+    readonly wholeWalks: false;
     readonly available: typeof hasTubeMapPaths;
     readonly drawsLocally: typeof hasTubeMapPaths;
 } | {
@@ -123,6 +136,7 @@ export declare function layoutModeByValue(value: string): {
     readonly description: "The tube map with each column at the reference bp it covers, so the tubes line up with the tracks around them. Needs P or W lines and a reference path.";
     readonly run: typeof tubeMapReferenceLayout;
     readonly cutMargins: true;
+    readonly wholeWalks: false;
     readonly available: (graph: Graph) => boolean;
     readonly drawsLocally: (graph: Graph) => boolean;
 } | {
@@ -131,6 +145,7 @@ export declare function layoutModeByValue(value: string): {
     readonly description: "OGDF FMMM, via the external Bandage engine.";
     readonly run: () => undefined;
     readonly cutMargins: false;
+    readonly wholeWalks: false;
     readonly available: () => true;
     readonly drawsLocally: () => false;
 };

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@jbrowse/bandage-core",
-  "version": "0.1.15",
+  "version": "0.1.16",
   "description": "Pangenome graph layout and drawing with no host: GFA in, the Bandage force-directed engine and reference-anchored layouts, a Canvas2D renderer, hit testing and labels out",
   "license": "GPL-3.0-or-later",
   "repository": {