@datagrok/bio 2.1.2 → 2.1.4

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 (11) hide show
  1. package/detectors.js +37 -11
  2. package/dist/package-test.js +93 -36
  3. package/dist/package.js +29 -15
  4. package/dist/vendors-node_modules_datagrok-libraries_ml_src_workers_dimensionality-reducer_js.js +3 -3
  5. package/package.json +4 -4
  6. package/src/package.ts +2 -0
  7. package/src/tests/checkInputColumn-tests.ts +1 -1
  8. package/src/tests/detectors-test.ts +18 -18
  9. package/src/tests/renderers-test.ts +6 -1
  10. package/src/tests/splitters-test.ts +6 -1
  11. package/{test-Bio-62cc009524f3-73ccfff9.html → test-Bio-62cc009524f3-db2d0836.html} +97 -99
package/package.json CHANGED
@@ -5,7 +5,7 @@
5
5
  "name": "Leonid Stolbov",
6
6
  "email": "lstolbov@datagrok.ai"
7
7
  },
8
- "version": "2.1.2",
8
+ "version": "2.1.4",
9
9
  "description": "Bio is a [package](https://datagrok.ai/help/develop/develop#packages) for the [Datagrok](https://datagrok.ai) platform",
10
10
  "repository": {
11
11
  "type": "git",
@@ -14,12 +14,12 @@
14
14
  },
15
15
  "dependencies": {
16
16
  "@biowasm/aioli": "^3.1.0",
17
- "@datagrok-libraries/bio": "^5.9.14",
17
+ "@datagrok-libraries/bio": "^5.9.15",
18
18
  "@datagrok-libraries/chem-meta": "1.0.1",
19
19
  "@datagrok-libraries/ml": "^6.2.2",
20
- "@datagrok-libraries/utils": "^1.14.1",
20
+ "@datagrok-libraries/utils": "^1.15.5",
21
21
  "cash-dom": "^8.0.0",
22
- "datagrok-api": "^1.8.1",
22
+ "datagrok-api": "^1.8.2",
23
23
  "dayjs": "^1.11.4",
24
24
  "openchemlib": "6.0.1",
25
25
  "rxjs": "^6.5.5",
package/src/package.ts CHANGED
@@ -91,6 +91,8 @@ export async function initBio() {
91
91
 
92
92
  async function loadLibraries() {
93
93
  let uploadedLibraries: string[] = Object.values(await grok.dapi.userDataStorage.get(STORAGE_NAME, true));
94
+ if (uploadedLibraries.length == 0 && monomerLib == null)
95
+ monomerLib = new MonomerLib({});
94
96
  for (let i = 0; i < uploadedLibraries.length; ++i)
95
97
  await monomerManager(uploadedLibraries[i]);
96
98
  }
package/src/tests/checkInputColumn-tests.ts CHANGED
@@ -40,7 +40,7 @@ seq4`;
40
40
  const col: DG.Column = df.getCol('seq');
41
41
  col.semType = DG.SEMTYPE.MACROMOLECULE;
42
42
  col.setTag(DG.TAGS.UNITS, bio.NOTATION.HELM);
43
- col.setTag(bio.TAGS.alphabetSize, '11');
43
+ // col.setTag(bio.TAGS.alphabetSize, '11');
44
44
  col.setTag(bio.TAGS.alphabetIsMultichar, 'true');
45
45
 
46
46
  const [res, msg]: [boolean, string] = checkInputColumn(
package/src/tests/detectors-test.ts CHANGED
@@ -130,24 +130,24 @@ MWRSWY-CKHP
130
130
  }
131
131
 
132
132
  const samples: { [key: string]: string } = {
133
- 'fastaCsv': 'System:AppData/Bio/samples/sample_FASTA.csv',
134
- 'fastaFasta': 'System:AppData/Bio/data/sample_FASTA.fasta',
135
- 'fastaPtCsv': 'System:AppData/Bio/data/sample_FASTA_PT.csv',
136
- 'msaComplex': 'System:AppData/Bio/samples/sample_MSA.csv',
137
- 'helmCsv': 'System:AppData/Bio/samples/sample_HELM.csv',
138
- 'peptidesComplex': 'System:AppData/Bio/tests/peptides_complex_msa.csv',
139
- 'peptidesSimple': 'System:AppData/Bio/tests/peptides_simple_msa.csv',
140
- 'testDemogCsv': 'System:AppData/Bio/tests/testDemog.csv',
141
- 'testHelmCsv': 'System:AppData/Bio/tests/testHelm.csv',
142
- 'testIdCsv': 'System:AppData/Bio/tests/testId.csv',
143
- 'testSmilesCsv': 'System:AppData/Bio/tests/testSmiles.csv',
144
- 'testSmiles2Csv': 'System:AppData/Bio/tests/testSmiles2.csv',
145
- 'testActivityCliffsCsv': 'System:AppData/Bio/tests/testActivityCliffs.csv', // smiles
146
- 'testCerealCsv': 'System:AppData/Bio/tests/testCereal.csv',
147
- 'testSpgi100': 'System:AppData/Bio/tests/testSpgi100.csv',
148
- 'testUnichemSources': 'System:AppData/Bio/tests/testUnichemSources.csv',
149
- 'testDmvOffices': 'System:AppData/Bio/tests/testDmvOffices.csv',
150
- 'testAlertCollection': 'System:AppData/Bio/tests/testAlertCollection.csv',
133
+ [Samples.fastaFasta]: 'System:AppData/Bio/data/sample_FASTA.fasta',
134
+ [Samples.fastaPtCsv]: 'System:AppData/Bio/data/sample_FASTA_PT.csv',
135
+ [Samples.msaComplex]: 'System:AppData/Bio/samples/sample_MSA.csv',
136
+ [Samples.fastaCsv]: 'System:AppData/Bio/samples/sample_FASTA.csv',
137
+ [Samples.helmCsv]: 'System:AppData/Bio/samples/sample_HELM.csv',
138
+ [Samples.peptidesComplex]: 'System:AppData/Bio/tests/peptides_complex_msa.csv',
139
+ [Samples.peptidesSimple]: 'System:AppData/Bio/tests/peptides_simple_msa.csv',
140
+ [Samples.testDemogCsv]: 'System:AppData/Bio/tests/testDemog.csv',
141
+ [Samples.testHelmCsv]: 'System:AppData/Bio/tests/testHelm.csv',
142
+ [Samples.testIdCsv]: 'System:AppData/Bio/tests/testId.csv',
143
+ [Samples.testSmilesCsv]: 'System:AppData/Bio/tests/testSmiles.csv',
144
+ [Samples.testSmiles2Csv]: 'System:AppData/Bio/tests/testSmiles2.csv',
145
+ [Samples.testActivityCliffsCsv]: 'System:AppData/Bio/tests/testActivityCliffs.csv', // smiles
146
+ [Samples.testCerealCsv]: 'System:AppData/Bio/tests/testCereal.csv',
147
+ [Samples.testSpgi100]: 'System:AppData/Bio/tests/testSpgi100.csv',
148
+ [Samples.testUnichemSources]: 'System:AppData/Bio/tests/testUnichemSources.csv',
149
+ [Samples.testDmvOffices]: 'System:AppData/Bio/tests/testDmvOffices.csv',
150
+ [Samples.testAlertCollection]: 'System:AppData/Bio/tests/testAlertCollection.csv',
151
151
  };
152
152
 
153
153
  const _samplesDfs: { [key: string]: Promise<DG.DataFrame> } = {};
package/src/tests/renderers-test.ts CHANGED
@@ -8,15 +8,20 @@ import {importFasta, multipleSequenceAlignmentAny} from '../package';
8
8
  import {convertDo} from '../utils/convert';
9
9
  import {SEM_TYPES, TAGS} from '../utils/constants';
10
10
  import {generateLongSequence, generateManySequences, performanceTest} from './test-sequnces-generators';
11
+ import {errorToConsole} from '@datagrok-libraries/utils/src/to-console';
11
12
 
12
13
  category('renderers', () => {
13
14
  let tvList: DG.TableView[];
14
15
  let dfList: DG.DataFrame[];
15
16
 
16
17
  before(async () => {
17
- await grok.functions.call('Bio:initBio');
18
18
  tvList = [];
19
19
  dfList = [];
20
+ await grok.functions.call('Bio:initBio')
21
+ .catch((err) => {
22
+ console.error(errorToConsole(err));
23
+ throw err;
24
+ });
20
25
  });
21
26
 
22
27
  after(async () => {
package/src/tests/splitters-test.ts CHANGED
@@ -6,6 +6,7 @@ import * as bio from '@datagrok-libraries/bio';
6
6
  import {after, before, category, test, expect, expectArray, expectObject} from '@datagrok-libraries/utils/src/test';
7
7
  import * as C from '../utils/constants';
8
8
  import {splitToMonomers, _package, getHelmMonomers} from '../package';
9
+ import {errorToConsole} from '@datagrok-libraries/utils/src/to-console';
9
10
 
10
11
 
11
12
  category('splitters', () => {
@@ -13,9 +14,13 @@ category('splitters', () => {
13
14
  let dfList: DG.DataFrame[];
14
15
 
15
16
  before(async () => {
16
- await grok.functions.call('Bio:initBio');
17
17
  tvList = [];
18
18
  dfList = [];
19
+ await grok.functions.call('Bio:initBio')
20
+ .catch((err) => {
21
+ console.error(errorToConsole(err));
22
+ throw err;
23
+ });
19
24
  });
20
25
 
21
26
  after(async () => {
package/{test-Bio-62cc009524f3-73ccfff9.html → test-Bio-62cc009524f3-db2d0836.html} RENAMED
@@ -1,4 +1,4 @@
1
- <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,
1
+ <html><head><meta charset="utf-8"/><title>Bio Test Report. Datagrok version datagrok/datagrok:latest SHA=62cc009524f3. Commit db2d0836.</title><style type="text/css">html,
2
2
  body {
3
3
  font-family: Arial, Helvetica, sans-serif;
4
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  font-size: 1rem;
@@ -229,18 +229,10 @@ header {
229
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  font-size: 1rem;
230
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  padding: 0 0.5rem;
231
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  }
232
- </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')
233
- Test result : Failed : 0 : Bio.splitters.init : TypeError: Cannot read properties of undefined (reading 'forEach')
234
- Test result : Failed : 0 : Bio.splitters.init : TypeError: Cannot read properties of null (reading 'getMonomerMolsByType')
235
- Test result : Failed : 289 : Bio.renderers.rendererMacromoleculeFasta : TypeError: Cannot read properties of undefined (reading 'push')
236
- Test result : Failed : 208 : Bio.renderers.rendererMacromoleculeSeparator : TypeError: Cannot read properties of undefined (reading 'push')
237
- Test result : Failed : 63 : Bio.renderers.rendererMacromoleculeDifference : TypeError: Cannot read properties of undefined (reading 'push')
238
- Test result : Failed : 364 : Bio.renderers.afterMsa : TypeError: Cannot read properties of undefined (reading 'push')
239
- Test result : Failed : 220 : Bio.renderers.afterConvert : TypeError: Cannot read properties of undefined (reading 'push')
240
- Test result : Failed : 67 : Bio.renderers.selectRendererBySemType : TypeError: Cannot read properties of undefined (reading 'push')
241
- Test result : Failed : 0 : Bio.renderers.init : TypeError: Cannot read properties of undefined (reading 'forEach')
242
- Test result : Failed : 0 : Bio.renderers.init : TypeError: Cannot read properties of null (reading 'getMonomerMolsByType')
243
- Test result : Failed : 1513 : Bio.substructureFilters.helm : Error: Expected "2", got "0"
232
+ </style></head><body><div id="jesthtml-content"><header><h1 id="title">Bio Test Report. Datagrok version datagrok/datagrok:latest SHA=62cc009524f3. Commit db2d0836.</h1></header><div id="metadata-container"><div id="timestamp">Started: 2022-11-14 13:45:35</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">32.136s</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">21.674s</div></div><div class="failureMessages"> <pre class="failureMsg">Error: Test result : Failed : 122 : Bio.detectors.samplesTestAlertCollectionNegativeSmarts : Error: Negative test detected semType='Macromolecule', units='separator'.
233
+ Test result : Failed : 0 : Bio.splitters.init : TypeError: Cannot convert undefined or null to object
234
+ Test result : Failed : 0 : Bio.renderers.init : TypeError: Cannot convert undefined or null to object
235
+ Test result : Failed : 1449 : Bio.substructureFilters.helm : Error: Expected "2", got "0"
244
236
 
245
237
  at /home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:70:20
246
238
  at Generator.next (&lt;anonymous&gt;)
@@ -261,129 +253,135 @@ Test result : Failed : 1513 : Bio.substructureFilters.helm : Error: Expected "2"
261
253
  at fulfilled (/home/runner/work/public/public/packages/Bio/src/__jest__/remote.test.ts:31:58)
262
254
  at runMicrotasks (&lt;anonymous&gt;)
263
255
  at processTicksAndRejections (internal/process/task_queues.js:97:5)</pre><pre class="suite-consolelog-item-message">Test result : Success : 1 : Bio.Palettes.testPaletteN : OK
264
- Test result : Success : 1 : Bio.Palettes.testPaletteAA : OK
265
- Test result : Success : 0 : Bio.Palettes.testPalettePtMe : OK
266
- Test result : Success : 120 : Bio.detectors.NegativeEmpty : OK
267
- Test result : Success : 108 : Bio.detectors.Negative1 : OK
268
- Test result : Success : 41 : Bio.detectors.Negative2 : OK
269
- Test result : Success : 16 : Bio.detectors.Negative3 : OK
270
- Test result : Success : 540 : Bio.detectors.NegativeSmiles : OK
271
- Test result : Success : 52 : Bio.detectors.Dna1 : OK
272
- Test result : Success : 12 : Bio.detectors.Rna1 : OK
273
- Test result : Success : 15 : Bio.detectors.AA1 : OK
274
- Test result : Success : 11 : Bio.detectors.MsaDna1 : OK
275
- Test result : Success : 16 : Bio.detectors.MsaAA1 : OK
276
- Test result : Success : 15 : Bio.detectors.SepDna : OK
277
- Test result : Success : 14 : Bio.detectors.SepRna : OK
278
- Test result : Success : 25 : Bio.detectors.SepPt : OK
256
+ Test result : Success : 0 : Bio.Palettes.testPaletteAA : OK
257
+ Test result : Success : 1 : Bio.Palettes.testPalettePtMe : OK
258
+ Test result : Success : 116 : Bio.detectors.NegativeEmpty : OK
259
+ Test result : Success : 36 : Bio.detectors.Negative1 : OK
260
+ Test result : Success : 76 : Bio.detectors.Negative2 : OK
261
+ Test result : Success : 15 : Bio.detectors.Negative3 : OK
262
+ Test result : Success : 490 : Bio.detectors.NegativeSmiles : OK
263
+ Test result : Success : 31 : Bio.detectors.Dna1 : OK
264
+ Test result : Success : 18 : Bio.detectors.Rna1 : OK
265
+ Test result : Success : 19 : Bio.detectors.AA1 : OK
266
+ Test result : Success : 39 : Bio.detectors.MsaDna1 : OK
267
+ Test result : Success : 9 : Bio.detectors.MsaAA1 : OK
268
+ Test result : Success : 29 : Bio.detectors.SepDna : OK
269
+ Test result : Success : 12 : Bio.detectors.SepRna : OK
270
+ Test result : Success : 21 : Bio.detectors.SepPt : OK
279
271
  Test result : Success : 27 : Bio.detectors.SepUn1 : OK
280
- Test result : Success : 9 : Bio.detectors.SepUn2 : OK
281
- Test result : Success : 31 : Bio.detectors.SepMsaN1 : OK
282
- Test result : Success : 508 : Bio.detectors.SamplesFastaCsvPt : OK
283
- Test result : Success : 15 : Bio.detectors.SamplesFastaCsvNegativeEntry : OK
284
- 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
287
- Test result : Success : 1067 : Bio.detectors.samplesPeptidesComplexNegativeID : OK
288
- Test result : Success : 34 : Bio.detectors.SamplesPeptidesComplexNegativeMeasured : OK
289
- 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
296
- Test result : Success : 145 : Bio.detectors.samplesTestHelmNegativeID : OK
297
- Test result : Success : 5 : Bio.detectors.samplesTestHelmNegativeTestType : OK
298
- Test result : Success : 11 : Bio.detectors.samplesTestHelmPositiveHelmString : OK
272
+ Test result : Success : 22 : Bio.detectors.SepUn2 : OK
273
+ Test result : Success : 19 : Bio.detectors.SepMsaN1 : OK
274
+ Test result : Success : 503 : Bio.detectors.SamplesFastaCsvPt : OK
275
+ Test result : Success : 9 : Bio.detectors.SamplesFastaCsvNegativeEntry : OK
276
+ Test result : Success : 5 : Bio.detectors.SamplesFastaCsvNegativeLength : OK
277
+ Test result : Success : 96 : Bio.detectors.SamplesFastaCsvNegativeUniProtKB : OK
278
+ Test result : Success : 161 : Bio.detectors.SamplesFastaFastaPt : OK
279
+ Test result : Success : 1043 : Bio.detectors.samplesPeptidesComplexNegativeID : OK
280
+ Test result : Success : 27 : Bio.detectors.SamplesPeptidesComplexNegativeMeasured : OK
281
+ Test result : Success : 15 : Bio.detectors.SamplesPeptidesComplexNegativeValue : OK
282
+ Test result : Success : 282 : Bio.detectors.samplesMsaComplexUn : OK
283
+ Test result : Success : 13 : Bio.detectors.samplesMsaComplexNegativeActivity : OK
284
+ Test result : Success : 160 : Bio.detectors.samplesIdCsvNegativeID : OK
285
+ Test result : Success : 134 : Bio.detectors.samplesSarSmallCsvNegativeSmiles : OK
286
+ Test result : Success : 142 : Bio.detectors.samplesHelmCsvHELM : OK
287
+ Test result : Success : 5 : Bio.detectors.samplesHelmCsvNegativeActivity : OK
288
+ Test result : Success : 96 : Bio.detectors.samplesTestHelmNegativeID : OK
289
+ Test result : Success : 11 : Bio.detectors.samplesTestHelmNegativeTestType : OK
290
+ Test result : Success : 5 : Bio.detectors.samplesTestHelmPositiveHelmString : OK
299
291
  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
302
- Test result : Success : 4 : Bio.detectors.samplesTestHelmNegativeSmiles : 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
292
+ Test result : Success : 6 : Bio.detectors.samplesTestHelmNegativeMolWeight : OK
293
+ Test result : Success : 6 : Bio.detectors.samplesTestHelmNegativeMolFormula : OK
294
+ Test result : Success : 15 : Bio.detectors.samplesTestHelmNegativeSmiles : OK
295
+ Test result : Success : 384 : Bio.detectors.samplesTestDemogNegativeAll : OK
296
+ Test result : Success : 208 : Bio.detectors.samplesTestSmiles2NegativeSmiles : OK
297
+ Test result : Success : 123 : Bio.detectors.samplesTestActivityCliffsNegativeSmiles : OK
298
+ Test result : Success : 103 : Bio.detectors.samplesFastaPtPosSequence : OK
307
299
  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
311
- Test result : Success : 4 : Bio.detectors.samplesTestSpgi100NegativeSampleName : OK
312
- Test result : Success : 132 : Bio.detectors.samplesTestUnichemSourcesNegativeSrcUrl : OK
300
+ Test result : Success : 160 : Bio.detectors.samplesTestSpgi100NegativeStereoCategory : OK
301
+ Test result : Success : 6 : Bio.detectors.samplesTestSpgi100NegativeScaffoldNames : OK
302
+ Test result : Success : 5 : Bio.detectors.samplesTestSpgi100NegativePrimaryScaffoldName : OK
303
+ Test result : Success : 5 : Bio.detectors.samplesTestSpgi100NegativeSampleName : OK
304
+ Test result : Success : 130 : Bio.detectors.samplesTestUnichemSourcesNegativeSrcUrl : OK
313
305
  Test result : Success : 4 : Bio.detectors.samplesTestUnichemSourcesNegativeBaseIdUrl : OK
314
306
  Test result : Success : 123 : Bio.detectors.samplesTestDmvOfficesNegativeOfficeName : OK
315
- Test result : Success : 5 : Bio.detectors.samplesTestDmvOfficesNegativeCity : 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
307
+ Test result : Success : 11 : Bio.detectors.samplesTestDmvOfficesNegativeCity : OK
308
+ Test result : Success : 941 : Bio.MSA.isCorrect : OK
309
+ Test result : Success : 141 : Bio.MSA.isCorrectLong : OK
310
+ Test result : Success : 1146 : Bio.sequenceSpace.sequenceSpaceOpens : OK
311
+ Test result : Success : 538 : Bio.sequenceSpace.sequenceSpaceWithEmptyRows : OK
312
+ Test result : Success : 841 : Bio.activityCliffs.activityCliffsOpens : OK
313
+ Test result : Success : 849 : Bio.activityCliffs.activityCliffsWithEmptyRows : OK
323
314
  Test result : Success : 1 : Bio.splitters.fastaMulti : OK
324
315
  Test result : Success : 1 : Bio.splitters.helm1 : OK
325
316
  Test result : Success : 0 : Bio.splitters.helm2 : 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
329
- Test result : Success : 1 : Bio.splitters.testHelm3 : OK
317
+ Test result : Success : 0 : Bio.splitters.helm3-multichar : OK
318
+ Test result : Success : 0 : Bio.splitters.testHelm1 : OK
319
+ Test result : Success : 1 : Bio.splitters.testHelm2 : OK
320
+ Test result : Success : 0 : Bio.splitters.testHelm3 : OK
321
+ Test result : Success : 314 : Bio.splitters.splitToMonomers : OK
330
322
  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
323
+ Test result : Success : 68 : Bio.renderers.long sequence performance : OK
324
+ Test result : Success : 774 : Bio.renderers.many sequence performance : OK
325
+ Test result : Success : 311 : Bio.renderers.rendererMacromoleculeFasta : OK
326
+ Test result : Success : 187 : Bio.renderers.rendererMacromoleculeSeparator : OK
327
+ Test result : Success : 62 : Bio.renderers.rendererMacromoleculeDifference : OK
328
+ Test result : Success : 351 : Bio.renderers.afterMsa : OK
329
+ Test result : Success : 236 : Bio.renderers.afterConvert : OK
330
+ Test result : Success : 176 : Bio.renderers.selectRendererBySemType : OK
333
331
  Test result : Success : 0 : Bio.renderers.setRendererManually : GROK-11212
334
- Test result : Success : 5 : Bio.converters.testFastaPtToSeparator : OK
335
- Test result : Success : 4 : Bio.converters.testFastaDnaToSeparator : OK
332
+ Test result : Success : 4 : Bio.converters.testFastaPtToSeparator : OK
333
+ Test result : Success : 3 : Bio.converters.testFastaDnaToSeparator : OK
336
334
  Test result : Success : 3 : Bio.converters.testFastaRnaToSeparator : OK
337
- Test result : Success : 4 : Bio.converters.testFastaGapsToSeparator : OK
335
+ Test result : Success : 3 : Bio.converters.testFastaGapsToSeparator : OK
338
336
  Test result : Success : 2 : Bio.converters.testFastaPtToHelm : OK
339
- Test result : Success : 1 : Bio.converters.testFastaDnaToHelm : OK
337
+ Test result : Success : 2 : Bio.converters.testFastaDnaToHelm : OK
340
338
  Test result : Success : 1 : Bio.converters.testFastaRnaToHelm : OK
341
- Test result : Success : 2 : Bio.converters.testFastaGapsToHelm : OK
342
- Test result : Success : 1 : Bio.converters.testSeparatorPtToFasta : OK
339
+ Test result : Success : 7 : Bio.converters.testFastaGapsToHelm : OK
340
+ Test result : Success : 0 : Bio.converters.testSeparatorPtToFasta : OK
343
341
  Test result : Success : 1 : Bio.converters.testSeparatorDnaToFasta : OK
344
342
  Test result : Success : 0 : Bio.converters.testSeparatorRnaToFasta : OK
345
- Test result : Success : 1 : Bio.converters.testSeparatorGapsToFasta : OK
343
+ Test result : Success : 0 : Bio.converters.testSeparatorGapsToFasta : OK
346
344
  Test result : Success : 0 : Bio.converters.testSeparatorPtToHelm : OK
347
- Test result : Success : 1 : Bio.converters.testSeparatorDnaToHelm : OK
345
+ Test result : Success : 0 : Bio.converters.testSeparatorDnaToHelm : OK
348
346
  Test result : Success : 0 : Bio.converters.testSeparatorRnaToHelm : OK
349
- Test result : Success : 1 : Bio.converters.testSeparatorGapsToHelm : OK
347
+ Test result : Success : 0 : Bio.converters.testSeparatorGapsToHelm : OK
350
348
  Test result : Success : 1 : Bio.converters.testHelmDnaToFasta : OK
351
349
  Test result : Success : 0 : Bio.converters.testHelmRnaToFasta : OK
352
- Test result : Success : 0 : Bio.converters.testHelmPtToFasta : OK
350
+ Test result : Success : 1 : Bio.converters.testHelmPtToFasta : OK
353
351
  Test result : Success : 0 : Bio.converters.testHelmDnaToSeparator : OK
354
352
  Test result : Success : 0 : Bio.converters.testHelmRnaToSeparator : OK
355
353
  Test result : Success : 0 : Bio.converters.testHelmPtToSeparator : OK
356
354
  Test result : Success : 2 : Bio.converters.testHelmLoneRibose : OK
357
- Test result : Success : 2 : Bio.converters.testHelmLoneDeoxyribose : OK
355
+ Test result : Success : 1 : Bio.converters.testHelmLoneDeoxyribose : OK
358
356
  Test result : Success : 2 : Bio.converters.testHelmLonePhosphorus : OK
359
- Test result : Success : 1 : Bio.fastaFileHandler.testNormalFormatting : OK
357
+ Test result : Success : 0 : Bio.fastaFileHandler.testNormalFormatting : OK
360
358
  Test result : Success : 0 : Bio.fastaFileHandler.testExtraSpaces : OK
361
359
  Test result : Success : 0 : Bio.fastaFileHandler.testExtraNewlines : OK
362
- Test result : Success : 1 : Bio.fastaExport.wrapSequenceSingle : OK
360
+ Test result : Success : 0 : Bio.fastaExport.wrapSequenceSingle : OK
363
361
  Test result : Success : 0 : Bio.fastaExport.wrapSequenceMulti : OK
364
362
  Test result : Success : 2 : Bio.fastaExport.saveAsFastaTest1 : OK
365
363
  Test result : Success : 1 : Bio.fastaExport.saveAsFastaTest2 : OK
366
364
  Test result : Success : 1 : Bio.bio.testGetStatsHelm1 : OK
367
365
  Test result : Success : 1 : Bio.bio.testGetStatsN1 : OK
368
- Test result : Success : 1 : Bio.bio.testGetAlphabetSimilarity : OK
366
+ Test result : Success : 0 : Bio.bio.testGetAlphabetSimilarity : OK
369
367
  Test result : Success : 1 : Bio.bio.testPickupPaletteN1 : OK
370
- Test result : Success : 2 : Bio.bio.testPickupPaletteN1e : OK
371
- Test result : Success : 2 : Bio.bio.testPickupPaletteAA1 : OK
368
+ Test result : Success : 1 : Bio.bio.testPickupPaletteN1e : OK
369
+ Test result : Success : 1 : Bio.bio.testPickupPaletteAA1 : OK
372
370
  Test result : Success : 1 : Bio.bio.testPickupPaletteX : OK
373
371
  Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerSingle : OK
374
372
  Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerShort : OK
375
373
  Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerLong56 : OK
376
- Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerComplexFirstPartShort : OK
374
+ Test result : Success : 1 : Bio.WebLogo.monomerToShort.longMonomerComplexFirstPartShort : OK
377
375
  Test result : Success : 0 : Bio.WebLogo.monomerToShort.longMonomerComplexFirstPartLong56 : 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
376
+ Test result : Success : 83 : Bio.WebLogo-positions.allPositions : OK
377
+ Test result : Success : 83 : Bio.WebLogo-positions.positions with shrinkEmptyTail option true (filterd) : OK
378
+ Test result : Success : 76 : Bio.WebLogo-positions.positions with skipEmptyPositions option : OK
379
+ Test result : Success : 3 : Bio.checkInputColumn.testMsaPos : OK
382
380
  Test result : Success : 1 : Bio.checkInputColumn.testMsaNegHelm : OK
383
- Test result : Success : 2 : Bio.checkInputColumn.testMsaNegUN : OK
381
+ Test result : Success : 1 : Bio.checkInputColumn.testMsaNegUN : OK
384
382
  Test result : Success : 0 : Bio.checkInputColumn.testGetActionFunctionMeta : 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
383
+ Test result : Success : 365 : Bio.similarity/diversity.similaritySearchViewer : OK
384
+ Test result : Success : 218 : Bio.similarity/diversity.diversitySearchViewer : OK
385
+ Test result : Success : 207 : Bio.substructureFilters.fasta : OK
386
+ Test result : Success : 396 : Bio.substructureFilters.separator : OK
389
387
  </pre></div></div></div></div></body></html>