@datagrok/bio 2.1.1 → 2.1.2

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.
Files changed (6) hide show
  1. package/dist/package-test.js +5 -4
  2. package/dist/package.js +5 -4
  3. package/package.json +3 -3
  4. package/src/package.ts +2 -1
  5. package/src/tests/lib-tests.ts +30 -0
  6. package/{test-Bio-3afbd4014fa1-8c5a0df5.html → test-Bio-62cc009524f3-73ccfff9.html} +99 -99
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": "2.1.1",
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+ "version": "2.1.2",
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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",
@@ -14,7 +14,7 @@
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  },
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  "dependencies": {
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  "@biowasm/aioli": "^3.1.0",
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- "@datagrok-libraries/bio": "^5.9.13",
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+ "@datagrok-libraries/bio": "^5.9.14",
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  "@datagrok-libraries/chem-meta": "1.0.1",
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  "@datagrok-libraries/ml": "^6.2.2",
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  "@datagrok-libraries/utils": "^1.14.1",
@@ -47,7 +47,7 @@
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  "webpack-cli": "^4.6.0"
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  },
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  "grokDependencies": {
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- "@datagrok/chem": "1.3.19",
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+ "@datagrok/chem": "latest",
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  "@datagrok/helm": "latest"
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  },
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  "scripts": {
package/src/package.ts CHANGED
@@ -44,6 +44,7 @@ import {Monomer, IMonomerLib, MonomerWorks, MonomerLib, readLibrary,
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  const STORAGE_NAME = 'Libraries';
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  const LIB_PATH = 'System:AppData/Bio/libraries';
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+ const LIBS_PATH = 'libraries/';
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  let monomerLib: IMonomerLib | null = null;
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  export let hydrophobPalette: SeqPaletteCustom | null = null;
@@ -127,7 +128,7 @@ export async function libraryPanel(seqColumn: DG.Column): Promise<DG.Widget> {
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  //@ts-ignore
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  let filesButton: HTMLButtonElement = ui.button('Manage', manageFiles);
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  let divInputs: HTMLDivElement = ui.div();
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- let librariesList: string[] = (await _package.files.list(`${LIB_PATH}`, false, '')).map(it => it.fileName);
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+ let librariesList: string[] = (await _package.files.list(`${LIBS_PATH}`, false, '')).map(it => it.fileName);
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  let uploadedLibraries: string[] = Object.values(await grok.dapi.userDataStorage.get(STORAGE_NAME, true));
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  for (let i = 0; i < uploadedLibraries.length; ++i) {
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  let libraryName: string = uploadedLibraries[i];
package/src/tests/lib-tests.ts ADDED
@@ -0,0 +1,30 @@
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+ /* Do not change these import lines to match external modules in webpack configuration */
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+ import * as grok from 'datagrok-api/grok';
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+ import * as ui from 'datagrok-api/ui';
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+ import * as DG from 'datagrok-api/dg';
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+
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+ import {category, expectArray, test} from '@datagrok-libraries/utils/src/test';
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+ import {FastaFileHandler} from '@datagrok-libraries/bio/src/utils/fasta-handler';
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+ import {UnitsHandler} from '@datagrok-libraries/bio/src/utils/units-handler';
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+
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+ category('monomer lib', () => {
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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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+ // 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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+ });
package/{test-Bio-3afbd4014fa1-8c5a0df5.html → test-Bio-62cc009524f3-73ccfff9.html} RENAMED
@@ -1,4 +1,4 @@
1
- <html><head><meta charset="utf-8"/><title>Bio Test Report. Datagrok version datagrok/datagrok:latest SHA=3afbd4014fa1. Commit 8c5a0df5.</title><style type="text/css">html,
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+ <html><head><meta charset="utf-8"/><title>Bio Test Report. Datagrok version datagrok/datagrok:latest SHA=62cc009524f3. Commit 73ccfff9.</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;
@@ -229,17 +229,18 @@ 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">Bio Test Report. Datagrok version datagrok/datagrok:latest SHA=3afbd4014fa1. Commit 8c5a0df5.</h1></header><div id="metadata-container"><div id="timestamp">Started: 2022-11-08 13:09:19</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">28.64s</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">19.009s</div></div><div class="failureMessages"> <pre class="failureMsg">Error: Test result : Failed : 180 : Bio.splitters.splitToMonomers : TypeError: Cannot read properties of undefined (reading 'push')
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+ </style></head><body><div id="jesthtml-content"><header><h1 id="title">Bio Test Report. Datagrok version datagrok/datagrok:latest SHA=62cc009524f3. Commit 73ccfff9.</h1></header><div id="metadata-container"><div id="timestamp">Started: 2022-11-09 13:55:52</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">33.083s</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">22.595s</div></div><div class="failureMessages"> <pre class="failureMsg">Error: Test result : Failed : 205 : Bio.splitters.splitToMonomers : TypeError: Cannot read properties of undefined (reading 'push')
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  Test result : Failed : 0 : Bio.splitters.init : TypeError: Cannot read properties of undefined (reading 'forEach')
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  Test result : Failed : 0 : Bio.splitters.init : TypeError: Cannot read properties of null (reading 'getMonomerMolsByType')
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- Test result : Failed : 311 : Bio.renderers.rendererMacromoleculeFasta : TypeError: Cannot read properties of undefined (reading 'push')
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- Test result : Failed : 184 : Bio.renderers.rendererMacromoleculeSeparator : TypeError: Cannot read properties of undefined (reading 'push')
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- Test result : Failed : 54 : Bio.renderers.rendererMacromoleculeDifference : TypeError: Cannot read properties of undefined (reading 'push')
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- Test result : Failed : 311 : Bio.renderers.afterMsa : TypeError: Cannot read properties of undefined (reading 'push')
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- Test result : Failed : 186 : Bio.renderers.afterConvert : TypeError: Cannot read properties of undefined (reading 'push')
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- Test result : Failed : 58 : Bio.renderers.selectRendererBySemType : TypeError: Cannot read properties of undefined (reading 'push')
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+ Test result : Failed : 289 : Bio.renderers.rendererMacromoleculeFasta : TypeError: Cannot read properties of undefined (reading 'push')
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+ Test result : Failed : 208 : Bio.renderers.rendererMacromoleculeSeparator : TypeError: Cannot read properties of undefined (reading 'push')
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+ Test result : Failed : 63 : Bio.renderers.rendererMacromoleculeDifference : TypeError: Cannot read properties of undefined (reading 'push')
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+ Test result : Failed : 364 : Bio.renderers.afterMsa : TypeError: Cannot read properties of undefined (reading 'push')
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+ Test result : Failed : 220 : Bio.renderers.afterConvert : TypeError: Cannot read properties of undefined (reading 'push')
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+ Test result : Failed : 67 : Bio.renderers.selectRendererBySemType : TypeError: Cannot read properties of undefined (reading 'push')
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  Test result : Failed : 0 : Bio.renderers.init : TypeError: Cannot read properties of undefined (reading 'forEach')
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  Test result : Failed : 0 : Bio.renderers.init : TypeError: Cannot read properties of null (reading 'getMonomerMolsByType')
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+ Test result : Failed : 1513 : Bio.substructureFilters.helm : Error: Expected "2", got "0"
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  at /home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:70:20
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  at Generator.next (&lt;anonymous&gt;)
@@ -259,131 +260,130 @@ Test result : Failed : 0 : Bio.renderers.init : TypeError: Cannot read propertie
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  at Generator.next (&lt;anonymous&gt;)
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  at fulfilled (/home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:31:58)
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  at runMicrotasks (&lt;anonymous&gt;)
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- at processTicksAndRejections (internal/process/task_queues.js:97:5)</pre><pre class="suite-consolelog-item-message">Test result : Success : 0 : Bio.Palettes.testPaletteN : OK
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+ at processTicksAndRejections (internal/process/task_queues.js:97:5)</pre><pre class="suite-consolelog-item-message">Test result : Success : 1 : Bio.Palettes.testPaletteN : OK
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  Test result : Success : 1 : Bio.Palettes.testPaletteAA : OK
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  Test result : Success : 0 : Bio.Palettes.testPalettePtMe : OK
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- Test result : Success : 83 : Bio.detectors.NegativeEmpty : OK
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- Test result : Success : 15 : Bio.detectors.Negative1 : OK
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- Test result : Success : 27 : Bio.detectors.Negative2 : OK
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- Test result : Success : 18 : Bio.detectors.Negative3 : OK
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- Test result : Success : 372 : Bio.detectors.NegativeSmiles : OK
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- Test result : Success : 27 : Bio.detectors.Dna1 : OK
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- Test result : Success : 16 : Bio.detectors.Rna1 : OK
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- Test result : Success : 8 : Bio.detectors.AA1 : OK
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- Test result : Success : 16 : Bio.detectors.MsaDna1 : OK
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- Test result : Success : 13 : Bio.detectors.MsaAA1 : OK
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- Test result : Success : 28 : Bio.detectors.SepDna : OK
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- Test result : Success : 24 : Bio.detectors.SepRna : OK
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- Test result : Success : 26 : Bio.detectors.SepPt : OK
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- Test result : Success : 9 : Bio.detectors.SepUn1 : OK
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- Test result : Success : 7 : Bio.detectors.SepUn2 : OK
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- Test result : Success : 19 : Bio.detectors.SepMsaN1 : OK
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- Test result : Success : 425 : Bio.detectors.SamplesFastaCsvPt : OK
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- Test result : Success : 4 : Bio.detectors.SamplesFastaCsvNegativeEntry : OK
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- Test result : Success : 16 : Bio.detectors.SamplesFastaCsvNegativeLength : OK
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- Test result : Success : 78 : Bio.detectors.SamplesFastaCsvNegativeUniProtKB : OK
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- Test result : Success : 195 : Bio.detectors.SamplesFastaFastaPt : OK
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- Test result : Success : 636 : Bio.detectors.samplesPeptidesComplexNegativeID : OK
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- Test result : Success : 7 : Bio.detectors.SamplesPeptidesComplexNegativeMeasured : OK
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- Test result : Success : 94 : Bio.detectors.SamplesPeptidesComplexNegativeValue : OK
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- Test result : Success : 189 : Bio.detectors.samplesMsaComplexUn : OK
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- Test result : Success : 39 : Bio.detectors.samplesMsaComplexNegativeActivity : OK
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- Test result : Success : 128 : Bio.detectors.samplesIdCsvNegativeID : OK
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- Test result : Success : 142 : Bio.detectors.samplesSarSmallCsvNegativeSmiles : OK
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- Test result : Success : 140 : Bio.detectors.samplesHelmCsvHELM : OK
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- Test result : Success : 5 : Bio.detectors.samplesHelmCsvNegativeActivity : OK
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- Test result : Success : 85 : Bio.detectors.samplesTestHelmNegativeID : OK
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- Test result : Success : 4 : Bio.detectors.samplesTestHelmNegativeTestType : OK
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- Test result : Success : 4 : Bio.detectors.samplesTestHelmPositiveHelmString : OK
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- Test result : Success : 3 : Bio.detectors.samplesTestHelmNegativeValid : OK
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- Test result : Success : 4 : Bio.detectors.samplesTestHelmNegativeMolWeight : OK
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- Test result : Success : 4 : Bio.detectors.samplesTestHelmNegativeMolFormula : OK
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+ Test result : Success : 120 : Bio.detectors.NegativeEmpty : OK
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+ Test result : Success : 108 : Bio.detectors.Negative1 : OK
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+ Test result : Success : 41 : Bio.detectors.Negative2 : OK
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+ Test result : Success : 16 : Bio.detectors.Negative3 : OK
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+ Test result : Success : 540 : Bio.detectors.NegativeSmiles : OK
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+ Test result : Success : 52 : Bio.detectors.Dna1 : OK
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+ Test result : Success : 12 : Bio.detectors.Rna1 : OK
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+ Test result : Success : 15 : Bio.detectors.AA1 : OK
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+ Test result : Success : 11 : Bio.detectors.MsaDna1 : OK
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+ Test result : Success : 16 : Bio.detectors.MsaAA1 : OK
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+ Test result : Success : 15 : Bio.detectors.SepDna : OK
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+ Test result : Success : 14 : Bio.detectors.SepRna : OK
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+ Test result : Success : 25 : Bio.detectors.SepPt : OK
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+ Test result : Success : 27 : Bio.detectors.SepUn1 : OK
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+ Test result : Success : 9 : Bio.detectors.SepUn2 : OK
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+ Test result : Success : 31 : Bio.detectors.SepMsaN1 : OK
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+ Test result : Success : 508 : Bio.detectors.SamplesFastaCsvPt : OK
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+ Test result : Success : 15 : Bio.detectors.SamplesFastaCsvNegativeEntry : OK
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+ Test result : Success : 14 : Bio.detectors.SamplesFastaCsvNegativeLength : OK
285
+ Test result : Success : 94 : Bio.detectors.SamplesFastaCsvNegativeUniProtKB : OK
286
+ Test result : Success : 247 : Bio.detectors.SamplesFastaFastaPt : OK
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+ Test result : Success : 1067 : Bio.detectors.samplesPeptidesComplexNegativeID : OK
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+ Test result : Success : 34 : Bio.detectors.SamplesPeptidesComplexNegativeMeasured : OK
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+ Test result : Success : 183 : Bio.detectors.SamplesPeptidesComplexNegativeValue : OK
290
+ Test result : Success : 259 : Bio.detectors.samplesMsaComplexUn : OK
291
+ Test result : Success : 43 : Bio.detectors.samplesMsaComplexNegativeActivity : OK
292
+ Test result : Success : 187 : Bio.detectors.samplesIdCsvNegativeID : OK
293
+ Test result : Success : 141 : Bio.detectors.samplesSarSmallCsvNegativeSmiles : OK
294
+ Test result : Success : 187 : Bio.detectors.samplesHelmCsvHELM : OK
295
+ Test result : Success : 19 : Bio.detectors.samplesHelmCsvNegativeActivity : OK
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+ Test result : Success : 145 : Bio.detectors.samplesTestHelmNegativeID : OK
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+ Test result : Success : 5 : Bio.detectors.samplesTestHelmNegativeTestType : OK
298
+ Test result : Success : 11 : Bio.detectors.samplesTestHelmPositiveHelmString : OK
299
+ Test result : Success : 4 : Bio.detectors.samplesTestHelmNegativeValid : OK
300
+ Test result : Success : 14 : Bio.detectors.samplesTestHelmNegativeMolWeight : OK
301
+ Test result : Success : 16 : Bio.detectors.samplesTestHelmNegativeMolFormula : OK
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  Test result : Success : 4 : Bio.detectors.samplesTestHelmNegativeSmiles : OK
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- Test result : Success : 459 : Bio.detectors.samplesTestDemogNegativeAll : OK
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- Test result : Success : 214 : Bio.detectors.samplesTestSmiles2NegativeSmiles : OK
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- Test result : Success : 122 : Bio.detectors.samplesTestActivityCliffsNegativeSmiles : OK
305
- Test result : Success : 90 : Bio.detectors.samplesFastaPtPosSequence : OK
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- Test result : Success : 102 : Bio.detectors.samplesTestCerealNegativeCerealName : OK
307
- Test result : Success : 136 : Bio.detectors.samplesTestSpgi100NegativeStereoCategory : OK
308
- Test result : Success : 5 : Bio.detectors.samplesTestSpgi100NegativeScaffoldNames : OK
309
- Test result : Success : 7 : Bio.detectors.samplesTestSpgi100NegativePrimaryScaffoldName : OK
303
+ Test result : Success : 988 : Bio.detectors.samplesTestDemogNegativeAll : OK
304
+ Test result : Success : 321 : Bio.detectors.samplesTestSmiles2NegativeSmiles : OK
305
+ Test result : Success : 114 : Bio.detectors.samplesTestActivityCliffsNegativeSmiles : OK
306
+ Test result : Success : 117 : Bio.detectors.samplesFastaPtPosSequence : OK
307
+ Test result : Success : 114 : Bio.detectors.samplesTestCerealNegativeCerealName : OK
308
+ Test result : Success : 170 : Bio.detectors.samplesTestSpgi100NegativeStereoCategory : OK
309
+ Test result : Success : 4 : Bio.detectors.samplesTestSpgi100NegativeScaffoldNames : OK
310
+ Test result : Success : 4 : Bio.detectors.samplesTestSpgi100NegativePrimaryScaffoldName : OK
310
311
  Test result : Success : 4 : Bio.detectors.samplesTestSpgi100NegativeSampleName : OK
311
- Test result : Success : 128 : Bio.detectors.samplesTestUnichemSourcesNegativeSrcUrl : OK
312
- Test result : Success : 3 : Bio.detectors.samplesTestUnichemSourcesNegativeBaseIdUrl : OK
313
- Test result : Success : 106 : Bio.detectors.samplesTestDmvOfficesNegativeOfficeName : OK
312
+ Test result : Success : 132 : Bio.detectors.samplesTestUnichemSourcesNegativeSrcUrl : OK
313
+ Test result : Success : 4 : Bio.detectors.samplesTestUnichemSourcesNegativeBaseIdUrl : OK
314
+ Test result : Success : 123 : Bio.detectors.samplesTestDmvOfficesNegativeOfficeName : OK
314
315
  Test result : Success : 5 : Bio.detectors.samplesTestDmvOfficesNegativeCity : OK
315
- Test result : Success : 116 : Bio.detectors.samplesTestAlertCollectionNegativeSmarts : OK
316
- Test result : Success : 1104 : Bio.MSA.isCorrect : OK
317
- Test result : Success : 134 : Bio.MSA.isCorrectLong : OK
318
- Test result : Success : 920 : Bio.sequenceSpace.sequenceSpaceOpens : OK
319
- Test result : Success : 498 : Bio.sequenceSpace.sequenceSpaceWithEmptyRows : OK
320
- Test result : Success : 730 : Bio.activityCliffs.activityCliffsOpens : OK
321
- Test result : Success : 793 : Bio.activityCliffs.activityCliffsWithEmptyRows : OK
316
+ Test result : Success : 131 : Bio.detectors.samplesTestAlertCollectionNegativeSmarts : OK
317
+ Test result : Success : 1887 : Bio.MSA.isCorrect : OK
318
+ Test result : Success : 72 : Bio.MSA.isCorrectLong : OK
319
+ Test result : Success : 910 : Bio.sequenceSpace.sequenceSpaceOpens : OK
320
+ Test result : Success : 438 : Bio.sequenceSpace.sequenceSpaceWithEmptyRows : OK
321
+ Test result : Success : 691 : Bio.activityCliffs.activityCliffsOpens : OK
322
+ Test result : Success : 694 : Bio.activityCliffs.activityCliffsWithEmptyRows : OK
322
323
  Test result : Success : 1 : Bio.splitters.fastaMulti : OK
323
324
  Test result : Success : 1 : Bio.splitters.helm1 : OK
324
325
  Test result : Success : 0 : Bio.splitters.helm2 : OK
325
- Test result : Success : 0 : Bio.splitters.helm3-multichar : OK
326
- Test result : Success : 0 : Bio.splitters.testHelm1 : OK
327
- Test result : Success : 1 : Bio.splitters.testHelm2 : OK
326
+ Test result : Success : 1 : Bio.splitters.helm3-multichar : OK
327
+ Test result : Success : 1 : Bio.splitters.testHelm1 : OK
328
+ Test result : Success : 0 : Bio.splitters.testHelm2 : OK
328
329
  Test result : Success : 1 : Bio.splitters.testHelm3 : OK
329
- Test result : Success : 1 : Bio.splitters.getHelmMonomers : OK
330
- Test result : Success : 70 : Bio.renderers.long sequence performance : OK
331
- Test result : Success : 615 : Bio.renderers.many sequence performance : OK
330
+ Test result : Success : 2 : Bio.splitters.getHelmMonomers : OK
331
+ Test result : Success : 79 : Bio.renderers.long sequence performance : OK
332
+ Test result : Success : 787 : Bio.renderers.many sequence performance : OK
332
333
  Test result : Success : 0 : Bio.renderers.setRendererManually : GROK-11212
333
- Test result : Success : 4 : Bio.converters.testFastaPtToSeparator : OK
334
- Test result : Success : 3 : Bio.converters.testFastaDnaToSeparator : OK
335
- Test result : Success : 2 : Bio.converters.testFastaRnaToSeparator : OK
336
- Test result : Success : 3 : Bio.converters.testFastaGapsToSeparator : OK
334
+ Test result : Success : 5 : Bio.converters.testFastaPtToSeparator : OK
335
+ Test result : Success : 4 : Bio.converters.testFastaDnaToSeparator : OK
336
+ Test result : Success : 3 : Bio.converters.testFastaRnaToSeparator : OK
337
+ Test result : Success : 4 : Bio.converters.testFastaGapsToSeparator : OK
337
338
  Test result : Success : 2 : Bio.converters.testFastaPtToHelm : OK
338
339
  Test result : Success : 1 : Bio.converters.testFastaDnaToHelm : OK
339
- Test result : Success : 2 : Bio.converters.testFastaRnaToHelm : OK
340
- Test result : Success : 1 : Bio.converters.testFastaGapsToHelm : OK
340
+ Test result : Success : 1 : Bio.converters.testFastaRnaToHelm : OK
341
+ Test result : Success : 2 : Bio.converters.testFastaGapsToHelm : OK
341
342
  Test result : Success : 1 : Bio.converters.testSeparatorPtToFasta : OK
342
- Test result : Success : 0 : Bio.converters.testSeparatorDnaToFasta : OK
343
- Test result : Success : 1 : Bio.converters.testSeparatorRnaToFasta : OK
344
- Test result : Success : 0 : Bio.converters.testSeparatorGapsToFasta : OK
343
+ Test result : Success : 1 : Bio.converters.testSeparatorDnaToFasta : OK
344
+ Test result : Success : 0 : Bio.converters.testSeparatorRnaToFasta : OK
345
+ Test result : Success : 1 : Bio.converters.testSeparatorGapsToFasta : OK
345
346
  Test result : Success : 0 : Bio.converters.testSeparatorPtToHelm : OK
346
- Test result : Success : 0 : Bio.converters.testSeparatorDnaToHelm : OK
347
+ Test result : Success : 1 : Bio.converters.testSeparatorDnaToHelm : OK
347
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  Test result : Success : 0 : Bio.converters.testSeparatorRnaToHelm : OK
348
349
  Test result : Success : 1 : Bio.converters.testSeparatorGapsToHelm : OK
349
- Test result : Success : 0 : Bio.converters.testHelmDnaToFasta : OK
350
+ Test result : Success : 1 : Bio.converters.testHelmDnaToFasta : OK
350
351
  Test result : Success : 0 : Bio.converters.testHelmRnaToFasta : OK
351
352
  Test result : Success : 0 : Bio.converters.testHelmPtToFasta : OK
352
353
  Test result : Success : 0 : Bio.converters.testHelmDnaToSeparator : OK
353
354
  Test result : Success : 0 : Bio.converters.testHelmRnaToSeparator : OK
354
- Test result : Success : 1 : Bio.converters.testHelmPtToSeparator : OK
355
- Test result : Success : 1 : Bio.converters.testHelmLoneRibose : OK
355
+ Test result : Success : 0 : Bio.converters.testHelmPtToSeparator : OK
356
+ Test result : Success : 2 : Bio.converters.testHelmLoneRibose : OK
356
357
  Test result : Success : 2 : Bio.converters.testHelmLoneDeoxyribose : OK
357
- Test result : Success : 1 : Bio.converters.testHelmLonePhosphorus : OK
358
+ Test result : Success : 2 : Bio.converters.testHelmLonePhosphorus : OK
358
359
  Test result : Success : 1 : Bio.fastaFileHandler.testNormalFormatting : OK
359
360
  Test result : Success : 0 : Bio.fastaFileHandler.testExtraSpaces : OK
360
361
  Test result : Success : 0 : Bio.fastaFileHandler.testExtraNewlines : OK
361
- Test result : Success : 0 : Bio.fastaExport.wrapSequenceSingle : OK
362
+ Test result : Success : 1 : Bio.fastaExport.wrapSequenceSingle : OK
362
363
  Test result : Success : 0 : Bio.fastaExport.wrapSequenceMulti : OK
363
- Test result : Success : 1 : Bio.fastaExport.saveAsFastaTest1 : OK
364
+ Test result : Success : 2 : Bio.fastaExport.saveAsFastaTest1 : OK
364
365
  Test result : Success : 1 : Bio.fastaExport.saveAsFastaTest2 : OK
365
366
  Test result : Success : 1 : Bio.bio.testGetStatsHelm1 : OK
366
367
  Test result : Success : 1 : Bio.bio.testGetStatsN1 : OK
367
- Test result : Success : 0 : Bio.bio.testGetAlphabetSimilarity : OK
368
+ Test result : Success : 1 : Bio.bio.testGetAlphabetSimilarity : OK
368
369
  Test result : Success : 1 : Bio.bio.testPickupPaletteN1 : OK
369
- Test result : Success : 1 : Bio.bio.testPickupPaletteN1e : OK
370
- Test result : Success : 1 : Bio.bio.testPickupPaletteAA1 : OK
370
+ Test result : Success : 2 : Bio.bio.testPickupPaletteN1e : OK
371
+ Test result : Success : 2 : Bio.bio.testPickupPaletteAA1 : OK
371
372
  Test result : Success : 1 : Bio.bio.testPickupPaletteX : OK
372
373
  Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerSingle : OK
373
374
  Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerShort : OK
374
- Test result : Success : 1 : Bio.WebLogo.monomerToShort.longMonomerLong56 : OK
375
+ Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerLong56 : OK
375
376
  Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerComplexFirstPartShort : OK
376
377
  Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerComplexFirstPartLong56 : OK
377
- Test result : Success : 92 : Bio.WebLogo-positions.allPositions : OK
378
- Test result : Success : 73 : Bio.WebLogo-positions.positions with shrinkEmptyTail option true (filterd) : OK
379
- Test result : Success : 77 : Bio.WebLogo-positions.positions with skipEmptyPositions option : OK
380
- Test result : Success : 3 : Bio.checkInputColumn.testMsaPos : OK
378
+ Test result : Success : 110 : Bio.WebLogo-positions.allPositions : OK
379
+ Test result : Success : 88 : Bio.WebLogo-positions.positions with shrinkEmptyTail option true (filterd) : OK
380
+ Test result : Success : 95 : Bio.WebLogo-positions.positions with skipEmptyPositions option : OK
381
+ Test result : Success : 5 : Bio.checkInputColumn.testMsaPos : OK
381
382
  Test result : Success : 1 : Bio.checkInputColumn.testMsaNegHelm : OK
382
- Test result : Success : 1 : Bio.checkInputColumn.testMsaNegUN : OK
383
+ Test result : Success : 2 : Bio.checkInputColumn.testMsaNegUN : OK
383
384
  Test result : Success : 0 : Bio.checkInputColumn.testGetActionFunctionMeta : OK
384
- Test result : Success : 360 : Bio.similarity/diversity.similaritySearchViewer : OK
385
- Test result : Success : 214 : Bio.similarity/diversity.diversitySearchViewer : OK
386
- Test result : Success : 190 : Bio.substructureFilters.fasta : OK
387
- Test result : Success : 394 : Bio.substructureFilters.separator : OK
388
- Test result : Success : 1950 : Bio.substructureFilters.helm : OK
385
+ Test result : Success : 394 : Bio.similarity/diversity.similaritySearchViewer : OK
386
+ Test result : Success : 251 : Bio.similarity/diversity.diversitySearchViewer : OK
387
+ Test result : Success : 202 : Bio.substructureFilters.fasta : OK
388
+ Test result : Success : 403 : Bio.substructureFilters.separator : OK
389
389
  </pre></div></div></div></div></body></html>