@jbrowse/plugin-circular-view 2.0.0 → 2.1.2
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/BaseChordDisplay/components/BaseChordDisplay.js +6 -7
- package/dist/BaseChordDisplay/components/BaseChordDisplay.js.map +1 -1
- package/dist/BaseChordDisplay/components/DisplayError.js +6 -7
- package/dist/BaseChordDisplay/components/DisplayError.js.map +1 -1
- package/dist/BaseChordDisplay/components/Loading.js +14 -32
- package/dist/BaseChordDisplay/components/Loading.js.map +1 -1
- package/dist/BaseChordDisplay/components/RpcRenderedSvgGroup.js +14 -26
- package/dist/BaseChordDisplay/components/RpcRenderedSvgGroup.js.map +1 -1
- package/dist/BaseChordDisplay/models/BaseChordDisplayModel.js +59 -105
- package/dist/BaseChordDisplay/models/BaseChordDisplayModel.js.map +1 -1
- package/dist/BaseChordDisplay/models/baseChordDisplayConfig.js +2 -2
- package/dist/BaseChordDisplay/models/baseChordDisplayConfig.js.map +1 -1
- package/dist/BaseChordDisplay/models/renderReaction.js +34 -99
- package/dist/BaseChordDisplay/models/renderReaction.js.map +1 -1
- package/dist/CircularView/components/CircularView.js +34 -37
- package/dist/CircularView/components/CircularView.js.map +1 -1
- package/dist/CircularView/components/ImportForm.js +21 -38
- package/dist/CircularView/components/ImportForm.js.map +1 -1
- package/dist/CircularView/components/Ruler.js +53 -81
- package/dist/CircularView/components/Ruler.js.map +1 -1
- package/dist/CircularView/models/CircularView.js +104 -143
- package/dist/CircularView/models/CircularView.js.map +1 -1
- package/dist/CircularView/models/slices.js +20 -59
- package/dist/CircularView/models/slices.js.map +1 -1
- package/dist/CircularView/models/viewportVisibleRegion.js +25 -41
- package/dist/CircularView/models/viewportVisibleRegion.js.map +1 -1
- package/dist/index.js +35 -106
- package/dist/index.js.map +1 -1
- package/esm/BaseChordDisplay/components/Loading.js +0 -1
- package/esm/BaseChordDisplay/components/Loading.js.map +1 -1
- package/package.json +3 -4
- package/src/BaseChordDisplay/components/Loading.tsx +0 -1
|
@@ -1,48 +1,32 @@
|
|
|
1
1
|
"use strict";
|
|
2
|
-
var __read = (this && this.__read) || function (o, n) {
|
|
3
|
-
var m = typeof Symbol === "function" && o[Symbol.iterator];
|
|
4
|
-
if (!m) return o;
|
|
5
|
-
var i = m.call(o), r, ar = [], e;
|
|
6
|
-
try {
|
|
7
|
-
while ((n === void 0 || n-- > 0) && !(r = i.next()).done) ar.push(r.value);
|
|
8
|
-
}
|
|
9
|
-
catch (error) { e = { error: error }; }
|
|
10
|
-
finally {
|
|
11
|
-
try {
|
|
12
|
-
if (r && !r.done && (m = i["return"])) m.call(i);
|
|
13
|
-
}
|
|
14
|
-
finally { if (e) throw e.error; }
|
|
15
|
-
}
|
|
16
|
-
return ar;
|
|
17
|
-
};
|
|
18
2
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
19
3
|
exports.viewportVisibleSection = exports.thetaRangesOverlap = exports.cartesianToPolar = void 0;
|
|
20
4
|
function findCircleIntersectionX(y, cx, cy, r, resultArray) {
|
|
21
|
-
|
|
5
|
+
const d = Math.abs(y - cy);
|
|
22
6
|
if (d > r) {
|
|
23
7
|
return;
|
|
24
8
|
}
|
|
25
9
|
if (d === r) {
|
|
26
10
|
resultArray.push([cx, y]);
|
|
27
11
|
}
|
|
28
|
-
|
|
12
|
+
const solution = Math.sqrt(r * r - d * d);
|
|
29
13
|
resultArray.push([cx - solution, y]);
|
|
30
14
|
resultArray.push([cx + solution, y]);
|
|
31
15
|
}
|
|
32
16
|
function findCircleIntersectionY(x, cx, cy, r, resultArray) {
|
|
33
|
-
|
|
17
|
+
const d = Math.abs(x - cx);
|
|
34
18
|
if (d > r) {
|
|
35
19
|
return;
|
|
36
20
|
}
|
|
37
21
|
if (d === r) {
|
|
38
22
|
resultArray.push([x, cy]);
|
|
39
23
|
}
|
|
40
|
-
|
|
24
|
+
const solution = Math.sqrt(r * r - d * d);
|
|
41
25
|
resultArray.push([x, cy - solution]);
|
|
42
26
|
resultArray.push([x, cy + solution]);
|
|
43
27
|
}
|
|
44
28
|
function cartesianToTheta(x, y) {
|
|
45
|
-
|
|
29
|
+
let theta = (Math.atan(y / x) + 2 * Math.PI) % (2 * Math.PI);
|
|
46
30
|
if (x < 0) {
|
|
47
31
|
if (y <= 0) {
|
|
48
32
|
theta += Math.PI;
|
|
@@ -54,15 +38,15 @@ function cartesianToTheta(x, y) {
|
|
|
54
38
|
return theta;
|
|
55
39
|
}
|
|
56
40
|
function cartesianToPolar(x, y) {
|
|
57
|
-
|
|
41
|
+
const rho = Math.sqrt(x * x + y * y);
|
|
58
42
|
if (rho === 0) {
|
|
59
43
|
return [0, 0];
|
|
60
44
|
}
|
|
61
|
-
|
|
45
|
+
const theta = cartesianToTheta(x, y);
|
|
62
46
|
return [rho, theta];
|
|
63
47
|
}
|
|
64
48
|
exports.cartesianToPolar = cartesianToPolar;
|
|
65
|
-
|
|
49
|
+
const twoPi = 2 * Math.PI;
|
|
66
50
|
function thetaRangesOverlap(r1start, r1length, r2start, r2length) {
|
|
67
51
|
if (r1length <= 0 || r2length <= 0) {
|
|
68
52
|
return false;
|
|
@@ -88,25 +72,25 @@ function thetaRangesOverlap(r1start, r1length, r2start, r2length) {
|
|
|
88
72
|
exports.thetaRangesOverlap = thetaRangesOverlap;
|
|
89
73
|
// return which arc range has any part of the circle visible in the viewport
|
|
90
74
|
function viewportVisibleSection(viewSides, circleCenter, circleRadius) {
|
|
91
|
-
|
|
92
|
-
|
|
75
|
+
let [viewL, viewR, viewT, viewB] = viewSides;
|
|
76
|
+
const [cx, cy] = circleCenter;
|
|
93
77
|
// transform coordinate system to center of circle
|
|
94
78
|
viewL -= cx;
|
|
95
79
|
viewR -= cx;
|
|
96
80
|
viewT -= cy;
|
|
97
81
|
viewB -= cy;
|
|
98
|
-
|
|
82
|
+
const centerIsInsideViewport = viewL < 0 && viewR > 0 && viewT < 0 && viewB > 0;
|
|
99
83
|
if (centerIsInsideViewport) {
|
|
100
|
-
|
|
84
|
+
const vertices = [
|
|
101
85
|
[viewL, viewT],
|
|
102
86
|
[viewR, viewT],
|
|
103
87
|
[viewL, viewB],
|
|
104
88
|
[viewR, viewB],
|
|
105
89
|
];
|
|
106
|
-
|
|
107
|
-
for (
|
|
108
|
-
|
|
109
|
-
|
|
90
|
+
let maxRho = -Infinity;
|
|
91
|
+
for (let i = 0; i < vertices.length; i += 1) {
|
|
92
|
+
const [x, y] = vertices[i];
|
|
93
|
+
const rho = Math.sqrt(x * x + y * y);
|
|
110
94
|
if (rho > maxRho) {
|
|
111
95
|
maxRho = rho;
|
|
112
96
|
}
|
|
@@ -171,7 +155,7 @@ function viewportVisibleSection(viewSides, circleCenter, circleRadius) {
|
|
|
171
155
|
// to determine the range covered by their intersection
|
|
172
156
|
// transform coordinates to have the circle as the origin and find the intersections
|
|
173
157
|
// of the circle and the view rectangle
|
|
174
|
-
|
|
158
|
+
const vertices = [
|
|
175
159
|
[viewL, viewT],
|
|
176
160
|
[viewR, viewT],
|
|
177
161
|
[viewL, viewB],
|
|
@@ -197,19 +181,19 @@ function viewportVisibleSection(viewSides, circleCenter, circleRadius) {
|
|
|
197
181
|
// const verticesOriginal = vertices.map(([x, y]) => [x + cx, y + cy])
|
|
198
182
|
// now convert them all to polar and take the max and min of rho and theta
|
|
199
183
|
// const viewportCenterTheta = cartesianToTheta(viewR + viewL, viewT + viewB)
|
|
200
|
-
|
|
184
|
+
const reflect = viewL >= 0 ? -1 : 1;
|
|
201
185
|
// viewportCenterTheta < Math.PI / 2 || viewportCenterTheta > 1.5 * Math.PI
|
|
202
186
|
// ? -1
|
|
203
187
|
// : 1
|
|
204
|
-
|
|
205
|
-
|
|
206
|
-
|
|
207
|
-
|
|
208
|
-
for (
|
|
188
|
+
let rhoMin = Infinity;
|
|
189
|
+
let rhoMax = -Infinity;
|
|
190
|
+
let thetaMin = Infinity;
|
|
191
|
+
let thetaMax = -Infinity;
|
|
192
|
+
for (let i = 0; i < vertices.length; i += 1) {
|
|
209
193
|
// ignore vertex if outside the viewport
|
|
210
|
-
|
|
194
|
+
const [vx, vy] = vertices[i];
|
|
211
195
|
if (vx >= viewL && vx <= viewR && vy >= viewT && vy <= viewB) {
|
|
212
|
-
|
|
196
|
+
const [rho, theta] = cartesianToPolar(vx * reflect, vy * reflect);
|
|
213
197
|
// ignore vertex if outside the circle
|
|
214
198
|
if (rho <= circleRadius + 0.001) {
|
|
215
199
|
// ignore theta if rho is 0
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"viewportVisibleRegion.js","sourceRoot":"","sources":["../../../src/CircularView/models/viewportVisibleRegion.ts"],"names":[],"mappings":"
|
|
1
|
+
{"version":3,"file":"viewportVisibleRegion.js","sourceRoot":"","sources":["../../../src/CircularView/models/viewportVisibleRegion.ts"],"names":[],"mappings":";;;AAAA,SAAS,uBAAuB,CAC9B,CAAS,EACT,EAAU,EACV,EAAU,EACV,CAAS,EACT,WAA+B;IAE/B,MAAM,CAAC,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,EAAE,CAAC,CAAA;IAC1B,IAAI,CAAC,GAAG,CAAC,EAAE;QACT,OAAM;KACP;IACD,IAAI,CAAC,KAAK,CAAC,EAAE;QACX,WAAW,CAAC,IAAI,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,CAAA;KAC1B;IACD,MAAM,QAAQ,GAAG,IAAI,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA;IACzC,WAAW,CAAC,IAAI,CAAC,CAAC,EAAE,GAAG,QAAQ,EAAE,CAAC,CAAC,CAAC,CAAA;IACpC,WAAW,CAAC,IAAI,CAAC,CAAC,EAAE,GAAG,QAAQ,EAAE,CAAC,CAAC,CAAC,CAAA;AACtC,CAAC;AAED,SAAS,uBAAuB,CAC9B,CAAS,EACT,EAAU,EACV,EAAU,EACV,CAAS,EACT,WAA+B;IAE/B,MAAM,CAAC,GAAG,IAAI,CAAC,GAAG,CAAC,CAAC,GAAG,EAAE,CAAC,CAAA;IAC1B,IAAI,CAAC,GAAG,CAAC,EAAE;QACT,OAAM;KACP;IACD,IAAI,CAAC,KAAK,CAAC,EAAE;QACX,WAAW,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAA;KAC1B;IACD,MAAM,QAAQ,GAAG,IAAI,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA;IACzC,WAAW,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,GAAG,QAAQ,CAAC,CAAC,CAAA;IACpC,WAAW,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,EAAE,GAAG,QAAQ,CAAC,CAAC,CAAA;AACtC,CAAC;AAED,SAAS,gBAAgB,CAAC,CAAS,EAAE,CAAS;IAC5C,IAAI,KAAK,GAAG,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,GAAG,IAAI,CAAC,EAAE,CAAC,GAAG,CAAC,CAAC,GAAG,IAAI,CAAC,EAAE,CAAC,CAAA;IAC5D,IAAI,CAAC,GAAG,CAAC,EAAE;QACT,IAAI,CAAC,IAAI,CAAC,EAAE;YACV,KAAK,IAAI,IAAI,CAAC,EAAE,CAAA;SACjB;aAAM;YACL,KAAK,IAAI,IAAI,CAAC,EAAE,CAAA;SACjB;KACF;IACD,OAAO,KAAK,CAAA;AACd,CAAC;AAED,SAAgB,gBAAgB,CAAC,CAAS,EAAE,CAAS;IACnD,MAAM,GAAG,GAAG,IAAI,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA;IACpC,IAAI,GAAG,KAAK,CAAC,EAAE;QACb,OAAO,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;KACd;IACD,MAAM,KAAK,GAAG,gBAAgB,CAAC,CAAC,EAAE,CAAC,CAAC,CAAA;IACpC,OAAO,CAAC,GAAG,EAAE,KAAK,CAAC,CAAA;AACrB,CAAC;AAPD,4CAOC;AAED,MAAM,KAAK,GAAG,CAAC,GAAG,IAAI,CAAC,EAAE,CAAA;AACzB,SAAgB,kBAAkB,CAChC,OAAe,EACf,QAAgB,EAChB,OAAe,EACf,QAAgB;IAEhB,IAAI,QAAQ,IAAI,CAAC,IAAI,QAAQ,IAAI,CAAC,EAAE;QAClC,OAAO,KAAK,CAAA;KACb;IACD,IAAI,QAAQ,GAAG,MAAM,IAAI,KAAK,IAAI,QAAQ,GAAG,MAAM,IAAI,KAAK,EAAE;QAC5D,OAAO,IAAI,CAAA;KACZ;IAED,0CAA0C;IAC1C,OAAO,GAAG,CAAC,CAAC,CAAC,OAAO,GAAG,KAAK,CAAC,GAAG,KAAK,CAAC,GAAG,KAAK,CAAC,GAAG,KAAK,CAAA;IACvD,OAAO,GAAG,CAAC,CAAC,CAAC,OAAO,GAAG,KAAK,CAAC,GAAG,KAAK,CAAC,GAAG,KAAK,CAAC,GAAG,KAAK,CAAA;IAEvD,IAAI,OAAO,GAAG,OAAO,GAAG,QAAQ,IAAI,OAAO,GAAG,QAAQ,GAAG,OAAO,EAAE;QAChE,OAAO,IAAI,CAAA;KACZ;IAED,mCAAmC;IACnC,OAAO,IAAI,KAAK,CAAA;IAChB,IAAI,OAAO,GAAG,OAAO,GAAG,QAAQ,IAAI,OAAO,GAAG,QAAQ,GAAG,OAAO,EAAE;QAChE,OAAO,IAAI,CAAA;KACZ;IAED,oCAAoC;IACpC,OAAO,IAAI,KAAK,GAAG,KAAK,CAAA;IACxB,OAAO,OAAO,GAAG,OAAO,GAAG,QAAQ,IAAI,OAAO,GAAG,QAAQ,GAAG,OAAO,CAAA;AACrE,CAAC;AA9BD,gDA8BC;AAED,4EAA4E;AAC5E,SAAgB,sBAAsB,CACpC,SAA2C,EAC3C,YAA8B,EAC9B,YAAoB;IAEpB,IAAI,CAAC,KAAK,EAAE,KAAK,EAAE,KAAK,EAAE,KAAK,CAAC,GAAG,SAAS,CAAA;IAC5C,MAAM,CAAC,EAAE,EAAE,EAAE,CAAC,GAAG,YAAY,CAAA;IAE7B,kDAAkD;IAClD,KAAK,IAAI,EAAE,CAAA;IACX,KAAK,IAAI,EAAE,CAAA;IACX,KAAK,IAAI,EAAE,CAAA;IACX,KAAK,IAAI,EAAE,CAAA;IAEX,MAAM,sBAAsB,GAC1B,KAAK,GAAG,CAAC,IAAI,KAAK,GAAG,CAAC,IAAI,KAAK,GAAG,CAAC,IAAI,KAAK,GAAG,CAAC,CAAA;IAElD,IAAI,sBAAsB,EAAE;QAC1B,MAAM,QAAQ,GAAG;YACf,CAAC,KAAK,EAAE,KAAK,CAAC;YACd,CAAC,KAAK,EAAE,KAAK,CAAC;YACd,CAAC,KAAK,EAAE,KAAK,CAAC;YACd,CAAC,KAAK,EAAE,KAAK,CAAC;SACf,CAAA;QACD,IAAI,MAAM,GAAG,CAAC,QAAQ,CAAA;QACtB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;YAC3C,MAAM,CAAC,CAAC,EAAE,CAAC,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAA;YAC1B,MAAM,GAAG,GAAG,IAAI,CAAC,IAAI,CAAC,CAAC,GAAG,CAAC,GAAG,CAAC,GAAG,CAAC,CAAC,CAAA;YACpC,IAAI,GAAG,GAAG,MAAM,EAAE;gBAChB,MAAM,GAAG,GAAG,CAAA;aACb;SACF;QACD,OAAO;YACL,GAAG,EAAE,CAAC,CAAC,EAAE,IAAI,CAAC,GAAG,CAAC,YAAY,EAAE,MAAM,CAAC,CAAC;YACxC,KAAK,EAAE,CAAC,CAAC,EAAE,CAAC,GAAG,IAAI,CAAC,EAAE,CAAC;SACxB,CAAA;KACF;IACD,2CAA2C;IAC3C,+CAA+C;IAC/C,+CAA+C;IAC/C,+CAA+C;IAC/C,4CAA4C;IAE5C,0CAA0C;IAC1C,4BAA4B;IAC5B,IAAI;IAEJ,4CAA4C;IAC5C,kCAAkC;IAClC,0BAA0B;IAC1B,mCAAmC;IACnC,IAAI;IACJ,0DAA0D;IAE1D,8EAA8E;IAC9E,8EAA8E;IAC9E,8EAA8E;IAC9E,8EAA8E;IAE9E,0EAA0E;IAC1E,uCAAuC;IAEvC,2CAA2C;IAC3C,iDAAiD;IACjD,0CAA0C;IAC1C,2EAA2E;IAC3E,uCAAuC;IACvC,qBAAqB;IACrB,gCAAgC;IAChC,gCAAgC;IAChC,gCAAgC;IAChC,gCAAgC;IAChC,MAAM;IAEN,sDAAsD;IACtD,IAAI;IAEJ,sEAAsE;IAEtE,4EAA4E;IAC5E,4EAA4E;IAC5E,4EAA4E;IAC5E,4EAA4E;IAE5E,+BAA+B;IAC/B,8BAA8B;IAC9B,8BAA8B;IAC9B,8BAA8B;IAC9B,4BAA4B;IAE5B,0DAA0D;IAC1D,oCAAoC;IACpC,wCAAwC;IACxC,2CAA2C;IAC3C,8DAA8D;IAC9D,2CAA2C;IAC3C,mGAAmG;IACnG,IAAI;IAEJ,6EAA6E;IAC7E,uDAAuD;IAEvD,oFAAoF;IACpF,uCAAuC;IACvC,MAAM,QAAQ,GAAuB;QACnC,CAAC,KAAK,EAAE,KAAK,CAAC;QACd,CAAC,KAAK,EAAE,KAAK,CAAC;QACd,CAAC,KAAK,EAAE,KAAK,CAAC;QACd,CAAC,KAAK,EAAE,KAAK,CAAC;KACf,CAAA;IACD,uBAAuB,CAAC,KAAK,EAAE,CAAC,EAAE,CAAC,EAAE,YAAY,EAAE,QAAQ,CAAC,CAAA;IAC5D,uBAAuB,CAAC,KAAK,EAAE,CAAC,EAAE,CAAC,EAAE,YAAY,EAAE,QAAQ,CAAC,CAAA;IAC5D,uBAAuB,CAAC,KAAK,EAAE,CAAC,EAAE,CAAC,EAAE,YAAY,EAAE,QAAQ,CAAC,CAAA;IAC5D,uBAAuB,CAAC,KAAK,EAAE,CAAC,EAAE,CAAC,EAAE,YAAY,EAAE,QAAQ,CAAC,CAAA;IAE5D,qFAAqF;IACrF,IAAI,CAAC,KAAK,GAAG,YAAY,EAAE;QACzB,QAAQ,CAAC,IAAI,CAAC,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAA;KAC1B;IACD,IAAI,KAAK,GAAG,YAAY,EAAE;QACxB,QAAQ,CAAC,IAAI,CAAC,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAA;KAC1B;IACD,IAAI,CAAC,KAAK,GAAG,YAAY,EAAE;QACzB,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,KAAK,CAAC,CAAC,CAAA;KAC1B;IACD,IAAI,KAAK,GAAG,YAAY,EAAE;QACxB,QAAQ,CAAC,IAAI,CAAC,CAAC,CAAC,EAAE,KAAK,CAAC,CAAC,CAAA;KAC1B;IAED,sEAAsE;IAEtE,0EAA0E;IAE1E,6EAA6E;IAC7E,MAAM,OAAO,GAAG,KAAK,IAAI,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAC,CAAA;IACnC,2EAA2E;IAC3E,SAAS;IACT,QAAQ;IACR,IAAI,MAAM,GAAG,QAAQ,CAAA;IACrB,IAAI,MAAM,GAAG,CAAC,QAAQ,CAAA;IACtB,IAAI,QAAQ,GAAG,QAAQ,CAAA;IACvB,IAAI,QAAQ,GAAG,CAAC,QAAQ,CAAA;IACxB,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,CAAC,MAAM,EAAE,CAAC,IAAI,CAAC,EAAE;QAC3C,wCAAwC;QACxC,MAAM,CAAC,EAAE,EAAE,EAAE,CAAC,GAAG,QAAQ,CAAC,CAAC,CAAC,CAAA;QAC5B,IAAI,EAAE,IAAI,KAAK,IAAI,EAAE,IAAI,KAAK,IAAI,EAAE,IAAI,KAAK,IAAI,EAAE,IAAI,KAAK,EAAE;YAC5D,MAAM,CAAC,GAAG,EAAE,KAAK,CAAC,GAAG,gBAAgB,CAAC,EAAE,GAAG,OAAO,EAAE,EAAE,GAAG,OAAO,CAAC,CAAA;YACjE,sCAAsC;YACtC,IAAI,GAAG,IAAI,YAAY,GAAG,KAAK,EAAE;gBAC/B,2BAA2B;gBAC3B,IAAI,KAAK,GAAG,QAAQ,IAAI,GAAG,GAAG,MAAM,EAAE;oBACpC,QAAQ,GAAG,KAAK,CAAA;iBACjB;gBACD,IAAI,KAAK,GAAG,QAAQ,IAAI,GAAG,GAAG,MAAM,EAAE;oBACpC,QAAQ,GAAG,KAAK,CAAA;iBACjB;gBACD,IAAI,GAAG,GAAG,MAAM,EAAE;oBAChB,MAAM,GAAG,GAAG,CAAA;iBACb;gBACD,IAAI,GAAG,GAAG,MAAM,EAAE;oBAChB,MAAM,GAAG,GAAG,CAAA;iBACb;aACF;SACF;KACF;IAED,IAAI,OAAO,KAAK,CAAC,CAAC,EAAE;QAClB,QAAQ,IAAI,IAAI,CAAC,EAAE,CAAA;QACnB,QAAQ,IAAI,IAAI,CAAC,EAAE,CAAA;KACpB;IAED,IAAI,QAAQ,GAAG,CAAC,GAAG,IAAI,CAAC,EAAE,IAAI,QAAQ,GAAG,CAAC,GAAG,IAAI,CAAC,EAAE,EAAE;QACpD,QAAQ,IAAI,CAAC,GAAG,IAAI,CAAC,EAAE,CAAA;QACvB,QAAQ,IAAI,CAAC,GAAG,IAAI,CAAC,EAAE,CAAA;KACxB;IAED,OAAO;QACL,GAAG,EAAE,CAAC,MAAM,EAAE,IAAI,CAAC,GAAG,CAAC,YAAY,EAAE,MAAM,CAAC,CAAC;QAC7C,KAAK,EAAE,CAAC,QAAQ,EAAE,QAAQ,CAAC;KAC5B,CAAA;AACH,CAAC;AApLD,wDAoLC"}
|
package/dist/index.js
CHANGED
|
@@ -1,19 +1,4 @@
|
|
|
1
1
|
"use strict";
|
|
2
|
-
var __extends = (this && this.__extends) || (function () {
|
|
3
|
-
var extendStatics = function (d, b) {
|
|
4
|
-
extendStatics = Object.setPrototypeOf ||
|
|
5
|
-
({ __proto__: [] } instanceof Array && function (d, b) { d.__proto__ = b; }) ||
|
|
6
|
-
function (d, b) { for (var p in b) if (Object.prototype.hasOwnProperty.call(b, p)) d[p] = b[p]; };
|
|
7
|
-
return extendStatics(d, b);
|
|
8
|
-
};
|
|
9
|
-
return function (d, b) {
|
|
10
|
-
if (typeof b !== "function" && b !== null)
|
|
11
|
-
throw new TypeError("Class extends value " + String(b) + " is not a constructor or null");
|
|
12
|
-
extendStatics(d, b);
|
|
13
|
-
function __() { this.constructor = d; }
|
|
14
|
-
d.prototype = b === null ? Object.create(b) : (__.prototype = b.prototype, new __());
|
|
15
|
-
};
|
|
16
|
-
})();
|
|
17
2
|
var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
|
|
18
3
|
if (k2 === undefined) k2 = k;
|
|
19
4
|
var desc = Object.getOwnPropertyDescriptor(m, k);
|
|
@@ -37,114 +22,58 @@ var __importStar = (this && this.__importStar) || function (mod) {
|
|
|
37
22
|
__setModuleDefault(result, mod);
|
|
38
23
|
return result;
|
|
39
24
|
};
|
|
40
|
-
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
|
|
41
|
-
function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
|
|
42
|
-
return new (P || (P = Promise))(function (resolve, reject) {
|
|
43
|
-
function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
|
|
44
|
-
function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
|
|
45
|
-
function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
|
|
46
|
-
step((generator = generator.apply(thisArg, _arguments || [])).next());
|
|
47
|
-
});
|
|
48
|
-
};
|
|
49
|
-
var __generator = (this && this.__generator) || function (thisArg, body) {
|
|
50
|
-
var _ = { label: 0, sent: function() { if (t[0] & 1) throw t[1]; return t[1]; }, trys: [], ops: [] }, f, y, t, g;
|
|
51
|
-
return g = { next: verb(0), "throw": verb(1), "return": verb(2) }, typeof Symbol === "function" && (g[Symbol.iterator] = function() { return this; }), g;
|
|
52
|
-
function verb(n) { return function (v) { return step([n, v]); }; }
|
|
53
|
-
function step(op) {
|
|
54
|
-
if (f) throw new TypeError("Generator is already executing.");
|
|
55
|
-
while (_) try {
|
|
56
|
-
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;
|
|
57
|
-
if (y = 0, t) op = [op[0] & 2, t.value];
|
|
58
|
-
switch (op[0]) {
|
|
59
|
-
case 0: case 1: t = op; break;
|
|
60
|
-
case 4: _.label++; return { value: op[1], done: false };
|
|
61
|
-
case 5: _.label++; y = op[1]; op = [0]; continue;
|
|
62
|
-
case 7: op = _.ops.pop(); _.trys.pop(); continue;
|
|
63
|
-
default:
|
|
64
|
-
if (!(t = _.trys, t = t.length > 0 && t[t.length - 1]) && (op[0] === 6 || op[0] === 2)) { _ = 0; continue; }
|
|
65
|
-
if (op[0] === 3 && (!t || (op[1] > t[0] && op[1] < t[3]))) { _.label = op[1]; break; }
|
|
66
|
-
if (op[0] === 6 && _.label < t[1]) { _.label = t[1]; t = op; break; }
|
|
67
|
-
if (t && _.label < t[2]) { _.label = t[2]; _.ops.push(op); break; }
|
|
68
|
-
if (t[2]) _.ops.pop();
|
|
69
|
-
_.trys.pop(); continue;
|
|
70
|
-
}
|
|
71
|
-
op = body.call(thisArg, _);
|
|
72
|
-
} catch (e) { op = [6, e]; y = 0; } finally { f = t = 0; }
|
|
73
|
-
if (op[0] & 5) throw op[1]; return { value: op[0] ? op[1] : void 0, done: true };
|
|
74
|
-
}
|
|
75
|
-
};
|
|
76
25
|
var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
77
26
|
return (mod && mod.__esModule) ? mod : { "default": mod };
|
|
78
27
|
};
|
|
79
28
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
80
29
|
exports.BaseChordDisplayComponent = exports.baseChordDisplayConfig = exports.BaseChordDisplayModel = void 0;
|
|
81
|
-
|
|
82
|
-
|
|
83
|
-
|
|
84
|
-
|
|
85
|
-
|
|
86
|
-
|
|
87
|
-
|
|
88
|
-
|
|
89
|
-
|
|
90
|
-
|
|
91
|
-
|
|
92
|
-
_this.name = 'CircularViewPlugin';
|
|
93
|
-
return _this;
|
|
30
|
+
const react_1 = require("react");
|
|
31
|
+
const mobx_1 = require("mobx");
|
|
32
|
+
const util_1 = require("@jbrowse/core/util");
|
|
33
|
+
const Plugin_1 = __importDefault(require("@jbrowse/core/Plugin"));
|
|
34
|
+
const ViewType_1 = __importDefault(require("@jbrowse/core/pluggableElementTypes/ViewType"));
|
|
35
|
+
const DataUsage_1 = __importDefault(require("@mui/icons-material/DataUsage"));
|
|
36
|
+
const CircularView_1 = __importDefault(require("./CircularView/models/CircularView"));
|
|
37
|
+
class CircularViewPlugin extends Plugin_1.default {
|
|
38
|
+
constructor() {
|
|
39
|
+
super(...arguments);
|
|
40
|
+
this.name = 'CircularViewPlugin';
|
|
94
41
|
}
|
|
95
|
-
|
|
96
|
-
|
|
97
|
-
|
|
98
|
-
|
|
99
|
-
|
|
100
|
-
|
|
101
|
-
name: 'CircularView',
|
|
102
|
-
});
|
|
103
|
-
});
|
|
42
|
+
install(pluginManager) {
|
|
43
|
+
pluginManager.addViewType(() => new ViewType_1.default({
|
|
44
|
+
ReactComponent: (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./CircularView/components/CircularView')))),
|
|
45
|
+
stateModel: (0, CircularView_1.default)(pluginManager),
|
|
46
|
+
name: 'CircularView',
|
|
47
|
+
}));
|
|
104
48
|
pluginManager.addToExtensionPoint('LaunchView-CircularView',
|
|
105
49
|
// @ts-ignore
|
|
106
|
-
|
|
107
|
-
|
|
108
|
-
|
|
109
|
-
|
|
110
|
-
|
|
111
|
-
|
|
112
|
-
|
|
113
|
-
|
|
114
|
-
|
|
115
|
-
|
|
116
|
-
|
|
117
|
-
|
|
118
|
-
|
|
119
|
-
throw new Error('No assembly provided when launching circular genome view');
|
|
120
|
-
}
|
|
121
|
-
return [4 /*yield*/, assemblyManager.waitForAssembly(assembly)];
|
|
122
|
-
case 2:
|
|
123
|
-
asm = _c.sent();
|
|
124
|
-
if (!asm) {
|
|
125
|
-
throw new Error("Assembly \"".concat(assembly, "\" not found when launching circular genome view"));
|
|
126
|
-
}
|
|
127
|
-
view.setDisplayedRegions(asm.regions || []);
|
|
128
|
-
tracks.forEach(function (track) { return view.showTrack(track); });
|
|
129
|
-
return [2 /*return*/];
|
|
130
|
-
}
|
|
131
|
-
});
|
|
132
|
-
});
|
|
50
|
+
async ({ session, assembly, loc, tracks = [], }) => {
|
|
51
|
+
const { assemblyManager } = session;
|
|
52
|
+
const view = session.addView('CircularView', {});
|
|
53
|
+
await (0, mobx_1.when)(() => view.initialized);
|
|
54
|
+
if (!assembly) {
|
|
55
|
+
throw new Error('No assembly provided when launching circular genome view');
|
|
56
|
+
}
|
|
57
|
+
const asm = await assemblyManager.waitForAssembly(assembly);
|
|
58
|
+
if (!asm) {
|
|
59
|
+
throw new Error(`Assembly "${assembly}" not found when launching circular genome view`);
|
|
60
|
+
}
|
|
61
|
+
view.setDisplayedRegions(asm.regions || []);
|
|
62
|
+
tracks.forEach(track => view.showTrack(track));
|
|
133
63
|
});
|
|
134
|
-
}
|
|
135
|
-
|
|
64
|
+
}
|
|
65
|
+
configure(pluginManager) {
|
|
136
66
|
if ((0, util_1.isAbstractMenuManager)(pluginManager.rootModel)) {
|
|
137
67
|
pluginManager.rootModel.appendToSubMenu(['Add'], {
|
|
138
68
|
label: 'Circular view',
|
|
139
69
|
icon: DataUsage_1.default,
|
|
140
|
-
onClick:
|
|
70
|
+
onClick: (session) => {
|
|
141
71
|
session.addView('CircularView', {});
|
|
142
72
|
},
|
|
143
73
|
});
|
|
144
74
|
}
|
|
145
|
-
}
|
|
146
|
-
|
|
147
|
-
}(Plugin_1.default));
|
|
75
|
+
}
|
|
76
|
+
}
|
|
148
77
|
exports.default = CircularViewPlugin;
|
|
149
78
|
var BaseChordDisplay_1 = require("./BaseChordDisplay");
|
|
150
79
|
Object.defineProperty(exports, "BaseChordDisplayModel", { enumerable: true, get: function () { return BaseChordDisplay_1.BaseChordDisplayModel; } });
|
package/dist/index.js.map
CHANGED
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"
|
|
1
|
+
{"version":3,"file":"index.js","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":";;;;;;;;;;;;;;;;;;;;;;;;;;;;;AAAA,iCAA4B;AAC5B,+BAA2B;AAC3B,6CAAgF;AAEhF,kEAAyC;AACzC,4FAAmE;AACnE,8EAAyD;AACzD,sFAG2C;AAI3C,MAAqB,kBAAmB,SAAQ,gBAAM;IAAtD;;QACE,SAAI,GAAG,oBAAoB,CAAA;IAgE7B,CAAC;IA9DC,OAAO,CAAC,aAA4B;QAClC,aAAa,CAAC,WAAW,CACvB,GAAG,EAAE,CACH,IAAI,kBAAQ,CAAC;YACX,cAAc,EAAE,IAAA,YAAI,EAClB,GAAG,EAAE,mDAAQ,wCAAwC,GAAC,CACvD;YACD,UAAU,EAAE,IAAA,sBAAiB,EAAC,aAAa,CAAC;YAC5C,IAAI,EAAE,cAAc;SACrB,CAAC,CACL,CAAA;QAED,aAAa,CAAC,mBAAmB,CAC/B,yBAAyB;QACzB,aAAa;QACb,KAAK,EAAE,EACL,OAAO,EACP,QAAQ,EACR,GAAG,EACH,MAAM,GAAG,EAAE,GAMZ,EAAE,EAAE;YACH,MAAM,EAAE,eAAe,EAAE,GAAG,OAAO,CAAA;YACnC,MAAM,IAAI,GAAG,OAAO,CAAC,OAAO,CAAC,cAAc,EAAE,EAAE,CAAQ,CAAA;YAEvD,MAAM,IAAA,WAAI,EAAC,GAAG,EAAE,CAAC,IAAI,CAAC,WAAW,CAAC,CAAA;YAElC,IAAI,CAAC,QAAQ,EAAE;gBACb,MAAM,IAAI,KAAK,CACb,0DAA0D,CAC3D,CAAA;aACF;YAED,MAAM,GAAG,GAAG,MAAM,eAAe,CAAC,eAAe,CAAC,QAAQ,CAAC,CAAA;YAC3D,IAAI,CAAC,GAAG,EAAE;gBACR,MAAM,IAAI,KAAK,CACb,aAAa,QAAQ,iDAAiD,CACvE,CAAA;aACF;YAED,IAAI,CAAC,mBAAmB,CAAC,GAAG,CAAC,OAAO,IAAI,EAAE,CAAC,CAAA;YAE3C,MAAM,CAAC,OAAO,CAAC,KAAK,CAAC,EAAE,CAAC,IAAI,CAAC,SAAS,CAAC,KAAK,CAAC,CAAC,CAAA;QAChD,CAAC,CACF,CAAA;IACH,CAAC;IAED,SAAS,CAAC,aAA4B;QACpC,IAAI,IAAA,4BAAqB,EAAC,aAAa,CAAC,SAAS,CAAC,EAAE;YAClD,aAAa,CAAC,SAAS,CAAC,eAAe,CAAC,CAAC,KAAK,CAAC,EAAE;gBAC/C,KAAK,EAAE,eAAe;gBACtB,IAAI,EAAE,mBAAa;gBACnB,OAAO,EAAE,CAAC,OAA6B,EAAE,EAAE;oBACzC,OAAO,CAAC,OAAO,CAAC,cAAc,EAAE,EAAE,CAAC,CAAA;gBACrC,CAAC;aACF,CAAC,CAAA;SACH;IACH,CAAC;CACF;AAjED,qCAiEC;AAED,uDAI2B;AAHzB,yHAAA,qBAAqB,OAAA;AACrB,0HAAA,sBAAsB,OAAA;AACtB,6HAAA,yBAAyB,OAAA"}
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"Loading.js","sourceRoot":"","sources":["../../../src/BaseChordDisplay/components/Loading.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,SAAS,EAAE,MAAM,OAAO,CAAA;AAClD,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE;IACrC,MAAM,MAAM,GAAG,CAAC,CAAA;IAChB,MAAM,QAAQ,GAAG,GAAG,CAAA;IAEpB,
|
|
1
|
+
{"version":3,"file":"Loading.js","sourceRoot":"","sources":["../../../src/BaseChordDisplay/components/Loading.tsx"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,EAAE,QAAQ,EAAE,SAAS,EAAE,MAAM,OAAO,CAAA;AAClD,OAAO,EAAE,UAAU,EAAE,MAAM,eAAe,CAAA;AAC1C,OAAO,EAAE,QAAQ,EAAE,MAAM,YAAY,CAAA;AAErC,MAAM,SAAS,GAAG,UAAU,EAAE,CAAC,KAAK,CAAC,EAAE;IACrC,MAAM,MAAM,GAAG,CAAC,CAAA;IAChB,MAAM,QAAQ,GAAG,GAAG,CAAA;IAEpB,MAAM,EAAE,OAAO,EAAE,SAAS,EAAE,QAAQ,EAAE,UAAU,EAAE,GAAG,KAAK,CAAC,OAAO,CAAA;IAClE,OAAO;QACL,IAAI,EAAE;YACJ,eAAe,EAAE,GAAG;YACpB,gBAAgB,EAAE,EAAE;YACpB,SAAS,EAAE,SAAS,QAAQ,mCAC1B,QAAQ,GAAG,CACb,wBAAwB;SACzB;QACD,mBAAmB,EAAE;YACnB,IAAI,EAAE;gBACJ,MAAM,EAAE,OAAO,CAAC,KAAK;aACtB;YACD,KAAK,EAAE;gBACL,MAAM,EAAE,SAAS,CAAC,KAAK;aACxB;YACD,KAAK,EAAE;gBACL,MAAM,EAAE,QAAQ,CAAC,KAAK;aACvB;YACD,KAAK,EAAE;gBACL,MAAM,EAAE,UAAU,CAAC,KAAK;aACzB;YACD,MAAM,EAAE;gBACN,MAAM,EAAE,OAAO,CAAC,KAAK;aACtB;SACF;QACD,iBAAiB,EAAE;YACjB,IAAI,EAAE;gBACJ,gBAAgB,EAAE,MAAM;aACzB;YACD,KAAK,EAAE;gBACL,gBAAgB,EAAE,MAAM,GAAG,CAAC;gBAC5B,SAAS,EAAE,gBAAgB;aAC5B;YACD,MAAM,EAAE;gBACN,gBAAgB,EAAE,MAAM;gBACxB,SAAS,EAAE,gBAAgB;aAC5B;SACF;KACF,CAAA;AACH,CAAC,CAAC,CAAA;AAEF,yHAAyH;AACzH,MAAM,OAAO,GAAG,QAAQ,CACtB,CAAC,EACC,KAAK,EAAE,EACL,WAAW,EAAE,EAAE,MAAM,EAAE,GACxB,GAGF,EAAE,EAAE;IACH,MAAM,EAAE,OAAO,EAAE,GAAG,SAAS,EAAE,CAAA;IAE/B,4EAA4E;IAC5E,MAAM,CAAC,KAAK,EAAE,QAAQ,CAAC,GAAG,QAAQ,CAAC,KAAK,CAAC,CAAA;IACzC,SAAS,CAAC,GAAG,EAAE;QACb,MAAM,OAAO,GAAG,UAAU,CAAC,GAAG,EAAE,CAAC,QAAQ,CAAC,IAAI,CAAC,EAAE,GAAG,CAAC,CAAA;QACrD,OAAO,GAAG,EAAE,CAAC,YAAY,CAAC,OAAO,CAAC,CAAA;IACpC,CAAC,CAAC,CAAA;IAEF,OAAO,CAAC,KAAK,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CACrB;QACE;YACE,iCACE,EAAE,EAAC,eAAe,EAClB,KAAK,EAAC,IAAI,EACV,MAAM,EAAC,IAAI,EACX,gBAAgB,EAAC,gBAAgB,EACjC,YAAY,EAAC,gBAAgB;gBAE7B,8BACE,EAAE,EAAC,GAAG,EACN,EAAE,EAAC,GAAG,EACN,EAAE,EAAC,GAAG,EACN,EAAE,EAAC,IAAI,EACP,KAAK,EAAE,EAAE,MAAM,EAAE,uBAAuB,EAAE,WAAW,EAAE,EAAE,EAAE,GAC3D,CACM,CACL;QACP,gCAAQ,EAAE,EAAC,GAAG,EAAC,EAAE,EAAC,GAAG,EAAC,CAAC,EAAE,MAAM,EAAE,IAAI,EAAC,SAAS,GAAG;QAClD,gCAAQ,EAAE,EAAC,GAAG,EAAC,EAAE,EAAC,GAAG,EAAC,CAAC,EAAE,MAAM,EAAE,IAAI,EAAC,qBAAqB,GAAG;QAC9D,8BACE,CAAC,EAAC,GAAG,EACL,CAAC,EAAC,GAAG,EACL,SAAS,EAAC,gBAAgB,EAC1B,gBAAgB,EAAC,QAAQ,EACzB,UAAU,EAAC,QAAQ,oBAGd;QACP,gCACE,SAAS,EAAE,OAAO,CAAC,IAAI,EACvB,IAAI,EAAC,MAAM,EACX,WAAW,EAAC,GAAG,EACf,aAAa,EAAC,OAAO,EACrB,EAAE,EAAC,GAAG,EACN,EAAE,EAAC,GAAG,EACN,CAAC,EAAC,IAAI,GACN,CACA,CACL,CAAA;AACH,CAAC,CACF,CAAA;AAED,eAAe,OAAO,CAAA"}
|
package/package.json
CHANGED
|
@@ -1,6 +1,6 @@
|
|
|
1
1
|
{
|
|
2
2
|
"name": "@jbrowse/plugin-circular-view",
|
|
3
|
-
"version": "2.
|
|
3
|
+
"version": "2.1.2",
|
|
4
4
|
"description": "JBrowse 2 circular view",
|
|
5
5
|
"keywords": [
|
|
6
6
|
"jbrowse",
|
|
@@ -37,11 +37,10 @@
|
|
|
37
37
|
"clean": "rimraf dist esm *.tsbuildinfo"
|
|
38
38
|
},
|
|
39
39
|
"dependencies": {
|
|
40
|
-
"@babel/runtime": "^7.17.9",
|
|
41
40
|
"@mui/icons-material": "^5.0.1"
|
|
42
41
|
},
|
|
43
42
|
"peerDependencies": {
|
|
44
|
-
"@jbrowse/core": "^
|
|
43
|
+
"@jbrowse/core": "^2.0.0",
|
|
45
44
|
"@mui/material": "^5.0.0",
|
|
46
45
|
"mobx": "^6.0.0",
|
|
47
46
|
"mobx-react": "^7.0.0",
|
|
@@ -56,5 +55,5 @@
|
|
|
56
55
|
"distModule": "esm/index.js",
|
|
57
56
|
"srcModule": "src/index.ts",
|
|
58
57
|
"module": "esm/index.js",
|
|
59
|
-
"gitHead": "
|
|
58
|
+
"gitHead": "449b17325c9a4a97181f7ddddf48e80219f03b8d"
|
|
60
59
|
}
|