Latest RespiLens release! (staging -> main)

.github/workflows/build-deploy.yml

@@ -44,7 +44,7 @@ jobs:
     - name: Install Python dependencies
       run: |
         python -m pip install --upgrade pip
-        pip install pandas==2.2.3 numpy pyarrow tqdm requests hubdata jsonschema
+        pip install pandas numpy pyarrow tqdm requests hubdata jsonschema
 
     - name: Process All Datasets (Hubs + NHSN)
       run: |

.github/workflows/format-lint.yml

@@ -0,0 +1,32 @@
+name: Formatting and lint compliance
+
+on:
+  pull_request:
+    branches: [ main ]
+    types: [opened, synchronize, reopened]
+
+jobs:
+  quality-check:
+    runs-on: ubuntu-latest
+    defaults:
+      run:
+        working-directory: app 
+    steps:
+      - name: Checkout Code
+        uses: actions/checkout@v4
+
+      - name: Setup Node.js
+        uses: actions/setup-node@v4
+        with:
+          node-version: 'lts/*'
+          cache: 'npm'
+          cache-dependency-path: app/package-lock.json
+
+      - name: Install Dependencies
+        run: npm ci
+
+      - name: Run Linter
+        run: npm run lint
+
+      - name: Verify Formatting
+        run: npm run format:check

.github/workflows/parity-test.yml

@@ -27,7 +27,7 @@ jobs:
       - name: Install Python dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install pandas==2.2.3 jsonschema
+          pip install pandas jsonschema
 
       - name: Set up R
         uses: r-lib/actions/setup-r@v2

.github/workflows/python-tests.yml

@@ -22,7 +22,7 @@ jobs:
       - name: Install dependencies
         run: |
           python -m pip install --upgrade pip
-          pip install pandas==2.2.3 pytest jsonschema
+          pip install pandas pytest jsonschema
 
       - name: Run processor unit tests
         run: python -m pytest tests/test_processors.py

app/.husky/pre-commit

@@ -0,0 +1,10 @@
+#!/bin/sh
+
+# Help GUI apps (like GitHub Desktop) find Node and npx
+export PATH="/usr/local/bin:/opt/homebrew/bin:$PATH"
+
+# Move into the app directory
+cd app
+
+# Run lint-staged
+npx lint-staged

app/.prettierignore

@@ -0,0 +1,32 @@
+# build outputs
+dist/
+build/
+out/
+.next/
+
+# dependencies
+node_modules/
+vendor/
+
+# environment variables
+.env
+.env.*
+
+# any potential testing and logs
+coverage/
+*.log
+npm-debug.log*
+yarn-debug.log*
+yarn-error.log*
+
+# assets + data (corrupts images, takes too long for data)
+public/
+*.svg
+*.ico
+*.png
+*.jpg
+
+# locks
+package-lock.json
+yarn.lock
+pnpm-lock.yaml

app/.prettierrc

@@ -0,0 +1 @@
+{}

app/eslint.config.js

@@ -1,41 +1,43 @@
-import js from '@eslint/js'
-import globals from 'globals'
-import react from 'eslint-plugin-react'
-import reactHooks from 'eslint-plugin-react-hooks'
-import reactRefresh from 'eslint-plugin-react-refresh'
+import js from "@eslint/js";
+import globals from "globals";
+import react from "eslint-plugin-react";
+import reactHooks from "eslint-plugin-react-hooks";
+import reactRefresh from "eslint-plugin-react-refresh";
+import eslintConfigPrettier from "eslint-config-prettier";
 
 export default [
-  { ignores: ['dist'] },
+  { ignores: ["dist"] },
   {
-    files: ['**/*.{js,jsx}'],
+    files: ["**/*.{js,jsx}"],
     languageOptions: {
       ecmaVersion: 2020,
       globals: globals.browser,
       parserOptions: {
-        ecmaVersion: 'latest',
+        ecmaVersion: "latest",
         ecmaFeatures: { jsx: true },
-        sourceType: 'module',
+        sourceType: "module",
       },
     },
-    settings: { react: { version: '18.3' } },
+    settings: { react: { version: "18.3" } },
     plugins: {
       react,
-      'react-hooks': reactHooks,
-      'react-refresh': reactRefresh,
+      "react-hooks": reactHooks,
+      "react-refresh": reactRefresh,
     },
     rules: {
       ...js.configs.recommended.rules,
       ...react.configs.recommended.rules,
-      ...react.configs['jsx-runtime'].rules,
+      ...react.configs["jsx-runtime"].rules,
       ...reactHooks.configs.recommended.rules,
-      'react/jsx-no-target-blank': 'off',
-      'react-refresh/only-export-components': [
-        'warn',
+      "react/jsx-no-target-blank": "off",
+      "react-refresh/only-export-components": [
+        "warn",
         { allowConstantExport: true },
       ],
-      'react/prop-types': 'off',
-      'react/no-unescaped-entities': 'off',
+      "react/prop-types": "off",
+      "react/no-unescaped-entities": "off",
       "no-irregular-whitespace": "off",
     },
   },
-]
+  eslintConfigPrettier,
+];

app/index.html

@@ -6,36 +6,48 @@
     <link rel="icon" type="image/png" sizes="32x32" href="/favicon-32x32.png" />
     <meta name="viewport" content="width=device-width, initial-scale=1.0" />
     <title>RespiLens</title>
-    <meta name="description" content="Explore the latest forecasts of respiratory disease activity across every U.S.  state. RespiLens provides intuitive and consolidated visualization of influenza, COVID-19, and RSV forecasts from CDC-led competitions." />
+    <meta
+      name="description"
+      content="Explore the latest forecasts of respiratory disease activity across every U.S.  state. RespiLens provides intuitive and consolidated visualization of influenza, COVID-19, and RSV forecasts from CDC-led competitions."
+    />
     <!-- Google Analytics (GA4) -->
-    <script async src="https://www.googletagmanager.com/gtag/js?id=%VITE_GA_MEASUREMENT_ID%"></script>
+    <script
+      async
+      src="https://www.googletagmanager.com/gtag/js?id=%VITE_GA_MEASUREMENT_ID%"
+    ></script>
     <script>
       window.dataLayer = window.dataLayer || [];
-      function gtag(){dataLayer.push(arguments);}
-      gtag('js', new Date());
-      gtag('config', '%VITE_GA_MEASUREMENT_ID%');
+      function gtag() {
+        dataLayer.push(arguments);
+      }
+      gtag("js", new Date());
+      gtag("config", "%VITE_GA_MEASUREMENT_ID%");
     </script>
     <script type="application/ld+json">
-    {
-      "@context": "https://schema.org",
-      "@type": "Organization",
-      "name": "Respilens",
-      "url": "https://respilens.com",
-      "logo": "https://www.respilens.com/respilens-logo.svg", 
-      "sameAs": [
-        "https://github.com/ACCIDDA/RespiLens", 
-      ]
-    }
+      {
+        "@context": "https://schema.org",
+        "@type": "Organization",
+        "name": "Respilens",
+        "url": "https://respilens.com",
+        "logo": "https://www.respilens.com/respilens-logo.svg",
+        "sameAs": ["https://github.com/ACCIDDA/RespiLens"]
+      }
     </script>
     <script>
       // Color scheme handling
-      (function() {
-        var key = 'respilens-color-scheme';
-        var colorScheme = localStorage.getItem(key) || 'auto';
-        if (colorScheme === 'auto') {
-          colorScheme = window.matchMedia('(prefers-color-scheme: dark)').matches ? 'dark' : 'light';
+      (function () {
+        var key = "respilens-color-scheme";
+        var colorScheme = localStorage.getItem(key) || "auto";
+        if (colorScheme === "auto") {
+          colorScheme = window.matchMedia("(prefers-color-scheme: dark)")
+            .matches
+            ? "dark"
+            : "light";
         }
-        document.documentElement.setAttribute('data-mantine-color-scheme', colorScheme);
+        document.documentElement.setAttribute(
+          "data-mantine-color-scheme",
+          colorScheme,
+        );
       })();
     </script>
   </head>