@jbrowse/plugin-alignments 2.1.0 → 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/AlignmentsFeatureDetail/AlignmentsFeatureDetail.js +61 -90
- package/dist/AlignmentsFeatureDetail/AlignmentsFeatureDetail.js.map +1 -1
- package/dist/AlignmentsFeatureDetail/index.js +14 -16
- package/dist/AlignmentsFeatureDetail/index.js.map +1 -1
- package/dist/AlignmentsTrack/index.js +8 -8
- package/dist/AlignmentsTrack/index.js.map +1 -1
- package/dist/BamAdapter/BamAdapter.js +157 -336
- package/dist/BamAdapter/BamAdapter.js.map +1 -1
- package/dist/BamAdapter/BamSlightlyLazyFeature.js +68 -103
- package/dist/BamAdapter/BamSlightlyLazyFeature.js.map +1 -1
- package/dist/BamAdapter/MismatchParser.js +96 -162
- package/dist/BamAdapter/MismatchParser.js.map +1 -1
- package/dist/BamAdapter/configSchema.js +27 -29
- package/dist/BamAdapter/configSchema.js.map +1 -1
- package/dist/BamAdapter/index.js +9 -11
- package/dist/BamAdapter/index.js.map +1 -1
- package/dist/CramAdapter/CramAdapter.js +193 -351
- package/dist/CramAdapter/CramAdapter.js.map +1 -1
- package/dist/CramAdapter/CramSlightlyLazyFeature.js +119 -154
- package/dist/CramAdapter/CramSlightlyLazyFeature.js.map +1 -1
- package/dist/CramAdapter/CramTestAdapters.js +51 -148
- package/dist/CramAdapter/CramTestAdapters.js.map +1 -1
- package/dist/CramAdapter/configSchema.js +23 -25
- package/dist/CramAdapter/configSchema.js.map +1 -1
- package/dist/CramAdapter/index.js +9 -11
- package/dist/CramAdapter/index.js.map +1 -1
- package/dist/HtsgetBamAdapter/HtsgetBamAdapter.js +25 -87
- package/dist/HtsgetBamAdapter/HtsgetBamAdapter.js.map +1 -1
- package/dist/HtsgetBamAdapter/configSchema.js +16 -18
- package/dist/HtsgetBamAdapter/configSchema.js.map +1 -1
- package/dist/HtsgetBamAdapter/index.js +15 -19
- package/dist/HtsgetBamAdapter/index.js.map +1 -1
- package/dist/LinearAlignmentsDisplay/components/AlignmentsDisplay.js +14 -15
- package/dist/LinearAlignmentsDisplay/components/AlignmentsDisplay.js.map +1 -1
- package/dist/LinearAlignmentsDisplay/index.js +7 -7
- package/dist/LinearAlignmentsDisplay/index.js.map +1 -1
- package/dist/LinearAlignmentsDisplay/models/configSchema.js +5 -5
- package/dist/LinearAlignmentsDisplay/models/configSchema.js.map +1 -1
- package/dist/LinearAlignmentsDisplay/models/model.js +64 -140
- package/dist/LinearAlignmentsDisplay/models/model.js.map +1 -1
- package/dist/LinearPileupDisplay/components/ColorByModifications.js +24 -53
- package/dist/LinearPileupDisplay/components/ColorByModifications.js.map +1 -1
- package/dist/LinearPileupDisplay/components/ColorByTag.js +14 -30
- package/dist/LinearPileupDisplay/components/ColorByTag.js.map +1 -1
- package/dist/LinearPileupDisplay/components/FilterByTag.js +33 -49
- package/dist/LinearPileupDisplay/components/FilterByTag.js.map +1 -1
- package/dist/LinearPileupDisplay/components/LinearPileupDisplayBlurb.js +7 -7
- package/dist/LinearPileupDisplay/components/LinearPileupDisplayBlurb.js.map +1 -1
- package/dist/LinearPileupDisplay/components/SetFeatureHeight.js +17 -33
- package/dist/LinearPileupDisplay/components/SetFeatureHeight.js.map +1 -1
- package/dist/LinearPileupDisplay/components/SetMaxHeight.js +14 -30
- package/dist/LinearPileupDisplay/components/SetMaxHeight.js.map +1 -1
- package/dist/LinearPileupDisplay/components/SortByTag.js +14 -30
- package/dist/LinearPileupDisplay/components/SortByTag.js.map +1 -1
- package/dist/LinearPileupDisplay/configSchema.js +4 -4
- package/dist/LinearPileupDisplay/configSchema.js.map +1 -1
- package/dist/LinearPileupDisplay/index.js +7 -7
- package/dist/LinearPileupDisplay/index.js.map +1 -1
- package/dist/LinearPileupDisplay/model.d.ts +2 -2
- package/dist/LinearPileupDisplay/model.js +534 -644
- package/dist/LinearPileupDisplay/model.js.map +1 -1
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.d.ts +1 -1
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.js +30 -78
- package/dist/LinearSNPCoverageDisplay/components/Tooltip.js.map +1 -1
- package/dist/LinearSNPCoverageDisplay/index.js +7 -7
- package/dist/LinearSNPCoverageDisplay/index.js.map +1 -1
- package/dist/LinearSNPCoverageDisplay/models/configSchema.js +4 -4
- package/dist/LinearSNPCoverageDisplay/models/configSchema.js.map +1 -1
- package/dist/LinearSNPCoverageDisplay/models/model.d.ts +1 -1
- package/dist/LinearSNPCoverageDisplay/models/model.js +170 -244
- package/dist/LinearSNPCoverageDisplay/models/model.js.map +1 -1
- package/dist/NestedFrequencyTable.js +27 -40
- package/dist/NestedFrequencyTable.js.map +1 -1
- package/dist/PileupRPC/rpcMethods.js +63 -191
- package/dist/PileupRPC/rpcMethods.js.map +1 -1
- package/dist/PileupRenderer/PileupLayoutSession.js +25 -47
- package/dist/PileupRenderer/PileupLayoutSession.js.map +1 -1
- package/dist/PileupRenderer/PileupRenderer.js +395 -529
- package/dist/PileupRenderer/PileupRenderer.js.map +1 -1
- package/dist/PileupRenderer/components/PileupRendering.js +41 -68
- package/dist/PileupRenderer/components/PileupRendering.js.map +1 -1
- package/dist/PileupRenderer/configSchema.js +2 -2
- package/dist/PileupRenderer/configSchema.js.map +1 -1
- package/dist/PileupRenderer/index.js +9 -11
- package/dist/PileupRenderer/index.js.map +1 -1
- package/dist/PileupRenderer/sortUtil.js +36 -40
- package/dist/PileupRenderer/sortUtil.js.map +1 -1
- package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js +229 -415
- package/dist/SNPCoverageAdapter/SNPCoverageAdapter.js.map +1 -1
- package/dist/SNPCoverageAdapter/configSchema.js +5 -9
- package/dist/SNPCoverageAdapter/configSchema.js.map +1 -1
- package/dist/SNPCoverageAdapter/index.js +17 -21
- package/dist/SNPCoverageAdapter/index.js.map +1 -1
- package/dist/SNPCoverageRenderer/SNPCoverageRenderer.js +175 -259
- package/dist/SNPCoverageRenderer/SNPCoverageRenderer.js.map +1 -1
- package/dist/SNPCoverageRenderer/configSchema.js +1 -1
- package/dist/SNPCoverageRenderer/configSchema.js.map +1 -1
- package/dist/SNPCoverageRenderer/index.js +10 -12
- package/dist/SNPCoverageRenderer/index.js.map +1 -1
- package/dist/index.js +40 -58
- package/dist/index.js.map +1 -1
- package/dist/shared.js +23 -78
- package/dist/shared.js.map +1 -1
- package/dist/util.js +13 -66
- package/dist/util.js.map +1 -1
- package/esm/LinearPileupDisplay/model.d.ts +2 -2
- package/esm/LinearSNPCoverageDisplay/models/model.d.ts +1 -1
- package/esm/PileupRenderer/PileupRenderer.js +0 -2
- package/esm/PileupRenderer/PileupRenderer.js.map +1 -1
- package/esm/SNPCoverageRenderer/SNPCoverageRenderer.js +0 -1
- package/esm/SNPCoverageRenderer/SNPCoverageRenderer.js.map +1 -1
- package/package.json +2 -3
- package/src/AlignmentsFeatureDetail/__snapshots__/index.test.js.snap +12 -12
- package/src/PileupRenderer/PileupRenderer.tsx +0 -2
- package/src/SNPCoverageRenderer/SNPCoverageRenderer.ts +0 -1
|
@@ -1,265 +1,191 @@
|
|
|
1
1
|
"use strict";
|
|
2
|
-
var __assign = (this && this.__assign) || function () {
|
|
3
|
-
__assign = Object.assign || function(t) {
|
|
4
|
-
for (var s, i = 1, n = arguments.length; i < n; i++) {
|
|
5
|
-
s = arguments[i];
|
|
6
|
-
for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p))
|
|
7
|
-
t[p] = s[p];
|
|
8
|
-
}
|
|
9
|
-
return t;
|
|
10
|
-
};
|
|
11
|
-
return __assign.apply(this, arguments);
|
|
12
|
-
};
|
|
13
|
-
var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
|
|
14
|
-
function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
|
|
15
|
-
return new (P || (P = Promise))(function (resolve, reject) {
|
|
16
|
-
function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
|
|
17
|
-
function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
|
|
18
|
-
function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
|
|
19
|
-
step((generator = generator.apply(thisArg, _arguments || [])).next());
|
|
20
|
-
});
|
|
21
|
-
};
|
|
22
|
-
var __generator = (this && this.__generator) || function (thisArg, body) {
|
|
23
|
-
var _ = { label: 0, sent: function() { if (t[0] & 1) throw t[1]; return t[1]; }, trys: [], ops: [] }, f, y, t, g;
|
|
24
|
-
return g = { next: verb(0), "throw": verb(1), "return": verb(2) }, typeof Symbol === "function" && (g[Symbol.iterator] = function() { return this; }), g;
|
|
25
|
-
function verb(n) { return function (v) { return step([n, v]); }; }
|
|
26
|
-
function step(op) {
|
|
27
|
-
if (f) throw new TypeError("Generator is already executing.");
|
|
28
|
-
while (_) try {
|
|
29
|
-
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;
|
|
30
|
-
if (y = 0, t) op = [op[0] & 2, t.value];
|
|
31
|
-
switch (op[0]) {
|
|
32
|
-
case 0: case 1: t = op; break;
|
|
33
|
-
case 4: _.label++; return { value: op[1], done: false };
|
|
34
|
-
case 5: _.label++; y = op[1]; op = [0]; continue;
|
|
35
|
-
case 7: op = _.ops.pop(); _.trys.pop(); continue;
|
|
36
|
-
default:
|
|
37
|
-
if (!(t = _.trys, t = t.length > 0 && t[t.length - 1]) && (op[0] === 6 || op[0] === 2)) { _ = 0; continue; }
|
|
38
|
-
if (op[0] === 3 && (!t || (op[1] > t[0] && op[1] < t[3]))) { _.label = op[1]; break; }
|
|
39
|
-
if (op[0] === 6 && _.label < t[1]) { _.label = t[1]; t = op; break; }
|
|
40
|
-
if (t && _.label < t[2]) { _.label = t[2]; _.ops.push(op); break; }
|
|
41
|
-
if (t[2]) _.ops.pop();
|
|
42
|
-
_.trys.pop(); continue;
|
|
43
|
-
}
|
|
44
|
-
op = body.call(thisArg, _);
|
|
45
|
-
} catch (e) { op = [6, e]; y = 0; } finally { f = t = 0; }
|
|
46
|
-
if (op[0] & 5) throw op[1]; return { value: op[0] ? op[1] : void 0, done: true };
|
|
47
|
-
}
|
|
48
|
-
};
|
|
49
|
-
var __read = (this && this.__read) || function (o, n) {
|
|
50
|
-
var m = typeof Symbol === "function" && o[Symbol.iterator];
|
|
51
|
-
if (!m) return o;
|
|
52
|
-
var i = m.call(o), r, ar = [], e;
|
|
53
|
-
try {
|
|
54
|
-
while ((n === void 0 || n-- > 0) && !(r = i.next()).done) ar.push(r.value);
|
|
55
|
-
}
|
|
56
|
-
catch (error) { e = { error: error }; }
|
|
57
|
-
finally {
|
|
58
|
-
try {
|
|
59
|
-
if (r && !r.done && (m = i["return"])) m.call(i);
|
|
60
|
-
}
|
|
61
|
-
finally { if (e) throw e.error; }
|
|
62
|
-
}
|
|
63
|
-
return ar;
|
|
64
|
-
};
|
|
65
|
-
var __spreadArray = (this && this.__spreadArray) || function (to, from, pack) {
|
|
66
|
-
if (pack || arguments.length === 2) for (var i = 0, l = from.length, ar; i < l; i++) {
|
|
67
|
-
if (ar || !(i in from)) {
|
|
68
|
-
if (!ar) ar = Array.prototype.slice.call(from, 0, i);
|
|
69
|
-
ar[i] = from[i];
|
|
70
|
-
}
|
|
71
|
-
}
|
|
72
|
-
return to.concat(ar || Array.prototype.slice.call(from));
|
|
73
|
-
};
|
|
74
2
|
var __importDefault = (this && this.__importDefault) || function (mod) {
|
|
75
3
|
return (mod && mod.__esModule) ? mod : { "default": mod };
|
|
76
4
|
};
|
|
77
5
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
78
|
-
|
|
79
|
-
|
|
80
|
-
|
|
81
|
-
|
|
82
|
-
|
|
6
|
+
const mobx_state_tree_1 = require("mobx-state-tree");
|
|
7
|
+
const mobx_1 = require("mobx");
|
|
8
|
+
const configuration_1 = require("@jbrowse/core/configuration");
|
|
9
|
+
const plugin_wiggle_1 = require("@jbrowse/plugin-wiggle");
|
|
10
|
+
const util_1 = require("@jbrowse/core/util");
|
|
83
11
|
// locals
|
|
84
|
-
|
|
85
|
-
|
|
12
|
+
const Tooltip_1 = __importDefault(require("../components/Tooltip"));
|
|
13
|
+
const shared_1 = require("../../shared");
|
|
86
14
|
// using a map because it preserves order
|
|
87
|
-
|
|
88
|
-
|
|
89
|
-
|
|
90
|
-
|
|
91
|
-
|
|
92
|
-
|
|
93
|
-
|
|
94
|
-
|
|
95
|
-
|
|
96
|
-
|
|
97
|
-
|
|
98
|
-
|
|
99
|
-
|
|
100
|
-
|
|
101
|
-
|
|
102
|
-
|
|
103
|
-
|
|
104
|
-
|
|
105
|
-
|
|
106
|
-
|
|
107
|
-
|
|
108
|
-
|
|
109
|
-
|
|
110
|
-
|
|
111
|
-
|
|
15
|
+
const rendererTypes = new Map([['snpcoverage', 'SNPCoverageRenderer']]);
|
|
16
|
+
const stateModelFactory = (pluginManager, configSchema) => mobx_state_tree_1.types
|
|
17
|
+
.compose('LinearSNPCoverageDisplay', (0, plugin_wiggle_1.linearWiggleDisplayModelFactory)(pluginManager, configSchema), mobx_state_tree_1.types.model({
|
|
18
|
+
type: mobx_state_tree_1.types.literal('LinearSNPCoverageDisplay'),
|
|
19
|
+
drawInterbaseCounts: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.boolean),
|
|
20
|
+
drawIndicators: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.boolean),
|
|
21
|
+
drawArcs: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.boolean),
|
|
22
|
+
filterBy: mobx_state_tree_1.types.optional(mobx_state_tree_1.types.model({
|
|
23
|
+
flagInclude: mobx_state_tree_1.types.optional(mobx_state_tree_1.types.number, 0),
|
|
24
|
+
flagExclude: mobx_state_tree_1.types.optional(mobx_state_tree_1.types.number, 1540),
|
|
25
|
+
readName: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.string),
|
|
26
|
+
tagFilter: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.model({ tag: mobx_state_tree_1.types.string, value: mobx_state_tree_1.types.string })),
|
|
27
|
+
}), {}),
|
|
28
|
+
colorBy: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.model({
|
|
29
|
+
type: mobx_state_tree_1.types.string,
|
|
30
|
+
tag: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.string),
|
|
31
|
+
})),
|
|
32
|
+
}))
|
|
33
|
+
.volatile(() => ({
|
|
34
|
+
modificationTagMap: mobx_1.observable.map({}),
|
|
35
|
+
}))
|
|
36
|
+
.actions(self => ({
|
|
37
|
+
setConfig(configuration) {
|
|
38
|
+
self.configuration = configuration;
|
|
39
|
+
},
|
|
40
|
+
setFilterBy(filter) {
|
|
41
|
+
self.filterBy = (0, mobx_state_tree_1.cast)(filter);
|
|
42
|
+
},
|
|
43
|
+
setColorBy(colorBy) {
|
|
44
|
+
self.colorBy = (0, mobx_state_tree_1.cast)(colorBy);
|
|
45
|
+
},
|
|
46
|
+
updateModificationColorMap(uniqueModifications) {
|
|
47
|
+
const colorPalette = ['red', 'blue', 'green', 'orange', 'purple'];
|
|
48
|
+
let i = 0;
|
|
49
|
+
uniqueModifications.forEach(value => {
|
|
50
|
+
if (!self.modificationTagMap.has(value)) {
|
|
51
|
+
const newColor = colorPalette[i++];
|
|
52
|
+
self.modificationTagMap.set(value, newColor);
|
|
53
|
+
}
|
|
54
|
+
});
|
|
55
|
+
},
|
|
56
|
+
}))
|
|
57
|
+
.views(self => {
|
|
58
|
+
const { renderProps: superRenderProps } = self;
|
|
59
|
+
return {
|
|
60
|
+
get rendererConfig() {
|
|
61
|
+
var _a, _b, _c;
|
|
62
|
+
const configBlob = (0, configuration_1.getConf)(self, ['renderers', self.rendererTypeName]) || {};
|
|
63
|
+
return self.rendererType.configSchema.create({
|
|
64
|
+
...configBlob,
|
|
65
|
+
drawInterbaseCounts: (_a = self.drawInterbaseCounts) !== null && _a !== void 0 ? _a : configBlob.drawInterbaseCounts,
|
|
66
|
+
drawIndicators: (_b = self.drawIndicators) !== null && _b !== void 0 ? _b : configBlob.drawIndicators,
|
|
67
|
+
drawArcs: (_c = self.drawArcs) !== null && _c !== void 0 ? _c : configBlob.drawArcs,
|
|
68
|
+
}, (0, mobx_state_tree_1.getEnv)(self));
|
|
69
|
+
},
|
|
70
|
+
get drawArcsSetting() {
|
|
71
|
+
var _a;
|
|
72
|
+
return ((_a = self.drawArcs) !== null && _a !== void 0 ? _a : (0, configuration_1.readConfObject)(this.rendererConfig, 'drawArcs'));
|
|
73
|
+
},
|
|
74
|
+
get drawInterbaseCountsSetting() {
|
|
75
|
+
var _a;
|
|
76
|
+
return ((_a = self.drawInterbaseCounts) !== null && _a !== void 0 ? _a : (0, configuration_1.readConfObject)(this.rendererConfig, 'drawInterbaseCounts'));
|
|
112
77
|
},
|
|
113
|
-
|
|
114
|
-
|
|
78
|
+
get drawIndicatorsSetting() {
|
|
79
|
+
var _a;
|
|
80
|
+
return ((_a = self.drawIndicators) !== null && _a !== void 0 ? _a : (0, configuration_1.readConfObject)(this.rendererConfig, 'drawIndicators'));
|
|
115
81
|
},
|
|
116
|
-
|
|
117
|
-
|
|
82
|
+
get modificationsReady() {
|
|
83
|
+
var _a;
|
|
84
|
+
return ((_a = self.colorBy) === null || _a === void 0 ? void 0 : _a.type) === 'modifications'
|
|
85
|
+
? Object.keys(JSON.parse(JSON.stringify(self.modificationTagMap)))
|
|
86
|
+
.length > 0
|
|
87
|
+
: true;
|
|
118
88
|
},
|
|
119
|
-
|
|
120
|
-
|
|
121
|
-
|
|
122
|
-
|
|
123
|
-
|
|
124
|
-
|
|
125
|
-
|
|
89
|
+
renderProps() {
|
|
90
|
+
const superProps = superRenderProps();
|
|
91
|
+
const { colorBy, filterBy, modificationTagMap } = self;
|
|
92
|
+
return {
|
|
93
|
+
...superProps,
|
|
94
|
+
notReady: superProps.notReady || !this.modificationsReady,
|
|
95
|
+
modificationTagMap: Object.fromEntries(modificationTagMap.toJSON()),
|
|
96
|
+
// must use getSnapshot because otherwise changes to e.g. just the
|
|
97
|
+
// colorBy.type are not read
|
|
98
|
+
colorBy: colorBy ? (0, mobx_state_tree_1.getSnapshot)(colorBy) : undefined,
|
|
99
|
+
filterBy: filterBy ? (0, mobx_state_tree_1.getSnapshot)(filterBy) : undefined,
|
|
100
|
+
};
|
|
101
|
+
},
|
|
102
|
+
};
|
|
103
|
+
})
|
|
104
|
+
.actions(self => ({
|
|
105
|
+
toggleDrawIndicators() {
|
|
106
|
+
self.drawIndicators = !self.drawIndicatorsSetting;
|
|
107
|
+
},
|
|
108
|
+
toggleDrawInterbaseCounts() {
|
|
109
|
+
self.drawInterbaseCounts = !self.drawInterbaseCountsSetting;
|
|
110
|
+
},
|
|
111
|
+
toggleDrawArcs() {
|
|
112
|
+
self.drawArcs = !self.drawArcsSetting;
|
|
113
|
+
},
|
|
114
|
+
afterAttach() {
|
|
115
|
+
(0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(async () => {
|
|
116
|
+
try {
|
|
117
|
+
const { colorBy } = self;
|
|
118
|
+
const { staticBlocks } = (0, util_1.getContainingView)(self);
|
|
119
|
+
if (!self.estimatedStatsReady) {
|
|
120
|
+
return;
|
|
121
|
+
}
|
|
122
|
+
if (self.regionTooLarge) {
|
|
123
|
+
return;
|
|
126
124
|
}
|
|
127
|
-
|
|
125
|
+
if ((colorBy === null || colorBy === void 0 ? void 0 : colorBy.type) === 'modifications') {
|
|
126
|
+
const vals = await (0, shared_1.getUniqueModificationValues)(self, (0, configuration_1.getConf)(self.parentTrack, 'adapter'), colorBy, staticBlocks);
|
|
127
|
+
self.updateModificationColorMap(vals);
|
|
128
|
+
}
|
|
129
|
+
}
|
|
130
|
+
catch (error) {
|
|
131
|
+
console.error(error);
|
|
132
|
+
self.setError(error);
|
|
133
|
+
}
|
|
134
|
+
}, { delay: 1000 }));
|
|
135
|
+
},
|
|
136
|
+
}))
|
|
137
|
+
.views(self => {
|
|
138
|
+
const { trackMenuItems: superTrackMenuItems } = self;
|
|
139
|
+
return {
|
|
140
|
+
get TooltipComponent() {
|
|
141
|
+
return Tooltip_1.default;
|
|
128
142
|
},
|
|
129
|
-
|
|
130
|
-
|
|
131
|
-
|
|
132
|
-
|
|
133
|
-
|
|
134
|
-
|
|
135
|
-
var configBlob = (0, configuration_1.getConf)(self, ['renderers', self.rendererTypeName]) || {};
|
|
136
|
-
return self.rendererType.configSchema.create(__assign(__assign({}, configBlob), { drawInterbaseCounts: (_a = self.drawInterbaseCounts) !== null && _a !== void 0 ? _a : configBlob.drawInterbaseCounts, drawIndicators: (_b = self.drawIndicators) !== null && _b !== void 0 ? _b : configBlob.drawIndicators, drawArcs: (_c = self.drawArcs) !== null && _c !== void 0 ? _c : configBlob.drawArcs }), (0, mobx_state_tree_1.getEnv)(self));
|
|
137
|
-
},
|
|
138
|
-
get drawArcsSetting() {
|
|
139
|
-
var _a;
|
|
140
|
-
return ((_a = self.drawArcs) !== null && _a !== void 0 ? _a : (0, configuration_1.readConfObject)(this.rendererConfig, 'drawArcs'));
|
|
141
|
-
},
|
|
142
|
-
get drawInterbaseCountsSetting() {
|
|
143
|
-
var _a;
|
|
144
|
-
return ((_a = self.drawInterbaseCounts) !== null && _a !== void 0 ? _a : (0, configuration_1.readConfObject)(this.rendererConfig, 'drawInterbaseCounts'));
|
|
145
|
-
},
|
|
146
|
-
get drawIndicatorsSetting() {
|
|
147
|
-
var _a;
|
|
148
|
-
return ((_a = self.drawIndicators) !== null && _a !== void 0 ? _a : (0, configuration_1.readConfObject)(this.rendererConfig, 'drawIndicators'));
|
|
149
|
-
},
|
|
150
|
-
get modificationsReady() {
|
|
151
|
-
var _a;
|
|
152
|
-
return ((_a = self.colorBy) === null || _a === void 0 ? void 0 : _a.type) === 'modifications'
|
|
153
|
-
? Object.keys(JSON.parse(JSON.stringify(self.modificationTagMap)))
|
|
154
|
-
.length > 0
|
|
155
|
-
: true;
|
|
156
|
-
},
|
|
157
|
-
renderProps: function () {
|
|
158
|
-
var superProps = superRenderProps();
|
|
159
|
-
var colorBy = self.colorBy, filterBy = self.filterBy, modificationTagMap = self.modificationTagMap;
|
|
160
|
-
return __assign(__assign({}, superProps), { notReady: superProps.notReady || !this.modificationsReady, modificationTagMap: Object.fromEntries(modificationTagMap.toJSON()),
|
|
161
|
-
// must use getSnapshot because otherwise changes to e.g. just the
|
|
162
|
-
// colorBy.type are not read
|
|
163
|
-
colorBy: colorBy ? (0, mobx_state_tree_1.getSnapshot)(colorBy) : undefined, filterBy: filterBy ? (0, mobx_state_tree_1.getSnapshot)(filterBy) : undefined });
|
|
164
|
-
},
|
|
165
|
-
};
|
|
166
|
-
})
|
|
167
|
-
.actions(function (self) { return ({
|
|
168
|
-
toggleDrawIndicators: function () {
|
|
169
|
-
self.drawIndicators = !self.drawIndicatorsSetting;
|
|
143
|
+
get adapterConfig() {
|
|
144
|
+
const subadapter = (0, configuration_1.getConf)(self.parentTrack, 'adapter');
|
|
145
|
+
return {
|
|
146
|
+
type: 'SNPCoverageAdapter',
|
|
147
|
+
subadapter,
|
|
148
|
+
};
|
|
170
149
|
},
|
|
171
|
-
|
|
172
|
-
|
|
150
|
+
get rendererTypeName() {
|
|
151
|
+
return rendererTypes.get('snpcoverage');
|
|
173
152
|
},
|
|
174
|
-
|
|
175
|
-
|
|
153
|
+
get needsScalebar() {
|
|
154
|
+
return true;
|
|
176
155
|
},
|
|
177
|
-
|
|
178
|
-
|
|
179
|
-
(0, mobx_state_tree_1.addDisposer)(self, (0, mobx_1.autorun)(function () { return __awaiter(_this, void 0, void 0, function () {
|
|
180
|
-
var colorBy, staticBlocks, vals, error_1;
|
|
181
|
-
return __generator(this, function (_a) {
|
|
182
|
-
switch (_a.label) {
|
|
183
|
-
case 0:
|
|
184
|
-
_a.trys.push([0, 3, , 4]);
|
|
185
|
-
colorBy = self.colorBy;
|
|
186
|
-
staticBlocks = (0, util_1.getContainingView)(self).staticBlocks;
|
|
187
|
-
if (!self.estimatedStatsReady) {
|
|
188
|
-
return [2 /*return*/];
|
|
189
|
-
}
|
|
190
|
-
if (self.regionTooLarge) {
|
|
191
|
-
return [2 /*return*/];
|
|
192
|
-
}
|
|
193
|
-
if (!((colorBy === null || colorBy === void 0 ? void 0 : colorBy.type) === 'modifications')) return [3 /*break*/, 2];
|
|
194
|
-
return [4 /*yield*/, (0, shared_1.getUniqueModificationValues)(self, (0, configuration_1.getConf)(self.parentTrack, 'adapter'), colorBy, staticBlocks)];
|
|
195
|
-
case 1:
|
|
196
|
-
vals = _a.sent();
|
|
197
|
-
self.updateModificationColorMap(vals);
|
|
198
|
-
_a.label = 2;
|
|
199
|
-
case 2: return [3 /*break*/, 4];
|
|
200
|
-
case 3:
|
|
201
|
-
error_1 = _a.sent();
|
|
202
|
-
console.error(error_1);
|
|
203
|
-
self.setError(error_1);
|
|
204
|
-
return [3 /*break*/, 4];
|
|
205
|
-
case 4: return [2 /*return*/];
|
|
206
|
-
}
|
|
207
|
-
});
|
|
208
|
-
}); }, { delay: 1000 }));
|
|
156
|
+
contextMenuItems() {
|
|
157
|
+
return [];
|
|
209
158
|
},
|
|
210
|
-
|
|
211
|
-
|
|
212
|
-
|
|
213
|
-
|
|
214
|
-
|
|
215
|
-
|
|
216
|
-
|
|
217
|
-
|
|
218
|
-
|
|
219
|
-
return {
|
|
220
|
-
type: 'SNPCoverageAdapter',
|
|
221
|
-
subadapter: subadapter,
|
|
222
|
-
};
|
|
223
|
-
},
|
|
224
|
-
get rendererTypeName() {
|
|
225
|
-
return rendererTypes.get('snpcoverage');
|
|
226
|
-
},
|
|
227
|
-
get needsScalebar() {
|
|
228
|
-
return true;
|
|
229
|
-
},
|
|
230
|
-
contextMenuItems: function () {
|
|
231
|
-
return [];
|
|
232
|
-
},
|
|
233
|
-
trackMenuItems: function () {
|
|
234
|
-
return __spreadArray(__spreadArray([], __read(superTrackMenuItems()), false), [
|
|
235
|
-
{
|
|
236
|
-
label: 'Draw insertion/clipping indicators',
|
|
237
|
-
type: 'checkbox',
|
|
238
|
-
checked: self.drawIndicatorsSetting,
|
|
239
|
-
onClick: function () {
|
|
240
|
-
self.toggleDrawIndicators();
|
|
241
|
-
},
|
|
159
|
+
trackMenuItems() {
|
|
160
|
+
return [
|
|
161
|
+
...superTrackMenuItems(),
|
|
162
|
+
{
|
|
163
|
+
label: 'Draw insertion/clipping indicators',
|
|
164
|
+
type: 'checkbox',
|
|
165
|
+
checked: self.drawIndicatorsSetting,
|
|
166
|
+
onClick: () => {
|
|
167
|
+
self.toggleDrawIndicators();
|
|
242
168
|
},
|
|
243
|
-
|
|
244
|
-
|
|
245
|
-
|
|
246
|
-
|
|
247
|
-
|
|
248
|
-
|
|
249
|
-
|
|
169
|
+
},
|
|
170
|
+
{
|
|
171
|
+
label: 'Draw insertion/clipping counts',
|
|
172
|
+
type: 'checkbox',
|
|
173
|
+
checked: self.drawInterbaseCountsSetting,
|
|
174
|
+
onClick: () => {
|
|
175
|
+
self.toggleDrawInterbaseCounts();
|
|
250
176
|
},
|
|
251
|
-
|
|
252
|
-
|
|
253
|
-
|
|
254
|
-
|
|
255
|
-
|
|
256
|
-
|
|
257
|
-
|
|
177
|
+
},
|
|
178
|
+
{
|
|
179
|
+
label: 'Draw arcs',
|
|
180
|
+
type: 'checkbox',
|
|
181
|
+
checked: self.drawArcsSetting,
|
|
182
|
+
onClick: () => {
|
|
183
|
+
self.toggleDrawArcs();
|
|
258
184
|
},
|
|
259
|
-
|
|
260
|
-
|
|
261
|
-
}
|
|
262
|
-
}
|
|
263
|
-
};
|
|
185
|
+
},
|
|
186
|
+
];
|
|
187
|
+
},
|
|
188
|
+
};
|
|
189
|
+
});
|
|
264
190
|
exports.default = stateModelFactory;
|
|
265
191
|
//# sourceMappingURL=model.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../../src/LinearSNPCoverageDisplay/models/model.ts"],"names":[],"mappings":"
|
|
1
|
+
{"version":3,"file":"model.js","sourceRoot":"","sources":["../../../src/LinearSNPCoverageDisplay/models/model.ts"],"names":[],"mappings":";;;;;AAAA,qDAA+E;AAC/E,+BAA0C;AAC1C,+DAKoC;AACpC,0DAAwE;AAIxE,6CAAsD;AAEtD,SAAS;AACT,oEAA2C;AAC3C,yCAA0D;AAE1D,yCAAyC;AACzC,MAAM,aAAa,GAAG,IAAI,GAAG,CAAC,CAAC,CAAC,aAAa,EAAE,qBAAqB,CAAC,CAAC,CAAC,CAAA;AAIvE,MAAM,iBAAiB,GAAG,CACxB,aAA4B,EAC5B,YAAwC,EACxC,EAAE,CACF,uBAAK;KACF,OAAO,CACN,0BAA0B,EAC1B,IAAA,+CAA+B,EAAC,aAAa,EAAE,YAAY,CAAC,EAC5D,uBAAK,CAAC,KAAK,CAAC;IACV,IAAI,EAAE,uBAAK,CAAC,OAAO,CAAC,0BAA0B,CAAC;IAC/C,mBAAmB,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,OAAO,CAAC;IAC/C,cAAc,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,OAAO,CAAC;IAC1C,QAAQ,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,OAAO,CAAC;IACpC,QAAQ,EAAE,uBAAK,CAAC,QAAQ,CACtB,uBAAK,CAAC,KAAK,CAAC;QACV,WAAW,EAAE,uBAAK,CAAC,QAAQ,CAAC,uBAAK,CAAC,MAAM,EAAE,CAAC,CAAC;QAC5C,WAAW,EAAE,uBAAK,CAAC,QAAQ,CAAC,uBAAK,CAAC,MAAM,EAAE,IAAI,CAAC;QAC/C,QAAQ,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,MAAM,CAAC;QACnC,SAAS,EAAE,uBAAK,CAAC,KAAK,CACpB,uBAAK,CAAC,KAAK,CAAC,EAAE,GAAG,EAAE,uBAAK,CAAC,MAAM,EAAE,KAAK,EAAE,uBAAK,CAAC,MAAM,EAAE,CAAC,CACxD;KACF,CAAC,EACF,EAAE,CACH;IACD,OAAO,EAAE,uBAAK,CAAC,KAAK,CAClB,uBAAK,CAAC,KAAK,CAAC;QACV,IAAI,EAAE,uBAAK,CAAC,MAAM;QAClB,GAAG,EAAE,uBAAK,CAAC,KAAK,CAAC,uBAAK,CAAC,MAAM,CAAC;KAC/B,CAAC,CACH;CACF,CAAC,CACH;KACA,QAAQ,CAAC,GAAG,EAAE,CAAC,CAAC;IACf,kBAAkB,EAAE,iBAAU,CAAC,GAAG,CAAC,EAAE,CAAC;CACvC,CAAC,CAAC;KACF,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAChB,SAAS,CAAC,aAAoC;QAC5C,IAAI,CAAC,aAAa,GAAG,aAAa,CAAA;IACpC,CAAC;IACD,WAAW,CAAC,MAKX;QACC,IAAI,CAAC,QAAQ,GAAG,IAAA,sBAAI,EAAC,MAAM,CAAC,CAAA;IAC9B,CAAC;IACD,UAAU,CAAC,OAAwC;QACjD,IAAI,CAAC,OAAO,GAAG,IAAA,sBAAI,EAAC,OAAO,CAAC,CAAA;IAC9B,CAAC;IAED,0BAA0B,CAAC,mBAA6B;QACtD,MAAM,YAAY,GAAG,CAAC,KAAK,EAAE,MAAM,EAAE,OAAO,EAAE,QAAQ,EAAE,QAAQ,CAAC,CAAA;QACjE,IAAI,CAAC,GAAG,CAAC,CAAA;QAET,mBAAmB,CAAC,OAAO,CAAC,KAAK,CAAC,EAAE;YAClC,IAAI,CAAC,IAAI,CAAC,kBAAkB,CAAC,GAAG,CAAC,KAAK,CAAC,EAAE;gBACvC,MAAM,QAAQ,GAAG,YAAY,CAAC,CAAC,EAAE,CAAC,CAAA;gBAClC,IAAI,CAAC,kBAAkB,CAAC,GAAG,CAAC,KAAK,EAAE,QAAQ,CAAC,CAAA;aAC7C;QACH,CAAC,CAAC,CAAA;IACJ,CAAC;CACF,CAAC,CAAC;KACF,KAAK,CAAC,IAAI,CAAC,EAAE;IACZ,MAAM,EAAE,WAAW,EAAE,gBAAgB,EAAE,GAAG,IAAI,CAAA;IAC9C,OAAO;QACL,IAAI,cAAc;;YAChB,MAAM,UAAU,GACd,IAAA,uBAAO,EAAC,IAAI,EAAE,CAAC,WAAW,EAAE,IAAI,CAAC,gBAAgB,CAAC,CAAC,IAAI,EAAE,CAAA;YAE3D,OAAO,IAAI,CAAC,YAAY,CAAC,YAAY,CAAC,MAAM,CAC1C;gBACE,GAAG,UAAU;gBACb,mBAAmB,EACjB,MAAA,IAAI,CAAC,mBAAmB,mCAAI,UAAU,CAAC,mBAAmB;gBAC5D,cAAc,EAAE,MAAA,IAAI,CAAC,cAAc,mCAAI,UAAU,CAAC,cAAc;gBAChE,QAAQ,EAAE,MAAA,IAAI,CAAC,QAAQ,mCAAI,UAAU,CAAC,QAAQ;aAC/C,EACD,IAAA,wBAAM,EAAC,IAAI,CAAC,CACb,CAAA;QACH,CAAC;QACD,IAAI,eAAe;;YACjB,OAAO,CACL,MAAA,IAAI,CAAC,QAAQ,mCAAI,IAAA,8BAAc,EAAC,IAAI,CAAC,cAAc,EAAE,UAAU,CAAC,CACjE,CAAA;QACH,CAAC;QACD,IAAI,0BAA0B;;YAC5B,OAAO,CACL,MAAA,IAAI,CAAC,mBAAmB,mCACxB,IAAA,8BAAc,EAAC,IAAI,CAAC,cAAc,EAAE,qBAAqB,CAAC,CAC3D,CAAA;QACH,CAAC;QACD,IAAI,qBAAqB;;YACvB,OAAO,CACL,MAAA,IAAI,CAAC,cAAc,mCACnB,IAAA,8BAAc,EAAC,IAAI,CAAC,cAAc,EAAE,gBAAgB,CAAC,CACtD,CAAA;QACH,CAAC;QAED,IAAI,kBAAkB;;YACpB,OAAO,CAAA,MAAA,IAAI,CAAC,OAAO,0CAAE,IAAI,MAAK,eAAe;gBAC3C,CAAC,CAAC,MAAM,CAAC,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,kBAAkB,CAAC,CAAC,CAAC;qBAC7D,MAAM,GAAG,CAAC;gBACf,CAAC,CAAC,IAAI,CAAA;QACV,CAAC;QAED,WAAW;YACT,MAAM,UAAU,GAAG,gBAAgB,EAAE,CAAA;YACrC,MAAM,EAAE,OAAO,EAAE,QAAQ,EAAE,kBAAkB,EAAE,GAAG,IAAI,CAAA;YACtD,OAAO;gBACL,GAAG,UAAU;gBACb,QAAQ,EAAE,UAAU,CAAC,QAAQ,IAAI,CAAC,IAAI,CAAC,kBAAkB;gBACzD,kBAAkB,EAAE,MAAM,CAAC,WAAW,CAAC,kBAAkB,CAAC,MAAM,EAAE,CAAC;gBAEnE,kEAAkE;gBAClE,4BAA4B;gBAC5B,OAAO,EAAE,OAAO,CAAC,CAAC,CAAC,IAAA,6BAAW,EAAC,OAAO,CAAC,CAAC,CAAC,CAAC,SAAS;gBACnD,QAAQ,EAAE,QAAQ,CAAC,CAAC,CAAC,IAAA,6BAAW,EAAC,QAAQ,CAAC,CAAC,CAAC,CAAC,SAAS;aACvD,CAAA;QACH,CAAC;KACF,CAAA;AACH,CAAC,CAAC;KACD,OAAO,CAAC,IAAI,CAAC,EAAE,CAAC,CAAC;IAChB,oBAAoB;QAClB,IAAI,CAAC,cAAc,GAAG,CAAC,IAAI,CAAC,qBAAqB,CAAA;IACnD,CAAC;IACD,yBAAyB;QACvB,IAAI,CAAC,mBAAmB,GAAG,CAAC,IAAI,CAAC,0BAA0B,CAAA;IAC7D,CAAC;IACD,cAAc;QACZ,IAAI,CAAC,QAAQ,GAAG,CAAC,IAAI,CAAC,eAAe,CAAA;IACvC,CAAC;IACD,WAAW;QACT,IAAA,6BAAW,EACT,IAAI,EACJ,IAAA,cAAO,EACL,KAAK,IAAI,EAAE;YACT,IAAI;gBACF,MAAM,EAAE,OAAO,EAAE,GAAG,IAAI,CAAA;gBACxB,MAAM,EAAE,YAAY,EAAE,GAAG,IAAA,wBAAiB,EAAC,IAAI,CAAQ,CAAA;gBAEvD,IAAI,CAAC,IAAI,CAAC,mBAAmB,EAAE;oBAC7B,OAAM;iBACP;gBACD,IAAI,IAAI,CAAC,cAAc,EAAE;oBACvB,OAAM;iBACP;gBACD,IAAI,CAAA,OAAO,aAAP,OAAO,uBAAP,OAAO,CAAE,IAAI,MAAK,eAAe,EAAE;oBACrC,MAAM,IAAI,GAAG,MAAM,IAAA,oCAA2B,EAC5C,IAAI,EACJ,IAAA,uBAAO,EAAC,IAAI,CAAC,WAAW,EAAE,SAAS,CAAC,EACpC,OAAO,EACP,YAAY,CACb,CAAA;oBACD,IAAI,CAAC,0BAA0B,CAAC,IAAI,CAAC,CAAA;iBACtC;aACF;YAAC,OAAO,KAAK,EAAE;gBACd,OAAO,CAAC,KAAK,CAAC,KAAK,CAAC,CAAA;gBACpB,IAAI,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAA;aACrB;QACH,CAAC,EACD,EAAE,KAAK,EAAE,IAAI,EAAE,CAChB,CACF,CAAA;IACH,CAAC;CACF,CAAC,CAAC;KAEF,KAAK,CAAC,IAAI,CAAC,EAAE;IACZ,MAAM,EAAE,cAAc,EAAE,mBAAmB,EAAE,GAAG,IAAI,CAAA;IACpD,OAAO;QACL,IAAI,gBAAgB;YAClB,OAAO,iBAAO,CAAA;QAChB,CAAC;QAED,IAAI,aAAa;YACf,MAAM,UAAU,GAAG,IAAA,uBAAO,EAAC,IAAI,CAAC,WAAW,EAAE,SAAS,CAAC,CAAA;YACvD,OAAO;gBACL,IAAI,EAAE,oBAAoB;gBAC1B,UAAU;aACX,CAAA;QACH,CAAC;QAED,IAAI,gBAAgB;YAClB,OAAO,aAAa,CAAC,GAAG,CAAC,aAAa,CAAC,CAAA;QACzC,CAAC;QAED,IAAI,aAAa;YACf,OAAO,IAAI,CAAA;QACb,CAAC;QAED,gBAAgB;YACd,OAAO,EAAE,CAAA;QACX,CAAC;QAED,cAAc;YACZ,OAAO;gBACL,GAAG,mBAAmB,EAAE;gBACxB;oBACE,KAAK,EAAE,oCAAoC;oBAC3C,IAAI,EAAE,UAAU;oBAChB,OAAO,EAAE,IAAI,CAAC,qBAAqB;oBACnC,OAAO,EAAE,GAAG,EAAE;wBACZ,IAAI,CAAC,oBAAoB,EAAE,CAAA;oBAC7B,CAAC;iBACF;gBACD;oBACE,KAAK,EAAE,gCAAgC;oBACvC,IAAI,EAAE,UAAU;oBAChB,OAAO,EAAE,IAAI,CAAC,0BAA0B;oBACxC,OAAO,EAAE,GAAG,EAAE;wBACZ,IAAI,CAAC,yBAAyB,EAAE,CAAA;oBAClC,CAAC;iBACF;gBACD;oBACE,KAAK,EAAE,WAAW;oBAClB,IAAI,EAAE,UAAU;oBAChB,OAAO,EAAE,IAAI,CAAC,eAAe;oBAC7B,OAAO,EAAE,GAAG,EAAE;wBACZ,IAAI,CAAC,cAAc,EAAE,CAAA;oBACvB,CAAC;iBACF;aACF,CAAA;QACH,CAAC;KACF,CAAA;AACH,CAAC,CAAC,CAAA;AAIN,kBAAe,iBAAiB,CAAA"}
|
|
@@ -1,36 +1,24 @@
|
|
|
1
1
|
"use strict";
|
|
2
|
-
var __assign = (this && this.__assign) || function () {
|
|
3
|
-
__assign = Object.assign || function(t) {
|
|
4
|
-
for (var s, i = 1, n = arguments.length; i < n; i++) {
|
|
5
|
-
s = arguments[i];
|
|
6
|
-
for (var p in s) if (Object.prototype.hasOwnProperty.call(s, p))
|
|
7
|
-
t[p] = s[p];
|
|
8
|
-
}
|
|
9
|
-
return t;
|
|
10
|
-
};
|
|
11
|
-
return __assign.apply(this, arguments);
|
|
12
|
-
};
|
|
13
2
|
Object.defineProperty(exports, "__esModule", { value: true });
|
|
14
3
|
/* eslint-disable @typescript-eslint/no-explicit-any */
|
|
15
4
|
// see perf results on object.keys vs for-in loop
|
|
16
5
|
// https://jsperf.com/object-keys-vs-hasownproperty/55
|
|
17
|
-
|
|
18
|
-
|
|
19
|
-
|
|
20
|
-
this.categories = __assign({}, initialData);
|
|
6
|
+
class NestedFrequencyTable {
|
|
7
|
+
constructor(initialData = {}) {
|
|
8
|
+
this.categories = { ...initialData };
|
|
21
9
|
}
|
|
22
10
|
// get the sum of all the category counts
|
|
23
|
-
|
|
11
|
+
total() {
|
|
24
12
|
// calculate total if necessary
|
|
25
|
-
|
|
26
|
-
for (
|
|
27
|
-
|
|
13
|
+
let t = 0;
|
|
14
|
+
for (const k in this.categories) {
|
|
15
|
+
const v = this.categories[k];
|
|
28
16
|
t += v.total ? v.total() : v;
|
|
29
17
|
}
|
|
30
18
|
return t;
|
|
31
|
-
}
|
|
19
|
+
}
|
|
32
20
|
// decrement the count for the given category
|
|
33
|
-
|
|
21
|
+
decrement(slotName, amount) {
|
|
34
22
|
if (!amount) {
|
|
35
23
|
amount = 1;
|
|
36
24
|
}
|
|
@@ -45,9 +33,9 @@ var NestedFrequencyTable = /** @class */ (function () {
|
|
|
45
33
|
return this.categories[slotName];
|
|
46
34
|
}
|
|
47
35
|
return 0;
|
|
48
|
-
}
|
|
36
|
+
}
|
|
49
37
|
// increment the count for the given category
|
|
50
|
-
|
|
38
|
+
increment(slotName, amount) {
|
|
51
39
|
if (!amount) {
|
|
52
40
|
amount = 1;
|
|
53
41
|
}
|
|
@@ -59,22 +47,22 @@ var NestedFrequencyTable = /** @class */ (function () {
|
|
|
59
47
|
}
|
|
60
48
|
this.categories[slotName] = (this.categories[slotName] || 0) + amount;
|
|
61
49
|
return this.categories[slotName];
|
|
62
|
-
}
|
|
50
|
+
}
|
|
63
51
|
// get the value of the given category. may be a number or a
|
|
64
52
|
// frequency table.
|
|
65
|
-
|
|
53
|
+
get(slotName) {
|
|
66
54
|
return this.categories[slotName] || 0;
|
|
67
|
-
}
|
|
55
|
+
}
|
|
68
56
|
// get a given category as a frequency table
|
|
69
|
-
|
|
57
|
+
getNested(path) {
|
|
70
58
|
if (typeof path === 'string') {
|
|
71
59
|
path = path.split('/');
|
|
72
60
|
}
|
|
73
61
|
if (!path.length) {
|
|
74
62
|
return this;
|
|
75
63
|
}
|
|
76
|
-
|
|
77
|
-
|
|
64
|
+
const slotName = path[0].toString();
|
|
65
|
+
let slot = this.categories[slotName];
|
|
78
66
|
if (!slot || !slot.categories) {
|
|
79
67
|
this.categories[slotName] = new NestedFrequencyTable(slot ? { default: slot + 0 } : {});
|
|
80
68
|
}
|
|
@@ -83,35 +71,34 @@ var NestedFrequencyTable = /** @class */ (function () {
|
|
|
83
71
|
return slot.getNested(path.slice(1));
|
|
84
72
|
}
|
|
85
73
|
return slot;
|
|
86
|
-
}
|
|
87
|
-
|
|
74
|
+
}
|
|
75
|
+
toString() {
|
|
88
76
|
return this.total()
|
|
89
77
|
.toPrecision(6)
|
|
90
78
|
.toString()
|
|
91
79
|
.replace(/\.?0+$/, '');
|
|
92
|
-
}
|
|
93
|
-
|
|
80
|
+
}
|
|
81
|
+
valueOf() {
|
|
94
82
|
return this.total();
|
|
95
|
-
}
|
|
83
|
+
}
|
|
96
84
|
// iterate through the categories and counts, call like:
|
|
97
85
|
//
|
|
98
86
|
// tbl.forEach( function( count, categoryName ) {
|
|
99
87
|
// // do something
|
|
100
88
|
// }, this );
|
|
101
89
|
//
|
|
102
|
-
|
|
90
|
+
forEach(func, ctx) {
|
|
103
91
|
if (ctx) {
|
|
104
|
-
for (
|
|
92
|
+
for (const slotName in this.categories) {
|
|
105
93
|
func.call(ctx, this.categories[slotName], slotName);
|
|
106
94
|
}
|
|
107
95
|
}
|
|
108
96
|
else {
|
|
109
|
-
for (
|
|
97
|
+
for (const slotName in this.categories) {
|
|
110
98
|
func(this.categories[slotName], slotName);
|
|
111
99
|
}
|
|
112
100
|
}
|
|
113
|
-
}
|
|
114
|
-
|
|
115
|
-
}());
|
|
101
|
+
}
|
|
102
|
+
}
|
|
116
103
|
exports.default = NestedFrequencyTable;
|
|
117
104
|
//# sourceMappingURL=NestedFrequencyTable.js.map
|
|
@@ -1 +1 @@
|
|
|
1
|
-
{"version":3,"file":"NestedFrequencyTable.js","sourceRoot":"","sources":["../src/NestedFrequencyTable.ts"],"names":[],"mappings":"
|
|
1
|
+
{"version":3,"file":"NestedFrequencyTable.js","sourceRoot":"","sources":["../src/NestedFrequencyTable.ts"],"names":[],"mappings":";;AAAA,uDAAuD;AACvD,iDAAiD;AACjD,sDAAsD;AACtD,MAAqB,oBAAoB;IAGvC,YAAY,WAAW,GAAG,EAAE;QAC1B,IAAI,CAAC,UAAU,GAAG,EAAE,GAAG,WAAW,EAAE,CAAA;IACtC,CAAC;IAED,yCAAyC;IACzC,KAAK;QACH,+BAA+B;QAC/B,IAAI,CAAC,GAAG,CAAC,CAAA;QAET,KAAK,MAAM,CAAC,IAAI,IAAI,CAAC,UAAU,EAAE;YAC/B,MAAM,CAAC,GAAG,IAAI,CAAC,UAAU,CAAC,CAAC,CAAC,CAAA;YAC5B,CAAC,IAAI,CAAC,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAC,KAAK,EAAE,CAAC,CAAC,CAAC,CAAC,CAAA;SAC7B;QAED,OAAO,CAAC,CAAA;IACV,CAAC;IAED,6CAA6C;IAC7C,SAAS,CAAC,QAAgB,EAAE,MAAc;QACxC,IAAI,CAAC,MAAM,EAAE;YACX,MAAM,GAAG,CAAC,CAAA;SACX;QAED,IAAI,CAAC,QAAQ,EAAE;YACb,QAAQ,GAAG,SAAS,CAAA;SACrB;aAAM;YACL,QAAQ,GAAG,QAAQ,CAAC,QAAQ,EAAE,CAAA;SAC/B;QAED,IAAI,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,EAAE;YAC7B,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,GAAG,IAAI,CAAC,GAAG,CAClC,CAAC,EACD,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,GAAG,MAAM,CACnC,CAAA;YACD,OAAO,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,CAAA;SACjC;QACD,OAAO,CAAC,CAAA;IACV,CAAC;IAED,6CAA6C;IAC7C,SAAS,CAAC,QAAgB,EAAE,MAAc;QACxC,IAAI,CAAC,MAAM,EAAE;YACX,MAAM,GAAG,CAAC,CAAA;SACX;QAED,IAAI,CAAC,QAAQ,EAAE;YACb,QAAQ,GAAG,SAAS,CAAA;SACrB;aAAM;YACL,QAAQ,GAAG,QAAQ,CAAC,QAAQ,EAAE,CAAA;SAC/B;QAED,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,GAAG,CAAC,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAC,GAAG,MAAM,CAAA;QACrE,OAAO,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,CAAA;IAClC,CAAC;IAED,6DAA6D;IAC7D,mBAAmB;IACnB,GAAG,CAAC,QAAgB;QAClB,OAAO,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;IACvC,CAAC;IAED,4CAA4C;IAC5C,SAAS,CAAC,IAAuB;QAC/B,IAAI,OAAO,IAAI,KAAK,QAAQ,EAAE;YAC5B,IAAI,GAAG,IAAI,CAAC,KAAK,CAAC,GAAG,CAAC,CAAA;SACvB;QAED,IAAI,CAAC,IAAI,CAAC,MAAM,EAAE;YAChB,OAAO,IAAI,CAAA;SACZ;QAED,MAAM,QAAQ,GAAG,IAAI,CAAC,CAAC,CAAC,CAAC,QAAQ,EAAE,CAAA;QACnC,IAAI,IAAI,GAAG,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,CAAA;QACpC,IAAI,CAAC,IAAI,IAAI,CAAC,IAAI,CAAC,UAAU,EAAE;YAC7B,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,GAAG,IAAI,oBAAoB,CAClD,IAAI,CAAC,CAAC,CAAC,EAAE,OAAO,EAAE,IAAI,GAAG,CAAC,EAAE,CAAC,CAAC,CAAC,EAAE,CAClC,CAAA;SACF;QACD,IAAI,GAAG,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,CAAA;QAEhC,IAAI,IAAI,CAAC,MAAM,GAAG,CAAC,EAAE;YACnB,OAAO,IAAI,CAAC,SAAS,CAAC,IAAI,CAAC,KAAK,CAAC,CAAC,CAAC,CAAC,CAAA;SACrC;QACD,OAAO,IAAI,CAAA;IACb,CAAC;IAED,QAAQ;QACN,OAAO,IAAI,CAAC,KAAK,EAAE;aAChB,WAAW,CAAC,CAAC,CAAC;aACd,QAAQ,EAAE;aACV,OAAO,CAAC,QAAQ,EAAE,EAAE,CAAC,CAAA;IAC1B,CAAC;IAED,OAAO;QACL,OAAO,IAAI,CAAC,KAAK,EAAE,CAAA;IACrB,CAAC;IAED,wDAAwD;IACxD,EAAE;IACF,mDAAmD;IACnD,uBAAuB;IACvB,eAAe;IACf,EAAE;IACF,OAAO,CAAC,IAAc,EAAE,GAAQ;QAC9B,IAAI,GAAG,EAAE;YACP,KAAK,MAAM,QAAQ,IAAI,IAAI,CAAC,UAAU,EAAE;gBACtC,IAAI,CAAC,IAAI,CAAC,GAAG,EAAE,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,EAAE,QAAQ,CAAC,CAAA;aACpD;SACF;aAAM;YACL,KAAK,MAAM,QAAQ,IAAI,IAAI,CAAC,UAAU,EAAE;gBACtC,IAAI,CAAC,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,EAAE,QAAQ,CAAC,CAAA;aAC1C;SACF;IACH,CAAC;CACF;AArHD,uCAqHC"}
|