@datagrok/bio 2.0.11 → 2.0.13

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Files changed (8) hide show
  1. package/dist/package-test.js +28 -18
  2. package/dist/package.js +26 -16
  3. package/package.json +1 -1
  4. package/src/tests/renderers-test.ts +1 -1
  5. package/src/tests/sequence-space-test.ts +2 -2
  6. package/src/utils/cell-renderer.ts +2 -1
  7. package/src/utils/sequence-activity-cliffs.ts +34 -18
  8. package/test-Bio-7770371320b2-f8f97c6e.html +374 -0
package/package.json CHANGED
@@ -5,7 +5,7 @@
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  "name": "Leonid Stolbov",
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  "email": "lstolbov@datagrok.ai"
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  },
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- "version": "2.0.11",
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+ "version": "2.0.13",
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  "description": "Bio is a [package](https://datagrok.ai/help/develop/develop#packages) for the [Datagrok](https://datagrok.ai) platform",
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  "repository": {
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  "type": "git",
package/src/tests/renderers-test.ts CHANGED
@@ -119,7 +119,7 @@ category('renderers', () => {
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  }
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  async function _testAfterMsa() {
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- const fastaTxt: string = await grok.dapi.files.readAsText('System:AppData/Bio/samples/sample_FASTA.fasta');
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+ const fastaTxt: string = await grok.dapi.files.readAsText('System:AppData/Bio/data/sample_FASTA.fasta');
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  const df: DG.DataFrame = importFasta(fastaTxt)[0];
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  const srcSeqCol: DG.Column = df.getCol('sequence');
package/src/tests/sequence-space-test.ts CHANGED
@@ -2,7 +2,7 @@ import {after, before, category, test, expect, delay} from '@datagrok-libraries/
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  import * as DG from 'datagrok-api/dg';
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  import {readDataframe} from './utils';
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  import * as grok from 'datagrok-api/grok';
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- import { _testSequenceSpaceReturnsResult } from './sequence-space-utils';
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+ import {_testSequenceSpaceReturnsResult} from './sequence-space-utils';
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  category('sequenceSpace', async () => {
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  let testFastaDf: DG.DataFrame;
@@ -13,7 +13,7 @@ category('sequenceSpace', async () => {
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  before(async () => {
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  testFastaDf = await readDataframe('samples/sample_FASTA.csv');
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  testFastaTableView = grok.shell.addTableView(testFastaDf);
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- testHelmWithEmptyRows = await readDataframe('samples/sample_HELM_empty_vals.csv');
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+ testHelmWithEmptyRows = await readDataframe('data/sample_HELM_empty_vals.csv');
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  testHelmWithEmptyRowsTableView = grok.shell.addTableView(testHelmWithEmptyRows);
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  });
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package/src/utils/cell-renderer.ts CHANGED
@@ -335,11 +335,12 @@ function createDifferenceCanvas(
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  h: number): HTMLCanvasElement {
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  const canvas = document.createElement('canvas');
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  const context = canvas.getContext('2d')!;
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+ context.font = '12px monospace';
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  const width1 = context.measureText(processSequence([amino1]).join('')).width;
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  const width2 = context.measureText(processSequence([amino2]).join('')).width;
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  const width = Math.max(width1, width2);
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  canvas.height = h;
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- canvas.width = width + 20;
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+ canvas.width = width + 4;
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  context.font = '12px monospace';
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  context.textBaseline = 'top';
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  printLeftOrCentered(0, y - shift, width, h, context, amino1, color1, 0, true);
package/src/utils/sequence-activity-cliffs.ts CHANGED
@@ -83,15 +83,42 @@ export function createPropPanelElement(params: ITooltipAndPanelParams): HTMLDivE
83
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  sequencesArray[idx] = params.seqCol.get(molIdx);
84
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  activitiesArray[idx] = params.activityCol.get(molIdx);
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  });
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+
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+ const molDifferences: {[key: number]: HTMLCanvasElement} = {};
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+ const canvas = createDifferenceCanvas(params.seqCol, sequencesArray, molDifferences);
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+ propPanel.append(ui.div(canvas, { style: { width: '300px', overflow: 'scroll' } }));
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+
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+ propPanel.append(createDifferencesWithPositions(molDifferences));
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+
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+ propPanel.append(createPropPanelField('Activity delta', Math.abs(activitiesArray[0] - activitiesArray[1])));
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+ propPanel.append(createPropPanelField('Cliff', params.sali!));
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+
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+ return propPanel;
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+ }
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+
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+ function createPropPanelField(name: string, value: number): HTMLDivElement {
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+ return ui.divH([
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+ ui.divText(`${name}: `, { style: { fontWeight: 'bold', paddingRight: '5px' } }),
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+ ui.divText(value.toFixed(2))
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+ ], { style: { paddingTop: '5px' } });
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+ }
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+
106
+ function createDifferenceCanvas(
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+ col: DG.Column,
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+ sequencesArray: string[],
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+ molDifferences: { [key: number]: HTMLCanvasElement }): HTMLCanvasElement {
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  const canvas = document.createElement('canvas');
87
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  const context = canvas.getContext('2d');
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  canvas.height = 30;
89
- const units = params.seqCol.getTag(DG.TAGS.UNITS);
90
- const separator = params.seqCol.getTag(TAGS.SEPARATOR);
91
- const molDifferences: {[key: number]: HTMLCanvasElement} = {};
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+ const units = col.getTag(DG.TAGS.UNITS);
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+ const separator = col.getTag(TAGS.SEPARATOR);
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  drawMoleculeDifferenceOnCanvas(context!, 0, 0, 0, 30, sequencesArray.join('#'), units, separator, true, molDifferences);
93
- propPanel.append(ui.div(canvas, { style: { width: '300px', overflow: 'scroll' } }));
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-
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+ return canvas;
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+ }
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+
119
+ function createDifferencesWithPositions(
120
+ molDifferences: { [key: number]: HTMLCanvasElement }): HTMLDivElement {
121
+ const div = ui.div();
95
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  if (Object.keys(molDifferences).length > 0) {
96
123
  const diffsPanel = ui.divV([]);
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  diffsPanel.append(ui.divH([
@@ -104,18 +131,7 @@ export function createPropPanelElement(params: ITooltipAndPanelParams): HTMLDivE
104
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  molDifferences[key as any]
105
132
  ]));
106
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  }
107
- propPanel.append(diffsPanel);
134
+ div.append(diffsPanel);
108
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  }
109
-
110
- function addFiledToPropPanel(name: string, value: number) {
111
- propPanel.append(ui.divH([
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- ui.divText(`${name}: `, { style: { fontWeight: 'bold', paddingRight: '5px' } }),
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- ui.divText(value.toFixed(2))
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- ], { style: { paddingTop: '5px' } }));
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- }
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-
117
- addFiledToPropPanel('Activity delta', Math.abs(activitiesArray[0] - activitiesArray[1]));
118
- addFiledToPropPanel('Cliff', params.sali!);
119
-
120
- return propPanel;
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+ return div;
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  }
package/test-Bio-7770371320b2-f8f97c6e.html ADDED
@@ -0,0 +1,374 @@
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+ <html><head><meta charset="utf-8"/><title>Bio Test Report. Datagrok version datagrok/datagrok:latest SHA=7770371320b2. Commit f8f97c6e.</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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+ margin: 0;
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+ padding: 0;
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+ color: #333;
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+ }
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+ body {
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+ padding: 2rem 1rem;
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+ font-size: 0.85rem;
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+ }
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+ #jesthtml-content {
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+ margin: 0 auto;
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+ max-width: 70rem;
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+ }
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+ header {
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+ display: flex;
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+ align-items: center;
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+ }
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+ #title {
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+ margin: 0;
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+ flex-grow: 1;
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+ }
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+ #logo {
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+ height: 4rem;
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+ }
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+ #timestamp {
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+ color: #777;
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+ margin-top: 0.5rem;
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+ }
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+
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+ /** SUMMARY */
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+ #summary {
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+ color: #333;
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+ margin: 2rem 0;
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+ display: flex;
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+ font-family: monospace;
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+ font-size: 1rem;
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+ }
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+ #summary > div {
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+ margin-right: 2rem;
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+ background: #eee;
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+ padding: 1rem;
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+ min-width: 15rem;
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+ }
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+ #summary > div:last-child {
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+ margin-right: 0;
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+ }
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+ @media only screen and (max-width: 720px) {
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+ #summary {
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+ flex-direction: column;
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+ }
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+ #summary > div {
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+ margin-right: 0;
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+ margin-top: 2rem;
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+ }
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+ #summary > div:first-child {
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+ margin-top: 0;
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+ }
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+ }
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+
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+ .summary-total {
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+ font-weight: bold;
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+ margin-bottom: 0.5rem;
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+ }
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+ .summary-passed {
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+ color: #4f8a10;
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+ border-left: 0.4rem solid #4f8a10;
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+ padding-left: 0.5rem;
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+ }
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+ .summary-failed,
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+ .summary-obsolete-snapshots {
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+ color: #d8000c;
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+ border-left: 0.4rem solid #d8000c;
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+ padding-left: 0.5rem;
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+ }
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+ .summary-pending {
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+ color: #9f6000;
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+ border-left: 0.4rem solid #9f6000;
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+ padding-left: 0.5rem;
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+ }
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+ .summary-empty {
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+ color: #999;
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+ border-left: 0.4rem solid #999;
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+ }
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+
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+ .test-result {
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+ padding: 1rem;
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+ margin-bottom: 0.25rem;
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+ }
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+ .test-result:last-child {
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+ border: 0;
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+ }
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+ .test-result.passed {
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+ background-color: #dff2bf;
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+ color: #4f8a10;
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+ }
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+ .test-result.failed {
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+ background-color: #ffbaba;
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+ color: #d8000c;
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+ }
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+ .test-result.pending {
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+ background-color: #ffdf61;
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+ color: #9f6000;
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+ }
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+
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+ .test-info {
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+ display: flex;
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+ justify-content: space-between;
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+ }
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+ .test-suitename {
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+ width: 20%;
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+ text-align: left;
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+ font-weight: bold;
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+ word-break: break-word;
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+ }
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+ .test-title {
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+ width: 40%;
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+ text-align: left;
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+ font-style: italic;
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+ }
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+ .test-status {
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+ width: 20%;
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+ text-align: right;
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+ }
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+ .test-duration {
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+ width: 10%;
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+ text-align: right;
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+ font-size: 0.75rem;
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+ }
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+
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+ .failureMessages {
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+ padding: 0 1rem;
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+ margin-top: 1rem;
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+ border-top: 1px dashed #d8000c;
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+ }
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+ .failureMessages.suiteFailure {
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+ border-top: none;
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+ }
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+ .failureMsg {
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+ white-space: pre-wrap;
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+ white-space: -moz-pre-wrap;
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+ white-space: -pre-wrap;
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+ white-space: -o-pre-wrap;
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+ word-wrap: break-word;
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+ }
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+
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+ .suite-container {
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+ margin-bottom: 2rem;
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+ }
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+ .suite-info {
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+ padding: 1rem;
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+ background-color: #eee;
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+ color: #777;
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+ display: flex;
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+ align-items: center;
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+ margin-bottom: 0.25rem;
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+ }
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+ .suite-info .suite-path {
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+ word-break: break-all;
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+ flex-grow: 1;
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+ font-family: monospace;
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+ font-size: 1rem;
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+ }
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+ .suite-info .suite-time {
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+ margin-left: 0.5rem;
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+ padding: 0.2rem 0.3rem;
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+ font-size: 0.75rem;
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+ }
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+ .suite-info .suite-time.warn {
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+ background-color: #d8000c;
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+ color: #fff;
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+ }
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+
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+ /* CONSOLE LOGS */
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+ .suite-consolelog {
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+ margin-bottom: 0.25rem;
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+ padding: 1rem;
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+ background-color: #efefef;
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+ }
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+ .suite-consolelog-header {
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+ font-weight: bold;
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+ }
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+ .suite-consolelog-item {
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+ padding: 0.5rem;
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+ }
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+ .suite-consolelog-item pre {
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+ margin: 0.5rem 0;
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+ white-space: pre-wrap;
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+ white-space: -moz-pre-wrap;
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+ white-space: -pre-wrap;
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+ white-space: -o-pre-wrap;
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+ word-wrap: break-word;
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+ }
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+ .suite-consolelog-item-origin {
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+ color: #777;
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+ font-weight: bold;
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+ }
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+ .suite-consolelog-item-message {
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+ color: #000;
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+ font-size: 1rem;
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+ padding: 0 0.5rem;
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+ }
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+
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+ /* OBSOLETE SNAPSHOTS */
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+ .suite-obsolete-snapshots {
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+ margin-bottom: 0.25rem;
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+ padding: 1rem;
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+ background-color: #ffbaba;
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+ color: #d8000c;
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+ }
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+ .suite-obsolete-snapshots-header {
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+ font-weight: bold;
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+ }
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+ .suite-obsolete-snapshots-item {
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+ padding: 0.5rem;
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+ }
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+ .suite-obsolete-snapshots-item pre {
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+ margin: 0.5rem 0;
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+ white-space: pre-wrap;
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+ white-space: -moz-pre-wrap;
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+ white-space: -pre-wrap;
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+ white-space: -o-pre-wrap;
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+ word-wrap: break-word;
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+ }
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+ .suite-obsolete-snapshots-item-message {
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+ color: #000;
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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">Bio Test Report. Datagrok version datagrok/datagrok:latest SHA=7770371320b2. Commit f8f97c6e.</h1></header><div id="metadata-container"><div id="timestamp">Started: 2022-09-20 10:00:38</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/Bio/src/__jest__/remote.test.ts</div><div class="suite-time warn">42.219s</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">24.883s</div></div><div class="failureMessages"> <pre class="failureMsg">Error: Test result : Failed : 208 : Bio.renderers.setRendererManually : Error: Tag 'cell.renderer' has been manually set to 'MacromoleculeDifference' for column but after df was added as table, tag 'cell.renderer' has reset to 'sequence' instead of manual 'MacromoleculeDifference'.
233
+
234
+ at /home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:68:20
235
+ at Generator.next (&lt;anonymous&gt;)
236
+ at fulfilled (/home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:31:58)
237
+ at runMicrotasks (&lt;anonymous&gt;)
238
+ 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.&lt;anonymous&gt; (/home/runner/work/public/public/packages/Bio/src/__jest__/test-node.ts:63:11)
239
+ at Generator.next (&lt;anonymous&gt;)
240
+ at fulfilled (/home/runner/work/public/public/packages/Bio/src/__jest__/test-node.ts:28:58)
241
+ 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/Bio/src/__jest__/remote.test.ts:40:11
242
+ at Generator.next (&lt;anonymous&gt;)
243
+ at /home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:34:71
244
+ at new Promise (&lt;anonymous&gt;)
245
+ at Object.&lt;anonymous&gt;.__awaiter (/home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:30:12)
246
+ at Object.&lt;anonymous&gt; (/home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:38:23)
247
+ at Promise.then.completed (/home/runner/work/public/public/packages/Bio/node_modules/jest-circus/build/utils.js:391:28)
248
+ at new Promise (&lt;anonymous&gt;)</pre><pre class="suite-consolelog-item-message">Testing Bio package</pre></div><div class="suite-consolelog-item"><pre class="suite-consolelog-item-origin"> at /home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:66:11
249
+ at Generator.next (&lt;anonymous&gt;)
250
+ at fulfilled (/home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:31:58)
251
+ at runMicrotasks (&lt;anonymous&gt;)
252
+ at processTicksAndRejections (internal/process/task_queues.js:97:5)</pre><pre class="suite-consolelog-item-message">Test result : Success : 13 : Bio.WebLogo.testGetStats : OK
253
+ Test result : Success : 1 : Bio.WebLogo.testGetAlphabetSimilarity : OK
254
+ Test result : Success : 2 : Bio.WebLogo.testPickupPaletteN1 : OK
255
+ Test result : Success : 4 : Bio.WebLogo.testPickupPaletteN1e : OK
256
+ Test result : Success : 1 : Bio.WebLogo.testPickupPaletteAA1 : OK
257
+ Test result : Success : 2 : Bio.WebLogo.testPickupPaletteX : OK
258
+ Test result : Success : 0 : Bio.WebLogo.monomerToText.longMonomerSingle : OK
259
+ Test result : Success : 1 : Bio.WebLogo.monomerToText.longMonomerShort : OK
260
+ Test result : Success : 0 : Bio.WebLogo.monomerToText.longMonomerLong56 : OK
261
+ Test result : Success : 0 : Bio.WebLogo.monomerToText.longMonomerComplexFirstPartShort : OK
262
+ Test result : Success : 1 : Bio.WebLogo.monomerToText.longMonomerComplexFirstPartLong56 : OK
263
+ Test result : Success : 0 : Bio.Palettes.testPaletteN : OK
264
+ Test result : Success : 0 : Bio.Palettes.testPaletteAA : OK
265
+ Test result : Success : 1 : Bio.Palettes.testPalettePtMe : OK
266
+ Test result : Success : 100 : Bio.detectors.NegativeEmpty : OK
267
+ Test result : Success : 19 : Bio.detectors.Negative1 : OK
268
+ Test result : Success : 20 : Bio.detectors.Negative2 : OK
269
+ Test result : Success : 27 : Bio.detectors.Negative3 : OK
270
+ Test result : Success : 23 : Bio.detectors.NegativeSmiles : OK
271
+ Test result : Success : 15 : Bio.detectors.Dna1 : OK
272
+ Test result : Success : 31 : Bio.detectors.Rna1 : OK
273
+ Test result : Success : 49 : Bio.detectors.AA1 : OK
274
+ Test result : Success : 24 : Bio.detectors.MsaDna1 : OK
275
+ Test result : Success : 24 : Bio.detectors.MsaAA1 : OK
276
+ Test result : Success : 36 : Bio.detectors.SepDna : OK
277
+ Test result : Success : 24 : Bio.detectors.SepRna : OK
278
+ Test result : Success : 22 : Bio.detectors.SepPt : OK
279
+ Test result : Success : 6 : Bio.detectors.SepUn1 : OK
280
+ Test result : Success : 20 : Bio.detectors.SepUn2 : OK
281
+ Test result : Success : 12 : Bio.detectors.SepMsaN1 : OK
282
+ Test result : Success : 546 : Bio.detectors.SamplesFastaCsvPt : OK
283
+ Test result : Success : 15 : Bio.detectors.SamplesFastaCsvNegativeEntry : OK
284
+ Test result : Success : 19 : Bio.detectors.SamplesFastaCsvNegativeLength : OK
285
+ Test result : Success : 72 : Bio.detectors.SamplesFastaCsvNegativeUniProtKB : OK
286
+ Test result : Success : 332 : Bio.detectors.SamplesFastaFastaPt : OK
287
+ Test result : Success : 1001 : Bio.detectors.samplesPeptidesComplexNegativeID : OK
288
+ Test result : Success : 25 : Bio.detectors.SamplesPeptidesComplexNegativeMeasured : OK
289
+ Test result : Success : 179 : Bio.detectors.SamplesPeptidesComplexNegativeValue : OK
290
+ Test result : Success : 266 : Bio.detectors.samplesMsaComplexUn : OK
291
+ Test result : Success : 35 : Bio.detectors.samplesMsaComplexNegativeActivity : OK
292
+ Test result : Success : 186 : Bio.detectors.samplesIdCsvNegativeID : OK
293
+ Test result : Success : 199 : Bio.detectors.samplesSarSmallCsvNegativeSmiles : OK
294
+ Test result : Success : 199 : Bio.detectors.samplesHelmCsvHELM : OK
295
+ Test result : Success : 24 : Bio.detectors.samplesHelmCsvNegativeActivity : OK
296
+ Test result : Success : 183 : Bio.detectors.samplesTestHelmNegativeID : OK
297
+ Test result : Success : 14 : Bio.detectors.samplesTestHelmNegativeTestType : OK
298
+ Test result : Success : 9 : Bio.detectors.samplesTestHelmPositiveHelmString : OK
299
+ Test result : Success : 7 : Bio.detectors.samplesTestHelmNegativeValid : OK
300
+ Test result : Success : 4 : Bio.detectors.samplesTestHelmNegativeMolWeight : OK
301
+ Test result : Success : 13 : Bio.detectors.samplesTestHelmNegativeMolFormula : OK
302
+ Test result : Success : 9 : Bio.detectors.samplesTestHelmNegativeSmiles : OK
303
+ Test result : Success : 1031 : Bio.detectors.samplesTestDemogNegativeAll : OK
304
+ Test result : Success : 554 : Bio.detectors.samplesTestSmiles2NegativeSmiles : OK
305
+ Test result : Success : 176 : Bio.detectors.samplesTestActivityCliffsNegativeSmiles : OK
306
+ Test result : Success : 177 : Bio.detectors.samplesFastaPtPosSequence : OK
307
+ Test result : Success : 169 : Bio.detectors.samplesTestCerealNegativeCerealName : OK
308
+ Test result : Success : 680 : Bio.detectors.samplesTestSpgi100NegativeStereoCategory : OK
309
+ Test result : Success : 4 : Bio.detectors.samplesTestSpgi100NegativeScaffoldNames : OK
310
+ Test result : Success : 11 : Bio.detectors.samplesTestSpgi100NegativePrimaryScaffoldName : OK
311
+ Test result : Success : 4 : Bio.detectors.samplesTestSpgi100NegativeSampleName : OK
312
+ Test result : Success : 216 : Bio.detectors.samplesTestUnichemSourcesNegativeSrcUrl : OK
313
+ Test result : Success : 3 : Bio.detectors.samplesTestUnichemSourcesNegativeBaseIdUrl : OK
314
+ Test result : Success : 213 : Bio.detectors.samplesTestDmvOfficesNegativeOfficeName : OK
315
+ Test result : Success : 5 : Bio.detectors.samplesTestDmvOfficesNegativeCity : OK
316
+ Test result : Success : 237 : Bio.detectors.samplesTestAlertCollectionNegativeSmarts : OK
317
+ Test result : Success : 1083 : Bio.MSA.isCorrect : OK
318
+ Test result : Success : 257 : Bio.MSA.isCorrectLong : OK
319
+ Test result : Success : 1244 : Bio.sequenceSpace.sequenceSpaceOpens : OK
320
+ Test result : Success : 6056 : Bio.sequenceSpace.sequenceSpaceOpensWithEmptyRows : OK
321
+ Test result : Success : 941 : Bio.activityCliffs.activityCliffsOpen : OK
322
+ Test result : Success : 857 : Bio.activityCliffs.activityCliffsOpenWithEmptyRows : OK
323
+ Test result : Success : 2 : Bio.splitters.helm1 : OK
324
+ Test result : Success : 1 : Bio.splitters.helm2 : OK
325
+ Test result : Success : 1 : Bio.splitters.helm3-multichar : OK
326
+ Test result : Success : 1 : Bio.splitters.testHelm1 : OK
327
+ Test result : Success : 2 : Bio.splitters.testHelm2 : OK
328
+ Test result : Success : 1 : Bio.splitters.testHelm3 : OK
329
+ Test result : Success : 263 : Bio.splitters.splitToMonomers : OK
330
+ Test result : Success : 1 : Bio.splitters.getHelmMonomers : OK
331
+ Test result : Success : 75 : Bio.renderers.long sequence performance : OK
332
+ Test result : Success : 573 : Bio.renderers.many sequence performance : OK
333
+ Test result : Success : 238 : Bio.renderers.rendererMacromoleculeFasta : OK
334
+ Test result : Success : 246 : Bio.renderers.rendererMacromoleculeSeparator : OK
335
+ Test result : Success : 70 : Bio.renderers.rendererMacromoleculeDifference : OK
336
+ Test result : Success : 440 : Bio.renderers.afterMsa : OK
337
+ Test result : Success : 281 : Bio.renderers.afterConvert : OK
338
+ Test result : Success : 185 : Bio.renderers.selectRendererBySemType : OK
339
+ Test result : Success : 4 : Bio.converters.testFastaPtToSeparator : OK
340
+ Test result : Success : 3 : Bio.converters.testFastaDnaToSeparator : OK
341
+ Test result : Success : 3 : Bio.converters.testFastaRnaToSeparator : OK
342
+ Test result : Success : 20 : Bio.converters.testFastaGapsToSeparator : OK
343
+ Test result : Success : 2 : Bio.converters.testFastaPtToHelm : OK
344
+ Test result : Success : 2 : Bio.converters.testFastaDnaToHelm : OK
345
+ Test result : Success : 1 : Bio.converters.testFastaRnaToHelm : OK
346
+ Test result : Success : 1 : Bio.converters.testFastaGapsToHelm : OK
347
+ Test result : Success : 1 : Bio.converters.testSeparatorPtToFasta : OK
348
+ Test result : Success : 0 : Bio.converters.testSeparatorDnaToFasta : OK
349
+ Test result : Success : 0 : Bio.converters.testSeparatorRnaToFasta : OK
350
+ Test result : Success : 0 : Bio.converters.testSeparatorGapsToFasta : OK
351
+ Test result : Success : 1 : Bio.converters.testSeparatorPtToHelm : OK
352
+ Test result : Success : 0 : Bio.converters.testSeparatorDnaToHelm : OK
353
+ Test result : Success : 0 : Bio.converters.testSeparatorRnaToHelm : OK
354
+ Test result : Success : 1 : Bio.converters.testSeparatorGapsToHelm : OK
355
+ Test result : Success : 1 : Bio.converters.testHelmDnaToFasta : OK
356
+ Test result : Success : 1 : Bio.converters.testHelmRnaToFasta : OK
357
+ Test result : Success : 0 : Bio.converters.testHelmPtToFasta : OK
358
+ Test result : Success : 0 : Bio.converters.testHelmDnaToSeparator : OK
359
+ Test result : Success : 1 : Bio.converters.testHelmRnaToSeparator : OK
360
+ Test result : Success : 0 : Bio.converters.testHelmPtToSeparator : OK
361
+ Test result : Success : 1 : Bio.converters.testHelmLoneRibose : OK
362
+ Test result : Success : 2 : Bio.converters.testHelmLoneDeoxyribose : OK
363
+ Test result : Success : 2 : Bio.converters.testHelmLonePhosphorus : OK
364
+ Test result : Success : 0 : Bio.fastaFileHandler.testNormalFormatting : OK
365
+ Test result : Success : 0 : Bio.fastaFileHandler.testExtraSpaces : OK
366
+ Test result : Success : 0 : Bio.fastaFileHandler.testExtraNewlines : OK
367
+ Test result : Success : 94 : Bio.WebLogo-positions.allPositions : OK
368
+ Test result : Success : 151 : Bio.WebLogo-positions.positions with shrinkEmptyTail option true (filterd) : OK
369
+ Test result : Success : 104 : Bio.WebLogo-positions.positions with skipEmptyPositions option : OK
370
+ Test result : Success : 14 : Bio.checkInputColumn.testMsaPos : OK
371
+ Test result : Success : 4 : Bio.checkInputColumn.testMsaNegHelm : OK
372
+ Test result : Success : 3 : Bio.checkInputColumn.testMsaNegUN : OK
373
+ Test result : Success : 1 : Bio.checkInputColumn.testGetActionFunctionMeta : OK
374
+ </pre></div></div></div></div></body></html>