@jbrowse/plugin-wiggle
Version:
JBrowse 2 wiggle adapters, tracks, etc.
263 lines (262 loc) • 10.7 kB
JavaScript
;
var __createBinding = (this && this.__createBinding) || (Object.create ? (function(o, m, k, k2) {
if (k2 === undefined) k2 = k;
var desc = Object.getOwnPropertyDescriptor(m, k);
if (!desc || ("get" in desc ? !m.__esModule : desc.writable || desc.configurable)) {
desc = { enumerable: true, get: function() { return m[k]; } };
}
Object.defineProperty(o, k2, desc);
}) : (function(o, m, k, k2) {
if (k2 === undefined) k2 = k;
o[k2] = m[k];
}));
var __setModuleDefault = (this && this.__setModuleDefault) || (Object.create ? (function(o, v) {
Object.defineProperty(o, "default", { enumerable: true, value: v });
}) : function(o, v) {
o["default"] = v;
});
var __importStar = (this && this.__importStar) || (function () {
var ownKeys = function(o) {
ownKeys = Object.getOwnPropertyNames || function (o) {
var ar = [];
for (var k in o) if (Object.prototype.hasOwnProperty.call(o, k)) ar[ar.length] = k;
return ar;
};
return ownKeys(o);
};
return function (mod) {
if (mod && mod.__esModule) return mod;
var result = {};
if (mod != null) for (var k = ownKeys(mod), i = 0; i < k.length; i++) if (k[i] !== "default") __createBinding(result, mod, k[i]);
__setModuleDefault(result, mod);
return result;
};
})();
var __importDefault = (this && this.__importDefault) || function (mod) {
return (mod && mod.__esModule) ? mod : { "default": mod };
};
Object.defineProperty(exports, "__esModule", { value: true });
const react_1 = require("react");
const configuration_1 = require("@jbrowse/core/configuration");
const util_1 = require("@jbrowse/core/util");
const Equalizer_1 = __importDefault(require("@mui/icons-material/Equalizer"));
const Palette_1 = __importDefault(require("@mui/icons-material/Palette"));
const Visibility_1 = __importDefault(require("@mui/icons-material/Visibility"));
const mobx_state_tree_1 = require("mobx-state-tree");
const react_d3_axis_mod_1 = require("react-d3-axis-mod");
const SharedWiggleMixin_1 = __importDefault(require("../shared/SharedWiggleMixin"));
const util_2 = require("../util");
const Tooltip = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./components/Tooltip'))));
const SetColorDialog = (0, react_1.lazy)(() => Promise.resolve().then(() => __importStar(require('./components/SetColorDialog'))));
const rendererTypes = new Map([
['xyplot', 'XYPlotRenderer'],
['density', 'DensityRenderer'],
['line', 'LinePlotRenderer'],
]);
function stateModelFactory(pluginManager, configSchema) {
return mobx_state_tree_1.types
.compose('LinearWiggleDisplay', (0, SharedWiggleMixin_1.default)(configSchema), mobx_state_tree_1.types.model({
type: mobx_state_tree_1.types.literal('LinearWiggleDisplay'),
invertedSetting: mobx_state_tree_1.types.maybe(mobx_state_tree_1.types.boolean),
}))
.actions(self => ({
setInverted(arg) {
self.invertedSetting = arg;
},
}))
.views(self => ({
get TooltipComponent() {
return Tooltip;
},
get rendererTypeName() {
const name = self.rendererTypeNameSimple;
const rendererType = rendererTypes.get(name);
if (!rendererType) {
throw new Error(`unknown renderer ${name}`);
}
return rendererType;
},
get quantitativeStatsRelevantToCurrentZoom() {
var _a;
const view = (0, util_1.getContainingView)(self);
return ((_a = self.stats) === null || _a === void 0 ? void 0 : _a.currStatsBpPerPx) === view.bpPerPx;
},
get graphType() {
return (self.rendererTypeName === 'XYPlotRenderer' ||
self.rendererTypeName === 'LinePlotRenderer');
},
get inverted() {
var _a;
return (_a = self.invertedSetting) !== null && _a !== void 0 ? _a : (0, configuration_1.getConf)(self, 'inverted');
},
}))
.views(self => {
const { renderProps: superRenderProps } = self;
return {
adapterProps() {
const superProps = superRenderProps();
const { filters, resolution, scaleOpts } = self;
return {
...superProps,
rpcDriverName: self.rpcDriverName,
displayModel: self,
config: self.rendererConfig,
displayCrossHatches: self.displayCrossHatchesSetting,
scaleOpts,
resolution,
filters,
};
},
get ticks() {
const { inverted, scaleType, domain, height } = self;
const minimalTicks = (0, configuration_1.getConf)(self, 'minimalTicks');
if (domain) {
const ticks = (0, react_d3_axis_mod_1.axisPropsFromTickScale)((0, util_2.getScale)({
scaleType,
domain,
range: [
height - util_2.YSCALEBAR_LABEL_OFFSET,
util_2.YSCALEBAR_LABEL_OFFSET,
],
inverted,
}), 4);
return height < 100 || minimalTicks
? { ...ticks, values: domain }
: ticks;
}
else {
return undefined;
}
},
};
})
.views(self => ({
renderProps() {
const { inverted, ticks, height } = self;
const superProps = self.adapterProps();
return {
...self.adapterProps(),
notReady: superProps.notReady || !self.stats,
height,
ticks,
inverted,
};
},
get fillSetting() {
if (self.filled) {
return 0;
}
else if (self.minSize === 1) {
return 1;
}
else {
return 2;
}
},
get quantitativeStatsReady() {
const view = (0, util_1.getContainingView)(self);
return (view.initialized && self.statsReadyAndRegionNotTooLarge && !self.error);
},
}))
.views(self => {
const { trackMenuItems: superTrackMenuItems } = self;
const hasRenderings = (0, configuration_1.getConf)(self, 'defaultRendering');
return {
trackMenuItems() {
return [
...superTrackMenuItems(),
{
label: 'Score',
icon: Equalizer_1.default,
subMenu: self.scoreTrackMenuItems(),
},
...(self.graphType
? [
{
label: 'Inverted',
type: 'checkbox',
checked: self.inverted,
onClick: () => {
self.setInverted(!self.inverted);
},
},
]
: []),
...(self.canHaveFill
? [
{
label: 'Fill mode',
subMenu: ['filled', 'no fill', 'no fill w/ emphasis'].map((elt, idx) => ({
label: elt,
type: 'radio',
checked: self.fillSetting === idx,
onClick: () => {
self.setFill(idx);
},
})),
},
]
: []),
...(hasRenderings
? [
{
label: 'Renderer type',
subMenu: ['xyplot', 'density', 'line'].map(key => ({
label: key,
type: 'radio',
checked: self.rendererTypeNameSimple === key,
onClick: () => {
self.setRendererType(key);
},
})),
},
]
: []),
{
label: 'Color',
icon: Palette_1.default,
onClick: () => {
(0, util_1.getSession)(self).queueDialog(handleClose => [
SetColorDialog,
{
model: self,
handleClose,
},
]);
},
},
...(self.graphType
? [
{
type: 'checkbox',
icon: Visibility_1.default,
label: 'Show cross hatches',
checked: self.displayCrossHatchesSetting,
onClick: () => {
self.toggleCrossHatches();
},
},
]
: []),
];
},
};
})
.actions(self => {
const { renderSvg: superRenderSvg } = self;
return {
afterAttach() {
;
(async () => {
const { getQuantitativeStatsAutorun } = await Promise.resolve().then(() => __importStar(require('../getQuantitativeStatsAutorun')));
getQuantitativeStatsAutorun(self);
})();
},
async renderSvg(opts) {
const { renderSvg } = await Promise.resolve().then(() => __importStar(require('./renderSvg')));
return renderSvg(self, opts, superRenderSvg);
},
};
});
}
exports.default = stateModelFactory;