chore: migrate from jest to vitest

package.json

@@ -14,14 +14,13 @@
     "build": "npm run tsc-esm && cheminfo-build --entry lib-esm/index.js --root GSD",
     "check-types": "tsc --noEmit",
     "clean": "rimraf lib lib-esm",
-    "example": "nodemon -w src -w examples/example.js -r esm examples/example.js",
     "eslint": "eslint src --cache",
     "eslint-fix": "npm run eslint -- --fix",
     "prepack": "npm run tsc",
     "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"
@@ -55,9 +54,7 @@
     "trailingComma": "all"
   },
   "devDependencies": {
-    "@babel/plugin-transform-modules-commonjs": "^7.24.1",
-    "@babel/preset-typescript": "^7.24.1",
-    "@types/jest": "^29.5.12",
+    "@vitest/coverage-v8": "^1.5.0",
     "cheminfo-build": "^1.2.0",
     "eslint": "^8.57.0",
     "eslint-config-cheminfo-typescript": "^12.3.0",
@@ -66,11 +63,11 @@
     "jest-matcher-deep-close-to": "^3.0.2",
     "mf-global": "^3.0.18",
     "ml-stat": "^1.3.3",
-    "nodemon": "^3.1.0",
     "prettier": "^3.2.5",
     "rimraf": "^5.0.5",
     "spectrum-generator": "^8.0.11",
     "typescript": "^5.4.5",
+    "vitest": "^1.5.0",
     "xy-parser": "^5.0.5"
   },
   "dependencies": {

src/__tests__/ethylvinylether.test.ts

@@ -1,5 +1,7 @@
 import { readFileSync } from 'fs';
 
+import { describe, expect, it } from 'vitest';
+
 import { gsd } from '../gsd';
 
 describe('Global spectra deconvolution NMR spectra', () => {

src/__tests__/gaussian-noise.test.ts

@@ -1,10 +1,8 @@
 import type { DataXY } from 'cheminfo-types';
-import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { gsd } from '../gsd';
 
-expect.extend({ toBeDeepCloseTo, toMatchCloseTo });
-
 // eslint-disable-next-line @typescript-eslint/no-var-requires
 const { generateSpectrum } = require('spectrum-generator');
 

src/__tests__/gaussian-noiseParam.test.ts

@@ -1,10 +1,8 @@
 import type { DataXY } from 'cheminfo-types';
-import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { gsd } from '../gsd';
 
-expect.extend({ toBeDeepCloseTo, toMatchCloseTo });
-
 // eslint-disable-next-line @typescript-eslint/no-var-requires
 const { generateSpectrum } = require('spectrum-generator');
 

src/__tests__/gaussian-overlapping.test.ts

@@ -1,11 +1,9 @@
 import type { DataXY } from 'cheminfo-types';
-import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { gsd } from '../gsd';
 import { optimizePeaks } from '../post/optimizePeaks';
 
-expect.extend({ toBeDeepCloseTo, toMatchCloseTo });
-
 // eslint-disable-next-line @typescript-eslint/no-var-requires
 const { generateSpectrum } = require('spectrum-generator');
 

src/__tests__/gaussian-smooth.test.ts

@@ -1,10 +1,8 @@
 import type { DataXY } from 'cheminfo-types';
-import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { gsd } from '../gsd';
 
-expect.extend({ toBeDeepCloseTo, toMatchCloseTo });
-
 // eslint-disable-next-line @typescript-eslint/no-var-requires
 const { generateSpectrum } = require('spectrum-generator');
 

src/__tests__/gaussian.test.ts

@@ -1,10 +1,8 @@
 import type { DataXY } from 'cheminfo-types';
-import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { gsd } from '../gsd';
 
-expect.extend({ toBeDeepCloseTo, toMatchCloseTo });
-
 // eslint-disable-next-line @typescript-eslint/no-var-requires
 const { generateSpectrum } = require('spectrum-generator');
 

src/__tests__/power.test.ts

@@ -1,10 +1,8 @@
 import type { DataXY } from 'cheminfo-types';
-import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { gsd } from '../gsd';
 
-expect.extend({ toBeDeepCloseTo, toMatchCloseTo });
-
 describe('power', () => {
   const data: DataXY = {
     x: [

src/__tests__/throwError.test.ts

@@ -1,3 +1,5 @@
+import { describe, expect, it } from 'vitest';
+
 import { gsd } from '../gsd';
 
 describe('Throw Errors', () => {

src/__tests__/ubiquitin.test.ts

@@ -1,12 +1,10 @@
 import { readFileSync } from 'fs';
 
-import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 import { parseXY } from 'xy-parser';
 
 import { gsd } from '../gsd';
 
-expect.extend({ toBeDeepCloseTo, toMatchCloseTo });
-
 // var gsd = require("../src/index");
 // var optimizePeaks = require("../src/optimize");
 

src/__tests__/zero.test.ts

@@ -1,3 +1,5 @@
+import { describe, expect, it } from 'vitest';
+
 import { gsd } from '../gsd';
 
 describe('Simple test cases', () => {

src/post/__tests__/broadenPeaks.test.ts

@@ -1,9 +1,7 @@
-import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { broadenPeaks } from '../broadenPeaks';
 
-expect.extend({ toBeDeepCloseTo, toMatchCloseTo });
-
 describe('broadenPeaks', () => {
   it('empty', () => {
     const result = broadenPeaks([]);

src/post/__tests__/joinBroadPeaks.test.ts

@@ -1,4 +1,5 @@
 import { generateSpectrum } from 'spectrum-generator';
+import { describe, expect, it } from 'vitest';
 
 import { gsd } from '../../gsd';
 import { joinBroadPeaks } from '../joinBroadPeaks';

src/post/__tests__/optimizePeaks.test.ts

@@ -1,10 +1,8 @@
-import { toMatchCloseTo } from 'jest-matcher-deep-close-to';
 import { generateSpectrum } from 'spectrum-generator';
+import { describe, expect, it } from 'vitest';
 
 import { optimizePeaks } from '../optimizePeaks';
 
-expect.extend({ toMatchCloseTo });
-
 describe('optimizePeaks', () => {
   it('Should throw because execution time is over timeout', () => {
     const peaks = [{ x: 0, y: 1, width: 0.12 }];

src/post/__tests__/optimizePeaksWithLogs.test.ts

@@ -1,10 +1,8 @@
-import { toMatchCloseTo } from 'jest-matcher-deep-close-to';
 import { generateSpectrum } from 'spectrum-generator';
+import { describe, expect, it } from 'vitest';
 
 import { optimizePeaksWithLogs } from '../optimizePeaksWithLogs';
 
-expect.extend({ toMatchCloseTo });
-
 describe('optimizePeaksWithLogs', () => {
   it('Should throw because execution time is over timeout', () => {
     const peaks = [{ x: 0, y: 1, width: 0.12 }];

src/utils/__tests__/addMissingShape.test.ts

@@ -1,10 +1,8 @@
-import { toMatchCloseTo } from 'jest-matcher-deep-close-to';
 import { getShape1D } from 'ml-peak-shape-generator';
+import { describe, expect, it } from 'vitest';
 
 import { addMissingShape } from '../addMissingShape';
 
-expect.extend({ toMatchCloseTo });
-
 describe('addMissingShape', () => {
   it('gaussian shape', () => {
     const result = addMissingShape([

src/utils/__tests__/groupPeaks.test.ts

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

src/utils/__tests__/optimizeTop.test.ts

@@ -1,9 +1,7 @@
-import { toBeDeepCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { optimizeTop } from '../optimizeTop';
 
-expect.extend({ toBeDeepCloseTo });
-
 describe('optimizeTop', () => {
   it('no change', () => {
     const peaks = [{ index: 2, x: 2, y: 5 }];

src/utils/__tests__/setShape.test.ts

@@ -1,9 +1,7 @@
-import { toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { describe, expect, it } from 'vitest';
 
 import { setShape } from '../setShape';
 
-expect.extend({ toMatchCloseTo });
-
 describe('setShape', () => {
   it('gaussian shape', () => {
     const result = setShape([

tsconfig.json

@@ -9,5 +9,5 @@
     "strict": true,
     "target": "es2020"
   },
-  "include": ["./src/**/*", "old"]
+  "include": ["./src/**/*", "vitest.setup.ts"]
 }

vitest.config.mts

@@ -0,0 +1,7 @@
+import { defineConfig } from 'vitest/config';
+
+export default defineConfig({
+  test: {
+    setupFiles: ['vitest.setup.ts']
+  }
+})

vitest.setup.ts

@@ -0,0 +1,4 @@
+import { toBeDeepCloseTo, toMatchCloseTo } from 'jest-matcher-deep-close-to';
+import { expect } from 'vitest';
+
+expect.extend({ toMatchCloseTo, toBeDeepCloseTo });