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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,30 @@ | ||
| import { BidsHedIssue } from '../bids' | ||
| import { generateIssue } from '../common/issues/issues' | ||
|
|
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| export const errorBidsTests = [ | ||
| { | ||
| name: 'invalid-bids-datasets', | ||
| description: 'Who knows', | ||
| warning: false, | ||
| tests: [ | ||
| { | ||
| name: 'valid-sidecar-bad-tag-tsv', | ||
| explanation: 'Valid-sidecar, but invalid tsv', | ||
| schemaVersion: '8.3.0', | ||
| sidecar: { | ||
| event_code: { | ||
| HED: { | ||
| face: '(Red, Blue), (Green, (Yellow))', | ||
| }, | ||
| }, | ||
| }, | ||
| sidecarValid: true, | ||
| sidecarErrors: [], | ||
| eventsString: 'onset\tduration\tHED\n' + '7\t4\tBaloney', | ||
| eventsValid: false, | ||
| eventsErrors: [BidsHedIssue.fromHedIssue(generateIssue('invalidTag', {}), 'valid-sidecar-invalid-tsv.tsv')], | ||
| comboValid: false, | ||
| }, | ||
| ], | ||
| }, | ||
| ] |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,132 @@ | ||
| import chai from 'chai' | ||
| const assert = chai.assert | ||
| import { beforeAll, describe, afterAll } from '@jest/globals' | ||
| import path from 'path' | ||
| import { BidsHedIssue } from '../bids/types/issues' | ||
| import { buildSchemas } from '../validator/schema/init' | ||
| import { SchemaSpec, SchemasSpec } from '../common/schema/types' | ||
| import { BidsDataset, BidsEventFile, BidsHedTsvValidator, BidsSidecar, BidsTsvFile } from '../bids' | ||
| import { generateIssue, IssueError } from '../common/issues/issues' | ||
|
|
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| import { HedStringTokenizerOriginal } from '../parser/tokenizerOriginal' | ||
| import { HedStringTokenizer } from '../parser/tokenizer' | ||
| import { passingBidsTests } from './bidsPassingData' | ||
| import { BidsHedTsvParser } from '../bids/validator/bidsHedTsvValidator' | ||
| import parseTSV from '../bids/tsvParser' | ||
| const fs = require('fs') | ||
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| const displayLog = process.env.DISPLAY_LOG === 'true' | ||
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| const skippedErrors = {} | ||
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| describe('HED tokenizer validation', () => { | ||
| const schemaMap = new Map([ | ||
| ['8.2.0', undefined], | ||
| ['8.3.0', undefined], | ||
| ]) | ||
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|
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| const badLog = [] | ||
| let totalTests = 0 | ||
| let wrongErrors = 0 | ||
| let unexpectedErrors = 0 | ||
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| beforeAll(async () => { | ||
| const spec2 = new SchemaSpec('', '8.2.0', '', path.join(__dirname, '../tests/data/HED8.2.0.xml')) | ||
| const specs2 = new SchemasSpec().addSchemaSpec(spec2) | ||
| const schemas2 = await buildSchemas(specs2) | ||
| const spec3 = new SchemaSpec('', '8.3.0', '', path.join(__dirname, '../tests/data/HED8.3.0.xml')) | ||
| const specs3 = new SchemasSpec().addSchemaSpec(spec3) | ||
| const schemas3 = await buildSchemas(specs3) | ||
| schemaMap.set('8.2.0', schemas2) | ||
| schemaMap.set('8.3.0', schemas3) | ||
| }) | ||
|
|
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| afterAll(() => { | ||
| const outBad = path.join(__dirname, 'runLog.txt') | ||
| const summary = `Total tests:${totalTests} Unexpected errors:${unexpectedErrors}\n` | ||
| if (displayLog) { | ||
| fs.writeFileSync(outBad, summary + badLog.join('\n'), 'utf8') | ||
| } | ||
| }) | ||
|
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| describe('BIDS validation - validData', () => { | ||
| const badLog = [] | ||
| let totalTests = 0 | ||
| let unexpectedErrors = 0 | ||
|
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| beforeAll(async () => {}) | ||
|
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| afterAll(() => { | ||
| const outBad = path.join(__dirname, 'runLog.txt') | ||
| const summary = `Total tests:${totalTests} Unexpected errors:${unexpectedErrors}\n` | ||
| if (displayLog) { | ||
| fs.writeFileSync(outBad, summary + badLog.join('\n'), 'utf8') | ||
| } | ||
| }) | ||
|
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| describe.each(passingBidsTests)('$name : $description', ({ tests }) => { | ||
| let itemLog | ||
|
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| const assertErrors = function (header, issues, iLog) { | ||
| iLog.push(`${header}\n`) | ||
| totalTests += 1 | ||
|
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| let errors = [] | ||
| if (issues.length > 0) { | ||
| errors = issues.map((item) => item.hedIssue.hedCode) // list of hedCodes in the issues | ||
| } | ||
| const errorString = errors.join(',') | ||
| if (errors.length > 0) { | ||
| iLog.push(`---expected no errors but got errors [${errorString}]\n`) | ||
| unexpectedErrors += 1 | ||
| assert(errors.length === 0, `${header}---expected no errors but got errors [${errorString}]`) | ||
| } | ||
| } | ||
|
|
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| const validate = function (test, iLog) { | ||
| // Make sure that the schema is available | ||
| const header = `\n[${test.name} (Expect pass)]` | ||
| const thisSchema = schemaMap.get(test.schemaVersion) | ||
| assert(thisSchema !== undefined, `${test.schemaVersion} is not available in test ${test.name}`) | ||
|
|
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| // Validate the sidecar by itself | ||
| const sidecarName = test.name + '.json' | ||
| const bidsSidecar = new BidsSidecar('thisOne', test.sidecar, { relativePath: sidecarName, path: sidecarName }) | ||
| assert(bidsSidecar instanceof BidsSidecar, 'Test') | ||
| const sidecarIssues = bidsSidecar.validate(thisSchema) | ||
| assertErrors(header + ':Validating just the sidecar', sidecarIssues, iLog) | ||
|
|
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| // Parse the events file | ||
| const eventName = test.name + '.tsv' | ||
| const parsedTsv = parseTSV(test.eventsString) | ||
| assert(parsedTsv instanceof Map, `${eventName} cannot be parsed`) | ||
|
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| // Validate the events file by itself | ||
| const bidsTsv = new BidsTsvFile(test.name, parsedTsv, { relativePath: 'eventName' }, [], {}) | ||
| const validator = new BidsHedTsvValidator(bidsTsv, thisSchema) | ||
| validator.validate() | ||
| assertErrors(header + ':Parsing events alone', validator.issues, iLog) | ||
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| // Validate the events file with the sidecar | ||
| const bidsTsvSide = new BidsTsvFile(test.name, parsedTsv, { relativePath: 'eventName' }, [], bidsSidecar) | ||
| const validatorSide = new BidsHedTsvValidator(bidsTsvSide, thisSchema) | ||
| validatorSide.validate() | ||
| assertErrors(header + ':Parsing events with ', validatorSide.issues, iLog) | ||
| } | ||
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| beforeAll(async () => { | ||
| itemLog = [] | ||
| }) | ||
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| afterAll(() => { | ||
| badLog.push(itemLog.join('\n')) | ||
| }) | ||
|
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| if (tests && tests.length > 0) { | ||
| test.each(tests)('BIDS: %s ', (test) => { | ||
| validate(test, itemLog) | ||
| }) | ||
| } | ||
| }) | ||
| }) | ||
| }) |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,73 @@ | ||
| import { BidsHedIssue } from '../bids' | ||
| import { generateIssue } from '../common/issues/issues' | ||
|
|
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| export const bidsTestData = [ | ||
| // { | ||
| // name: 'valid-bids-datasets', | ||
| // description: 'Who knows', | ||
| // tests: [ | ||
| // { | ||
| // name: 'no-hed-at-all', | ||
| // explanation: 'Neither the sidecar or tsv has HED', | ||
| // schemaVersion: '8.3.0', | ||
| // sidecar: { | ||
| // duration: { | ||
| // description: 'Duration of the event in seconds.', | ||
| // }, | ||
| // }, | ||
| // eventsString: 'onset\tduration\n' + '7\t4', | ||
| // sidecarOnlyErrors: [], | ||
| // eventsOnlyErrors: [], | ||
| // comboErrors: [] | ||
| // }, | ||
| // { | ||
| // name: 'only-header-in-tsv', | ||
| // explanation: 'TSV only has header and some extra white space', | ||
| // schemaVersion: '8.3.0', | ||
| // sidecar: { | ||
| // duration: { | ||
| // description: 'Duration of the event in seconds.', | ||
| // }, | ||
| // }, | ||
| // eventsString: 'onset\tduration\n', | ||
| // sidecarOnlyErrors: [], | ||
| // eventsOnlyErrors: [], | ||
| // comboErrors: [] | ||
| // }, | ||
| // ] | ||
| // }, | ||
| { | ||
| name: 'invalid-bids-datasets', | ||
| description: 'Who knows this', | ||
| tests: [ | ||
| { | ||
| name: 'valid-sidecar-bad-tag-tsv', | ||
| explanation: 'Valid-sidecar, but invalid tsv', | ||
| schemaVersion: '8.3.0', | ||
| sidecar: { | ||
| event_code: { | ||
| HED: { | ||
| face: '(Red, Blue), (Green, (Yellow))', | ||
| }, | ||
| }, | ||
| }, | ||
| eventsString: 'onset\tduration\tHED\n' + '7\t4\tBaloney', | ||
| sidecarOnlyErrors: [], | ||
| eventsOnlyErrors: [ | ||
| BidsHedIssue.fromHedIssue( | ||
| generateIssue('invalidTag', { tag: 'Baloney' }), | ||
| { relativePath: 'valid-sidecar-bad-tag-tsv.tsv' }, | ||
| { tsvLine: 2 }, | ||
| ), | ||
| ], | ||
| comboErrors: [ | ||
| BidsHedIssue.fromHedIssue( | ||
| generateIssue('invalidTag', { tag: 'Baloney' }), | ||
| { relativePath: 'valid-sidecar-bad-tag-tsv.tsv' }, | ||
| { tsvLine: 2 }, | ||
| ), | ||
| ], | ||
| }, | ||
| ], | ||
| }, | ||
| ] |
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