@jbrowse/bandage-core 10.3.1 → 11.0.0
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/README.md +5 -0
- package/dist/chunks/{chunk-DBLV7PGG.js → chunk-3XSRT7RQ.js} +16 -2
- package/dist/chunks/{chunk-EWLXU3UG.js → chunk-5LTZVKZQ.js} +9 -9
- package/dist/chunks/{chunk-AQCOIE5R.js → chunk-6OP4HPXG.js} +1 -1
- package/dist/chunks/{chunk-BKEZLETL.js → chunk-AI5PTOSV.js} +1 -1
- package/dist/chunks/{chunk-R2PJKD3Y.js → chunk-BIOKXS3M.js} +1 -1
- package/dist/chunks/{chunk-YZQI35UJ.js → chunk-C3NT37C3.js} +22 -1
- package/dist/chunks/{chunk-OOIOX36I.js → chunk-CIDSF47D.js} +28 -8
- package/dist/chunks/{chunk-CHNESV7L.js → chunk-CTZRIDMY.js} +7 -7
- package/dist/chunks/{chunk-QH2MIXBA.js → chunk-CZT33FZG.js} +6 -6
- package/dist/chunks/{chunk-CGFPFBT2.js → chunk-D4ZFRBB4.js} +11 -2
- package/dist/chunks/{chunk-Z6XZWPXK.js → chunk-DZR37KXT.js} +51 -2
- package/dist/chunks/{chunk-AZ4EEF6Q.js → chunk-EDWU7OM4.js} +5 -5
- package/dist/chunks/chunk-EIY2SKD3.js +164 -0
- package/dist/chunks/{chunk-MWOVW4AH.js → chunk-EY2ZGSCP.js} +1 -1
- package/dist/chunks/{chunk-NZTYV3JL.js → chunk-FFHJGWDK.js} +5 -1
- package/dist/chunks/{chunk-KMBE2Q42.js → chunk-KDU4EF66.js} +3 -3
- package/dist/chunks/{chunk-WYJQIC75.js → chunk-L5IETLWP.js} +4 -4
- package/dist/chunks/{chunk-GIHTHYXY.js → chunk-NMWQUFPF.js} +1 -1
- package/dist/chunks/{chunk-A2TJ5UX6.js → chunk-OLKXMZ6J.js} +1 -1
- package/dist/chunks/{chunk-FW2R7UDZ.js → chunk-PK5QQOMN.js} +1 -1
- package/dist/chunks/{chunk-OXRUPNSV.js → chunk-RNYPCQZ3.js} +1 -1
- package/dist/chunks/{chunk-SFP3E4RI.js → chunk-TEF3NBG3.js} +2 -2
- package/dist/chunks/{chunk-M5NPD55W.js → chunk-TUQKGAK3.js} +1 -1
- package/dist/chunks/{chunk-D7WIYPG3.js → chunk-W6EXQDV5.js} +1 -1
- package/dist/chunks/{chunk-ZJBOM73S.js → chunk-XZ6PQBU6.js} +58 -12
- package/dist/cli/figure.js +22 -21
- package/dist/cli/fold.js +5 -4
- package/dist/figure.js +16 -15
- package/dist/figureData.js +19 -18
- package/dist/figureScene.js +11 -10
- package/dist/figureSettings.js +6 -5
- package/dist/gbzCut.js +4 -3
- package/dist/gbzWindow.js +3 -2
- package/dist/gfa/gfaConverter.js +2 -1
- package/dist/gfa/gfaTables.js +2 -1
- package/dist/gfa/graphTables.js +2 -1
- package/dist/gfa/walkStops.js +28 -0
- package/dist/index.js +52 -34
- package/dist/layout/forceCache.js +6 -5
- package/dist/layout/tubeMapLayout.js +3 -2
- package/dist/layout/walkRowDraw.js +10 -1
- package/dist/layout/walkRowLayout.js +3 -2
- package/dist/layout/walkRows.js +2 -1
- package/dist/layout/walkStrip.js +5 -4
- package/dist/layoutModes.js +6 -5
- package/dist/pipeline.js +5 -4
- package/dist/tubeMap/bundle.js +4 -3
- package/dist/tubeMap/coarsen.js +4 -3
- package/dist/tubeMap/deviations.js +4 -3
- package/dist/tubeMap/draw.js +4 -3
- package/dist/types/gfa/graphTables.d.ts +3 -0
- package/dist/types/gfa/walkStops.d.ts +59 -0
- package/dist/types/index.d.ts +4 -2
- package/dist/types/layout/walkRowDraw.d.ts +14 -1
- package/dist/types/layout/walkRows.d.ts +4 -1
- package/dist/types/types.d.ts +19 -0
- package/dist/types/version.d.ts +1 -1
- package/dist/types/walkHighlight.d.ts +2 -0
- package/dist/types/walkKey.d.ts +1 -1
- package/dist/version.js +1 -1
- package/dist/viewport.js +6 -5
- package/dist/walkHighlight.js +2 -1
- package/dist/walkKey.js +2 -1
- package/package.json +1 -1
package/dist/gfa/gfaTables.js
CHANGED
package/dist/gfa/graphTables.js
CHANGED
|
@@ -0,0 +1,28 @@
|
|
|
1
|
+
import {
|
|
2
|
+
END_STOP_TAG,
|
|
3
|
+
GAP_CAUSE_TEXT,
|
|
4
|
+
OUTSIDE_TEXT,
|
|
5
|
+
START_STOP_TAG,
|
|
6
|
+
StopColumns,
|
|
7
|
+
gapParts,
|
|
8
|
+
parseStopTag,
|
|
9
|
+
stopAt,
|
|
10
|
+
stopFields,
|
|
11
|
+
stopTag,
|
|
12
|
+
walkStopFields,
|
|
13
|
+
walkStopTags
|
|
14
|
+
} from "../chunks/chunk-EIY2SKD3.js";
|
|
15
|
+
export {
|
|
16
|
+
END_STOP_TAG,
|
|
17
|
+
GAP_CAUSE_TEXT,
|
|
18
|
+
OUTSIDE_TEXT,
|
|
19
|
+
START_STOP_TAG,
|
|
20
|
+
StopColumns,
|
|
21
|
+
gapParts,
|
|
22
|
+
parseStopTag,
|
|
23
|
+
stopAt,
|
|
24
|
+
stopFields,
|
|
25
|
+
stopTag,
|
|
26
|
+
walkStopFields,
|
|
27
|
+
walkStopTags
|
|
28
|
+
};
|
package/dist/index.js
CHANGED
|
@@ -1,17 +1,27 @@
|
|
|
1
1
|
import {
|
|
2
2
|
wheelZoomFactor
|
|
3
3
|
} from "./chunks/chunk-TDQLINVI.js";
|
|
4
|
+
import {
|
|
5
|
+
connectorAt,
|
|
6
|
+
drawLitConnector,
|
|
7
|
+
drawTubeMapConnectors,
|
|
8
|
+
tubeMapConnectors
|
|
9
|
+
} from "./chunks/chunk-2ZT7ZF7A.js";
|
|
4
10
|
import {
|
|
5
11
|
drawTubeMap,
|
|
6
12
|
drawTubeMapHighlight,
|
|
7
13
|
tubeMapMismatchAt,
|
|
8
14
|
tubeMapPicture,
|
|
9
15
|
tubeMapTrackAt
|
|
10
|
-
} from "./chunks/chunk-
|
|
16
|
+
} from "./chunks/chunk-L5IETLWP.js";
|
|
11
17
|
import {
|
|
12
18
|
tubeMapFrame,
|
|
13
19
|
tubeMapNodeAt
|
|
14
20
|
} from "./chunks/chunk-SI3BB4DO.js";
|
|
21
|
+
import {
|
|
22
|
+
referenceKnots,
|
|
23
|
+
warpX
|
|
24
|
+
} from "./chunks/chunk-MYDHU2UV.js";
|
|
15
25
|
import {
|
|
16
26
|
drawTubeMapGenes,
|
|
17
27
|
tubeMapGenes
|
|
@@ -20,10 +30,6 @@ import "./chunks/chunk-BX4AUMZE.js";
|
|
|
20
30
|
import {
|
|
21
31
|
tubeMapNodeColors
|
|
22
32
|
} from "./chunks/chunk-XVS52NMZ.js";
|
|
23
|
-
import {
|
|
24
|
-
referenceKnots,
|
|
25
|
-
warpX
|
|
26
|
-
} from "./chunks/chunk-MYDHU2UV.js";
|
|
27
33
|
import {
|
|
28
34
|
drawTubeMapRuler,
|
|
29
35
|
referenceBoxes,
|
|
@@ -32,16 +38,10 @@ import {
|
|
|
32
38
|
} from "./chunks/chunk-HSVFCA2J.js";
|
|
33
39
|
import {
|
|
34
40
|
bundleRoutes
|
|
35
|
-
} from "./chunks/chunk-
|
|
36
|
-
import {
|
|
37
|
-
connectorAt,
|
|
38
|
-
drawLitConnector,
|
|
39
|
-
drawTubeMapConnectors,
|
|
40
|
-
tubeMapConnectors
|
|
41
|
-
} from "./chunks/chunk-2ZT7ZF7A.js";
|
|
41
|
+
} from "./chunks/chunk-BIOKXS3M.js";
|
|
42
42
|
import {
|
|
43
43
|
createForceLayoutCache
|
|
44
|
-
} from "./chunks/chunk-
|
|
44
|
+
} from "./chunks/chunk-RNYPCQZ3.js";
|
|
45
45
|
import {
|
|
46
46
|
graphBubbles,
|
|
47
47
|
superbubblesFromGraph
|
|
@@ -83,7 +83,7 @@ import {
|
|
|
83
83
|
} from "./chunks/chunk-AZFVORTC.js";
|
|
84
84
|
import {
|
|
85
85
|
figureSvg
|
|
86
|
-
} from "./chunks/chunk-
|
|
86
|
+
} from "./chunks/chunk-5LTZVKZQ.js";
|
|
87
87
|
import {
|
|
88
88
|
svgCanvas
|
|
89
89
|
} from "./chunks/chunk-V4YML3GR.js";
|
|
@@ -98,7 +98,7 @@ import {
|
|
|
98
98
|
walkStripApplies,
|
|
99
99
|
walkStripFrame,
|
|
100
100
|
walkStripLabelsTree
|
|
101
|
-
} from "./chunks/chunk-
|
|
101
|
+
} from "./chunks/chunk-TEF3NBG3.js";
|
|
102
102
|
import {
|
|
103
103
|
BAR_PX,
|
|
104
104
|
CALL_TICK,
|
|
@@ -113,6 +113,7 @@ import {
|
|
|
113
113
|
alongRow,
|
|
114
114
|
callTickInk,
|
|
115
115
|
coalesceRuns,
|
|
116
|
+
gapStyle,
|
|
116
117
|
genesOnRow,
|
|
117
118
|
placeRowGenes,
|
|
118
119
|
readoutPlacement,
|
|
@@ -125,7 +126,7 @@ import {
|
|
|
125
126
|
walkRowsKey,
|
|
126
127
|
walkRowsKeyTree,
|
|
127
128
|
walkRowsTree
|
|
128
|
-
} from "./chunks/chunk-
|
|
129
|
+
} from "./chunks/chunk-XZ6PQBU6.js";
|
|
129
130
|
import {
|
|
130
131
|
Canvas2DRenderer
|
|
131
132
|
} from "./chunks/chunk-EJRJAAN7.js";
|
|
@@ -158,7 +159,7 @@ import {
|
|
|
158
159
|
import {
|
|
159
160
|
figureData,
|
|
160
161
|
gfaFigureData
|
|
161
|
-
} from "./chunks/chunk-
|
|
162
|
+
} from "./chunks/chunk-CTZRIDMY.js";
|
|
162
163
|
import {
|
|
163
164
|
LAYOUT_ENGINES,
|
|
164
165
|
layoutEngine
|
|
@@ -168,10 +169,10 @@ import {
|
|
|
168
169
|
LAYOUT_MODES,
|
|
169
170
|
layoutModeByValue,
|
|
170
171
|
modeUsesLayoutEngine
|
|
171
|
-
} from "./chunks/chunk-
|
|
172
|
-
import "./chunks/chunk-
|
|
173
|
-
import "./chunks/chunk-FW2R7UDZ.js";
|
|
172
|
+
} from "./chunks/chunk-EDWU7OM4.js";
|
|
173
|
+
import "./chunks/chunk-PK5QQOMN.js";
|
|
174
174
|
import "./chunks/chunk-A7H753BA.js";
|
|
175
|
+
import "./chunks/chunk-GJU6BJJA.js";
|
|
175
176
|
import "./chunks/chunk-GJLZ2MKE.js";
|
|
176
177
|
import "./chunks/chunk-MYLAJDKB.js";
|
|
177
178
|
import "./chunks/chunk-C44YRP5F.js";
|
|
@@ -182,7 +183,7 @@ import {
|
|
|
182
183
|
cutGbzRegion,
|
|
183
184
|
openGbz,
|
|
184
185
|
parseRegion
|
|
185
|
-
} from "./chunks/chunk-
|
|
186
|
+
} from "./chunks/chunk-TUQKGAK3.js";
|
|
186
187
|
import {
|
|
187
188
|
compactTables,
|
|
188
189
|
cutWindowGFA,
|
|
@@ -191,11 +192,11 @@ import {
|
|
|
191
192
|
referencePathQuery,
|
|
192
193
|
referenceSamplesOf,
|
|
193
194
|
resolveReferenceSample
|
|
194
|
-
} from "./chunks/chunk-
|
|
195
|
+
} from "./chunks/chunk-NMWQUFPF.js";
|
|
195
196
|
import "./chunks/chunk-HNWJ4B7S.js";
|
|
196
197
|
import {
|
|
197
198
|
version
|
|
198
|
-
} from "./chunks/chunk-
|
|
199
|
+
} from "./chunks/chunk-6OP4HPXG.js";
|
|
199
200
|
import {
|
|
200
201
|
axisScaleOf,
|
|
201
202
|
contains,
|
|
@@ -203,8 +204,8 @@ import {
|
|
|
203
204
|
screenToLayout,
|
|
204
205
|
viewportOf,
|
|
205
206
|
zoomAbout
|
|
206
|
-
} from "./chunks/chunk-
|
|
207
|
-
import "./chunks/chunk-
|
|
207
|
+
} from "./chunks/chunk-AI5PTOSV.js";
|
|
208
|
+
import "./chunks/chunk-CZT33FZG.js";
|
|
208
209
|
import {
|
|
209
210
|
layoutGeometryInputs
|
|
210
211
|
} from "./chunks/chunk-LOCJN3BZ.js";
|
|
@@ -212,7 +213,7 @@ import {
|
|
|
212
213
|
facetLifts,
|
|
213
214
|
walkHighlight,
|
|
214
215
|
walkLift
|
|
215
|
-
} from "./chunks/chunk-
|
|
216
|
+
} from "./chunks/chunk-C3NT37C3.js";
|
|
216
217
|
import {
|
|
217
218
|
WALK_FIELDS,
|
|
218
219
|
WALK_SCHEMES,
|
|
@@ -225,7 +226,7 @@ import {
|
|
|
225
226
|
rangeText,
|
|
226
227
|
walkKey,
|
|
227
228
|
walkPosition
|
|
228
|
-
} from "./chunks/chunk-
|
|
229
|
+
} from "./chunks/chunk-D4ZFRBB4.js";
|
|
229
230
|
import {
|
|
230
231
|
buildGeometry,
|
|
231
232
|
computeReferenceRamp
|
|
@@ -242,11 +243,11 @@ import "./chunks/chunk-WA5WNP6V.js";
|
|
|
242
243
|
import {
|
|
243
244
|
walkRowLabels,
|
|
244
245
|
walkRowsExtent
|
|
245
|
-
} from "./chunks/chunk-
|
|
246
|
+
} from "./chunks/chunk-OLKXMZ6J.js";
|
|
246
247
|
import {
|
|
247
248
|
filterSamples,
|
|
248
249
|
walkRows
|
|
249
|
-
} from "./chunks/chunk-
|
|
250
|
+
} from "./chunks/chunk-CIDSF47D.js";
|
|
250
251
|
import {
|
|
251
252
|
pathColorsLegible,
|
|
252
253
|
pathLegend,
|
|
@@ -262,7 +263,7 @@ import {
|
|
|
262
263
|
import {
|
|
263
264
|
FIGURE_DEFAULTS,
|
|
264
265
|
figureSpecSettings
|
|
265
|
-
} from "./chunks/chunk-
|
|
266
|
+
} from "./chunks/chunk-W6EXQDV5.js";
|
|
266
267
|
import {
|
|
267
268
|
ENGINE_DEFAULTS,
|
|
268
269
|
FIT_PADDING,
|
|
@@ -275,18 +276,18 @@ import {
|
|
|
275
276
|
forceLayout,
|
|
276
277
|
layoutExtent,
|
|
277
278
|
loadGraph
|
|
278
|
-
} from "./chunks/chunk-
|
|
279
|
+
} from "./chunks/chunk-KDU4EF66.js";
|
|
279
280
|
import "./chunks/chunk-3PZSBNLI.js";
|
|
280
281
|
import "./chunks/chunk-CKUVEHSS.js";
|
|
281
282
|
import "./chunks/chunk-OPPVSPEF.js";
|
|
282
283
|
import "./chunks/chunk-VPE4AYP7.js";
|
|
283
|
-
import "./chunks/chunk-
|
|
284
|
+
import "./chunks/chunk-FFHJGWDK.js";
|
|
284
285
|
import "./chunks/chunk-QYBZZI5H.js";
|
|
285
286
|
import "./chunks/chunk-5I3K4R2G.js";
|
|
286
287
|
import {
|
|
287
288
|
graphFromTables,
|
|
288
289
|
graphTablesGFA
|
|
289
|
-
} from "./chunks/chunk-
|
|
290
|
+
} from "./chunks/chunk-3XSRT7RQ.js";
|
|
290
291
|
import "./chunks/chunk-B5X2RLJG.js";
|
|
291
292
|
import "./chunks/chunk-VX656OAZ.js";
|
|
292
293
|
import {
|
|
@@ -301,7 +302,16 @@ import {
|
|
|
301
302
|
} from "./chunks/chunk-234NFZS4.js";
|
|
302
303
|
import {
|
|
303
304
|
gfaTables
|
|
304
|
-
} from "./chunks/chunk-
|
|
305
|
+
} from "./chunks/chunk-DZR37KXT.js";
|
|
306
|
+
import {
|
|
307
|
+
END_STOP_TAG,
|
|
308
|
+
GAP_CAUSE_TEXT,
|
|
309
|
+
OUTSIDE_TEXT,
|
|
310
|
+
START_STOP_TAG,
|
|
311
|
+
gapParts,
|
|
312
|
+
parseStopTag,
|
|
313
|
+
stopTag
|
|
314
|
+
} from "./chunks/chunk-EIY2SKD3.js";
|
|
305
315
|
import {
|
|
306
316
|
PathVisits,
|
|
307
317
|
PathVisitsBuilder
|
|
@@ -359,6 +369,7 @@ export {
|
|
|
359
369
|
BUBBLE_SPREADS,
|
|
360
370
|
COLOR_SCHEMES,
|
|
361
371
|
Canvas2DRenderer,
|
|
372
|
+
END_STOP_TAG,
|
|
362
373
|
ENGINE_DEFAULTS,
|
|
363
374
|
EXON_COLOR,
|
|
364
375
|
FACET_FIELDS,
|
|
@@ -368,6 +379,7 @@ export {
|
|
|
368
379
|
FIGURE_DEFAULTS,
|
|
369
380
|
FIT_PADDING,
|
|
370
381
|
FORCE_LAYOUT_LABEL,
|
|
382
|
+
GAP_CAUSE_TEXT,
|
|
371
383
|
HALO_FACTOR,
|
|
372
384
|
HPRC_GBZ,
|
|
373
385
|
LABELLED_ROW_PX,
|
|
@@ -379,12 +391,14 @@ export {
|
|
|
379
391
|
LAYOUT_QUALITIES,
|
|
380
392
|
LEGEND_INSET_PX,
|
|
381
393
|
NODE_WIDTHS,
|
|
394
|
+
OUTSIDE_TEXT,
|
|
382
395
|
PathVisits,
|
|
383
396
|
PathVisitsBuilder,
|
|
384
397
|
RAMP_GRADIENT_CSS,
|
|
385
398
|
REFERENCE_RAMP_MAX_HUE,
|
|
386
399
|
REFERENCE_STRIP_ZONE_PX,
|
|
387
400
|
ROW_HEIGHT_PX,
|
|
401
|
+
START_STOP_TAG,
|
|
388
402
|
BAR_PX as WALK_BAR_PX,
|
|
389
403
|
CALL_TICK as WALK_CALL_TICK,
|
|
390
404
|
DISAGREES as WALK_DISAGREES,
|
|
@@ -454,6 +468,8 @@ export {
|
|
|
454
468
|
fitTransform,
|
|
455
469
|
forceLayout,
|
|
456
470
|
formatBp,
|
|
471
|
+
gapParts,
|
|
472
|
+
gapStyle,
|
|
457
473
|
geneCoverageNote,
|
|
458
474
|
genePins,
|
|
459
475
|
genesFromBed,
|
|
@@ -487,6 +503,7 @@ export {
|
|
|
487
503
|
panSNHaplotype,
|
|
488
504
|
panSNSample,
|
|
489
505
|
parseRegion,
|
|
506
|
+
parseStopTag,
|
|
490
507
|
pathColorsLegible,
|
|
491
508
|
pathLegend,
|
|
492
509
|
placeRowGenes,
|
|
@@ -515,6 +532,7 @@ export {
|
|
|
515
532
|
screenToLayout,
|
|
516
533
|
segmentAt,
|
|
517
534
|
serializeEl,
|
|
535
|
+
stopTag,
|
|
518
536
|
stressLayout,
|
|
519
537
|
stripBlockAt,
|
|
520
538
|
stripGeneGaps,
|
|
@@ -1,18 +1,19 @@
|
|
|
1
1
|
import {
|
|
2
2
|
createForceLayoutCache
|
|
3
|
-
} from "../chunks/chunk-
|
|
4
|
-
import "../chunks/chunk-
|
|
3
|
+
} from "../chunks/chunk-RNYPCQZ3.js";
|
|
4
|
+
import "../chunks/chunk-KDU4EF66.js";
|
|
5
5
|
import "../chunks/chunk-3PZSBNLI.js";
|
|
6
6
|
import "../chunks/chunk-CKUVEHSS.js";
|
|
7
7
|
import "../chunks/chunk-OPPVSPEF.js";
|
|
8
8
|
import "../chunks/chunk-VPE4AYP7.js";
|
|
9
|
-
import "../chunks/chunk-
|
|
9
|
+
import "../chunks/chunk-FFHJGWDK.js";
|
|
10
10
|
import "../chunks/chunk-QYBZZI5H.js";
|
|
11
11
|
import "../chunks/chunk-5I3K4R2G.js";
|
|
12
|
-
import "../chunks/chunk-
|
|
12
|
+
import "../chunks/chunk-3XSRT7RQ.js";
|
|
13
13
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
14
14
|
import "../chunks/chunk-VX656OAZ.js";
|
|
15
|
-
import "../chunks/chunk-
|
|
15
|
+
import "../chunks/chunk-DZR37KXT.js";
|
|
16
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
16
17
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
17
18
|
import "../chunks/chunk-BZFOFC4D.js";
|
|
18
19
|
import "../chunks/chunk-HKYXWZQS.js";
|
|
@@ -5,12 +5,13 @@ import {
|
|
|
5
5
|
tubeMapLayout,
|
|
6
6
|
tubeMapReferenceLayout,
|
|
7
7
|
tubeMapTracks
|
|
8
|
-
} from "../chunks/chunk-
|
|
8
|
+
} from "../chunks/chunk-PK5QQOMN.js";
|
|
9
9
|
import "../chunks/chunk-A7H753BA.js";
|
|
10
10
|
import "../chunks/chunk-C44YRP5F.js";
|
|
11
|
-
import "../chunks/chunk-
|
|
11
|
+
import "../chunks/chunk-CIDSF47D.js";
|
|
12
12
|
import "../chunks/chunk-3GP3KT5L.js";
|
|
13
13
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
14
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
14
15
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
15
16
|
import "../chunks/chunk-PFRQBCGC.js";
|
|
16
17
|
import "../chunks/chunk-HMXCN6PG.js";
|
|
@@ -5,14 +5,18 @@ import {
|
|
|
5
5
|
GAP_PX,
|
|
6
6
|
GENE_INK,
|
|
7
7
|
LABELLED_ROW_PX,
|
|
8
|
+
MISSING_INK,
|
|
9
|
+
MISSING_PX,
|
|
8
10
|
OFF_REFERENCE,
|
|
9
11
|
ON_REFERENCE,
|
|
10
12
|
OUTSIDE_CUT,
|
|
11
13
|
UNBACKED_TICK,
|
|
14
|
+
UNKNOWN_GAP,
|
|
12
15
|
alongRow,
|
|
13
16
|
boxesGenes,
|
|
14
17
|
callTickInk,
|
|
15
18
|
coalesceRuns,
|
|
19
|
+
gapStyle,
|
|
16
20
|
genesOnRow,
|
|
17
21
|
placeRowGenes,
|
|
18
22
|
readoutPlacement,
|
|
@@ -25,7 +29,7 @@ import {
|
|
|
25
29
|
walkRowsKey,
|
|
26
30
|
walkRowsKeyTree,
|
|
27
31
|
walkRowsTree
|
|
28
|
-
} from "../chunks/chunk-
|
|
32
|
+
} from "../chunks/chunk-XZ6PQBU6.js";
|
|
29
33
|
import "../chunks/chunk-H2H4Y3TV.js";
|
|
30
34
|
import "../chunks/chunk-SWCULW6S.js";
|
|
31
35
|
import "../chunks/chunk-G2FD7S3C.js";
|
|
@@ -35,6 +39,7 @@ import "../chunks/chunk-3GP3KT5L.js";
|
|
|
35
39
|
import "../chunks/chunk-CRCD3ODN.js";
|
|
36
40
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
37
41
|
import "../chunks/chunk-VX656OAZ.js";
|
|
42
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
38
43
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
39
44
|
import "../chunks/chunk-PFRQBCGC.js";
|
|
40
45
|
import "../chunks/chunk-HMXCN6PG.js";
|
|
@@ -54,14 +59,18 @@ export {
|
|
|
54
59
|
GAP_PX,
|
|
55
60
|
GENE_INK,
|
|
56
61
|
LABELLED_ROW_PX,
|
|
62
|
+
MISSING_INK,
|
|
63
|
+
MISSING_PX,
|
|
57
64
|
OFF_REFERENCE,
|
|
58
65
|
ON_REFERENCE,
|
|
59
66
|
OUTSIDE_CUT,
|
|
60
67
|
UNBACKED_TICK,
|
|
68
|
+
UNKNOWN_GAP,
|
|
61
69
|
alongRow,
|
|
62
70
|
boxesGenes,
|
|
63
71
|
callTickInk,
|
|
64
72
|
coalesceRuns,
|
|
73
|
+
gapStyle,
|
|
65
74
|
genesOnRow,
|
|
66
75
|
placeRowGenes,
|
|
67
76
|
readoutPlacement,
|
|
@@ -4,9 +4,10 @@ import {
|
|
|
4
4
|
walkRowLabels,
|
|
5
5
|
walkRowLayout,
|
|
6
6
|
walkRowsExtent
|
|
7
|
-
} from "../chunks/chunk-
|
|
8
|
-
import "../chunks/chunk-
|
|
7
|
+
} from "../chunks/chunk-OLKXMZ6J.js";
|
|
8
|
+
import "../chunks/chunk-CIDSF47D.js";
|
|
9
9
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
10
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
10
11
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
11
12
|
import "../chunks/chunk-CPMHA4W5.js";
|
|
12
13
|
import "../chunks/chunk-BSOZW3FC.js";
|
package/dist/layout/walkRows.js
CHANGED
|
@@ -2,8 +2,9 @@ import {
|
|
|
2
2
|
filterSamples,
|
|
3
3
|
referenceWalkName,
|
|
4
4
|
walkRows
|
|
5
|
-
} from "../chunks/chunk-
|
|
5
|
+
} from "../chunks/chunk-CIDSF47D.js";
|
|
6
6
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
7
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
7
8
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
8
9
|
import "../chunks/chunk-BSOZW3FC.js";
|
|
9
10
|
import "../chunks/chunk-RJWPJCIB.js";
|
package/dist/layout/walkStrip.js
CHANGED
|
@@ -9,21 +9,22 @@ import {
|
|
|
9
9
|
walkStripApplies,
|
|
10
10
|
walkStripFrame,
|
|
11
11
|
walkStripLabelsTree
|
|
12
|
-
} from "../chunks/chunk-
|
|
12
|
+
} from "../chunks/chunk-TEF3NBG3.js";
|
|
13
13
|
import {
|
|
14
14
|
LABELLED_ROW_PX
|
|
15
|
-
} from "../chunks/chunk-
|
|
15
|
+
} from "../chunks/chunk-XZ6PQBU6.js";
|
|
16
16
|
import "../chunks/chunk-H2H4Y3TV.js";
|
|
17
17
|
import "../chunks/chunk-SWCULW6S.js";
|
|
18
18
|
import "../chunks/chunk-G2FD7S3C.js";
|
|
19
19
|
import "../chunks/chunk-GQZVR5DW.js";
|
|
20
20
|
import "../chunks/chunk-WA5WNP6V.js";
|
|
21
|
-
import "../chunks/chunk-
|
|
22
|
-
import "../chunks/chunk-
|
|
21
|
+
import "../chunks/chunk-OLKXMZ6J.js";
|
|
22
|
+
import "../chunks/chunk-CIDSF47D.js";
|
|
23
23
|
import "../chunks/chunk-3GP3KT5L.js";
|
|
24
24
|
import "../chunks/chunk-CRCD3ODN.js";
|
|
25
25
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
26
26
|
import "../chunks/chunk-VX656OAZ.js";
|
|
27
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
27
28
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
28
29
|
import "../chunks/chunk-PFRQBCGC.js";
|
|
29
30
|
import "../chunks/chunk-HMXCN6PG.js";
|
package/dist/layoutModes.js
CHANGED
|
@@ -4,20 +4,21 @@ import {
|
|
|
4
4
|
LAYOUT_MODE_VALUES,
|
|
5
5
|
layoutModeByValue,
|
|
6
6
|
modeUsesLayoutEngine
|
|
7
|
-
} from "./chunks/chunk-
|
|
8
|
-
import "./chunks/chunk-
|
|
9
|
-
import "./chunks/chunk-FW2R7UDZ.js";
|
|
7
|
+
} from "./chunks/chunk-EDWU7OM4.js";
|
|
8
|
+
import "./chunks/chunk-PK5QQOMN.js";
|
|
10
9
|
import "./chunks/chunk-A7H753BA.js";
|
|
10
|
+
import "./chunks/chunk-GJU6BJJA.js";
|
|
11
11
|
import "./chunks/chunk-GJLZ2MKE.js";
|
|
12
12
|
import "./chunks/chunk-MYLAJDKB.js";
|
|
13
13
|
import "./chunks/chunk-C44YRP5F.js";
|
|
14
14
|
import "./chunks/chunk-UAFATXYA.js";
|
|
15
15
|
import "./chunks/chunk-3GLG3ZLE.js";
|
|
16
|
-
import "./chunks/chunk-
|
|
17
|
-
import "./chunks/chunk-
|
|
16
|
+
import "./chunks/chunk-OLKXMZ6J.js";
|
|
17
|
+
import "./chunks/chunk-CIDSF47D.js";
|
|
18
18
|
import "./chunks/chunk-3GP3KT5L.js";
|
|
19
19
|
import "./chunks/chunk-B5X2RLJG.js";
|
|
20
20
|
import "./chunks/chunk-VX656OAZ.js";
|
|
21
|
+
import "./chunks/chunk-EIY2SKD3.js";
|
|
21
22
|
import "./chunks/chunk-ZPZ7GNBT.js";
|
|
22
23
|
import "./chunks/chunk-PFRQBCGC.js";
|
|
23
24
|
import "./chunks/chunk-HMXCN6PG.js";
|
package/dist/pipeline.js
CHANGED
|
@@ -11,18 +11,19 @@ import {
|
|
|
11
11
|
forceLayout,
|
|
12
12
|
layoutExtent,
|
|
13
13
|
loadGraph
|
|
14
|
-
} from "./chunks/chunk-
|
|
14
|
+
} from "./chunks/chunk-KDU4EF66.js";
|
|
15
15
|
import "./chunks/chunk-3PZSBNLI.js";
|
|
16
16
|
import "./chunks/chunk-CKUVEHSS.js";
|
|
17
17
|
import "./chunks/chunk-OPPVSPEF.js";
|
|
18
18
|
import "./chunks/chunk-VPE4AYP7.js";
|
|
19
|
-
import "./chunks/chunk-
|
|
19
|
+
import "./chunks/chunk-FFHJGWDK.js";
|
|
20
20
|
import "./chunks/chunk-QYBZZI5H.js";
|
|
21
21
|
import "./chunks/chunk-5I3K4R2G.js";
|
|
22
|
-
import "./chunks/chunk-
|
|
22
|
+
import "./chunks/chunk-3XSRT7RQ.js";
|
|
23
23
|
import "./chunks/chunk-B5X2RLJG.js";
|
|
24
24
|
import "./chunks/chunk-VX656OAZ.js";
|
|
25
|
-
import "./chunks/chunk-
|
|
25
|
+
import "./chunks/chunk-DZR37KXT.js";
|
|
26
|
+
import "./chunks/chunk-EIY2SKD3.js";
|
|
26
27
|
import "./chunks/chunk-ZPZ7GNBT.js";
|
|
27
28
|
import "./chunks/chunk-BZFOFC4D.js";
|
|
28
29
|
import "./chunks/chunk-HKYXWZQS.js";
|
package/dist/tubeMap/bundle.js
CHANGED
|
@@ -1,12 +1,13 @@
|
|
|
1
1
|
import {
|
|
2
2
|
bundleRoutes
|
|
3
|
-
} from "../chunks/chunk-
|
|
4
|
-
import "../chunks/chunk-
|
|
3
|
+
} from "../chunks/chunk-BIOKXS3M.js";
|
|
4
|
+
import "../chunks/chunk-PK5QQOMN.js";
|
|
5
5
|
import "../chunks/chunk-A7H753BA.js";
|
|
6
6
|
import "../chunks/chunk-C44YRP5F.js";
|
|
7
|
-
import "../chunks/chunk-
|
|
7
|
+
import "../chunks/chunk-CIDSF47D.js";
|
|
8
8
|
import "../chunks/chunk-3GP3KT5L.js";
|
|
9
9
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
10
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
10
11
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
11
12
|
import "../chunks/chunk-PFRQBCGC.js";
|
|
12
13
|
import "../chunks/chunk-HMXCN6PG.js";
|
package/dist/tubeMap/coarsen.js
CHANGED
|
@@ -1,13 +1,14 @@
|
|
|
1
1
|
import {
|
|
2
2
|
coarsenTubeMap,
|
|
3
3
|
lastAtMost
|
|
4
|
-
} from "../chunks/chunk-
|
|
5
|
-
import "../chunks/chunk-
|
|
4
|
+
} from "../chunks/chunk-EY2ZGSCP.js";
|
|
5
|
+
import "../chunks/chunk-PK5QQOMN.js";
|
|
6
6
|
import "../chunks/chunk-A7H753BA.js";
|
|
7
7
|
import "../chunks/chunk-C44YRP5F.js";
|
|
8
|
-
import "../chunks/chunk-
|
|
8
|
+
import "../chunks/chunk-CIDSF47D.js";
|
|
9
9
|
import "../chunks/chunk-3GP3KT5L.js";
|
|
10
10
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
11
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
11
12
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
12
13
|
import "../chunks/chunk-PFRQBCGC.js";
|
|
13
14
|
import "../chunks/chunk-HMXCN6PG.js";
|
|
@@ -1,18 +1,19 @@
|
|
|
1
1
|
import {
|
|
2
2
|
lastAtMost
|
|
3
|
-
} from "../chunks/chunk-
|
|
3
|
+
} from "../chunks/chunk-EY2ZGSCP.js";
|
|
4
4
|
import {
|
|
5
5
|
boxX,
|
|
6
6
|
referenceBoxes
|
|
7
7
|
} from "../chunks/chunk-HSVFCA2J.js";
|
|
8
|
-
import "../chunks/chunk-
|
|
8
|
+
import "../chunks/chunk-PK5QQOMN.js";
|
|
9
9
|
import "../chunks/chunk-A7H753BA.js";
|
|
10
10
|
import "../chunks/chunk-C44YRP5F.js";
|
|
11
|
-
import "../chunks/chunk-
|
|
11
|
+
import "../chunks/chunk-CIDSF47D.js";
|
|
12
12
|
import "../chunks/chunk-3GP3KT5L.js";
|
|
13
13
|
import {
|
|
14
14
|
pathOrigin
|
|
15
15
|
} from "../chunks/chunk-B5X2RLJG.js";
|
|
16
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
16
17
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
17
18
|
import "../chunks/chunk-PFRQBCGC.js";
|
|
18
19
|
import "../chunks/chunk-HMXCN6PG.js";
|
package/dist/tubeMap/draw.js
CHANGED
|
@@ -8,13 +8,14 @@ import {
|
|
|
8
8
|
tubeMapMismatchAt,
|
|
9
9
|
tubeMapPicture,
|
|
10
10
|
tubeMapTrackAt
|
|
11
|
-
} from "../chunks/chunk-
|
|
12
|
-
import "../chunks/chunk-BX4AUMZE.js";
|
|
11
|
+
} from "../chunks/chunk-L5IETLWP.js";
|
|
13
12
|
import "../chunks/chunk-MYDHU2UV.js";
|
|
13
|
+
import "../chunks/chunk-BX4AUMZE.js";
|
|
14
14
|
import "../chunks/chunk-A7H753BA.js";
|
|
15
15
|
import "../chunks/chunk-C44YRP5F.js";
|
|
16
|
-
import "../chunks/chunk-
|
|
16
|
+
import "../chunks/chunk-CIDSF47D.js";
|
|
17
17
|
import "../chunks/chunk-B5X2RLJG.js";
|
|
18
|
+
import "../chunks/chunk-EIY2SKD3.js";
|
|
18
19
|
import "../chunks/chunk-ZPZ7GNBT.js";
|
|
19
20
|
import "../chunks/chunk-BSOZW3FC.js";
|
|
20
21
|
import "../chunks/chunk-RJWPJCIB.js";
|
|
@@ -1,3 +1,4 @@
|
|
|
1
|
+
import type { WalkStopTable } from './walkStops.js';
|
|
1
2
|
import type { Graph } from '../types.js';
|
|
2
3
|
/**
|
|
3
4
|
* A graph as typed arrays, the shape a worker can hand across postMessage
|
|
@@ -27,6 +28,8 @@ export interface GraphTables {
|
|
|
27
28
|
offsets: Int32Array;
|
|
28
29
|
steps: Int32Array;
|
|
29
30
|
reversed: Uint8Array;
|
|
31
|
+
before?: WalkStopTable;
|
|
32
|
+
after?: WalkStopTable;
|
|
30
33
|
};
|
|
31
34
|
}
|
|
32
35
|
/**
|