@datagrok/helm 2.0.0 → 2.0.3
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/README.md +1 -1
- package/dist/package-test.js +2827 -92
- package/dist/package.js +666 -217
- package/helm/JSDraw/test.html +3 -0
- package/package.json +25 -20
- package/src/__jest__/remote.test.ts +4 -4
- package/src/__jest__/test-node.ts +3 -2
- package/src/package-test.ts +0 -1
- package/src/package.ts +300 -82
- package/src/tests/helm-tests.ts +46 -16
- package/{test-Helm-4f0c8bae6479-529c5bce.html → test-Helm-4f0c8bae6479-d7a9fa45.html} +5 -4
- /package/{images → vendor}/helm-rendering.png +0 -0
package/src/tests/helm-tests.ts
CHANGED
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@@ -1,13 +1,13 @@
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import {before, category, expect, test} from '@datagrok-libraries/utils/src/test';
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import {helmToFasta, helmToPeptide, helmToRNA} from '../package';
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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 {loadDialog, manageFiles, monomerManager} 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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category('Helm', () => {
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// These tests require webservice that is not present on test stand
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//These tests require webservice that is not present on test stand
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// test('helmToFasta', async () => {
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// expect(await helmToFasta('RNA1{R(U)P.R(T)P.R(G)P.R(C)P.R(A)}$$$$'), '>RNA1UTGCA');
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// expect(await helmToFasta('RNA1{P.R(U).P.R(T)}$$$$'), '>RNA1UT');
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@@ -28,19 +28,49 @@ category('Helm', () => {
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// expect(await helmToPeptide('PEPTIDE1{A.R.C.A.A.K.T.C.D.A}$PEPTIDE1,PEPTIDE1,8:R3-3:R3$$$'), 'ARCAAKTCDA');
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// });
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// detectMacromolecule is a function of Bio package
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// test('detectMacromolecule', async () => {
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// const file = await _package.files.readAsText('tests/test.csv');
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// const df = DG.DataFrame.fromCsv(file);
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// const col = df.columns.byName('HELM string');
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// await grok.data.detectSemanticTypes(df);
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// expect(col.semType, DG.SEMTYPE.MACROMOLECULE);
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// });
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// semType and units tags are detecting by Bio package function detectMacromolecule
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// test('detectHelm', async () => {
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// const file = await _package.files.readAsText('tests/test.csv');
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// const df = DG.DataFrame.fromCsv(file);
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// const col = df.columns.byName('HELM string');
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// await grok.data.detectSemanticTypes(df);
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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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test('loadDialog', async() => {
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return await grok.functions.call('Helm:loadDialog');
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});
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test('
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const
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test('monomerManager', async() => {
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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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const types = Object.keys(org.helm.webeditor.monomerTypeList());
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const monomers: any = [];
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for (var i = 0; i < types.length; i++) {
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//@ts-ignore
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monomers.push(new scil.helm.Monomers.getMonomerSet(types[i]));
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Object.keys(monomers[i]).forEach(k => {
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if (monomers[i][k].n == checkName){
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flag = true;
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}
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});
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}
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expect(flag, true);
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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=4f0c8bae6479. Commit
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<html><head><meta charset="utf-8"/><title>Helm Test Report. Datagrok version datagrok/datagrok:latest SHA=4f0c8bae6479. Commit d7a9fa45.</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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@@ -229,8 +229,7 @@ header {
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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=4f0c8bae6479. Commit
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Test result : Helm.Helm.detectHelm : Error: Expected "HELM", got "null"
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</style></head><body><div id="jesthtml-content"><header><h1 id="title">Helm Test Report. Datagrok version datagrok/datagrok:latest SHA=4f0c8bae6479. Commit d7a9fa45.</h1></header><div id="metadata-container"><div id="timestamp">Started: 2022-08-24 13:52:53</div><div id="summary"><div id="suite-summary"><div class="summary-total">Suites (1)</div><div class="summary-passed summary-empty">0 passed</div><div class="summary-failed">1 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 summary-empty">0 passed</div><div class="summary-failed">1 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">19.938s</div></div><div class="suite-tests"><div class="test-result failed"><div class="test-info"><div class="test-suitename"> </div><div class="test-title">TEST</div><div class="test-status">failed</div><div class="test-duration">3.954s</div></div><div class="failureMessages"> <pre class="failureMsg">Error: Test result : Failed : Helm.Helm.manageFiles : TypeError: datagrok_api_ui__WEBPACK_IMPORTED_MODULE_1__.fileBrowser is not a function
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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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@@ -248,4 +247,6 @@ Test result : Helm.Helm.detectHelm : Error: Expected "HELM", got "null"
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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:65:11
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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"
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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.loadDialog : OK
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Test result : Success : Helm.Helm.monomerManager : OK
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</pre></div></div></div></div></body></html>
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File without changes
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