@datagrok/bio 0.0.4 → 0.0.8

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Files changed (6) hide show
  1. package/.eslintignore +2 -0
  2. package/.eslintrc.json +51 -0
  3. package/dist/package.js +861 -8
  4. package/package.json +41 -29
  5. package/src/package.ts +18 -7
  6. package/webpack.config.js +14 -6
package/package.json CHANGED
@@ -1,35 +1,47 @@
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  {
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- "name": "@datagrok/bio",
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- "beta": true,
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- "friendlyName": "Bio",
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- "version": "0.0.4",
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- "description": "",
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- "repository": {
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+ "name": "@datagrok/bio",
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+ "beta": false,
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+ "friendlyName": "Bio",
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+ "version": "0.0.8",
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+ "description": "",
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+ "repository": {
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  "type": "git",
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  "url": "https://github.com/datagrok-ai/public.git",
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  "directory": "packages/Bio"
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  },
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- "dependencies": {
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- "cash-dom": "latest",
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- "datagrok-api": "^0.95.0",
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- "dayjs": "latest",
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- "ts-loader": "^9.2.5",
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- "typescript": "^4.4.2"
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- },
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- "devDependencies": {
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- "webpack": "latest",
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- "webpack-cli": "latest"
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- },
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- "scripts": {
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- "link-api": "npm link datagrok-api",
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- "debug-sequences1": "grok publish --rebuild",
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- "release-sequences1": "grok publish --rebuild --release",
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- "build-sequences1": "webpack",
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- "build": "webpack",
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- "debug-sequences1-public": "grok publish public --rebuild",
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- "release-sequences1-public": "grok publish public --rebuild --release",
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- "debug-sequences1-local": "grok publish local --rebuild",
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- "release-sequences1-local": "grok publish local --rebuild --release"
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- },
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- "canEdit": [ "Developers" ]
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+ "dependencies": {
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+ "@datagrok-libraries/bio": "^0.0.16",
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+ "cash-dom": "latest",
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+ "datagrok-api": "^1.0.0",
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+ "dayjs": "latest",
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+ "ts-loader": "^9.2.5",
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+ "typescript": "^4.4.2"
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+ },
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+ "devDependencies": {
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+ "@typescript-eslint/eslint-plugin": "latest",
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+ "@typescript-eslint/parser": "latest",
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+ "eslint": "latest",
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+ "eslint-config-google": "latest",
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+ "webpack": "latest",
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+ "webpack-cli": "latest"
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+ },
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+ "scripts": {
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+ "link-api": "npm link datagrok-api",
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+ "link-bio": "npm link @datagrok-libraries/bio",
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+ "link-all": "npm link datagrok-api @datagrok-libraries/bio",
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+ "debug-sequences1": "grok publish --rebuild",
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+ "release-sequences1": "grok publish --rebuild --release",
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+ "build-sequences1": "webpack",
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+ "local-bio": "grok publish local",
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+ "build": "webpack",
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+ "debug-sequences1-public": "grok publish public --rebuild",
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+ "release-sequences1-public": "grok publish public --rebuild --release",
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+ "debug-sequences1-local": "grok publish local --rebuild",
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+ "release-sequences1-local": "grok publish local --rebuild --release",
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+ "lint": "eslint \"./src/**/*.ts\"",
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+ "lint-fix": "eslint \"./src/**/*.ts\" --fix"
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+ },
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+ "canEdit": [
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+ "Developers"
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+ ]
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  }
package/src/package.ts CHANGED
@@ -2,19 +2,30 @@
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  import * as grok from 'datagrok-api/grok';
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  import * as ui from 'datagrok-api/ui';
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  import * as DG from 'datagrok-api/dg';
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- import { SequenceAlignment, Aligned } from './seq_align';
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- export let _package = new DG.Package();
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+ import {SequenceAlignment, Aligned} from './seq_align';
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+ export const _package = new DG.Package();
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+
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+ import {WebLogo} from '@datagrok-libraries/bio/src/viewers/web-logo';
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  //name: sequenceAlignment
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  //input: string alignType {choices: ['Local alignment', 'Global alignment']}
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+ // eslint-disable-next-line max-len
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  //input: string alignTable {choices: ['AUTO', 'NUCLEOTIDES', 'BLOSUM45', 'BLOSUM50','BLOSUM62','BLOSUM80','BLOSUM90','PAM30','PAM70','PAM250','SCHNEIDER','TRANS']}
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  //input: double gap
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  //input: string seq1
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  //input: string seq2
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- //output: object res
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- export function sequenceAlignment(alignType:string, alignTable:string, gap:number, seq1:string, seq2:string){
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- let toAlign = new SequenceAlignment(seq1,seq2,gap,alignTable);
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- let res = alignType == 'Local alignment' ? toAlign.smithWaterman() : toAlign.needlemanWunch();
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- return res
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+ //output: object res
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+ export function sequenceAlignment(alignType: string, alignTable: string, gap: number, seq1: string, seq2: string) {
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+ const toAlign = new SequenceAlignment(seq1, seq2, gap, alignTable);
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+ const res = alignType == 'Local alignment' ? toAlign.smithWaterman() : toAlign.needlemanWunch();
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+ return res;
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+ }
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+
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+ //name: WebLogo
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+ //description: WebLogo viewer
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+ //tags: viewer, panel
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+ //output: viewer result
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+ export function webLogoViewer() {
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+ return new WebLogo();
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  }
package/webpack.config.js CHANGED
@@ -3,16 +3,24 @@ const path = require('path');
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  module.exports = {
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  mode: 'development',
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  entry: {
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- package: './src/package.ts'
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+ package: './src/package.ts',
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  },
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  resolve: {
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- fallback: { "url": false },
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- extensions: ['.wasm', '.mjs', '.js', '.json', '.ts', '.tsx']
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+ fallback: {'url': false},
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+ extensions: ['.wasm', '.mjs', '.ts', '.js', '.json', '.tsx'],
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  },
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  module: {
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  rules: [
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- { test: /\.tsx?$/, loader: 'ts-loader' },
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- { test: /\.css$/, use: ['style-loader', 'css-loader'] }
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+ {
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+ test: /\.ts(x?)$/,
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+ use: 'ts-loader',
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+ exclude: /node_modules/,
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+ },
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+ {
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+ test: /\.css$/,
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+ use: ['style-loader', 'css-loader'],
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+ exclude: /node_modules/,
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+ },
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  ],
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  },
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  devtool: 'inline-source-map',
@@ -28,7 +36,7 @@ module.exports = {
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  },
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  output: {
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  filename: '[name].js',
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- library: 'sequences1',
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+ library: 'bio',
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  libraryTarget: 'var',
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  path: path.resolve(__dirname, 'dist'),
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  },