Update to Chembl 26

[chembl-bot]

I am going to a start test server for 288e7f9923447becff23834bb104eb37d2cb20c4

[pep8speaks]

Hello @nclopezo! Thanks for updating this PR. We checked the lines you've touched for PEP 8 issues, and found:

• In the file src/glados/api/chembl/target_prediction/service.py:

Line 29:1: E305 expected 2 blank lines after class or function definition, found 1 Line 34:49: E226 missing whitespace around arithmetic operator Line 96:5: E303 too many blank lines (2)

• In the file src/glados/api/chembl/target_prediction/urls.py:

Line 6:2: W292 no newline at end of file

• In the file src/glados/api/chembl/visualisations/assay_classifications/services/in_vivo.py:

Line 21:49: E226 missing whitespace around arithmetic operator Line 72:94: E226 missing whitespace around arithmetic operator

• In the file src/glados/api/chembl/visualisations/shared/tree_generator.py:

Line 240:58: E226 missing whitespace around arithmetic operator Line 241:59: E226 missing whitespace around arithmetic operator

• In the file src/glados/api/chembl/visualisations/target_classifications/services/organism_taxonomy.py:

Line 21:49: E226 missing whitespace around arithmetic operator Line 70:94: E226 missing whitespace around arithmetic operator

• In the file src/glados/api/chembl/visualisations/target_classifications/services/protein_class.py:

Line 21:49: E226 missing whitespace around arithmetic operator Line 104:94: E226 missing whitespace around arithmetic operator

• In the file src/glados/api/shared/dynamic_downloads/columns_parser.py:

Line 26:36: E226 missing whitespace around arithmetic operator Line 29:36: E226 missing whitespace around arithmetic operator Line 32:36: E226 missing whitespace around arithmetic operator Line 36:36: E226 missing whitespace around arithmetic operator

• In the file src/glados/api/shared/dynamic_downloads/tests/test_downloads_controller.py:

Line 39:53: E226 missing whitespace around arithmetic operator Line 70:53: E226 missing whitespace around arithmetic operator Line 103:53: E226 missing whitespace around arithmetic operator

• In the file src/glados/api/shared/dynamic_downloads/tests/test_downloads_job_service.py:

Line 38:53: E226 missing whitespace around arithmetic operator Line 52:77: E226 missing whitespace around arithmetic operator Line 54:59: E226 missing whitespace around arithmetic operator Line 76:53: E226 missing whitespace around arithmetic operator Line 92:77: E226 missing whitespace around arithmetic operator Line 94:77: E226 missing whitespace around arithmetic operator Line 116:53: E226 missing whitespace around arithmetic operator Line 151:53: E226 missing whitespace around arithmetic operator Line 190:53: E226 missing whitespace around arithmetic operator Line 233:53: E226 missing whitespace around arithmetic operator

• In the file src/glados/api/shared/dynamic_downloads/tests/test_jobs.py:

Line 21:29: E226 missing whitespace around arithmetic operator Line 21:61: E226 missing whitespace around arithmetic operator Line 24:55: E226 missing whitespace around arithmetic operator Line 76:29: E226 missing whitespace around arithmetic operator Line 76:61: E226 missing whitespace around arithmetic operator Line 80:55: E226 missing whitespace around arithmetic operator Line 141:34: E226 missing whitespace around arithmetic operator Line 146:55: E226 missing whitespace around arithmetic operator Line 197:29: E226 missing whitespace around arithmetic operator Line 197:61: E226 missing whitespace around arithmetic operator Line 200:55: E226 missing whitespace around arithmetic operator Line 216:29: E226 missing whitespace around arithmetic operator Line 216:61: E226 missing whitespace around arithmetic operator Line 219:55: E226 missing whitespace around arithmetic operator

• In the file src/glados/api/shared/properties_configuration/tests/test_properties_configuration_controller.py:

Line 47:53: E226 missing whitespace around arithmetic operator Line 61:53: E226 missing whitespace around arithmetic operator Line 93:53: E226 missing whitespace around arithmetic operator

• In the file src/glados/es/es_properties_configuration/columns_parser.py:

Line 130:36: E226 missing whitespace around arithmetic operator Line 145:36: E226 missing whitespace around arithmetic operator Line 148:36: E226 missing whitespace around arithmetic operator Line 154:36: E226 missing whitespace around arithmetic operator Line 157:36: E226 missing whitespace around arithmetic operator Line 160:36: E226 missing whitespace around arithmetic operator Line 164:36: E226 missing whitespace around arithmetic operator Line 175:36: E226 missing whitespace around arithmetic operator

• In the file src/glados/es/es_properties_configuration/tests/test_columns_parser.py:

Line 52:53: E226 missing whitespace around arithmetic operator

• In the file src/glados/es/es_properties_configuration/tests/test_configuration_manager.py:

Line 39:53: E226 missing whitespace around arithmetic operator Line 51:53: E226 missing whitespace around arithmetic operator Line 67:53: E226 missing whitespace around arithmetic operator Line 82:53: E226 missing whitespace around arithmetic operator Line 103:53: E226 missing whitespace around arithmetic operator Line 115:53: E226 missing whitespace around arithmetic operator Line 127:53: E226 missing whitespace around arithmetic operator Line 159:53: E226 missing whitespace around arithmetic operator Line 170:53: E226 missing whitespace around arithmetic operator Line 208:53: E226 missing whitespace around arithmetic operator Line 220:53: E226 missing whitespace around arithmetic operator Line 234:53: E226 missing whitespace around arithmetic operator Line 248:53: E226 missing whitespace around arithmetic operator Line 269:53: E226 missing whitespace around arithmetic operator Line 272:81: E226 missing whitespace around arithmetic operator Line 289:53: E226 missing whitespace around arithmetic operator

• In the file src/glados/es/file_generator.py:

Line 145:49: E226 missing whitespace around arithmetic operator

• In the file src/glados/es/query_builder.py:

Line 251:69: E226 missing whitespace around arithmetic operator Line 253:69: E226 missing whitespace around arithmetic operator

• In the file src/glados/es/tests/test_file_writing.py:

Line 36:58: E226 missing whitespace around arithmetic operator Line 66:58: E226 missing whitespace around arithmetic operator Line 87:58: E226 missing whitespace around arithmetic operator Line 110:58: E226 missing whitespace around arithmetic operator Line 135:58: E226 missing whitespace around arithmetic operator Line 161:58: E226 missing whitespace around arithmetic operator Line 188:121: E501 line too long (125 > 120 characters) Line 195:58: E226 missing whitespace around arithmetic operator Line 228:58: E226 missing whitespace around arithmetic operator

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_activity_mapping.py:

Line 76:120: W291 trailing whitespace Line 124:120: W291 trailing whitespace Line 128:120: W291 trailing whitespace Line 140:120: W291 trailing whitespace Line 211:120: W291 trailing whitespace Line 225:120: W291 trailing whitespace Line 244:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_activity_supplementary_data_by_activity_mapping.py:

Line 25:120: W291 trailing whitespace Line 143:120: W291 trailing whitespace Line 144:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_assay_class_mapping.py:

Line 43:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_assay_mapping.py:

Line 22:120: W291 trailing whitespace Line 23:120: W291 trailing whitespace Line 24:120: W291 trailing whitespace Line 26:120: W291 trailing whitespace Line 55:120: W291 trailing whitespace Line 56:120: W291 trailing whitespace Line 78:120: W291 trailing whitespace Line 159:120: W291 trailing whitespace Line 187:120: W291 trailing whitespace Line 189:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_atc_class_mapping.py:

Line 21:120: W291 trailing whitespace Line 39:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_binding_site_mapping.py:

Line 56:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_biotherapeutic_mapping.py:

Line 31:120: W291 trailing whitespace Line 94:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_cell_line_mapping.py:

Line 48:120: W291 trailing whitespace Line 64:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_compound_record_mapping.py:

Line 30:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_document_mapping.py:

Line 34:120: W291 trailing whitespace Line 37:120: W291 trailing whitespace Line 41:120: W291 trailing whitespace Line 48:120: W291 trailing whitespace Line 72:120: W291 trailing whitespace Line 109:120: W291 trailing whitespace Line 120:120: W291 trailing whitespace Line 127:120: W291 trailing whitespace Line 128:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_drug_indication_mapping.py:

Line 25:120: W291 trailing whitespace Line 77:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_drug_mapping.py:

Line 27:120: W291 trailing whitespace Line 380:120: W291 trailing whitespace Line 408:120: W291 trailing whitespace Line 414:119: W291 trailing whitespace Line 416:119: W291 trailing whitespace Line 417:120: W291 trailing whitespace Line 418:119: W291 trailing whitespace Line 422:119: W291 trailing whitespace Line 423:119: W291 trailing whitespace Line 424:119: W291 trailing whitespace Line 425:119: W291 trailing whitespace Line 426:119: W291 trailing whitespace Line 432:119: W291 trailing whitespace Line 434:119: W291 trailing whitespace Line 435:120: W291 trailing whitespace Line 436:119: W291 trailing whitespace Line 439:117: W291 trailing whitespace Line 440:119: W291 trailing whitespace Line 441:119: W291 trailing whitespace Line 442:119: W291 trailing whitespace Line 443:119: W291 trailing whitespace Line 444:118: W291 trailing whitespace Line 446:119: W291 trailing whitespace Line 448:119: W291 trailing whitespace Line 449:120: W291 trailing whitespace Line 450:119: W291 trailing whitespace Line 454:119: W291 trailing whitespace Line 455:120: W291 trailing whitespace Line 456:120: W291 trailing whitespace Line 459:119: W291 trailing whitespace Line 461:120: W291 trailing whitespace Line 462:120: W291 trailing whitespace Line 464:120: W291 trailing whitespace Line 466:120: W291 trailing whitespace Line 467:118: W291 trailing whitespace Line 468:119: W291 trailing whitespace Line 469:118: W291 trailing whitespace Line 470:119: W291 trailing whitespace Line 471:119: W291 trailing whitespace Line 472:120: W291 trailing whitespace Line 474:120: W291 trailing whitespace Line 476:120: W291 trailing whitespace Line 477:118: W291 trailing whitespace Line 478:119: W291 trailing whitespace Line 479:118: W291 trailing whitespace Line 480:120: W291 trailing whitespace Line 481:120: W291 trailing whitespace Line 486:119: W291 trailing whitespace Line 487:119: W291 trailing whitespace Line 488:119: W291 trailing whitespace Line 489:119: W291 trailing whitespace Line 491:119: W291 trailing whitespace Line 492:120: W291 trailing whitespace Line 493:120: W291 trailing whitespace Line 494:117: W291 trailing whitespace Line 496:118: W291 trailing whitespace Line 498:119: W291 trailing whitespace Line 499:116: W291 trailing whitespace Line 501:120: W291 trailing whitespace Line 507:120: W291 trailing whitespace Line 508:120: W291 trailing whitespace Line 509:120: W291 trailing whitespace Line 510:120: W291 trailing whitespace Line 511:120: W291 trailing whitespace Line 512:117: W291 trailing whitespace Line 514:118: W291 trailing whitespace Line 516:119: W291 trailing whitespace Line 517:116: W291 trailing whitespace Line 519:120: W291 trailing whitespace Line 523:120: W291 trailing whitespace Line 525:120: W291 trailing whitespace Line 531:119: W291 trailing whitespace Line 533:119: W291 trailing whitespace Line 534:120: W291 trailing whitespace Line 535:119: W291 trailing whitespace Line 538:117: W291 trailing whitespace Line 539:119: W291 trailing whitespace Line 540:119: W291 trailing whitespace Line 541:119: W291 trailing whitespace Line 542:119: W291 trailing whitespace Line 544:119: W291 trailing whitespace Line 546:120: W291 trailing whitespace Line 547:117: W291 trailing whitespace Line 552:119: W291 trailing whitespace Line 554:120: W291 trailing whitespace Line 555:120: W291 trailing whitespace Line 557:120: W291 trailing whitespace Line 559:120: W291 trailing whitespace Line 560:118: W291 trailing whitespace Line 561:119: W291 trailing whitespace Line 563:120: W291 trailing whitespace Line 564:120: W291 trailing whitespace Line 569:119: W291 trailing whitespace Line 570:119: W291 trailing whitespace Line 572:120: W291 trailing whitespace Line 573:120: W291 trailing whitespace Line 574:120: W291 trailing whitespace Line 580:119: W291 trailing whitespace Line 581:119: W291 trailing whitespace Line 582:120: W291 trailing whitespace Line 585:118: W291 trailing whitespace Line 586:119: W291 trailing whitespace Line 587:119: W291 trailing whitespace Line 589:120: W291 trailing whitespace Line 590:117: W291 trailing whitespace Line 595:119: W291 trailing whitespace Line 597:120: W291 trailing whitespace Line 598:120: W291 trailing whitespace Line 600:120: W291 trailing whitespace Line 601:119: W291 trailing whitespace Line 602:119: W291 trailing whitespace Line 603:119: W291 trailing whitespace Line 604:119: W291 trailing whitespace Line 624:120: W291 trailing whitespace Line 688:120: W291 trailing whitespace Line 716:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_mechanism_mapping.py:

Line 18:120: W291 trailing whitespace Line 41:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_molecule_form_mapping.py:

Line 21:120: W291 trailing whitespace Line 25:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_molecule_mapping.py:

Line 127:120: W291 trailing whitespace Line 129:120: W291 trailing whitespace Line 196:120: W291 trailing whitespace Line 243:120: W291 trailing whitespace Line 262:120: W291 trailing whitespace Line 302:120: W291 trailing whitespace Line 373:120: W291 trailing whitespace Line 379:119: W291 trailing whitespace Line 381:119: W291 trailing whitespace Line 382:120: W291 trailing whitespace Line 383:119: W291 trailing whitespace Line 387:119: W291 trailing whitespace Line 388:119: W291 trailing whitespace Line 390:120: W291 trailing whitespace Line 391:120: W291 trailing whitespace Line 396:119: W291 trailing whitespace Line 397:119: W291 trailing whitespace Line 402:119: W291 trailing whitespace Line 405:119: W291 trailing whitespace Line 407:120: W291 trailing whitespace Line 408:120: W291 trailing whitespace Line 410:120: W291 trailing whitespace Line 412:120: W291 trailing whitespace Line 413:118: W291 trailing whitespace Line 414:119: W291 trailing whitespace Line 415:118: W291 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• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_target_component_mapping.py:

Line 29:120: W291 trailing whitespace Line 143:120: W291 trailing whitespace Line 162:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_target_mapping.py:

Line 64:120: W291 trailing whitespace Line 76:120: W291 trailing whitespace Line 90:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_target_relation_mapping.py:

Line 18:120: W291 trailing whitespace

• In the file src/glados/es/ws2es/mappings_skeletons/es_chembl_tissue_mapping.py:

Line 43:120: W291 trailing whitespace

• In the file src/glados/og_tags_generator.py:

Line 32:53: E226 missing whitespace around arithmetic operator Line 92:53: E226 missing whitespace around arithmetic operator Line 128:53: E226 missing whitespace around arithmetic operator Line 162:53: E226 missing whitespace around arithmetic operator Line 198:53: E226 missing whitespace around arithmetic operator Line 231:53: E226 missing whitespace around arithmetic operator

• In the file src/glados/schema_tags_generator.py:

Line 153:53: E226 missing whitespace around arithmetic operator

• In the file src/glados/views.py:

Line 229:53: E226 missing whitespace around arithmetic operator Line 258:66: E226 missing whitespace around arithmetic operator Line 259:62: E226 missing whitespace around arithmetic operator Line 260:63: E226 missing whitespace around arithmetic operator Line 261:66: E226 missing whitespace around arithmetic operator Line 262:64: E226 missing whitespace around arithmetic operator Line 263:62: E226 missing whitespace around arithmetic operator Line 264:64: E226 missing whitespace around arithmetic operator Line 265:68: E226 missing whitespace around arithmetic operator Line 266:67: E226 missing whitespace around arithmetic operator

[chembl-bot]

Starting Ghost inspector tests on http://wwwdev.ebi.ac.uk/chembl/test2/chembl_26/

[chembl-bot]

Ghost inspector tests results, passed: False

Tested Commit: 288e7f9923447becff23834bb104eb37d2cb20c4

Suite Name: Basic

• Name: Activities Browser - links work, Passing: 😡False, See Result
• Name: Drugs - link to activities is there, Passing: 😎True, See Result
• Name: Free text search works, Passing: 😡False, See Result
• Name: Full query filters work, Passing: 😡False, See Result
• Name: Main page is correct, Passing: 😡False, See Result
• Name: Search Results - Assays Filters Work, Passing: 😡False, See Result
• Name: Search Results - Cell Line Filters Work, Passing: 😡False, See Result
• Name: Search Results - Compound Can be filtered by isDrug, Passing: 😎True, See Result
• Name: Search Results - Compound Filters Work, Passing: 😡False, See Result
• Name: Search Results - Documents Filters Work, Passing: 😎True, See Result
• Name: Search Results - Links to other entities work, Passing: 😡False, See Result
• Name: Search Results - Matrix Full Screen Works, Passing: 😎True, See Result
• Name: Search Results - Matrix Works, Passing: 😡False, See Result
• Name: Search Results - Scatter Plot Works, Passing: 😡False, See Result

All passing: False

Suite Name: Report Cards

• Name: Assay - Assay Params, Passing: 😡False, See Result
• Name: Assay - Basic Information, Passing: 😎True, See Result
• Name: Assay - Basic Information - BindingDB Link, Passing: 😎True, See Result
• Name: Assay - Basic Information - PubChem link, Passing: 😎True, See Result
• Name: Assay - Curation Summary, Passing: 😎True, See Result
• Name: Cell Line - Basic Information, Passing: 😎True, See Result
• Name: Document - Basic Information, Passing: 😎True, See Result
• Name: Target - Approved drugs and clinical candidates, Passing: 😎True, See Result
• Name: Target - Name and Classification, Passing: 😎True, See Result
• Name: Target - Relations, Passing: 😎True, See Result
• Name: Tissue - Basic Information, Passing: 😎True, See Result

All passing: False

Suite Name: ReportCards - Compound

• Name: Compound - Alternate Forms, Passing: 😎True, See Result
• Name: Compound - Compound Representations - Is hidden when necessary, Passing: 😎True, See Result
• Name: Compound - Inexisting compound, Passing: 😎True, See Result
• Name: Compound - Mechanism of Action - Is hidden when necessary, Passing: 😎True, See Result
• Name: Compound - Mechanisms of action, Passing: 😡False, See Result
• Name: Compound - Molecule Features, Passing: 😡False, See Result
• Name: Compound - Molecule Features - Is hidden when necessary, Passing: 😎True, See Result
• Name: Compound - Molecule Features - Second Row is hidden when is not approved drug, Passing: 😎True, See Result
• Name: Compound - Name and Classification, Passing: 😡False, See Result
• Name: Compound - Name and Classification - Molformula is hidden when not avaiable, Passing: 😎True, See Result
• Name: Compound - Name and Classification - Synonyms/Trade Names are hidden when necessary, Passing: 😎True, See Result
• Name: Compound - Name and Classification for a compound with no structure, Passing: 😎True, See Result
• Name: Compound - Representations, Passing: 😡False, See Result
• Name: Compound - Similar Compounds Card, Passing: 😡False, See Result
• Name: Compound - Unichem Connectivity Matches, Passing: 😡False, See Result

All passing: False

Suite Name: State URLs and Query editing

• Name: Breadcrumbs work after tab and state changes in search results, Passing: 😎True, See Result
• Name: Entity Browsers allow state object in url, Passing: 😡False, See Result
• Name: Search results page can be created from a state in url, Passing: 😡False, See Result
• Name: State urls work after selecting hidden filters, Passing: 😡False, See Result

All passing: False

Suite Name: Downloads

• Name: A dynamic file can be downloaded, Passing: 😎True, See Result
• Name: Filtered assays can be downloaded, Passing: 😡False, See Result
• Name: Filtered cell lines can be downloaded, Passing: 😡False, See Result
• Name: Filtered compounds can be downloaded, Passing: 😡False, See Result
• Name: Filtered documents can be downloaded, Passing: 😡False, See Result
• Name: Filtered targets can be downloaded, Passing: 😡False, See Result
• Name: Tissues can be downloaded, Passing: 😡False, See Result

All passing: False

Suite Name: Sequence and Structure Searches

• Name: Connectivity Search, Passing: 😎True, See Result
• Name: BLAST Search params can be edited, Passing: 😡False, See Result
• Name: BLAST Search Works, Passing: 😎True, See Result
• Name: Connectivity Search - Link to other entities works, Passing: 😎True, See Result
• Name: Search Results - Target Filters Work, Passing: 😡False, See Result
• Name: Similarity Search - Link to activities works, Passing: 😡False, See Result
• Name: Similarity Search Works, Passing: 😡False, See Result
• Name: Similarity Search Works with a structure containing a #, Passing: 😡False, See Result
• Name: Substructure search - link to activities works, Passing: 😡False, See Result
• Name: Substructure search works, Passing: 😡False, See Result

All passing: False

Suite Name: Redirections

• Name: Assay Report Card Redirection Works, Passing: 😎True, See Result
• Name: Cell Report Card Works, Passing: 😎True, See Result
• Name: Compound Report Card Redirection Works, Passing: 😎True, See Result
• Name: Document Report Card Works, Passing: 😎True, See Result
• Name: FAQs redirection works, Passing: 😎True, See Result
• Name: Target Report Card Redirection Works, Passing: 😎True, See Result
• Name: Tissue Report Card Redirection Works, Passing: 😎True, See Result
• Name: Web services documentation redirection works, Passing: 😎True, See Result

All passing: True

[nclopezo]

We will have to update the tests...