test: migrate to Vitest (#237)

package.json

@@ -71,7 +71,7 @@
     "prettier": "prettier --check src",
     "prettier-write": "prettier --write src",
     "test": "npm run test-only && npm run eslint && npm run prettier && npm run check-types",
-    "test-only": "jest --coverage",
+    "test-only": "vitest run --coverage",
     "tsc": "npm run clean && npm run tsc-cjs && npm run tsc-esm",
     "tsc-cjs": "tsc --project tsconfig.cjs.json",
     "tsc-esm": "tsc --project tsconfig.esm.json"
@@ -88,20 +88,18 @@
   },
   "homepage": "https://github.com/mljs/spectra-processing#readme",
   "devDependencies": {
-    "@types/jest": "^29.5.12",
+    "@vitest/coverage-v8": "^1.4.0",
     "cheminfo-build": "^1.2.0",
     "eslint": "^8.57.0",
     "eslint-config-cheminfo-typescript": "^12.2.0",
-    "esm": "^3.2.25",
-    "jest": "^29.7.0",
     "jest-matcher-deep-close-to": "^3.0.2",
     "jscpd": "^3.5.10",
     "ml-spectra-fitting": "^4.2.3",
     "prettier": "^3.2.5",
     "rimraf": "^5.0.5",
     "spectrum-generator": "^8.0.11",
-    "ts-jest": "^29.1.2",
-    "typescript": "^5.4.2"
+    "typescript": "^5.4.3",
+    "vitest": "^1.4.0"
   },
   "dependencies": {
     "binary-search": "^1.3.6",

src/__tests__/__snapshots__/index.test.ts.snap

@@ -1,4 +1,4 @@
-// Jest Snapshot v1, https://goo.gl/fbAQLP
+// Vitest Snapshot v1, https://vitest.dev/guide/snapshot.html
 
 exports[`test existence of exported functions 1`] = `
 [

src/__tests__/index.test.ts

@@ -1,3 +1,5 @@
+import { expect, it } from 'vitest';
+
 import * as SpectraProcessing from '../index';
 
 it('test existence of exported functions', () => {

src/matrix/__tests__/matrixAbsoluteMedian.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixAbsoluteMedian } from '../matrixAbsoluteMedian';
 
 test('matrixAbsoluteMedian', () => {

src/matrix/__tests__/matrixApplyNumericalDecoding.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixApplyNumericalEncoding } from '../matrixApplyNumericalEncoding';
 import { matrixNumericalEncoding } from '../matrixNumericalEncoding';
 

src/matrix/__tests__/matrixAutoCorrelation.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixAutoCorrelation } from '../matrixAutoCorrelation';
 
 test('simple', () => {

src/matrix/__tests__/matrixBoxPlot.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixBoxPlot } from '../matrixBoxPlot';
 
 test('test matrixBoxPlot even', () => {

src/matrix/__tests__/matrixCenterZMean.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixCenterZMean } from '../matrixCenterZMean';
 
 test('matrixCenterZMean', () => {

src/matrix/__tests__/matrixCheck.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixCheck } from '../matrixCheck';
 
 test('should throw error', () => {

src/matrix/__tests__/matrixClone.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixClone } from '../matrixClone';
 
 import { datasetForEncoding } from './fixtures/encoding';

src/matrix/__tests__/matrixColumnsCorrelation.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixColumnsCorrelation } from '../matrixColumnsCorrelation';
 
 test('matrixColumnsCorrelation', () => {

src/matrix/__tests__/matrixCreateEmpty.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixCreateEmpty } from '../matrixCreateEmpty';
 
 test('matrixCreateEmpty with default constructor', () => {

src/matrix/__tests__/matrixHistogram.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixHistogram } from '../matrixHistogram';
 
 test('simple case', () => {

src/matrix/__tests__/matrixMaxAbsoluteZ.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixMaxAbsoluteZ } from '../matrixMaxAbsoluteZ';
 
 test('basic', () => {

src/matrix/__tests__/matrixMinMaxAbsoluteZ.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixMinMaxAbsoluteZ } from '../matrixMinMaxAbsoluteZ';
 
 test('basic', () => {

src/matrix/__tests__/matrixMinMaxZ.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixMinMaxZ } from '../matrixMinMaxZ';
 
 test('basic', () => {

src/matrix/__tests__/matrixNumericalDecoding.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixNumericalDecoding } from '../matrixNumericalDecoding';
 import { matrixNumericalEncoding } from '../matrixNumericalEncoding';
 

src/matrix/__tests__/matrixNumericalEncoding.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixNumericalEncoding } from '../matrixNumericalEncoding';
 
 import { datasetForEncoding } from './fixtures/encoding';

src/matrix/__tests__/matrixPQN.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixPQN } from '../matrixPQN';
 
 test('Probabilistic quotient normalization method', () => {

src/matrix/__tests__/matrixSetSubMatrix.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixSetSubMatrix } from '../matrixSetSubMatrix';
 
 test('simple case', () => {

src/matrix/__tests__/matrixToArray.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixToArray } from '../matrixToArray';
 
 test('matrixToArray', () => {

src/matrix/__tests__/matrixZPivotRescale.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixZPivotRescale } from '../matrixZPivotRescale';
 
 test('only positive number', () => {

src/matrix/__tests__/matrixZRescale.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixZRescale } from '../matrixZRescale';
 
 test('default options', () => {

src/matrix/__tests__/matrixZRescalePerColumn.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { matrixZRescalePerColumn } from '../../index';
 
 test('default options', () => {

src/reim/__tests__/reimAbsolute.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { reimAbsolute } from '../reimAbsolute';
 
 test('test reimAbsolute', () => {

src/reim/__tests__/reimAutoPhaseCorrection.test.ts

@@ -1,6 +1,8 @@
 import { readFileSync } from 'node:fs';
 import { join } from 'path';
 
+import { expect, test } from 'vitest';
+
 import { reimAutoPhaseCorrection } from '../reimAutoPhaseCorrection';
 import { reimPhaseCorrection } from '../reimPhaseCorrection';
 

src/reim/__tests__/reimFFT.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { reimFFT } from '../reimFFT';
 
 test('test reimFFT', () => {

src/reim/__tests__/reimPhaseCorrection.test.ts

@@ -1,4 +1,5 @@
 import XSAdd from 'ml-xsadd';
+import { expect, test } from 'vitest';
 
 import { reimPhaseCorrection } from '../reimPhaseCorrection';
 

src/utils/__tests__/__snapshots__/stringify.test.ts.snap

@@ -1,4 +1,4 @@
-// Jest Snapshot v1, https://goo.gl/fbAQLP
+// Vitest Snapshot v1, https://vitest.dev/guide/snapshot.html
 
 exports[`stringify 1`] = `
 "{

src/utils/__tests__/createFromToArray.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { createFromToArray } from '../createFromToArray';
 
 test('case when we sample within a specific range with log distribution and include start and end points', () => {

src/utils/__tests__/createRandomArray.test.ts

@@ -1,4 +1,5 @@
 import { optimize } from 'ml-spectra-fitting';
+import { expect, test } from 'vitest';
 
 import { xHistogram } from '../../x';
 import { createRandomArray } from '../createRandomArray';

src/utils/__tests__/createStepArray.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { createStepArray } from '../createStepArray';
 
 test('case when we specify the step', () => {

src/utils/__tests__/getRescaler.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { getRescaler } from '../getRescaler';
 
 test('getRescale', () => {

src/utils/__tests__/isPowerOfTwo.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { isPowerOfTwo } from '../isPowerOfTwo';
 
 test('check if a power of two is next', () => {

src/utils/__tests__/nextPowerOfTwo.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { nextPowerOfTwo } from '../nextPowerOfTwo';
 
 test('check if a power of two is next', () => {

src/utils/__tests__/stringify.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { stringify } from '../stringify';
 
 test('stringify', () => {

src/x/__tests__/getOutputArray.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { getOutputArray } from '../getOutputArray';
 
 test('no output', () => {

src/x/__tests__/xAbsolute.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xAbsolute } from '../xAbsolute';
 
 test('normal array', () => {

src/x/__tests__/xAbsoluteMedian.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xAbsoluteMedian } from '../xAbsoluteMedian';
 
 test('positive values', () => {

src/x/__tests__/xAdd.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xAdd } from '../xAdd';
 
 test('test xAdd of 2 vectors', () => {

src/x/__tests__/xApplyFunctionStr.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xApplyFunctionStr } from '../xApplyFunctionStr';
 
 test('xApplyFunctionStr', () => {

src/x/__tests__/xAutoCorrelation.test.ts

@@ -1,4 +1,5 @@
-// Scilab: xcorr(linear)
+import { expect, test } from 'vitest'; // Scilab: xcorr(linear)
+
 import { xAutoCorrelation } from '../xAutoCorrelation';
 
 test('auto-correlation linear function', () => {

src/x/__tests__/xBoxPlot.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xBoxPlot } from '../xBoxPlot';
 
 test('test xBoxPlot even', () => {

src/x/__tests__/xCheck.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xCheck } from '../xCheck';
 
 test('should throw on invalid value', () => {

src/x/__tests__/xCorrelation.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xCorrelation } from '../xCorrelation';
 
 // wolfram alpha: xCorrelation([1,2,3],[4,5,6])

src/x/__tests__/xCostMatrix.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xCostMatrix } from '../xCostMatrix';
 
 const array1 = [1, 2, 3, 4, 5];

src/x/__tests__/xCrossCorrelation.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xCrossCorrelation } from '../xCrossCorrelation';
 
 test('cross-correlation linear and constant function', () => {

src/x/__tests__/xCumulative.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xCumulative } from '../xCumulative';
 
 test('zero length array', () => {

src/x/__tests__/xDivide.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xDivide } from '../xDivide';
 
 test('test divide of 2 vectors', () => {

src/x/__tests__/xDotProduct.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xDotProduct } from '../xDotProduct';
 
 test('cross-correlation linear and constant function', () => {

src/x/__tests__/xEnsureFloat64.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xEnsureFloat64 } from '../xEnsureFloat64';
 
 test('normal array', () => {

src/x/__tests__/xFindClosestIndex.test.ts

@@ -1,3 +1,5 @@
+import { describe, expect, it } from 'vitest';
+
 import { xFindClosestIndex } from '../xFindClosestIndex';
 
 describe('Find closest index in sorted array test', () => {

src/x/__tests__/xGetFromToIndex.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xGetFromToIndex } from '../xGetFromToIndex';
 
 test('no from to', () => {

src/x/__tests__/xHilbertTransform.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xHilbertTransform } from '../xHilbertTransform';
 import { xMaxValue } from '../xMaxValue';
 

src/x/__tests__/xHistogram.test.ts

@@ -1,4 +1,5 @@
 import XSAdd from 'ml-xsadd';
+import { expect, test } from 'vitest';
 
 import { createFromToArray } from '../../utils';
 import { xHistogram } from '../xHistogram';

src/x/__tests__/xIsEquallySpaced.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xIsEquallySpaced } from '../xIsEquallySpaced';
 
 test('empty', () => {

src/x/__tests__/xIsMonotonic.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xIsMonotonic } from '../xIsMonotonic';
 
 test('test xIsMonotonic increasing', () => {

src/x/__tests__/xMassCenterVectorSimilarity.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xyMassCenterVector } from '../../xy';
 import { xMassCenterVectorSimilarity } from '../xMassCenterVectorSimilarity';
 

src/x/__tests__/xMaxAbsoluteValue.test.ts

@@ -1,3 +1,5 @@
+import { expect, test } from 'vitest';
+
 import { xMaxAbsoluteValue } from '../xMaxAbsoluteValue';
 
 test('xMaxAbsoluteValue', () => {