@sjcrh/proteinpaint-client 2.197.0 → 2.198.0
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- package/dist/2dmaf-R3PFZNRN.js +1373 -0
- package/dist/AIProjectAdmin-DM3KG6SR.js +958 -0
- package/dist/AppHeader-6DZQ6YZX.js +835 -0
- package/dist/BoxPlot-76NINVX4.js +1217 -0
- package/dist/CorrelationVolcano-U5UMJNH5.js +619 -0
- package/dist/DE-AXNYWIQK.js +95 -0
- package/dist/DEinput-JH6YY6LS.js +301 -0
- package/dist/DifferentialAnalysis-25P4CGIY.js +242 -0
- package/dist/Disco-NVMLF3BK.js +3392 -0
- package/dist/Disco-NVMLF3BK.js.map +7 -0
- package/dist/Disco.UI-C7CZINUQ.js +249 -0
- package/dist/DmrPlot-WROR4ENM.js +642 -0
- package/dist/GB-JUABODPH.js +1394 -0
- package/dist/GB-JUABODPH.js.map +7 -0
- package/dist/GSEA-Y5R2THIJ.js +846 -0
- package/dist/GeneExpInput-JDU6EI7K.js +367 -0
- package/dist/Geomap-J763OK2F.js +89 -0
- package/dist/Geomap-J763OK2F.js.map +7 -0
- package/dist/HicApp-UNIJLH4B.js +2250 -0
- package/dist/IDCViewer-KVPCIUDW.js +10803 -0
- package/dist/IDCViewer-KVPCIUDW.js.map +7 -0
- package/dist/NumBinaryEditor-WMN2GGO4.js +271 -0
- package/dist/NumBinaryEditor.unit.spec-TAMXV6SE.js +286 -0
- package/dist/NumContEditor-XYIOJY4E.js +109 -0
- package/dist/NumContEditor.unit.spec-WDZ75BHO.js +169 -0
- package/dist/NumCustomBinEditor-5SY3C4TY.js +38 -0
- package/dist/NumCustomBinEditor.unit.spec-XHTAIXR3.js +284 -0
- package/dist/NumDiscreteEditor-NRDRX4FD.js +179 -0
- package/dist/NumDiscreteEditor.unit.spec-2CJW7OAT.js +202 -0
- package/dist/NumRegularBinEditor-DUDVTNDC.js +38 -0
- package/dist/NumRegularBinEditor.unit.spec-H3GNQHMN.js +227 -0
- package/dist/NumSplineEditor-7Q4AC7KH.js +198 -0
- package/dist/NumSplineEditor.unit.spec-YRZK5PH5.js +199 -0
- package/dist/NumericDensity-NTNWUESG.js +38 -0
- package/dist/NumericDensity.unit.spec-5I5U6T6P.js +221 -0
- package/dist/NumericHandler-MEW2KMPX.js +39 -0
- package/dist/NumericHandler.unit.spec-JFX4BPRG.js +219 -0
- package/dist/ProteomeInput-K2ZHR2U6.js +395 -0
- package/dist/RunChart2-BEBDU7RC.js +758 -0
- package/dist/SC-XCBFJVUJ.js +1120 -0
- package/dist/Volcano-4Y4TP3UX.js +1385 -0
- package/dist/WSIViewer-ZLQU62PD.js +48562 -0
- package/dist/WsiSamplesPlot-JMBSITOM.js +165 -0
- package/dist/adSandbox-664IRCRL.js +38 -0
- package/dist/animatedBubbleChart-TX7NW34K.js +555 -0
- package/dist/app-63WJ3BMP.js +37 -0
- package/dist/app-77FIZHCG.js +49 -0
- package/dist/app.js +19 -19
- package/dist/bam-IETNVAYD.js +860 -0
- package/dist/barchart-YUVXJNH4.js +47 -0
- package/dist/barchart.data-P4EIQXGE.js +22 -0
- package/dist/barchart.events-JPVCLTIG.js +47 -0
- package/dist/barchart.integration.spec-ZH7DEQI2.js +2196 -0
- package/dist/barchart2-XO2FG76J.js +314 -0
- package/dist/bars.renderer-AUIWUJDH.js +12 -0
- package/dist/block-NBTCOT3H.js +6255 -0
- package/dist/block.init-X7Y2EEVR.js +38 -0
- package/dist/block.mds.expressionrank-BIAOZIZ3.js +359 -0
- package/dist/block.mds.geneboxplot-CNICDVLK.js +828 -0
- package/dist/block.mds.junction-PQXCTSUI.js +1545 -0
- package/dist/block.mds.svcnv-32KMVTCT.js +6801 -0
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- package/dist/block.tk.aicheck-HDV7ZIUD.js +283 -0
- package/dist/block.tk.ase-JIDWKMYI.js +365 -0
- package/dist/block.tk.bam-5X3OS5HB.js +1906 -0
- package/dist/block.tk.bedgraphdot-T7JX7YQL.js +384 -0
- package/dist/block.tk.bigwig.ui-OSAYEBAE.js +212 -0
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- package/dist/block.tk.junction-7UAFEZSJ.js +2364 -0
- package/dist/block.tk.junction.textmatrixui-27LHS33U.js +199 -0
- package/dist/block.tk.ld-DF2PI7OO.js +99 -0
- package/dist/block.tk.menu-L2D5KBIV.js +1029 -0
- package/dist/block.tk.pgv-QO56SKBV.js +944 -0
- package/dist/brainImaging-NIPQWFWO.js +423 -0
- package/dist/brainRegions-ZNZ2WHSU.js +221 -0
- package/dist/bubbleHeatmap-ERWNEKZB.js +383 -0
- package/dist/chunk-2GYWFQML.js +299 -0
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- package/dist/condition-2PASYSUC.js +332 -0
- package/dist/controls-5IMJ6K5L.js +41 -0
- package/dist/controls.config-P5PG2DHW.js +39 -0
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- package/dist/cuminc-2HUFEROK.js +1149 -0
- package/dist/cuminc.integration.spec-WFWAPTDA.js +678 -0
- package/dist/customdata.inputui-ZHWNEPFH.js +289 -0
- package/dist/dataDownload-VBSJBKMP.js +330 -0
- package/dist/dataDownload.integration.spec-LUFSETOP.js +193 -0
- package/dist/databrowser.ui-6H2KMSTJ.js +433 -0
- package/dist/dictionary-V37LXFIP.js +118 -0
- package/dist/dnaMethylation-OIZMHMLK.js +38 -0
- package/dist/dnaMethylation.integration.spec-CWPTJ74H.js +203 -0
- package/dist/dofetch-IWPZQB5N.js +51 -0
- package/dist/e2pca-7SLIAGYW.js +350 -0
- package/dist/ep-7L6KF6K4.js +1256 -0
- package/dist/expclust.gdc.spec-JT452Q3G.js +307 -0
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- package/dist/forms2-VPNCLQOY.js +539 -0
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- package/dist/geneExpClustering-FQTCKRJJ.js +249 -0
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- package/dist/geneRanking-SFK4UBKQ.js +553 -0
- package/dist/geneVariant-IYEHB4H7.js +41 -0
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- package/dist/geneset-A6VUFX63.js +208 -0
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}
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210
|
-
const notUnique = this.projects.some((p) => p.name === projectName.trim());
|
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211
|
-
if (notUnique) {
|
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212
|
-
return showError(`Project name '${projectName}' already exists`);
|
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213
|
-
}
|
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214
|
-
if (this.dom.header) this.dom.header.text(`Project: ${projectName}`);
|
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215
|
-
await this.interactions.appDispatchEdit({ project: { name: projectName, type: "new" } });
|
|
216
|
-
});
|
|
217
|
-
input.on("keydown", () => {
|
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218
|
-
const debouncer = () => {
|
|
219
|
-
button.property("disabled", input.property("value").length == 0);
|
|
220
|
-
};
|
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221
|
-
(0, import_debounce.debounce)(debouncer, 300)();
|
|
222
|
-
});
|
|
223
|
-
}
|
|
224
|
-
/** Users may select an existing project from a table
|
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225
|
-
* returned for the db to edit or delete, depending
|
|
226
|
-
* on user roles.*/
|
|
227
|
-
renderProjectSelection(projectDiv) {
|
|
228
|
-
if (!this.projects.length) {
|
|
229
|
-
projectDiv.append("div").attr("class", "sjpp-project-select-table").style("padding", "10px").append("div").text("No projects found. Please create a new project or request one from your admin.");
|
|
230
|
-
return;
|
|
231
|
-
}
|
|
232
|
-
const tableDiv = projectDiv.append("div").attr("class", "sjpp-project-select-table").style("padding", "10px");
|
|
233
|
-
const columns = [{ label: "Project", sortable: true }];
|
|
234
|
-
let rows = this.projects.map((p) => [{ value: p.name }]);
|
|
235
|
-
const columnButtons = [
|
|
236
|
-
{
|
|
237
|
-
text: "Edit",
|
|
238
|
-
class: "sja_menuoption",
|
|
239
|
-
//_ = event, __ = idx
|
|
240
|
-
callback: async (_, idx) => {
|
|
241
|
-
const project = this.projects[idx];
|
|
242
|
-
await this.interactions.appDispatchEdit({ project: { ...project, type: "edit" } });
|
|
243
|
-
await this.interactions.launchViewer(this.dom.holder, []);
|
|
244
|
-
}
|
|
245
|
-
},
|
|
246
|
-
{
|
|
247
|
-
// Export button - pass only project.id and export will be CSV
|
|
248
|
-
text: "Export",
|
|
249
|
-
class: "sja_menuoption",
|
|
250
|
-
callback: async (_, idx) => {
|
|
251
|
-
const project = this.projects[idx];
|
|
252
|
-
try {
|
|
253
|
-
await this.interactions.exportAnnotations(project.id);
|
|
254
|
-
} catch (_2) {
|
|
255
|
-
sayerror(this.dom.errorDiv, "Failed to export annotations");
|
|
256
|
-
}
|
|
257
|
-
}
|
|
258
|
-
}
|
|
259
|
-
];
|
|
260
|
-
this.interactions.getAuthorization(["deleteProject", "logOut", "required"]).then((isAuthorized) => {
|
|
261
|
-
if (isAuthorized.required) {
|
|
262
|
-
columns.push({ label: "User", sortable: false });
|
|
263
|
-
rows = this.projects.map((p) => [{ value: p.name }, { value: p.current_user ?? "Editable" }]);
|
|
264
|
-
}
|
|
265
|
-
if (isAuthorized.deleteProject) {
|
|
266
|
-
columnButtons.push({
|
|
267
|
-
text: "Delete",
|
|
268
|
-
class: "sja_menuoption",
|
|
269
|
-
callback: async (_, i) => {
|
|
270
|
-
const project = this.projects[i];
|
|
271
|
-
this.interactions.deleteProject(project).then((success) => {
|
|
272
|
-
if (success) {
|
|
273
|
-
this.projects.splice(i, 1);
|
|
274
|
-
projectDiv.select(".sjpp-project-select-table").remove();
|
|
275
|
-
this.renderProjectSelection(projectDiv);
|
|
276
|
-
}
|
|
277
|
-
});
|
|
278
|
-
}
|
|
279
|
-
});
|
|
280
|
-
}
|
|
281
|
-
if (isAuthorized.logOut) {
|
|
282
|
-
columnButtons.push({
|
|
283
|
-
text: "Force Checkout",
|
|
284
|
-
class: "sja_menuoption",
|
|
285
|
-
callback: async (_, i) => {
|
|
286
|
-
const project = this.projects[i];
|
|
287
|
-
await this.interactions.onLogOut(this.interactions.genome, this.interactions.dslabel, project.id);
|
|
288
|
-
}
|
|
289
|
-
});
|
|
290
|
-
}
|
|
291
|
-
}).catch((e) => {
|
|
292
|
-
console.error("Error checking authorization:", e.message || e);
|
|
293
|
-
sayerror(this.dom.errorDiv, "Error checking user authorization. Please try again later.");
|
|
294
|
-
}).finally(() => {
|
|
295
|
-
renderTable({
|
|
296
|
-
div: tableDiv,
|
|
297
|
-
rows,
|
|
298
|
-
header: {
|
|
299
|
-
allowSort: true
|
|
300
|
-
},
|
|
301
|
-
columns,
|
|
302
|
-
singleMode: true,
|
|
303
|
-
columnButtons
|
|
304
|
-
});
|
|
305
|
-
});
|
|
306
|
-
}
|
|
307
|
-
};
|
|
308
|
-
|
|
309
|
-
// plots/aiProjectAdmin/view/LogoutRenderer.ts
|
|
310
|
-
var LogoutRenderer = class {
|
|
311
|
-
constructor(interactions) {
|
|
312
|
-
this.interactions = interactions;
|
|
313
|
-
}
|
|
314
|
-
render(holder, genome, dslabel, projectId) {
|
|
315
|
-
holder.append("div").style("position", "absolute").style("top", "10px").attr("data-testid", "logout-button").style("right", "20px").style("z-index", "1000").append("button").attr("type", "submit").style("font-size", "1.25em").style("padding", "10px 25px").style("border-radius", "20px").style("border", "1px solid black").style("background-color", "white").style("cursor", "pointer").text("Check Out").on("click", async () => {
|
|
316
|
-
holder.selectAll("*").remove();
|
|
317
|
-
await this.interactions.onLogOut(genome, dslabel, projectId);
|
|
318
|
-
});
|
|
319
|
-
}
|
|
320
|
-
};
|
|
321
|
-
|
|
322
|
-
// plots/aiProjectAdmin/interactions/AIProjectAdminInteractions.ts
|
|
323
|
-
var AIProjectAdminInteractions = class {
|
|
324
|
-
constructor(app, id, prjtRepo) {
|
|
325
|
-
this.app = app;
|
|
326
|
-
this.id = id;
|
|
327
|
-
this.genome = app.vocabApi.vocab.genome;
|
|
328
|
-
this.dslabel = app.vocabApi.vocab.dslabel;
|
|
329
|
-
this.prjtRepo = prjtRepo;
|
|
330
|
-
}
|
|
331
|
-
async getAuthorization(actions) {
|
|
332
|
-
try {
|
|
333
|
-
return await this.prjtRepo.getAuthorization(this.genome, this.dslabel, actions);
|
|
334
|
-
} catch (e) {
|
|
335
|
-
console.error("Error checking authorization:", e.message || e);
|
|
336
|
-
throw e;
|
|
337
|
-
}
|
|
338
|
-
}
|
|
339
|
-
async addProject(opts) {
|
|
340
|
-
const config = this.getConfig();
|
|
341
|
-
const settings = config.settings || {};
|
|
342
|
-
const projectObject = Object.assign({}, settings.project, opts.project);
|
|
343
|
-
const body = {
|
|
344
|
-
genome: this.genome,
|
|
345
|
-
dslabel: this.dslabel,
|
|
346
|
-
project: projectObject
|
|
347
|
-
};
|
|
348
|
-
try {
|
|
349
|
-
await this.prjtRepo.updateProject(body, "PUT");
|
|
350
|
-
} catch (e) {
|
|
351
|
-
console.error("Error adding project:", e.message || e);
|
|
352
|
-
throw e;
|
|
353
|
-
}
|
|
354
|
-
}
|
|
355
|
-
async editProject(opts) {
|
|
356
|
-
const config = this.getConfig();
|
|
357
|
-
const settings = config.settings || {};
|
|
358
|
-
const project = Object.assign(
|
|
359
|
-
{},
|
|
360
|
-
settings.project,
|
|
361
|
-
{
|
|
362
|
-
type: "edit"
|
|
363
|
-
},
|
|
364
|
-
opts.project
|
|
365
|
-
);
|
|
366
|
-
const body = {
|
|
367
|
-
genome: this.genome,
|
|
368
|
-
dslabel: this.dslabel,
|
|
369
|
-
project
|
|
370
|
-
};
|
|
371
|
-
try {
|
|
372
|
-
const res = await this.prjtRepo.updateProject(body, "POST");
|
|
373
|
-
if (!project.id) project.id = res.projectId;
|
|
374
|
-
} catch (e) {
|
|
375
|
-
console.error("Error editing project:", e.message || e);
|
|
376
|
-
throw e;
|
|
377
|
-
}
|
|
378
|
-
await this.appDispatchEdit({ project }, config);
|
|
379
|
-
}
|
|
380
|
-
async deleteProject(project) {
|
|
381
|
-
let success = false;
|
|
382
|
-
const body = {
|
|
383
|
-
genome: this.genome,
|
|
384
|
-
dslabel: this.dslabel,
|
|
385
|
-
project: {
|
|
386
|
-
name: project.value,
|
|
387
|
-
id: project.id
|
|
388
|
-
}
|
|
389
|
-
};
|
|
390
|
-
try {
|
|
391
|
-
const response = await this.prjtRepo.updateProject(body, "DELETE");
|
|
392
|
-
if (response && response.status === "ok") {
|
|
393
|
-
success = true;
|
|
394
|
-
}
|
|
395
|
-
} catch (e) {
|
|
396
|
-
console.error("Error deleting project:", e.message || e);
|
|
397
|
-
throw e;
|
|
398
|
-
}
|
|
399
|
-
return success;
|
|
400
|
-
}
|
|
401
|
-
async getFilteredImages(filter) {
|
|
402
|
-
const config = this.getConfig();
|
|
403
|
-
const settings = config.settings || {};
|
|
404
|
-
return await this.app.vocabApi.getFilteredAiImages(settings.project, filter);
|
|
405
|
-
}
|
|
406
|
-
async launchViewer(holder, _images) {
|
|
407
|
-
const config = this.getConfig();
|
|
408
|
-
const settings = config.settings;
|
|
409
|
-
if (!settings.project || !settings.project.id) throw new Error("Project is required to launch viewer");
|
|
410
|
-
let images = [];
|
|
411
|
-
if (_images && _images.length > 0) {
|
|
412
|
-
images = _images;
|
|
413
|
-
} else {
|
|
414
|
-
const response = await this.prjtRepo.getImagePaths(
|
|
415
|
-
this.genome,
|
|
416
|
-
this.dslabel,
|
|
417
|
-
settings.project
|
|
418
|
-
);
|
|
419
|
-
if (response.status !== "ok") {
|
|
420
|
-
await this.appDispatchEdit({ project: { name: "", type: "logout" } }, config);
|
|
421
|
-
sayerror(holder, response.error || "Error fetching images");
|
|
422
|
-
return;
|
|
423
|
-
}
|
|
424
|
-
holder.selectAll(".sjpp-deletable-ai-prjt-admin-div").remove();
|
|
425
|
-
images = response.images;
|
|
426
|
-
}
|
|
427
|
-
const wsiViewer = await import("./plot.wsi-E45KZGKD.js");
|
|
428
|
-
const genome = this.genome;
|
|
429
|
-
const dslabel = this.dslabel;
|
|
430
|
-
const logoutRenderer = new LogoutRenderer(this);
|
|
431
|
-
logoutRenderer.render(holder, genome, dslabel, settings.project.id);
|
|
432
|
-
wsiViewer.default(this.dslabel, holder, { name: this.genome }, null, settings.project.id, images, true);
|
|
433
|
-
}
|
|
434
|
-
async appDispatchEdit(settings, config = {}) {
|
|
435
|
-
if (!config?.settings) {
|
|
436
|
-
config = this.getConfig();
|
|
437
|
-
if (!config) throw new Error(`No plot with id='${this.id}' found.`);
|
|
438
|
-
}
|
|
439
|
-
const configSettings = config.settings;
|
|
440
|
-
const mergedSettings = {
|
|
441
|
-
project: { name: "", type: "logout", ...configSettings?.project, ...settings.project }
|
|
442
|
-
};
|
|
443
|
-
await this.app.dispatch({
|
|
444
|
-
type: "plot_edit",
|
|
445
|
-
id: this.id,
|
|
446
|
-
config: { settings: mergedSettings }
|
|
447
|
-
});
|
|
448
|
-
}
|
|
449
|
-
getConfig() {
|
|
450
|
-
return this.app.getState().plots.find((p) => p.id === this.id);
|
|
451
|
-
}
|
|
452
|
-
async exportAnnotations(projectId) {
|
|
453
|
-
const config = this.getConfig();
|
|
454
|
-
if (!config || !config.settings) throw new Error(`No plot with id='${this.id}' found.`);
|
|
455
|
-
const settings = config.settings || {};
|
|
456
|
-
let annotations = [];
|
|
457
|
-
try {
|
|
458
|
-
annotations = await this.prjtRepo.getAnnotations(this.genome, this.dslabel, projectId);
|
|
459
|
-
} catch (e) {
|
|
460
|
-
console.error("Error fetching annotations for export:", e?.message || e);
|
|
461
|
-
throw e;
|
|
462
|
-
}
|
|
463
|
-
const mime = "text/csv;charset=utf-8;";
|
|
464
|
-
let content;
|
|
465
|
-
if (!Array.isArray(annotations) || annotations.length === 0) {
|
|
466
|
-
content = "";
|
|
467
|
-
} else {
|
|
468
|
-
content = buildAnnotationsCsv(annotations);
|
|
469
|
-
}
|
|
470
|
-
const rawName = settings.project && settings.project.name ? String(settings.project.name) : `project-${projectId}`;
|
|
471
|
-
const safeName = rawName.replace(/[^a-z0-9_.-]/gi, "_").slice(0, 200);
|
|
472
|
-
const filename = `${safeName}-annotations.csv`;
|
|
473
|
-
try {
|
|
474
|
-
const blob = new Blob([content], { type: mime });
|
|
475
|
-
const url = URL.createObjectURL(blob);
|
|
476
|
-
const a = document.createElement("a");
|
|
477
|
-
a.href = url;
|
|
478
|
-
a.download = filename;
|
|
479
|
-
document.body.appendChild(a);
|
|
480
|
-
a.click();
|
|
481
|
-
a.remove();
|
|
482
|
-
setTimeout(() => URL.revokeObjectURL(url), 1e3);
|
|
483
|
-
} catch (e) {
|
|
484
|
-
console.error("Error creating annotation download:", e?.message || e);
|
|
485
|
-
throw e;
|
|
486
|
-
}
|
|
487
|
-
}
|
|
488
|
-
async onLogOut(genome, dslabel, projectId) {
|
|
489
|
-
try {
|
|
490
|
-
await dofetch3("aiProjectAdmin", {
|
|
491
|
-
body: {
|
|
492
|
-
genome,
|
|
493
|
-
dslabel,
|
|
494
|
-
for: "logout",
|
|
495
|
-
project: { id: projectId }
|
|
496
|
-
}
|
|
497
|
-
});
|
|
498
|
-
clearServerDataCache();
|
|
499
|
-
await this.appDispatchEdit({ project: { name: "", id: projectId, type: "logout" } });
|
|
500
|
-
} catch (e) {
|
|
501
|
-
console.error("Error logging out: " + (e.message || e));
|
|
502
|
-
throw e;
|
|
503
|
-
}
|
|
504
|
-
}
|
|
505
|
-
};
|
|
506
|
-
|
|
507
|
-
// plots/aiProjectAdmin/view/ClassesTableRender.ts
|
|
508
|
-
var ClassesTableRender = class {
|
|
509
|
-
constructor(holder, rows) {
|
|
510
|
-
this.dom = {
|
|
511
|
-
holder,
|
|
512
|
-
tableDiv: holder.append("div"),
|
|
513
|
-
btnDiv: holder.append("div")
|
|
514
|
-
};
|
|
515
|
-
this.columns = [
|
|
516
|
-
{ label: "" },
|
|
517
|
-
// Empty for the delete icon
|
|
518
|
-
{
|
|
519
|
-
label: "NAME",
|
|
520
|
-
editCallback: (rowIdx, cell) => {
|
|
521
|
-
const newValue = cell.value.trim();
|
|
522
|
-
const foundSameName = this.rows.some((r, i) => newValue === r[1].value.trim() && i !== rowIdx);
|
|
523
|
-
if (foundSameName) {
|
|
524
|
-
alert(`Class name '${newValue}' already exists`);
|
|
525
|
-
cell.value = this.rowsCopy[rowIdx][1].value;
|
|
526
|
-
cell.__td.text(this.rowsCopy[rowIdx][1].value);
|
|
527
|
-
return;
|
|
528
|
-
}
|
|
529
|
-
this.rowsCopy = this.rows.map((r) => r.map((c) => ({ ...c })));
|
|
530
|
-
}
|
|
531
|
-
},
|
|
532
|
-
{ label: "COLOR" }
|
|
533
|
-
];
|
|
534
|
-
const colorScale = getColors(5);
|
|
535
|
-
this.rows = rows || this.setDefaultClasses(colorScale);
|
|
536
|
-
this.rowsCopy = [];
|
|
537
|
-
this.renderTable();
|
|
538
|
-
this.renderAddClassBtn(colorScale);
|
|
539
|
-
}
|
|
540
|
-
renderTable() {
|
|
541
|
-
this.dom.tableDiv.select("table").remove();
|
|
542
|
-
if (!this.rows || this.rows.length === 0) return;
|
|
543
|
-
this.rowsCopy = this.rows.map((r) => r.map((c) => ({ ...c })));
|
|
544
|
-
renderTable({
|
|
545
|
-
div: this.dom.tableDiv,
|
|
546
|
-
columns: this.columns,
|
|
547
|
-
rows: this.rows,
|
|
548
|
-
striped: false,
|
|
549
|
-
showLines: false,
|
|
550
|
-
singleMode: false,
|
|
551
|
-
resize: true
|
|
552
|
-
});
|
|
553
|
-
for (const [i, row] of this.rows.entries()) {
|
|
554
|
-
const deleteBtn = row[0].__td.select(".sja_menuoption");
|
|
555
|
-
deleteBtn.on("click", () => {
|
|
556
|
-
this.rows.splice(i, 1);
|
|
557
|
-
this.renderTable();
|
|
558
|
-
});
|
|
559
|
-
}
|
|
560
|
-
}
|
|
561
|
-
setDefaultClasses(colorScale) {
|
|
562
|
-
const rows = [];
|
|
563
|
-
for (let i = 0; i < 4; i++) {
|
|
564
|
-
this.getNewClass(colorScale, rows);
|
|
565
|
-
}
|
|
566
|
-
return rows;
|
|
567
|
-
}
|
|
568
|
-
getNewClass(colorScale, rows) {
|
|
569
|
-
const getName = (i2) => `New class ${i2}`;
|
|
570
|
-
let i = 1;
|
|
571
|
-
let found = true;
|
|
572
|
-
while (found) {
|
|
573
|
-
const checkName = getName(i);
|
|
574
|
-
found = rows.some((r) => r[1].value == checkName);
|
|
575
|
-
if (found) i++;
|
|
576
|
-
}
|
|
577
|
-
rows.push([
|
|
578
|
-
{ html: `<div class="sja_menuoption">×<div>` },
|
|
579
|
-
{ value: getName(i) },
|
|
580
|
-
{ color: rgb(colorScale(`${i}`)).formatHex() }
|
|
581
|
-
]);
|
|
582
|
-
}
|
|
583
|
-
renderAddClassBtn(colorScale) {
|
|
584
|
-
this.dom.btnDiv.append("div").text("Add Class").classed("sja_menuoption", true).style("display", "inline-block").style("margin", "10px 0px 0px 0px").on("click", () => {
|
|
585
|
-
if (this.rows.length >= 9) {
|
|
586
|
-
alert("Maximum number of classes reached.");
|
|
587
|
-
return;
|
|
588
|
-
}
|
|
589
|
-
this.getNewClass(colorScale, this.rows);
|
|
590
|
-
this.renderTable();
|
|
591
|
-
});
|
|
592
|
-
}
|
|
593
|
-
};
|
|
594
|
-
|
|
595
|
-
// plots/aiProjectAdmin/view/SelectorTableRender.ts
|
|
596
|
-
var SelectorTableRender = class {
|
|
597
|
-
constructor(holder, interactions, images) {
|
|
598
|
-
this.images = { rows: [], cols: [] };
|
|
599
|
-
this.selectedRows = /* @__PURE__ */ new Set();
|
|
600
|
-
this.sortedIndexMap = [];
|
|
601
|
-
this.fileColumn = 0;
|
|
602
|
-
this.dom = {
|
|
603
|
-
holder,
|
|
604
|
-
tableDiv: holder.append("div").attr("class", ".sjpp-deletable-ai-prjt-admin-div").attr("id", "sjpp-selector-table").style("padding", "10px 0"),
|
|
605
|
-
btnDiv: holder.append("div").attr("class", ".sjpp-deletable-ai-prjt-admin-div").attr("id", "sjpp-selector-btns")
|
|
606
|
-
};
|
|
607
|
-
this.images = images;
|
|
608
|
-
this.interactions = interactions;
|
|
609
|
-
const selectedList = images?.selectedImages;
|
|
610
|
-
const normalizeImageName = (s) => String(s ?? "").replace(/\.svs$/i, "").toLowerCase();
|
|
611
|
-
const selectedSet = new Set((selectedList || []).map(normalizeImageName));
|
|
612
|
-
this.fileColumn = 0;
|
|
613
|
-
this.selectedRows = /* @__PURE__ */ new Set();
|
|
614
|
-
(this.images?.rows ?? []).forEach((row, i) => {
|
|
615
|
-
const candidate = row?.[this.fileColumn]?.value;
|
|
616
|
-
const n = normalizeImageName(candidate);
|
|
617
|
-
if (selectedSet.has(n)) this.selectedRows.add(i);
|
|
618
|
-
});
|
|
619
|
-
this.render();
|
|
620
|
-
}
|
|
621
|
-
render() {
|
|
622
|
-
if (this.images === void 0) this.dom.tableDiv.append("div").text("No images found").style("color", "red");
|
|
623
|
-
const columns = this.images.cols.map((c) => ({ ...c, sortable: true })) || [];
|
|
624
|
-
if (!columns.length) {
|
|
625
|
-
this.dom.tableDiv.append("div").text("Missing columns data").style("color", "red");
|
|
626
|
-
this.renderApplyBtn(
|
|
627
|
-
/*disable=*/
|
|
628
|
-
true
|
|
629
|
-
);
|
|
630
|
-
return;
|
|
631
|
-
}
|
|
632
|
-
const rows = this.images?.rows ?? [];
|
|
633
|
-
const mapped = rows.map((row, origIdx) => ({
|
|
634
|
-
row,
|
|
635
|
-
origIdx,
|
|
636
|
-
selected: this.selectedRows.has(origIdx)
|
|
637
|
-
}));
|
|
638
|
-
mapped.sort((a, b) => {
|
|
639
|
-
const selDiff = Number(b.selected) - Number(a.selected);
|
|
640
|
-
return selDiff || a.origIdx - b.origIdx;
|
|
641
|
-
});
|
|
642
|
-
const rowsSorted = mapped.map((m) => m.row);
|
|
643
|
-
this.sortedIndexMap = mapped.map((m) => m.origIdx);
|
|
644
|
-
const selectedRowsForRender = mapped.reduce((acc, m, idx) => {
|
|
645
|
-
if (m.selected) acc.push(idx);
|
|
646
|
-
return acc;
|
|
647
|
-
}, []);
|
|
648
|
-
renderTable({
|
|
649
|
-
div: this.dom.tableDiv,
|
|
650
|
-
columns,
|
|
651
|
-
rows: rowsSorted,
|
|
652
|
-
selectedRows: selectedRowsForRender,
|
|
653
|
-
striped: true,
|
|
654
|
-
header: { allowSort: true },
|
|
655
|
-
noButtonCallback: (_, node) => {
|
|
656
|
-
const initialIdx = Number(node?.value);
|
|
657
|
-
const orig = this.sortedIndexMap?.[initialIdx];
|
|
658
|
-
if (orig === void 0) return;
|
|
659
|
-
if (node.checked) {
|
|
660
|
-
this.selectedRows.add(orig);
|
|
661
|
-
} else {
|
|
662
|
-
this.selectedRows.delete(orig);
|
|
663
|
-
}
|
|
664
|
-
}
|
|
665
|
-
});
|
|
666
|
-
this.renderApplyBtn(
|
|
667
|
-
/*disable=*/
|
|
668
|
-
false
|
|
669
|
-
);
|
|
670
|
-
}
|
|
671
|
-
renderApplyBtn(disable = false) {
|
|
672
|
-
const btn = this.dom.btnDiv.append("div").text("Apply").classed("sja_menuoption", true).style("display", "block").style("width", "fit-content").style("margin-left", "5vw");
|
|
673
|
-
if (disable) btn.attr("disabled", true);
|
|
674
|
-
btn.on("click", async () => {
|
|
675
|
-
if (!this.selectedRows.size) {
|
|
676
|
-
alert(`No rows selected. Please select some rows.`);
|
|
677
|
-
return;
|
|
678
|
-
}
|
|
679
|
-
btn.attr("disabled", true);
|
|
680
|
-
const images = Array.from(this.selectedRows).map((i) => `${this.images.rows[i][this.fileColumn].value}.svs`);
|
|
681
|
-
await this.interactions.editProject({
|
|
682
|
-
project: {
|
|
683
|
-
images,
|
|
684
|
-
type: "edit"
|
|
685
|
-
}
|
|
686
|
-
});
|
|
687
|
-
this.dom.holder.selectAll("*").remove();
|
|
688
|
-
await this.interactions.launchViewer(this.dom.holder, images);
|
|
689
|
-
});
|
|
690
|
-
}
|
|
691
|
-
};
|
|
692
|
-
|
|
693
|
-
// plots/aiProjectAdmin/view/UsersRender.ts
|
|
694
|
-
var UsersRender = class {
|
|
695
|
-
constructor(dom, users = []) {
|
|
696
|
-
this.dom = dom;
|
|
697
|
-
this.users = users.slice();
|
|
698
|
-
}
|
|
699
|
-
render() {
|
|
700
|
-
const container = this.dom.holder.append("div").attr("id", "sjpp-users-render").attr("class", "sjpp-deletable-ai-prjt-admin-div").style("padding", "10px");
|
|
701
|
-
const inputRow = container.append("div").attr("class", "sjpp-users-input-row").style("margin-bottom", "10px");
|
|
702
|
-
const input = inputRow.append("input").attr("type", "text").attr("placeholder", "user@example.com").attr("id", "sjpp-user-email-input").style("margin-right", "8px").style("width", "300px");
|
|
703
|
-
const addBtn = inputRow.append("div").text("Add").classed("sja_menuoption", true).style("display", "inline-block").property("disabled", true).on("click", () => {
|
|
704
|
-
const email = input.property("value").trim();
|
|
705
|
-
const showError = (msg) => {
|
|
706
|
-
sayerror(this.dom.errorDiv, msg);
|
|
707
|
-
setTimeout(() => this.dom.errorDiv.selectAll("*").remove(), 3e3);
|
|
708
|
-
};
|
|
709
|
-
if (email.length === 0) {
|
|
710
|
-
return showError("Email cannot be empty");
|
|
711
|
-
}
|
|
712
|
-
const emailRe = /^[A-Za-z0-9._%+-]+@[A-Za-z0-9.-]+\.[A-Za-z]{2,}$/;
|
|
713
|
-
if (!emailRe.test(email)) {
|
|
714
|
-
return showError("Invalid email address");
|
|
715
|
-
}
|
|
716
|
-
if (this.users.includes(email)) {
|
|
717
|
-
return showError("Email already added");
|
|
718
|
-
}
|
|
719
|
-
this.users.push(email);
|
|
720
|
-
input.property("value", "");
|
|
721
|
-
addBtn.property("disabled", true);
|
|
722
|
-
this.renderTableArea(container);
|
|
723
|
-
});
|
|
724
|
-
input.on("input", () => {
|
|
725
|
-
addBtn.property("disabled", input.property("value").trim().length === 0);
|
|
726
|
-
});
|
|
727
|
-
this.renderTableArea(container);
|
|
728
|
-
}
|
|
729
|
-
renderTableArea(container) {
|
|
730
|
-
container.select(".sjpp-users-table-area").remove();
|
|
731
|
-
const tableDiv = container.append("div").attr("class", "sjpp-users-table-area").style("padding", "6px 0");
|
|
732
|
-
if (!this.users.length) {
|
|
733
|
-
tableDiv.append("div").text("No users added yet.").style("color", "#666");
|
|
734
|
-
return;
|
|
735
|
-
}
|
|
736
|
-
const columns = [{ label: "Email", sortable: true }];
|
|
737
|
-
const columnButtons = [
|
|
738
|
-
{
|
|
739
|
-
text: "\xD7",
|
|
740
|
-
class: "sja_menuoption",
|
|
741
|
-
callback: (_, idx) => {
|
|
742
|
-
this.users.splice(idx, 1);
|
|
743
|
-
container.select(".sjpp-users-table-area").remove();
|
|
744
|
-
this.renderTableArea(container);
|
|
745
|
-
}
|
|
746
|
-
}
|
|
747
|
-
];
|
|
748
|
-
renderTable({
|
|
749
|
-
div: tableDiv,
|
|
750
|
-
rows: this.users.map((u) => [{ value: u }]),
|
|
751
|
-
columns,
|
|
752
|
-
columnButtons,
|
|
753
|
-
singleMode: false,
|
|
754
|
-
striped: false,
|
|
755
|
-
showLines: false,
|
|
756
|
-
resize: true
|
|
757
|
-
});
|
|
758
|
-
tableDiv.selectAll(".sja_menuoption").html("\xD7<div></div>");
|
|
759
|
-
}
|
|
760
|
-
};
|
|
761
|
-
|
|
762
|
-
// plots/aiProjectAdmin/view/CreateProjectRender.ts
|
|
763
|
-
var CreateProjectRender = class {
|
|
764
|
-
constructor(dom, app, interactions) {
|
|
765
|
-
dom.holder.style("padding", "10px 20px").attr("class", "sjpp-deletable-ai-prjt-admin-div");
|
|
766
|
-
const filterDiv = dom.holder.append("div").attr("id", "sjpp-ai-prjt-admin-filter-div");
|
|
767
|
-
const wrapper = dom.holder.append("div").attr("id", "sjpp-ai-prjt-admin-classes-users-wrapper").style("display", "flex").style("gap", "20px").style("align-items", "flex-start").style("padding", "20px 0px");
|
|
768
|
-
const left = wrapper.append("div").attr("id", "sjpp-ai-prjt-admin-classes-table").style("flex", "0 1 auto");
|
|
769
|
-
const right = wrapper.append("div").attr("id", "sjpp-ai-prjt-admin-users").style("width", "320px").style("margin-left", "8px");
|
|
770
|
-
this.dom = {
|
|
771
|
-
holder: dom.holder,
|
|
772
|
-
errorDiv: dom.errorDiv,
|
|
773
|
-
filterDiv,
|
|
774
|
-
classDiv: left,
|
|
775
|
-
usersDiv: right
|
|
776
|
-
};
|
|
777
|
-
this.app = app;
|
|
778
|
-
this.interactions = interactions;
|
|
779
|
-
this.filter = null;
|
|
780
|
-
}
|
|
781
|
-
render() {
|
|
782
|
-
this.renderFilter();
|
|
783
|
-
this.classesTable = new ClassesTableRender(this.dom.classDiv);
|
|
784
|
-
this.usersRender = new UsersRender({ holder: this.dom.usersDiv, errorDiv: this.dom.errorDiv }, []);
|
|
785
|
-
this.usersRender.render();
|
|
786
|
-
this.renderApplyBtn();
|
|
787
|
-
}
|
|
788
|
-
renderFilter() {
|
|
789
|
-
const filter = filterInit({
|
|
790
|
-
holder: this.dom.filterDiv,
|
|
791
|
-
emptyLabel: "Add filter",
|
|
792
|
-
vocabApi: this.app.vocabApi,
|
|
793
|
-
termdbConfig: this.app.vocabApi.termdbConfig,
|
|
794
|
-
callback: (filter2) => {
|
|
795
|
-
this.filter = filter2;
|
|
796
|
-
}
|
|
797
|
-
});
|
|
798
|
-
const state = this.app.getState();
|
|
799
|
-
const root = getNormalRoot(state.termfilter.filter);
|
|
800
|
-
filter.main(root);
|
|
801
|
-
}
|
|
802
|
-
renderApplyBtn() {
|
|
803
|
-
const btn = this.dom.classDiv.append("div").text("Apply").classed("sja_menuoption", true).style("display", "inline-block").style("margin-left", "200px").on("click", async () => {
|
|
804
|
-
btn.attr("disabled", true);
|
|
805
|
-
const selections = await this.interactions.getFilteredImages(this.filter);
|
|
806
|
-
if (this.filter && selections.status !== "ok" || selections.data?.selectedImages?.length === 0) {
|
|
807
|
-
alert("No images match your filter criteria.");
|
|
808
|
-
return;
|
|
809
|
-
}
|
|
810
|
-
if (!this.usersRender || !Array.isArray(this.usersRender.users) || this.usersRender.users.length === 0) {
|
|
811
|
-
alert("Please add at least one user.");
|
|
812
|
-
btn.attr("disabled", null);
|
|
813
|
-
return;
|
|
814
|
-
}
|
|
815
|
-
await this.interactions.addProject({
|
|
816
|
-
project: {
|
|
817
|
-
filter: this.filter,
|
|
818
|
-
classes: this.classesTable.rows.map((row, i) => {
|
|
819
|
-
return { label: row[1].value, color: row[2].color, key_shortcut: `Digit${i + 1}` };
|
|
820
|
-
}),
|
|
821
|
-
users: this.usersRender?.users || []
|
|
822
|
-
}
|
|
823
|
-
});
|
|
824
|
-
this.dom.holder.selectAll("*").remove();
|
|
825
|
-
new SelectorTableRender(this.dom.holder, this.interactions, selections.data);
|
|
826
|
-
});
|
|
827
|
-
}
|
|
828
|
-
/**** Uncomment before production */
|
|
829
|
-
// private validateInput() {
|
|
830
|
-
// const invalidInfo = {
|
|
831
|
-
// entries: [] as { dataType: string; reason: string }[],
|
|
832
|
-
// errorMsg: 'Please clear all "Data type: Class" errors before applying changes.'
|
|
833
|
-
// }
|
|
834
|
-
// //Show user error if no filter is defined.
|
|
835
|
-
// if (!this.filter) {
|
|
836
|
-
// invalidInfo.entries.push({ dataType: 'Filter', reason: 'No filter defined. Did you mean to add a filter?' })
|
|
837
|
-
// }
|
|
838
|
-
// //Check if all classes were deleted
|
|
839
|
-
// const classes = this.classesTable?.rows.map(row => row[1].value) || []
|
|
840
|
-
// if (classes.length === 0) {
|
|
841
|
-
// invalidInfo.entries.push({ dataType: 'Class', reason: 'No classes defined. Did you mean to add a class?' })
|
|
842
|
-
// }
|
|
843
|
-
// //Check to see if any class is still a default class
|
|
844
|
-
// const unchangedClasses =
|
|
845
|
-
// this.classesTable?.rows
|
|
846
|
-
// .filter(row => (row[1]?.value as string)?.startsWith('New class'))
|
|
847
|
-
// .map(r => r[1]?.value as string) || []
|
|
848
|
-
// for (const c of unchangedClasses) {
|
|
849
|
-
// invalidInfo.entries.push({ dataType: 'Class', reason: `${c} is the default class name. Please rename.` })
|
|
850
|
-
// }
|
|
851
|
-
// return invalidInfo
|
|
852
|
-
// }
|
|
853
|
-
};
|
|
854
|
-
|
|
855
|
-
// plots/aiProjectAdmin/AIProjectAdmin.ts
|
|
856
|
-
var AIProjectAdmin = class extends PlotBase {
|
|
857
|
-
constructor(opts, api) {
|
|
858
|
-
super(opts, api);
|
|
859
|
-
this.type = "AIProjectAdmin";
|
|
860
|
-
this.opts = opts;
|
|
861
|
-
this.dom = {
|
|
862
|
-
holder: opts.holder,
|
|
863
|
-
errorDiv: opts.holder.append("div").style("margin", "3px").attr("class", "sjpp-ai-prjt-admin-error")
|
|
864
|
-
};
|
|
865
|
-
if (opts.header) this.dom.header = opts.header;
|
|
866
|
-
this.prjtRepo = new ProjectReposity();
|
|
867
|
-
}
|
|
868
|
-
static {
|
|
869
|
-
this.type = "AIProjectAdmin";
|
|
870
|
-
}
|
|
871
|
-
getState(appState) {
|
|
872
|
-
const config = appState.plots.find((p) => p.id === this.id);
|
|
873
|
-
if (!config) {
|
|
874
|
-
throw `No plot with id='${this.id}' found. Did you set this.id before this.api = getComponentApi(this)?`;
|
|
875
|
-
}
|
|
876
|
-
return {
|
|
877
|
-
config,
|
|
878
|
-
vocab: appState.vocab,
|
|
879
|
-
filter: appState.termfilter.filter
|
|
880
|
-
};
|
|
881
|
-
}
|
|
882
|
-
async displayProjects(state, interactions) {
|
|
883
|
-
try {
|
|
884
|
-
this.projects = await this.prjtRepo.getProjects(state.vocab.genome, state.vocab.dslabel);
|
|
885
|
-
} catch (e) {
|
|
886
|
-
console.error("Error initializing AIProjectAdmin:", e);
|
|
887
|
-
throw e;
|
|
888
|
-
}
|
|
889
|
-
this.prjtAdminUI = new ProjectAdminRender(this.dom, this.projects, interactions, this.app);
|
|
890
|
-
this.prjtAdminUI.renderProjectAdmin();
|
|
891
|
-
}
|
|
892
|
-
async init(appState) {
|
|
893
|
-
this.interactions = new AIProjectAdminInteractions(this.app, this.id, this.prjtRepo);
|
|
894
|
-
await this.displayProjects(appState, this.interactions);
|
|
895
|
-
}
|
|
896
|
-
async main() {
|
|
897
|
-
const state = structuredClone(this.state);
|
|
898
|
-
const config = state.config;
|
|
899
|
-
if (config.chartType != this.type) return;
|
|
900
|
-
const project = config.settings.project;
|
|
901
|
-
if (!project) return;
|
|
902
|
-
if (!this.interactions) throw new Error("AIProjectAdminInteractions not initialized");
|
|
903
|
-
this.dom.holder.selectAll(".sjpp-deletable-ai-prjt-admin-div").remove();
|
|
904
|
-
if (project.type === "new") {
|
|
905
|
-
const terms = await this.prjtRepo.getTerms(this.app);
|
|
906
|
-
if (!terms || terms.length === 0) {
|
|
907
|
-
sayerror(this.dom.errorDiv, "No metadata found.");
|
|
908
|
-
return;
|
|
909
|
-
}
|
|
910
|
-
const createProjectRender = new CreateProjectRender(this.dom, this.app, this.interactions);
|
|
911
|
-
createProjectRender.render();
|
|
912
|
-
}
|
|
913
|
-
if (project.type == "existing") {
|
|
914
|
-
if (!project.name) {
|
|
915
|
-
sayerror(this.dom.errorDiv, "Project name not provided.");
|
|
916
|
-
return;
|
|
917
|
-
}
|
|
918
|
-
if (!project.id) {
|
|
919
|
-
const existingProject = this.projects?.find((p) => p.name === project.name);
|
|
920
|
-
if (!existingProject) {
|
|
921
|
-
sayerror(this.dom.errorDiv, `Project ${project.name} not found.`);
|
|
922
|
-
return;
|
|
923
|
-
}
|
|
924
|
-
await this.app.save({
|
|
925
|
-
type: "plot_edit",
|
|
926
|
-
id: this.id,
|
|
927
|
-
config: { settings: { project: { id: existingProject.id } } }
|
|
928
|
-
});
|
|
929
|
-
}
|
|
930
|
-
await this.interactions.launchViewer(this.dom.holder, []);
|
|
931
|
-
}
|
|
932
|
-
if (project.type === "logout") {
|
|
933
|
-
await this.displayProjects(state, this.interactions);
|
|
934
|
-
}
|
|
935
|
-
}
|
|
936
|
-
};
|
|
937
|
-
var aiProjectAdminInit = getCompInit(AIProjectAdmin);
|
|
938
|
-
var componentInit = aiProjectAdminInit;
|
|
939
|
-
async function getPlotConfig(opts) {
|
|
940
|
-
const config = {
|
|
941
|
-
chartType: "AIProjectAdmin",
|
|
942
|
-
subfolder: "aiProjectAdmin",
|
|
943
|
-
extension: "ts",
|
|
944
|
-
hidePlotFilter: true,
|
|
945
|
-
//Disable the filter in the sandbox header
|
|
946
|
-
settings: getDefaultAIProjectAdminSettings(opts.overrides)
|
|
947
|
-
};
|
|
948
|
-
if (opts.settings?.project && !opts.settings?.project?.type) {
|
|
949
|
-
opts.settings.project.type = "existing";
|
|
950
|
-
}
|
|
951
|
-
return copyMerge(config, opts);
|
|
952
|
-
}
|
|
953
|
-
export {
|
|
954
|
-
aiProjectAdminInit,
|
|
955
|
-
componentInit,
|
|
956
|
-
getPlotConfig
|
|
957
|
-
};
|
|
958
|
-
//# sourceMappingURL=AIProjectAdmin-7QGTPN3B.js.map
|