@datagrok/helm 2.0.3 → 2.0.6
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/package-test.js +57543 -824
- package/dist/package.js +57339 -704
- package/package.json +5 -5
- package/src/__jest__/remote.test.ts +7 -6
- package/src/__jest__/test-node.ts +1 -1
- package/src/helm-web-editor.ts +45 -0
- package/src/package-test.ts +4 -3
- package/src/package.ts +327 -198
- package/src/tests/helm-tests.ts +24 -6
- package/{test-Helm-4f0c8bae6479-d7a9fa45.html → test-Helm-49ff04f38f57-48c80158.html} +6 -10
package/src/tests/helm-tests.ts
CHANGED
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@@ -1,7 +1,7 @@
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import {after, before, category, delay, expect, test} from '@datagrok-libraries/utils/src/test';
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//import {findMonomers, helmToFasta, helmToPeptide, helmToRNA, initHelm} from '../package';
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import {_package} from '../package-test';
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import {
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import {manageFiles, parseHelm} from '../package';
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import * as DG from 'datagrok-api/dg';
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import * as grok from 'datagrok-api/grok';
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@@ -46,16 +46,14 @@ category('Helm', () => {
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// expect(col.tags[DG.TAGS.UNITS], 'HELM');
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// });
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test('manageFiles', async () => {
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return await manageFiles();
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});
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return await grok.functions.call('Helm:loadDialog');
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});
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test('monomerManager', async() => {
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const df: DG.DataFrame = DG.DataFrame.fromCsv(await _package.files.readAsText('tests/test.csv'));
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grok.shell.addTableView(df);
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await grok.functions.call('Helm:monomerManager', {value: 'HELMCoreLibrary.json'});
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const checkName = '2-Chloroadenine';
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let flag = false;
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@@ -73,4 +71,24 @@ category('Helm', () => {
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expect(flag, true);
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});
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test('parseHelm', async() => {
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const expectedResults = [
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['meI', 'hHis', 'Aca', 'N', 'T', 'dK', 'Thr_PO3H2', 'D-Tyr_Et', 'Aze', 'dV', 'E', 'Phe_4Me'],
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['A', 'C', 'T', 'G', 'W', 'E', 'Q'],
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['R', 'U', 'P', 'T', 'A'],
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['A', '*', 'G', 'C']
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];
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const helmStrings = [
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'PEPTIDE1{meI.hHis.Aca.N.T.dK.Thr_PO3H2.Aca.D-Tyr_Et.Aze.dV.E.N.dV.Phe_4Me}$$$',
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'PEPTIDE1{A.C.T.G.C.T.W.G.T.W.E.C.W.C.Q.W}|PEPTIDE2{A.C.T.G.C.T.W.G.T.W.E.Q}$PEPTIDE1,PEPTIDE1,5:R3-14:R3|PEPTIDE2,PEPTIDE1,2:R3-12:R3$$$',
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'RNA1{R(U)P.R(T)P}|RNA2{P.R(A)P.R(A)}$RNA1,RNA2,2:pair-6:pair|RNA1,RNA2,5:pair-3:pair$$$',
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'PEPTIDE1{A.*.G.C}$$$$V2.0'
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];
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for (let idx = 0; idx < helmStrings.length; ++idx) {
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let monomerSet = new Set(parseHelm(helmStrings[idx]));
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let monomerArray = Array.from(monomerSet);
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expect(JSON.stringify(monomerArray), JSON.stringify(expectedResults[idx]));
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}
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});
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});
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<html><head><meta charset="utf-8"/><title>Helm Test Report. Datagrok version datagrok/datagrok:latest SHA=
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<html><head><meta charset="utf-8"/><title>Helm Test Report. Datagrok version datagrok/datagrok:latest SHA=49ff04f38f57. Commit 48c80158.</title><style type="text/css">html,
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body {
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font-family: Arial, Helvetica, sans-serif;
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font-size: 1rem;
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font-size: 1rem;
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padding: 0 0.5rem;
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}
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</style></head><body><div id="jesthtml-content"><header><h1 id="title">Helm Test Report. Datagrok version datagrok/datagrok:latest SHA=
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at /home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts:67:20
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at Generator.next (<anonymous>)
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at fulfilled (/home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts:31:58)
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at processTicksAndRejections (internal/process/task_queues.js:97:5)</pre></div></div></div><div class="suite-consolelog"><div class="suite-consolelog-header">Console Log</div><div class="suite-consolelog-item"><pre class="suite-consolelog-item-origin"> at Object.<anonymous> (/home/runner/work/public/public/packages/Helm/src/__jest__/test-node.ts:61:11)
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</style></head><body><div id="jesthtml-content"><header><h1 id="title">Helm Test Report. Datagrok version datagrok/datagrok:latest SHA=49ff04f38f57. Commit 48c80158.</h1></header><div id="metadata-container"><div id="timestamp">Started: 2022-10-25 11:59:02</div><div id="summary"><div id="suite-summary"><div class="summary-total">Suites (1)</div><div class="summary-passed">1 passed</div><div class="summary-failed summary-empty">0 failed</div><div class="summary-pending summary-empty">0 pending</div></div><div id="test-summary"><div class="summary-total">Tests (1)</div><div class="summary-passed">1 passed</div><div class="summary-failed summary-empty">0 failed</div><div class="summary-pending summary-empty">0 pending</div></div></div></div><div id="suite-1" class="suite-container"><div class="suite-info"><div class="suite-path">/home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts</div><div class="suite-time warn">14.844s</div></div><div class="suite-tests"><div class="test-result passed"><div class="test-info"><div class="test-suitename"> </div><div class="test-title">TEST</div><div class="test-status">passed</div><div class="test-duration">5.034s</div></div></div></div><div class="suite-consolelog"><div class="suite-consolelog-header">Console Log</div><div class="suite-consolelog-item"><pre class="suite-consolelog-item-origin"> at Object.<anonymous> (/home/runner/work/public/public/packages/Helm/src/__jest__/test-node.ts:61:11)
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at Generator.next (<anonymous>)
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at fulfilled (/home/runner/work/public/public/packages/Helm/src/__jest__/test-node.ts:28:58)
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at processTicksAndRejections (internal/process/task_queues.js:97:5)</pre><pre class="suite-consolelog-item-message">Using web root: http://localhost:8080</pre></div><div class="suite-consolelog-item"><pre class="suite-consolelog-item-origin"> at /home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts:40:11
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at Object.<anonymous>.__awaiter (/home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts:30:12)
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at Object.<anonymous> (/home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts:38:23)
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at Promise.then.completed (/home/runner/work/public/public/packages/Helm/node_modules/jest-circus/build/utils.js:391:28)
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at new Promise (<anonymous>)</pre><pre class="suite-consolelog-item-message">Testing Helm package</pre></div><div class="suite-consolelog-item"><pre class="suite-consolelog-item-origin"> at /home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts:
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at new Promise (<anonymous>)</pre><pre class="suite-consolelog-item-message">Testing Helm package</pre></div><div class="suite-consolelog-item"><pre class="suite-consolelog-item-origin"> at /home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts:66:11
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at Generator.next (<anonymous>)
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at fulfilled (/home/runner/work/public/public/packages/Helm/src/__jest__/remote.test.ts:31:58)
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at processTicksAndRejections (internal/process/task_queues.js:97:5)</pre><pre class="suite-consolelog-item-message">Test result : Success : Helm.Helm.
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Test result : Success : Helm.Helm.monomerManager : OK
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at processTicksAndRejections (internal/process/task_queues.js:97:5)</pre><pre class="suite-consolelog-item-message">Test result : Success : 48 : Helm.Helm.manageFiles : OK
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Test result : Success : 839 : Helm.Helm.monomerManager : OK
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Test result : Success : 2 : Helm.Helm.parseHelm : OK
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</pre></div></div></div></div></body></html>
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