@jbrowse/bandage-core 6.1.0 → 6.2.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/chunks/{chunk-SMQ545MU.js → chunk-3GMVZMKD.js} +1 -1
- package/dist/chunks/{chunk-KKU6JRJC.js → chunk-5HF753RL.js} +14 -14
- package/dist/chunks/{chunk-X4VVPLI5.js → chunk-6CO564AN.js} +1 -1
- package/dist/chunks/{chunk-V5BPIOLS.js → chunk-7R2UGY4I.js} +1 -1
- package/dist/chunks/{chunk-ZKGM7VLA.js → chunk-A7VOULBP.js} +1 -1
- package/dist/chunks/{chunk-ZHCDYSA5.js → chunk-GD7FYNGS.js} +1 -1
- package/dist/chunks/{chunk-LPFN4POU.js → chunk-HE3NRWH7.js} +1 -1
- package/dist/chunks/chunk-L53SXJZI.js +22 -0
- package/dist/chunks/{chunk-AMHZMY6E.js → chunk-M6SAUIYR.js} +1 -1
- package/dist/chunks/chunk-O4TGF4WS.js +503 -0
- package/dist/chunks/{chunk-ZZA2AFB4.js → chunk-P2KU2TXS.js} +1 -1
- package/dist/chunks/{chunk-C6USNTTP.js → chunk-STNG3Y5X.js} +25 -4
- package/dist/chunks/{chunk-6UACM7VU.js → chunk-YFRTTBCZ.js} +4 -3
- package/dist/chunks/{chunk-PJESIRDU.js → chunk-YQZWW2V6.js} +2 -2
- package/dist/cli/figure.js +22 -25
- package/dist/figure.js +14 -14
- package/dist/index.js +45 -35
- package/dist/layout/deletionRoutes.js +1 -1
- package/dist/layout/stressEngine.js +11 -0
- package/dist/layout/walkRowDraw.js +5 -5
- package/dist/layout/walkStrip.js +6 -6
- package/dist/layoutEngines.js +9 -0
- package/dist/layoutModes.js +2 -2
- package/dist/pipeline.js +3 -3
- package/dist/referenceRampCss.js +4 -4
- package/dist/referenceStrip.js +4 -4
- package/dist/renderer/GeometryBuilder.js +3 -3
- package/dist/tubeMap/nodeColors.js +4 -4
- package/dist/types/cli/figure.d.ts +2 -0
- package/dist/types/index.d.ts +3 -0
- package/dist/types/layout/stressEngine.d.ts +19 -0
- package/dist/types/layoutEngines.d.ts +2 -0
- package/dist/types/pipeline.d.ts +2 -0
- package/dist/types/version.d.ts +1 -1
- package/dist/version.js +1 -1
- package/dist/viewport.js +4 -4
- package/dist/walkEncoding.js +4 -4
- package/dist/walkHighlight.js +5 -5
- package/package.json +1 -1
- package/dist/chunks/{chunk-RX5CSWJW.js → chunk-VUBLSA6P.js} +4 -4
|
@@ -15,7 +15,7 @@ import {
|
|
|
15
15
|
routeNodes,
|
|
16
16
|
takeRoutes,
|
|
17
17
|
withDeletionRoutes
|
|
18
|
-
} from "./chunk-
|
|
18
|
+
} from "./chunk-STNG3Y5X.js";
|
|
19
19
|
import {
|
|
20
20
|
anchorGraph
|
|
21
21
|
} from "./chunk-ST2IBUAN.js";
|
|
@@ -74,13 +74,14 @@ function engineRequest(graph, scaling, settings) {
|
|
|
74
74
|
linearLayout: settings.linearLayout,
|
|
75
75
|
...spaced.opts,
|
|
76
76
|
componentSeparation: COMPONENT_SEPARATION * (settings.componentSeparation ?? 1),
|
|
77
|
-
...anchored ? { rotateComponents: false } : {}
|
|
77
|
+
...anchored ? { rotateComponents: false } : {},
|
|
78
|
+
engine: settings.engine ?? "fmmm"
|
|
78
79
|
}
|
|
79
80
|
};
|
|
80
81
|
}
|
|
81
82
|
function engineKey(graph, settings) {
|
|
82
83
|
const anchored = graph.nodes.some(isBackbone);
|
|
83
|
-
return `${settings.quality}|${settings.linearLayout}|${settings.bubbleSpread}|${settings.spacing ?? 1}|${settings.componentSeparation ?? 1}|${settings.showDeletionEdges !== false}|${anchored}|${graph.referencePath ?? ""}`;
|
|
84
|
+
return `${settings.engine ?? "fmmm"}|${settings.quality}|${settings.linearLayout}|${settings.bubbleSpread}|${settings.spacing ?? 1}|${settings.componentSeparation ?? 1}|${settings.showDeletionEdges !== false}|${anchored}|${graph.referencePath ?? ""}`;
|
|
84
85
|
}
|
|
85
86
|
async function forceLayout(graph, settings, engine) {
|
|
86
87
|
const spread = spreadFor(settings.bubbleSpread);
|
|
@@ -3,10 +3,10 @@ import {
|
|
|
3
3
|
RAMP_GRADIENT_STOPS,
|
|
4
4
|
rampHueCss,
|
|
5
5
|
rampStops
|
|
6
|
-
} from "./chunk-
|
|
6
|
+
} from "./chunk-GD7FYNGS.js";
|
|
7
7
|
import {
|
|
8
8
|
REFERENCE_RAMP_ALT_CSS
|
|
9
|
-
} from "./chunk-
|
|
9
|
+
} from "./chunk-VUBLSA6P.js";
|
|
10
10
|
import {
|
|
11
11
|
LABEL_CHAR_PX
|
|
12
12
|
} from "./chunk-AB35TJST.js";
|
package/dist/cli/figure.js
CHANGED
|
@@ -4,6 +4,10 @@ import {
|
|
|
4
4
|
genesFromGff3Lines,
|
|
5
5
|
genesFromText
|
|
6
6
|
} from "../chunks/chunk-BXEPA4KS.js";
|
|
7
|
+
import {
|
|
8
|
+
layoutEngine
|
|
9
|
+
} from "../chunks/chunk-L53SXJZI.js";
|
|
10
|
+
import "../chunks/chunk-O4TGF4WS.js";
|
|
7
11
|
import {
|
|
8
12
|
LAYOUT_MODES,
|
|
9
13
|
layoutModeByValue
|
|
@@ -13,43 +17,42 @@ import "../chunks/chunk-TEDQJPMI.js";
|
|
|
13
17
|
import "../chunks/chunk-LOEA5IHZ.js";
|
|
14
18
|
import "../chunks/chunk-L3O7AWLI.js";
|
|
15
19
|
import "../chunks/chunk-TZFWUT2C.js";
|
|
20
|
+
import "../chunks/chunk-RVS2QCOX.js";
|
|
16
21
|
import "../chunks/chunk-HNQPEMYE.js";
|
|
17
22
|
import "../chunks/chunk-C44YRP5F.js";
|
|
18
|
-
import "../chunks/chunk-
|
|
19
|
-
import {
|
|
20
|
-
loadBandage
|
|
21
|
-
} from "../chunks/chunk-7XHHVYG7.js";
|
|
23
|
+
import "../chunks/chunk-7XHHVYG7.js";
|
|
22
24
|
import {
|
|
23
25
|
figureSvg
|
|
24
|
-
} from "../chunks/chunk-
|
|
26
|
+
} from "../chunks/chunk-5HF753RL.js";
|
|
25
27
|
import "../chunks/chunk-47DYCZOK.js";
|
|
26
|
-
import "../chunks/chunk-
|
|
28
|
+
import "../chunks/chunk-7R2UGY4I.js";
|
|
27
29
|
import {
|
|
28
30
|
genesOnRow,
|
|
29
31
|
placeRowGenes
|
|
30
|
-
} from "../chunks/chunk-
|
|
32
|
+
} from "../chunks/chunk-YQZWW2V6.js";
|
|
31
33
|
import "../chunks/chunk-CH3DLBUT.js";
|
|
32
34
|
import "../chunks/chunk-4BYTEJGW.js";
|
|
33
|
-
import "../chunks/chunk-BUBZ32IC.js";
|
|
34
35
|
import "../chunks/chunk-3S3YVOJ7.js";
|
|
35
|
-
import "../chunks/chunk-
|
|
36
|
-
import "../chunks/chunk-
|
|
37
|
-
import "../chunks/chunk-
|
|
38
|
-
import "../chunks/chunk-
|
|
36
|
+
import "../chunks/chunk-BUBZ32IC.js";
|
|
37
|
+
import "../chunks/chunk-HE3NRWH7.js";
|
|
38
|
+
import "../chunks/chunk-M6SAUIYR.js";
|
|
39
|
+
import "../chunks/chunk-A7VOULBP.js";
|
|
40
|
+
import "../chunks/chunk-6CO564AN.js";
|
|
39
41
|
import "../chunks/chunk-GOY6REMT.js";
|
|
40
42
|
import {
|
|
41
43
|
forceLayout,
|
|
42
44
|
loadGraph
|
|
43
|
-
} from "../chunks/chunk-
|
|
45
|
+
} from "../chunks/chunk-YFRTTBCZ.js";
|
|
44
46
|
import "../chunks/chunk-PUG7LXDF.js";
|
|
45
47
|
import "../chunks/chunk-IGVV37VI.js";
|
|
46
48
|
import "../chunks/chunk-72N5DJHZ.js";
|
|
47
49
|
import "../chunks/chunk-QYBZZI5H.js";
|
|
48
50
|
import "../chunks/chunk-CDLPYR5O.js";
|
|
49
|
-
import "../chunks/chunk-
|
|
50
|
-
import "../chunks/chunk-
|
|
51
|
-
import "../chunks/chunk-
|
|
51
|
+
import "../chunks/chunk-STNG3Y5X.js";
|
|
52
|
+
import "../chunks/chunk-GD7FYNGS.js";
|
|
53
|
+
import "../chunks/chunk-VUBLSA6P.js";
|
|
52
54
|
import "../chunks/chunk-UMNCCYBN.js";
|
|
55
|
+
import "../chunks/chunk-PBENCR5L.js";
|
|
53
56
|
import "../chunks/chunk-DKOB2OPC.js";
|
|
54
57
|
import "../chunks/chunk-YMSSF2RK.js";
|
|
55
58
|
import "../chunks/chunk-MREQ7GIA.js";
|
|
@@ -60,12 +63,11 @@ import {
|
|
|
60
63
|
walkRows
|
|
61
64
|
} from "../chunks/chunk-SZNZ2T6D.js";
|
|
62
65
|
import "../chunks/chunk-X5L37W4J.js";
|
|
63
|
-
import "../chunks/chunk-ST2IBUAN.js";
|
|
64
66
|
import "../chunks/chunk-ES2N6V56.js";
|
|
67
|
+
import "../chunks/chunk-ST2IBUAN.js";
|
|
65
68
|
import "../chunks/chunk-N62KBLFC.js";
|
|
66
69
|
import "../chunks/chunk-AB35TJST.js";
|
|
67
70
|
import "../chunks/chunk-TAMCZHLW.js";
|
|
68
|
-
import "../chunks/chunk-PBENCR5L.js";
|
|
69
71
|
import "../chunks/chunk-UVBGRJQX.js";
|
|
70
72
|
import "../chunks/chunk-6JEWNXCQ.js";
|
|
71
73
|
import "../chunks/chunk-JKJWSY4V.js";
|
|
@@ -178,12 +180,6 @@ async function indexedGenes(file, index, format, contigs, bind) {
|
|
|
178
180
|
features: format === "gff3" ? genesFromGff3Lines(lines) : genesFromBed(lines.join("\n"))
|
|
179
181
|
};
|
|
180
182
|
}
|
|
181
|
-
var engine = async (request) => {
|
|
182
|
-
const bandage = await loadBandage();
|
|
183
|
-
const start = performance.now();
|
|
184
|
-
const result = bandage.computeLayout(request.graph, request.options);
|
|
185
|
-
return { result, duration: performance.now() - start };
|
|
186
|
-
};
|
|
187
183
|
async function exists(location) {
|
|
188
184
|
try {
|
|
189
185
|
await (isUrl(location) ? fetchOk(location, { method: "HEAD" }) : access(location));
|
|
@@ -240,11 +236,12 @@ async function renderSpec(spec, base) {
|
|
|
240
236
|
quality: spec.quality ?? 2,
|
|
241
237
|
linearLayout: false,
|
|
242
238
|
bubbleSpread: spec.bubbleSpread ?? "auto",
|
|
239
|
+
engine: spec.engine,
|
|
243
240
|
spacing: spec.spacing,
|
|
244
241
|
componentSeparation: spec.componentSeparation,
|
|
245
242
|
showDeletionEdges: !!spec.showDeletionEdges
|
|
246
243
|
},
|
|
247
|
-
|
|
244
|
+
layoutEngine
|
|
248
245
|
)).result;
|
|
249
246
|
const bars = spec.walkStrip ? walkRows(graph, source.region) : void 0;
|
|
250
247
|
const stripRows = bars && {
|
package/dist/figure.js
CHANGED
|
@@ -1,28 +1,29 @@
|
|
|
1
1
|
import {
|
|
2
2
|
figureSvg
|
|
3
|
-
} from "./chunks/chunk-
|
|
3
|
+
} from "./chunks/chunk-5HF753RL.js";
|
|
4
4
|
import "./chunks/chunk-47DYCZOK.js";
|
|
5
|
-
import "./chunks/chunk-
|
|
6
|
-
import "./chunks/chunk-
|
|
5
|
+
import "./chunks/chunk-7R2UGY4I.js";
|
|
6
|
+
import "./chunks/chunk-YQZWW2V6.js";
|
|
7
7
|
import "./chunks/chunk-CH3DLBUT.js";
|
|
8
8
|
import "./chunks/chunk-4BYTEJGW.js";
|
|
9
|
-
import "./chunks/chunk-BUBZ32IC.js";
|
|
10
9
|
import "./chunks/chunk-3S3YVOJ7.js";
|
|
11
|
-
import "./chunks/chunk-
|
|
12
|
-
import "./chunks/chunk-
|
|
13
|
-
import "./chunks/chunk-
|
|
14
|
-
import "./chunks/chunk-
|
|
10
|
+
import "./chunks/chunk-BUBZ32IC.js";
|
|
11
|
+
import "./chunks/chunk-HE3NRWH7.js";
|
|
12
|
+
import "./chunks/chunk-M6SAUIYR.js";
|
|
13
|
+
import "./chunks/chunk-A7VOULBP.js";
|
|
14
|
+
import "./chunks/chunk-6CO564AN.js";
|
|
15
15
|
import "./chunks/chunk-GOY6REMT.js";
|
|
16
|
-
import "./chunks/chunk-
|
|
16
|
+
import "./chunks/chunk-YFRTTBCZ.js";
|
|
17
17
|
import "./chunks/chunk-PUG7LXDF.js";
|
|
18
18
|
import "./chunks/chunk-IGVV37VI.js";
|
|
19
19
|
import "./chunks/chunk-72N5DJHZ.js";
|
|
20
20
|
import "./chunks/chunk-QYBZZI5H.js";
|
|
21
21
|
import "./chunks/chunk-CDLPYR5O.js";
|
|
22
|
-
import "./chunks/chunk-
|
|
23
|
-
import "./chunks/chunk-
|
|
24
|
-
import "./chunks/chunk-
|
|
22
|
+
import "./chunks/chunk-STNG3Y5X.js";
|
|
23
|
+
import "./chunks/chunk-GD7FYNGS.js";
|
|
24
|
+
import "./chunks/chunk-VUBLSA6P.js";
|
|
25
25
|
import "./chunks/chunk-UMNCCYBN.js";
|
|
26
|
+
import "./chunks/chunk-PBENCR5L.js";
|
|
26
27
|
import "./chunks/chunk-DKOB2OPC.js";
|
|
27
28
|
import "./chunks/chunk-YMSSF2RK.js";
|
|
28
29
|
import "./chunks/chunk-MREQ7GIA.js";
|
|
@@ -30,12 +31,11 @@ import "./chunks/chunk-Y3IOTZJA.js";
|
|
|
30
31
|
import "./chunks/chunk-EZPBJPK6.js";
|
|
31
32
|
import "./chunks/chunk-SZNZ2T6D.js";
|
|
32
33
|
import "./chunks/chunk-X5L37W4J.js";
|
|
33
|
-
import "./chunks/chunk-ST2IBUAN.js";
|
|
34
34
|
import "./chunks/chunk-ES2N6V56.js";
|
|
35
|
+
import "./chunks/chunk-ST2IBUAN.js";
|
|
35
36
|
import "./chunks/chunk-N62KBLFC.js";
|
|
36
37
|
import "./chunks/chunk-AB35TJST.js";
|
|
37
38
|
import "./chunks/chunk-TAMCZHLW.js";
|
|
38
|
-
import "./chunks/chunk-PBENCR5L.js";
|
|
39
39
|
import "./chunks/chunk-UVBGRJQX.js";
|
|
40
40
|
import "./chunks/chunk-6JEWNXCQ.js";
|
|
41
41
|
import "./chunks/chunk-JKJWSY4V.js";
|
package/dist/index.js
CHANGED
|
@@ -1,6 +1,12 @@
|
|
|
1
1
|
import {
|
|
2
2
|
wheelZoomFactor
|
|
3
3
|
} from "./chunks/chunk-TDQLINVI.js";
|
|
4
|
+
import {
|
|
5
|
+
connectorAt,
|
|
6
|
+
drawTubeMapConnectors,
|
|
7
|
+
referenceNodes,
|
|
8
|
+
tubeMapConnectors
|
|
9
|
+
} from "./chunks/chunk-GQ2AOHU4.js";
|
|
4
10
|
import {
|
|
5
11
|
drawTubeMap,
|
|
6
12
|
tubeMapPicture
|
|
@@ -9,6 +15,10 @@ import {
|
|
|
9
15
|
tubeMapFrame,
|
|
10
16
|
tubeMapNodeAt
|
|
11
17
|
} from "./chunks/chunk-VZQ4FKLR.js";
|
|
18
|
+
import {
|
|
19
|
+
referenceKnots,
|
|
20
|
+
warpX
|
|
21
|
+
} from "./chunks/chunk-KQFOCDFY.js";
|
|
12
22
|
import {
|
|
13
23
|
drawTubeMapGenes,
|
|
14
24
|
tubeMapGenes
|
|
@@ -16,23 +26,13 @@ import {
|
|
|
16
26
|
import "./chunks/chunk-EJ5OZTCK.js";
|
|
17
27
|
import {
|
|
18
28
|
tubeMapNodeColors
|
|
19
|
-
} from "./chunks/chunk-
|
|
20
|
-
import {
|
|
21
|
-
referenceKnots,
|
|
22
|
-
warpX
|
|
23
|
-
} from "./chunks/chunk-KQFOCDFY.js";
|
|
29
|
+
} from "./chunks/chunk-P2KU2TXS.js";
|
|
24
30
|
import {
|
|
25
31
|
drawTubeMapRuler,
|
|
26
32
|
referenceBoxes,
|
|
27
33
|
rulerBoxes,
|
|
28
34
|
tubeX
|
|
29
35
|
} from "./chunks/chunk-CS3E4ETM.js";
|
|
30
|
-
import {
|
|
31
|
-
connectorAt,
|
|
32
|
-
drawTubeMapConnectors,
|
|
33
|
-
referenceNodes,
|
|
34
|
-
tubeMapConnectors
|
|
35
|
-
} from "./chunks/chunk-GQ2AOHU4.js";
|
|
36
36
|
import {
|
|
37
37
|
bubbleHalos
|
|
38
38
|
} from "./chunks/chunk-ISEI2FH3.js";
|
|
@@ -60,7 +60,14 @@ import {
|
|
|
60
60
|
drawReferenceStrip,
|
|
61
61
|
referenceStripBlocks,
|
|
62
62
|
stripBlockAt
|
|
63
|
-
} from "./chunks/chunk-
|
|
63
|
+
} from "./chunks/chunk-3GMVZMKD.js";
|
|
64
|
+
import {
|
|
65
|
+
layoutEngine
|
|
66
|
+
} from "./chunks/chunk-L53SXJZI.js";
|
|
67
|
+
import {
|
|
68
|
+
LAYOUT_ENGINES,
|
|
69
|
+
stressLayout
|
|
70
|
+
} from "./chunks/chunk-O4TGF4WS.js";
|
|
64
71
|
import {
|
|
65
72
|
FORCE_LAYOUT_LABEL,
|
|
66
73
|
LAYOUT_MODES,
|
|
@@ -72,15 +79,15 @@ import "./chunks/chunk-TEDQJPMI.js";
|
|
|
72
79
|
import "./chunks/chunk-LOEA5IHZ.js";
|
|
73
80
|
import "./chunks/chunk-L3O7AWLI.js";
|
|
74
81
|
import "./chunks/chunk-TZFWUT2C.js";
|
|
82
|
+
import "./chunks/chunk-RVS2QCOX.js";
|
|
75
83
|
import "./chunks/chunk-HNQPEMYE.js";
|
|
76
84
|
import "./chunks/chunk-C44YRP5F.js";
|
|
77
|
-
import "./chunks/chunk-RVS2QCOX.js";
|
|
78
85
|
import {
|
|
79
86
|
loadBandage
|
|
80
87
|
} from "./chunks/chunk-7XHHVYG7.js";
|
|
81
88
|
import {
|
|
82
89
|
figureSvg
|
|
83
|
-
} from "./chunks/chunk-
|
|
90
|
+
} from "./chunks/chunk-5HF753RL.js";
|
|
84
91
|
import {
|
|
85
92
|
svgCanvas
|
|
86
93
|
} from "./chunks/chunk-47DYCZOK.js";
|
|
@@ -94,7 +101,7 @@ import {
|
|
|
94
101
|
walkMarksTree,
|
|
95
102
|
walkStripFrame,
|
|
96
103
|
walkStripLabelsTree
|
|
97
|
-
} from "./chunks/chunk-
|
|
104
|
+
} from "./chunks/chunk-7R2UGY4I.js";
|
|
98
105
|
import {
|
|
99
106
|
BAR_PX,
|
|
100
107
|
DISAGREES,
|
|
@@ -116,24 +123,24 @@ import {
|
|
|
116
123
|
walkRowsKey,
|
|
117
124
|
walkRowsKeyTree,
|
|
118
125
|
walkRowsTree
|
|
119
|
-
} from "./chunks/chunk-
|
|
126
|
+
} from "./chunks/chunk-YQZWW2V6.js";
|
|
120
127
|
import {
|
|
121
128
|
Canvas2DRenderer
|
|
122
129
|
} from "./chunks/chunk-CH3DLBUT.js";
|
|
123
130
|
import {
|
|
124
131
|
getDpr
|
|
125
132
|
} from "./chunks/chunk-4BYTEJGW.js";
|
|
126
|
-
import {
|
|
127
|
-
genePins
|
|
128
|
-
} from "./chunks/chunk-BUBZ32IC.js";
|
|
129
133
|
import {
|
|
130
134
|
EXON_COLOR,
|
|
131
135
|
exonOutlineTree,
|
|
132
136
|
exonStretches
|
|
133
137
|
} from "./chunks/chunk-3S3YVOJ7.js";
|
|
138
|
+
import {
|
|
139
|
+
genePins
|
|
140
|
+
} from "./chunks/chunk-BUBZ32IC.js";
|
|
134
141
|
import {
|
|
135
142
|
version
|
|
136
|
-
} from "./chunks/chunk-
|
|
143
|
+
} from "./chunks/chunk-HE3NRWH7.js";
|
|
137
144
|
import {
|
|
138
145
|
axisScaleOf,
|
|
139
146
|
contains,
|
|
@@ -141,12 +148,12 @@ import {
|
|
|
141
148
|
screenToLayout,
|
|
142
149
|
viewportOf,
|
|
143
150
|
zoomAbout
|
|
144
|
-
} from "./chunks/chunk-
|
|
151
|
+
} from "./chunks/chunk-M6SAUIYR.js";
|
|
145
152
|
import {
|
|
146
153
|
facetLifts,
|
|
147
154
|
walkHighlight,
|
|
148
155
|
walkLift
|
|
149
|
-
} from "./chunks/chunk-
|
|
156
|
+
} from "./chunks/chunk-A7VOULBP.js";
|
|
150
157
|
import {
|
|
151
158
|
WALK_FIELDS,
|
|
152
159
|
WALK_SCHEMES,
|
|
@@ -154,7 +161,7 @@ import {
|
|
|
154
161
|
encodingSwatchCss,
|
|
155
162
|
resolveEncoding,
|
|
156
163
|
schemeCss
|
|
157
|
-
} from "./chunks/chunk-
|
|
164
|
+
} from "./chunks/chunk-6CO564AN.js";
|
|
158
165
|
import {
|
|
159
166
|
rangeText,
|
|
160
167
|
walkKey,
|
|
@@ -170,25 +177,32 @@ import {
|
|
|
170
177
|
forceLayout,
|
|
171
178
|
layoutExtent,
|
|
172
179
|
loadGraph
|
|
173
|
-
} from "./chunks/chunk-
|
|
180
|
+
} from "./chunks/chunk-YFRTTBCZ.js";
|
|
174
181
|
import "./chunks/chunk-PUG7LXDF.js";
|
|
175
182
|
import "./chunks/chunk-IGVV37VI.js";
|
|
176
183
|
import "./chunks/chunk-72N5DJHZ.js";
|
|
177
184
|
import "./chunks/chunk-QYBZZI5H.js";
|
|
178
185
|
import "./chunks/chunk-CDLPYR5O.js";
|
|
179
|
-
import "./chunks/chunk-
|
|
186
|
+
import "./chunks/chunk-STNG3Y5X.js";
|
|
180
187
|
import {
|
|
181
188
|
RAMP_GRADIENT_CSS,
|
|
182
189
|
rampHue,
|
|
183
190
|
rampHueCss,
|
|
184
191
|
rampStops
|
|
185
|
-
} from "./chunks/chunk-
|
|
192
|
+
} from "./chunks/chunk-GD7FYNGS.js";
|
|
186
193
|
import {
|
|
187
194
|
REFERENCE_RAMP_MAX_HUE,
|
|
188
195
|
buildGeometry,
|
|
189
196
|
computeReferenceRamp
|
|
190
|
-
} from "./chunks/chunk-
|
|
197
|
+
} from "./chunks/chunk-VUBLSA6P.js";
|
|
191
198
|
import "./chunks/chunk-UMNCCYBN.js";
|
|
199
|
+
import {
|
|
200
|
+
NODE_WIDTHS,
|
|
201
|
+
maxNodeWidthPx,
|
|
202
|
+
meanDepth,
|
|
203
|
+
nodeInk,
|
|
204
|
+
nodeWidthPx
|
|
205
|
+
} from "./chunks/chunk-PBENCR5L.js";
|
|
192
206
|
import {
|
|
193
207
|
HALO_FACTOR,
|
|
194
208
|
LEGEND_INSET_PX,
|
|
@@ -212,8 +226,8 @@ import {
|
|
|
212
226
|
pathColorsLegible,
|
|
213
227
|
pathLegend
|
|
214
228
|
} from "./chunks/chunk-X5L37W4J.js";
|
|
215
|
-
import "./chunks/chunk-ST2IBUAN.js";
|
|
216
229
|
import "./chunks/chunk-ES2N6V56.js";
|
|
230
|
+
import "./chunks/chunk-ST2IBUAN.js";
|
|
217
231
|
import {
|
|
218
232
|
formatBp
|
|
219
233
|
} from "./chunks/chunk-N62KBLFC.js";
|
|
@@ -223,13 +237,6 @@ import {
|
|
|
223
237
|
LABEL_PX
|
|
224
238
|
} from "./chunks/chunk-AB35TJST.js";
|
|
225
239
|
import "./chunks/chunk-TAMCZHLW.js";
|
|
226
|
-
import {
|
|
227
|
-
NODE_WIDTHS,
|
|
228
|
-
maxNodeWidthPx,
|
|
229
|
-
meanDepth,
|
|
230
|
-
nodeInk,
|
|
231
|
-
nodeWidthPx
|
|
232
|
-
} from "./chunks/chunk-PBENCR5L.js";
|
|
233
240
|
import {
|
|
234
241
|
BUBBLE_SPREADS
|
|
235
242
|
} from "./chunks/chunk-UVBGRJQX.js";
|
|
@@ -305,6 +312,7 @@ export {
|
|
|
305
312
|
LABEL_CHAR_PX,
|
|
306
313
|
LABEL_PAD,
|
|
307
314
|
LABEL_PX,
|
|
315
|
+
LAYOUT_ENGINES,
|
|
308
316
|
LAYOUT_MODES,
|
|
309
317
|
LEGEND_INSET_PX,
|
|
310
318
|
NODE_WIDTHS,
|
|
@@ -375,6 +383,7 @@ export {
|
|
|
375
383
|
getDpr,
|
|
376
384
|
graphBackbone,
|
|
377
385
|
haplotypeWanted,
|
|
386
|
+
layoutEngine,
|
|
378
387
|
layoutExtent,
|
|
379
388
|
layoutLabels,
|
|
380
389
|
layoutModeByValue,
|
|
@@ -419,6 +428,7 @@ export {
|
|
|
419
428
|
screenToLayout,
|
|
420
429
|
segmentAt,
|
|
421
430
|
serializeEl,
|
|
431
|
+
stressLayout,
|
|
422
432
|
stripBlockAt,
|
|
423
433
|
stripGeneGaps,
|
|
424
434
|
stripMarks,
|
|
@@ -21,18 +21,18 @@ import {
|
|
|
21
21
|
walkRowsKey,
|
|
22
22
|
walkRowsKeyTree,
|
|
23
23
|
walkRowsTree
|
|
24
|
-
} from "../chunks/chunk-
|
|
25
|
-
import "../chunks/chunk-
|
|
26
|
-
import "../chunks/chunk-
|
|
24
|
+
} from "../chunks/chunk-YQZWW2V6.js";
|
|
25
|
+
import "../chunks/chunk-GD7FYNGS.js";
|
|
26
|
+
import "../chunks/chunk-VUBLSA6P.js";
|
|
27
27
|
import "../chunks/chunk-UMNCCYBN.js";
|
|
28
|
+
import "../chunks/chunk-PBENCR5L.js";
|
|
28
29
|
import "../chunks/chunk-Y3IOTZJA.js";
|
|
29
30
|
import "../chunks/chunk-X5L37W4J.js";
|
|
30
|
-
import "../chunks/chunk-ST2IBUAN.js";
|
|
31
31
|
import "../chunks/chunk-ES2N6V56.js";
|
|
32
|
+
import "../chunks/chunk-ST2IBUAN.js";
|
|
32
33
|
import "../chunks/chunk-N62KBLFC.js";
|
|
33
34
|
import "../chunks/chunk-AB35TJST.js";
|
|
34
35
|
import "../chunks/chunk-TAMCZHLW.js";
|
|
35
|
-
import "../chunks/chunk-PBENCR5L.js";
|
|
36
36
|
import "../chunks/chunk-4EMPBO7S.js";
|
|
37
37
|
import "../chunks/chunk-2CVHXFK7.js";
|
|
38
38
|
import "../chunks/chunk-CPMHA4W5.js";
|
package/dist/layout/walkStrip.js
CHANGED
|
@@ -8,19 +8,19 @@ import {
|
|
|
8
8
|
walkMarksTree,
|
|
9
9
|
walkStripFrame,
|
|
10
10
|
walkStripLabelsTree
|
|
11
|
-
} from "../chunks/chunk-
|
|
12
|
-
import "../chunks/chunk-
|
|
13
|
-
import "../chunks/chunk-
|
|
14
|
-
import "../chunks/chunk-
|
|
11
|
+
} from "../chunks/chunk-7R2UGY4I.js";
|
|
12
|
+
import "../chunks/chunk-YQZWW2V6.js";
|
|
13
|
+
import "../chunks/chunk-GD7FYNGS.js";
|
|
14
|
+
import "../chunks/chunk-VUBLSA6P.js";
|
|
15
15
|
import "../chunks/chunk-UMNCCYBN.js";
|
|
16
|
+
import "../chunks/chunk-PBENCR5L.js";
|
|
16
17
|
import "../chunks/chunk-Y3IOTZJA.js";
|
|
17
18
|
import "../chunks/chunk-X5L37W4J.js";
|
|
18
|
-
import "../chunks/chunk-ST2IBUAN.js";
|
|
19
19
|
import "../chunks/chunk-ES2N6V56.js";
|
|
20
|
+
import "../chunks/chunk-ST2IBUAN.js";
|
|
20
21
|
import "../chunks/chunk-N62KBLFC.js";
|
|
21
22
|
import "../chunks/chunk-AB35TJST.js";
|
|
22
23
|
import "../chunks/chunk-TAMCZHLW.js";
|
|
23
|
-
import "../chunks/chunk-PBENCR5L.js";
|
|
24
24
|
import "../chunks/chunk-4EMPBO7S.js";
|
|
25
25
|
import "../chunks/chunk-2CVHXFK7.js";
|
|
26
26
|
import "../chunks/chunk-CPMHA4W5.js";
|
package/dist/layoutModes.js
CHANGED
|
@@ -10,14 +10,14 @@ import "./chunks/chunk-TEDQJPMI.js";
|
|
|
10
10
|
import "./chunks/chunk-LOEA5IHZ.js";
|
|
11
11
|
import "./chunks/chunk-L3O7AWLI.js";
|
|
12
12
|
import "./chunks/chunk-TZFWUT2C.js";
|
|
13
|
+
import "./chunks/chunk-RVS2QCOX.js";
|
|
13
14
|
import "./chunks/chunk-HNQPEMYE.js";
|
|
14
15
|
import "./chunks/chunk-C44YRP5F.js";
|
|
15
|
-
import "./chunks/chunk-RVS2QCOX.js";
|
|
16
16
|
import "./chunks/chunk-EZPBJPK6.js";
|
|
17
17
|
import "./chunks/chunk-SZNZ2T6D.js";
|
|
18
18
|
import "./chunks/chunk-X5L37W4J.js";
|
|
19
|
-
import "./chunks/chunk-ST2IBUAN.js";
|
|
20
19
|
import "./chunks/chunk-ES2N6V56.js";
|
|
20
|
+
import "./chunks/chunk-ST2IBUAN.js";
|
|
21
21
|
import "./chunks/chunk-N62KBLFC.js";
|
|
22
22
|
import "./chunks/chunk-AB35TJST.js";
|
|
23
23
|
import "./chunks/chunk-TAMCZHLW.js";
|
package/dist/pipeline.js
CHANGED
|
@@ -9,15 +9,15 @@ import {
|
|
|
9
9
|
forceLayout,
|
|
10
10
|
layoutExtent,
|
|
11
11
|
loadGraph
|
|
12
|
-
} from "./chunks/chunk-
|
|
12
|
+
} from "./chunks/chunk-YFRTTBCZ.js";
|
|
13
13
|
import "./chunks/chunk-PUG7LXDF.js";
|
|
14
14
|
import "./chunks/chunk-IGVV37VI.js";
|
|
15
15
|
import "./chunks/chunk-72N5DJHZ.js";
|
|
16
16
|
import "./chunks/chunk-QYBZZI5H.js";
|
|
17
17
|
import "./chunks/chunk-CDLPYR5O.js";
|
|
18
|
-
import "./chunks/chunk-
|
|
19
|
-
import "./chunks/chunk-ST2IBUAN.js";
|
|
18
|
+
import "./chunks/chunk-STNG3Y5X.js";
|
|
20
19
|
import "./chunks/chunk-ES2N6V56.js";
|
|
20
|
+
import "./chunks/chunk-ST2IBUAN.js";
|
|
21
21
|
import "./chunks/chunk-TAMCZHLW.js";
|
|
22
22
|
import "./chunks/chunk-UVBGRJQX.js";
|
|
23
23
|
import "./chunks/chunk-6JEWNXCQ.js";
|
package/dist/referenceRampCss.js
CHANGED
|
@@ -4,17 +4,17 @@ import {
|
|
|
4
4
|
rampHue,
|
|
5
5
|
rampHueCss,
|
|
6
6
|
rampStops
|
|
7
|
-
} from "./chunks/chunk-
|
|
8
|
-
import "./chunks/chunk-
|
|
7
|
+
} from "./chunks/chunk-GD7FYNGS.js";
|
|
8
|
+
import "./chunks/chunk-VUBLSA6P.js";
|
|
9
9
|
import "./chunks/chunk-UMNCCYBN.js";
|
|
10
|
+
import "./chunks/chunk-PBENCR5L.js";
|
|
10
11
|
import "./chunks/chunk-Y3IOTZJA.js";
|
|
11
12
|
import "./chunks/chunk-X5L37W4J.js";
|
|
12
|
-
import "./chunks/chunk-ST2IBUAN.js";
|
|
13
13
|
import "./chunks/chunk-ES2N6V56.js";
|
|
14
|
+
import "./chunks/chunk-ST2IBUAN.js";
|
|
14
15
|
import "./chunks/chunk-N62KBLFC.js";
|
|
15
16
|
import "./chunks/chunk-AB35TJST.js";
|
|
16
17
|
import "./chunks/chunk-TAMCZHLW.js";
|
|
17
|
-
import "./chunks/chunk-PBENCR5L.js";
|
|
18
18
|
import "./chunks/chunk-4EMPBO7S.js";
|
|
19
19
|
import "./chunks/chunk-2CVHXFK7.js";
|
|
20
20
|
import "./chunks/chunk-CPMHA4W5.js";
|
package/dist/referenceStrip.js
CHANGED
|
@@ -7,17 +7,17 @@ import {
|
|
|
7
7
|
stripBlockAt,
|
|
8
8
|
stripOverhang,
|
|
9
9
|
stripPixels
|
|
10
|
-
} from "./chunks/chunk-
|
|
11
|
-
import "./chunks/chunk-
|
|
10
|
+
} from "./chunks/chunk-3GMVZMKD.js";
|
|
11
|
+
import "./chunks/chunk-VUBLSA6P.js";
|
|
12
12
|
import "./chunks/chunk-UMNCCYBN.js";
|
|
13
|
+
import "./chunks/chunk-PBENCR5L.js";
|
|
13
14
|
import "./chunks/chunk-Y3IOTZJA.js";
|
|
14
15
|
import "./chunks/chunk-X5L37W4J.js";
|
|
15
|
-
import "./chunks/chunk-ST2IBUAN.js";
|
|
16
16
|
import "./chunks/chunk-ES2N6V56.js";
|
|
17
|
+
import "./chunks/chunk-ST2IBUAN.js";
|
|
17
18
|
import "./chunks/chunk-N62KBLFC.js";
|
|
18
19
|
import "./chunks/chunk-AB35TJST.js";
|
|
19
20
|
import "./chunks/chunk-TAMCZHLW.js";
|
|
20
|
-
import "./chunks/chunk-PBENCR5L.js";
|
|
21
21
|
import "./chunks/chunk-4EMPBO7S.js";
|
|
22
22
|
import "./chunks/chunk-2CVHXFK7.js";
|
|
23
23
|
import "./chunks/chunk-CPMHA4W5.js";
|
|
@@ -11,16 +11,16 @@ import {
|
|
|
11
11
|
endTangent,
|
|
12
12
|
getNodeColor,
|
|
13
13
|
hslToRgb
|
|
14
|
-
} from "../chunks/chunk-
|
|
14
|
+
} from "../chunks/chunk-VUBLSA6P.js";
|
|
15
15
|
import "../chunks/chunk-UMNCCYBN.js";
|
|
16
|
+
import "../chunks/chunk-PBENCR5L.js";
|
|
16
17
|
import "../chunks/chunk-Y3IOTZJA.js";
|
|
17
18
|
import "../chunks/chunk-X5L37W4J.js";
|
|
18
|
-
import "../chunks/chunk-ST2IBUAN.js";
|
|
19
19
|
import "../chunks/chunk-ES2N6V56.js";
|
|
20
|
+
import "../chunks/chunk-ST2IBUAN.js";
|
|
20
21
|
import "../chunks/chunk-N62KBLFC.js";
|
|
21
22
|
import "../chunks/chunk-AB35TJST.js";
|
|
22
23
|
import "../chunks/chunk-TAMCZHLW.js";
|
|
23
|
-
import "../chunks/chunk-PBENCR5L.js";
|
|
24
24
|
import "../chunks/chunk-4EMPBO7S.js";
|
|
25
25
|
import "../chunks/chunk-2CVHXFK7.js";
|
|
26
26
|
import "../chunks/chunk-CPMHA4W5.js";
|
|
@@ -1,16 +1,16 @@
|
|
|
1
1
|
import {
|
|
2
2
|
tubeMapNodeColors
|
|
3
|
-
} from "../chunks/chunk-
|
|
4
|
-
import "../chunks/chunk-
|
|
3
|
+
} from "../chunks/chunk-P2KU2TXS.js";
|
|
4
|
+
import "../chunks/chunk-VUBLSA6P.js";
|
|
5
5
|
import "../chunks/chunk-UMNCCYBN.js";
|
|
6
|
+
import "../chunks/chunk-PBENCR5L.js";
|
|
6
7
|
import "../chunks/chunk-Y3IOTZJA.js";
|
|
7
8
|
import "../chunks/chunk-X5L37W4J.js";
|
|
8
|
-
import "../chunks/chunk-ST2IBUAN.js";
|
|
9
9
|
import "../chunks/chunk-ES2N6V56.js";
|
|
10
|
+
import "../chunks/chunk-ST2IBUAN.js";
|
|
10
11
|
import "../chunks/chunk-N62KBLFC.js";
|
|
11
12
|
import "../chunks/chunk-AB35TJST.js";
|
|
12
13
|
import "../chunks/chunk-TAMCZHLW.js";
|
|
13
|
-
import "../chunks/chunk-PBENCR5L.js";
|
|
14
14
|
import "../chunks/chunk-4EMPBO7S.js";
|
|
15
15
|
import "../chunks/chunk-2CVHXFK7.js";
|
|
16
16
|
import "../chunks/chunk-CPMHA4W5.js";
|
|
@@ -1,6 +1,7 @@
|
|
|
1
1
|
import type { BubbleSpread } from '../bubbleSpreads.js';
|
|
2
2
|
import type { FigureOptions } from '../figure.js';
|
|
3
3
|
import type { GbzSource } from '../gbzCut.js';
|
|
4
|
+
import type { LayoutEngineKind } from '../layout/stressEngine.js';
|
|
4
5
|
import type { LayoutModeValue } from '../layoutModes.js';
|
|
5
6
|
import type { WalkLayer } from '../walkEncoding.js';
|
|
6
7
|
export interface FigureSpec extends Omit<FigureOptions, 'walks' | 'region' | 'genes' | 'spec' | 'walkStrip'> {
|
|
@@ -11,6 +12,7 @@ export interface FigureSpec extends Omit<FigureOptions, 'walks' | 'region' | 'ge
|
|
|
11
12
|
layout?: LayoutModeValue;
|
|
12
13
|
quality?: number;
|
|
13
14
|
bubbleSpread?: BubbleSpread;
|
|
15
|
+
engine?: LayoutEngineKind;
|
|
14
16
|
spacing?: number;
|
|
15
17
|
componentSeparation?: number;
|
|
16
18
|
walks?: (string | WalkLayer)[];
|