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Research \u0026 Drug Discovery"],"sub_categories":[],"readme":"# Aioli\n\n[![npm](https://img.shields.io/npm/v/@biowasm/aioli)](https://www.npmjs.com/package/@biowasm/aioli) ![Aioli Tests](https://github.com/biowasm/aioli/workflows/Aioli%20Tests/badge.svg)\n\nAioli is a library for running genomics command-line tools in the browser using WebAssembly. See [Who uses biowasm](https://github.com/biowasm/biowasm#who-uses-biowasm) for example use cases.\n\n## Getting started\n\n* [Documentation](https://biowasm.com/documentation)\n* [List of supported packages](https://biowasm.com/cdn)\n\n## Development\n\n### Setup\n\nRun `npm install` to install dependencies.\n\nThen run `npm run dev` to launch the web server and use `src/example.js` as a sample web app that uses the dev version of Aioli.\n\n### Tests\n\nRun `npm run test`.\n\n### Deploy a new release candidate\n\n* Update version in `package.json` (append `-rc1` for release candidates)\n* Build: `npm run build`\n* Create npm package: `npm pack`\n* Publish package: `npm publish [tgzfile] --tag next`\n* To use pre-release version: `npm install @biowasm/aioli@next`\n\n### Deploy a new version\n\n* Update version in `package.json`\n* Build: `npm run build`\n* Publish package: `npm publish --access public`\n* Create release in the GitHub repo\n* Add to [`biowasm.json`](https://github.com/biowasm/biowasm/blob/main/biowasm.json)\n* Deploy biowasm CDN with env=stg, tool=aioli and run biowasm tests to validate that stg tests still pass\n* Repeat with env=prd\n\n## Architecture\n\n* Aioli creates a single WebWorker, in which all WebAssembly tools run.\n* We use a [PROXYFS virtual filesystem](https://emscripten.org/docs/api_reference/Filesystem-API.html#filesystem-api-proxyfs) so we can share a filesystem across all WebAssembly modules, i.e. the output of one tool can be used as the input of another tool.\n* We use a [WORKERFS virtual filesystem](https://emscripten.org/docs/api_reference/Filesystem-API.html#filesystem-api-workerfs) to mount local files efficiently (i.e. without having to load all their contents into memory). 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One key feature of WebAssembly is code reuse: you can port existing C/C++/Rust/etc tools to WebAssembly so those tools can run in the browser.\n\n### What is a WebWorker?\n[WebWorkers](https://developer.mozilla.org/en-US/docs/Web/API/Web_Workers_API) allow you to run JavaScript in the browser in a background thread, which keeps the browser responsive.\n\n### Compiling into WebAssembly\nSee the [biowasm](https://github.com/biowasm/biowasm/) project.\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbiowasm%2Faioli","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fbiowasm%2Faioli","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fbiowasm%2Faioli/lists"}