molstar
Version:
A comprehensive macromolecular library.
57 lines (56 loc) • 2.43 kB
JavaScript
;
/**
* Copyright (c) 2018-2022 mol* contributors, licensed under MIT, See LICENSE file for more info.
*
* @author Adam Midlik <midlik@gmail.com>
*/
Object.defineProperty(exports, "__esModule", { value: true });
exports.tryGetIsovalue = tryGetIsovalue;
exports.getPdbIdsForEmdbEntry = getPdbIdsForEmdbEntry;
const helpers_1 = require("./helpers");
/** Try to get author-defined contour value for isosurface from EMDB API. Return relative value 1.0, if not applicable or fails. */
async function tryGetIsovalue(entryId) {
var _a, _b;
const split = (0, helpers_1.splitEntryId)(entryId);
if (split.source === 'emdb') {
try {
const response = await fetch(`https://www.ebi.ac.uk/emdb/api/entry/map/${split.entryNumber}`);
const json = await response.json();
const contours = (_b = (_a = json === null || json === void 0 ? void 0 : json.map) === null || _a === void 0 ? void 0 : _a.contour_list) === null || _b === void 0 ? void 0 : _b.contour;
if (contours && contours.length > 0) {
const theContour = contours.find(c => c.primary) || contours[0];
if (theContour.level === undefined)
throw new Error('EMDB API response missing contour level.');
return { kind: 'absolute', value: theContour.level };
}
}
catch (_c) {
// do nothing
}
}
return undefined;
}
async function getPdbIdsForEmdbEntry(entryId) {
var _a, _b, _c;
const split = (0, helpers_1.splitEntryId)(entryId);
const result = [];
if (split.source === 'emdb') {
entryId = entryId.toUpperCase();
const apiUrl = `https://www.ebi.ac.uk/pdbe/api/emdb/entry/fitted/${entryId}`;
try {
const response = await fetch(apiUrl);
if (response.ok) {
const json = await response.json();
const jsonEntry = (_a = json[entryId]) !== null && _a !== void 0 ? _a : [];
for (const record of jsonEntry) {
const pdbs = (_c = (_b = record === null || record === void 0 ? void 0 : record.fitted_emdb_id_list) === null || _b === void 0 ? void 0 : _b.pdb_id) !== null && _c !== void 0 ? _c : [];
result.push(...pdbs);
}
}
}
catch (ex) {
// do nothing
}
}
return result;
}