diff --git a/ncbi-api-test/.gitignore b/ncbi-api-test/.gitignore new file mode 100644 index 0000000..6a7d6d8 --- /dev/null +++ b/ncbi-api-test/.gitignore @@ -0,0 +1,130 @@ +# Logs +logs +*.log +npm-debug.log* +yarn-debug.log* +yarn-error.log* +lerna-debug.log* +.pnpm-debug.log* + +# Diagnostic reports (https://nodejs.org/api/report.html) +report.[0-9]*.[0-9]*.[0-9]*.[0-9]*.json + +# Runtime data +pids +*.pid +*.seed +*.pid.lock + +# Directory for instrumented libs generated by jscoverage/JSCover +lib-cov + +# Coverage directory used by tools like istanbul +coverage +*.lcov + +# nyc test coverage +.nyc_output + +# Grunt intermediate storage (https://gruntjs.com/creating-plugins#storing-task-files) +.grunt + +# Bower dependency directory (https://bower.io/) +bower_components + +# node-waf configuration +.lock-wscript + +# Compiled binary addons (https://nodejs.org/api/addons.html) +build/Release + +# Dependency directories +node_modules/ +jspm_packages/ + +# Snowpack dependency directory (https://snowpack.dev/) +web_modules/ + +# TypeScript cache +*.tsbuildinfo + +# Optional npm cache directory +.npm + +# Optional eslint cache +.eslintcache + +# Optional stylelint cache +.stylelintcache + +# Microbundle cache +.rpt2_cache/ +.rts2_cache_cjs/ +.rts2_cache_es/ +.rts2_cache_umd/ + +# Optional REPL history +.node_repl_history + +# Output of 'npm pack' +*.tgz + +# Yarn Integrity file +.yarn-integrity + +# dotenv environment variable files +.env +.env.development.local +.env.test.local +.env.production.local +.env.local + +# parcel-bundler cache (https://parceljs.org/) +.cache +.parcel-cache + +# Next.js build output +.next +out + +# Nuxt.js build / generate output +.nuxt +dist + +# Gatsby files +.cache/ +# Comment in the public line in if your project uses Gatsby and not Next.js +# https://nextjs.org/blog/next-9-1#public-directory-support +# public + +# vuepress build output +.vuepress/dist + +# vuepress v2.x temp and cache directory +.temp +.cache + +# Docusaurus cache and generated files +.docusaurus + +# Serverless directories +.serverless/ + +# FuseBox cache +.fusebox/ + +# DynamoDB Local files +.dynamodb/ + +# TernJS port file +.tern-port + +# Stores VSCode versions used for testing VSCode extensions +.vscode-test + +# yarn v2 +.yarn/cache +.yarn/unplugged +.yarn/build-state.yml +.yarn/install-state.gz +.pnp.* \ No newline at end of file diff --git a/ncbi-api-test/index.js b/ncbi-api-test/index.js new file mode 100644 index 0000000..6acc328 --- /dev/null +++ b/ncbi-api-test/index.js @@ -0,0 +1,18 @@ +searchQuery = "science[journal]+AND+breast+cancer+AND+2008[pdat]"; + +function testSearch(query) { + fetch(`https://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=pubmed&term=${query}`) + .then((res) => { + console.log(`Status: ${res.status}`); + let reader = res.body.getReader(); + // while (!reader.closed) { + reader.read().then(out => { + // console.log(out) + var decoder = new TextDecoder('utf8'); + console.log(decoder.decode(out.value)); + }) + // } + }) +} + +testSearch(searchQuery); diff --git a/ncbi-api-test/package.json b/ncbi-api-test/package.json new file mode 100644 index 0000000..310bc1d --- /dev/null +++ b/ncbi-api-test/package.json @@ -0,0 +1,9 @@ +{ + "name": "ncbi-api-test", + "version": "0.0.1", + "main": "index.js", + "license": "MIT", + "scripts": { + "start": "node index.js" + } +} diff --git a/ncbi-api-test/yarn.lock b/ncbi-api-test/yarn.lock new file mode 100644 index 0000000..fb57ccd --- /dev/null +++ b/ncbi-api-test/yarn.lock @@ -0,0 +1,4 @@ +# THIS IS AN AUTOGENERATED FILE. DO NOT EDIT THIS FILE DIRECTLY. +# yarn lockfile v1 + + diff --git a/reagent-test/.gitignore b/reagent-test/.gitignore new file mode 100644 index 0000000..24168fd --- /dev/null +++ b/reagent-test/.gitignore @@ -0,0 +1,156 @@ +# tests +tests-out + +# clojure/cljs + +/target +/classes +/checkouts +profiles.clj +pom.xml +pom.xml.asc +*.jar +*.class +/.lein-* +/.nrepl-port +/resources/public/js +/public/js +/out +/.repl +*.log +/.env + +.lsp +.shadow-cljs +.clj-kondo + +# Logs +logs +*.log +npm-debug.log* +yarn-debug.log* +yarn-error.log* +lerna-debug.log* +.pnpm-debug.log* + +# Diagnostic reports (https://nodejs.org/api/report.html) +report.[0-9]*.[0-9]*.[0-9]*.[0-9]*.json + +# Runtime data +pids +*.pid +*.seed +*.pid.lock + +# Directory for instrumented libs generated by jscoverage/JSCover +lib-cov + +# Coverage directory used by tools like istanbul +coverage +*.lcov + +# nyc test coverage +.nyc_output + +# Grunt intermediate storage (https://gruntjs.com/creating-plugins#storing-task-files) +.grunt + +# Bower dependency directory (https://bower.io/) +bower_components + +# node-waf configuration +.lock-wscript + +# Compiled binary addons (https://nodejs.org/api/addons.html) +build/Release + +# Dependency directories +node_modules/ +jspm_packages/ + +# Snowpack dependency directory (https://snowpack.dev/) +web_modules/ + +# TypeScript cache +*.tsbuildinfo + +# Optional npm cache directory +.npm + +# Optional eslint cache +.eslintcache + +# Optional stylelint cache +.stylelintcache + +# Microbundle cache +.rpt2_cache/ +.rts2_cache_cjs/ +.rts2_cache_es/ +.rts2_cache_umd/ + +# Optional REPL history +.node_repl_history + +# Output of 'npm pack' +*.tgz + +# Yarn Integrity file +.yarn-integrity + +# dotenv environment variable files +.env +.env.development.local +.env.test.local +.env.production.local +.env.local + +# parcel-bundler cache (https://parceljs.org/) +.cache +.parcel-cache + +# Next.js build output +.next +out + +# Nuxt.js build / generate output +.nuxt +dist + +# Gatsby files +.cache/ +# Comment in the public line in if your project uses Gatsby and not Next.js +# https://nextjs.org/blog/next-9-1#public-directory-support +# public + +# vuepress build output +.vuepress/dist + +# vuepress v2.x temp and cache directory +.temp +.cache + +# Docusaurus cache and generated files +.docusaurus + +# Serverless directories +.serverless/ + +# FuseBox cache +.fusebox/ + +# DynamoDB Local files +.dynamodb/ + +# TernJS port file +.tern-port + +# Stores VSCode versions used for testing VSCode extensions +.vscode-test + +# yarn v2 +.yarn/cache +.yarn/unplugged +.yarn/build-state.yml +.yarn/install-state.gz +.pnp.* \ No newline at end of file diff --git a/reagent-test/README.md b/reagent-test/README.md new file mode 100644 index 0000000..ae03dd9 --- /dev/null +++ b/reagent-test/README.md @@ -0,0 +1,23 @@ +# Reagent JBrowse Plugin Test + +## Development + +```bash +# Install dependencies +yarn +# Run dev server on port 3000 +yarn shadow-cljs watch app +``` + +Start a ClojureScript REPL + +``` +npx shadow-cljs browser-repl +``` + + +### Building for production + +``` +npx shadow-cljs release app +``` diff --git a/reagent-test/index.html b/reagent-test/index.html new file mode 100644 index 0000000..c771834 --- /dev/null +++ b/reagent-test/index.html @@ -0,0 +1,2 @@ + +
please run npx shadow-cljs watch app in order to start the compiler
+