CI: Update CI for security patches

.github/workflows/antivirus.yml

@@ -1,14 +1,19 @@
 on:
   pull_request:
-    types: [assigned, opened, synchronize, reopened, closed]
+    types: [opened, synchronize, reopened]
+
+permissions:
+  contents: read
 
 jobs:
   gitavscan:
     runs-on: ubuntu-latest
     name: AV scan
     steps:
-      - uses: actions/checkout@v6
-      - name: Git AV Scan
-        uses: djdefi/gitavscan@main
-        with:
-          full: "--full"
+    - uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      with:
+        persist-credentials: false
+    - name: Git AV Scan
+      uses: djdefi/gitavscan@66a83ba98eca422f37322bc9851fa56195b252f3 # v23
+      with:
+        full: '--full'

.github/workflows/ci.yml

@@ -1,5 +1,8 @@
 name: Python Package using Conda
 
+permissions:
+  contents: read
+
 on:
   push:
     branches: [main]
@@ -22,14 +25,16 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        python-version: ["3.11", "3.12", "3.13"]
+        python-version: ["3.13", "3.14"]
         os: [macOS, ubuntu, Windows]
 
     steps:
-      - uses: actions/checkout@v6
+      - uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+        with:
+          persist-credentials: false
 
       - name: Setup Conda Environment
-        uses: mamba-org/setup-micromamba@v2.0.4
+        uses: mamba-org/setup-micromamba@f457c30a868e4760d3a6fcea5f25dc655b8edf39 # v3.2.1
         with:
           environment-file: ./continuous_integration/environment_actions.yml
           init-shell: >-

.github/workflows/codeql.yml

@@ -13,18 +13,21 @@ name: "CodeQL"
 
 on:
   push:
-    branches: ["main"]
+    branches: [ main ]
   pull_request:
     # The branches below must be a subset of the branches above
-    branches: ["main"]
+    branches: [ main ]
   schedule:
-    - cron: "39 13 * * 2"
+    - cron: '42 7 * * 5'
+
+concurrency:
+  group: ${{ github.workflow }}-${{ github.ref }}
+  cancel-in-progress: true
 
 jobs:
   analyze:
     name: Analyze
-    runs-on: ${{ (matrix.language == 'swift' && 'macos-latest') || 'ubuntu-latest' }}
-    timeout-minutes: ${{ (matrix.language == 'swift' && 120) || 360 }}
+    runs-on: ubuntu-latest
     permissions:
       actions: read
       contents: read
@@ -33,44 +36,41 @@ jobs:
     strategy:
       fail-fast: false
       matrix:
-        language: ["python"]
-        # CodeQL supports [ 'cpp', 'csharp', 'go', 'java', 'javascript', 'python', 'ruby', 'swift' ]
-        # Use only 'java' to analyze code written in Java, Kotlin or both
-        # Use only 'javascript' to analyze code written in JavaScript, TypeScript or both
-        # Learn more about CodeQL language support at https://aka.ms/codeql-docs/language-support
+        language: [ 'python' ]
+        # CodeQL supports [ 'cpp', 'csharp', 'go', 'java', 'javascript', 'python', 'ruby' ]
+        # Learn more about CodeQL language support at https://git.io/codeql-language-support
 
     steps:
-      - name: Checkout repository
-        uses: actions/checkout@v6
-
-      # Initializes the CodeQL tools for scanning.
-      - name: Initialize CodeQL
-        uses: github/codeql-action/init@v4
-        with:
-          languages: ${{ matrix.language }}
-          # If you wish to specify custom queries, you can do so here or in a config file.
-          # By default, queries listed here will override any specified in a config file.
-          # Prefix the list here with "+" to use these queries and those in the config file.
+    - name: Checkout repository
+      uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      with:
+        persist-credentials: false
 
-          # For more details on CodeQL's query packs, refer to: https://docs.github.com/en/code-security/code-scanning/automatically-scanning-your-code-for-vulnerabilities-and-errors/configuring-code-scanning#using-queries-in-ql-packs
-          # queries: security-extended,security-and-quality
+    # Initializes the CodeQL tools for scanning.
+    - name: Initialize CodeQL
+      uses: github/codeql-action/init@6f2ac81f5cd81fe351a197ba0b00d91d03cd2aee # v4.39.0
+      with:
+        languages: ${{ matrix.language }}
+        # If you wish to specify custom queries, you can do so here or in a config file.
+        # By default, queries listed here will override any specified in a config file.
+        # Prefix the list here with "+" to use these queries and those in the config file.
+        # queries: ./path/to/local/query, your-org/your-repo/queries@main
 
-      # Autobuild attempts to build any compiled languages  (C/C++, C#, Go, or Java).
-      # If this step fails, then you should remove it and run the build manually (see below)
-      - name: Autobuild
-        uses: github/codeql-action/autobuild@v4
+    # Autobuild attempts to build any compiled languages  (C/C++, C#, or Java).
+    # If this step fails, then you should remove it and run the build manually (see below)
+    - name: Autobuild
+      uses: github/codeql-action/autobuild@6f2ac81f5cd81fe351a197ba0b00d91d03cd2aee # v4.39.0
 
-      # ℹ️ Command-line programs to run using the OS shell.
-      # 📚 See https://docs.github.com/en/actions/using-workflows/workflow-syntax-for-github-actions#jobsjob_idstepsrun
+    # ℹ️ Command-line programs to run using the OS shell.
+    # 📚 https://git.io/JvXDl
 
-      #   If the Autobuild fails above, remove it and uncomment the following three lines.
-      #   modify them (or add more) to build your code if your project, please refer to the EXAMPLE below for guidance.
+    # ✏️ If the Autobuild fails above, remove it and uncomment the following three lines
+    #    and modify them (or add more) to build your code if your project
+    #    uses a compiled language
 
-      # - run: |
-      #     echo "Run, Build Application using script"
-      #     ./location_of_script_within_repo/buildscript.sh
+    #- run: |
+    #   make bootstrap
+    #   make release
 
-      - name: Perform CodeQL Analysis
-        uses: github/codeql-action/analyze@v4
-        with:
-          category: "/language:${{matrix.language}}"
+    - name: Perform CodeQL Analysis
+      uses: github/codeql-action/analyze@6f2ac81f5cd81fe351a197ba0b00d91d03cd2aee # v4.39.0

.github/workflows/documentation.yml

@@ -1,5 +1,8 @@
 name: Documentation
 
+permissions:
+  contents: read
+
 on:
   push:
     branches: [main]
@@ -11,43 +14,60 @@ concurrency:
   cancel-in-progress: true
 
 jobs:
-  build-and-deploy:
+  build:
+    name: Build documentation
     runs-on: ubuntu-latest
     defaults:
       run:
-        # Ensures environment gets sourced right
         shell: bash -l {0}
     strategy:
       matrix:
-        PYTHON_VERISON: ["3.13"]
+        PYTHON_VERSION: ["3.14.9"]
     steps:
-      - name: Checkout 🛎️
-        uses: actions/checkout@v6
+      - name: Checkout
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
         with:
           persist-credentials: false
 
-      # setup conda-forge with micromamba
-      - name: Setup Python
-        uses: mamba-org/setup-micromamba@v2
+      - name: Setup Python environment
+        uses: mamba-org/setup-micromamba@f457c30a868e4760d3a6fcea5f25dc655b8edf39 # v3.2.1
         with:
           environment-file: continuous_integration/environment_documentation.yml
           create-args: >-
-            python=${{ matrix.PYTHON_VERISON }}
+            python=${{ matrix.PYTHON_VERSION }}
           environment-name: docs
           cache-environment: true
 
-      - name: Build 🔧 # This example project is built using npm and outputs the result to the 'build' folder. Replace with the commands required to build your project, or remove this step entirely if your site is pre-built.
+      - name: Build
         run: |
-          set -e
+          set -euo pipefail
           python -m pip install . --no-deps
           cd docs
           make html
 
-      - name: Deploy 🚀
-        if: ${{ github.event_name == 'push' && github.ref == 'refs/heads/main' }}
-        uses: JamesIves/github-pages-deploy-action@v4
+      - name: Configure GitHub Pages
+        uses: actions/configure-pages@45bfe0192ca1faeb007ade9deae92b16b8254a0d # v6.0.0
+
+      - name: Upload GitHub Pages artifact
+        uses: actions/upload-pages-artifact@fc324d3547104276b827a68afc52ff2a11cc49c9 # v5.0.0
         with:
-          TOKEN: ${{ secrets.GITHUB_TOKEN }}
-          BRANCH: gh-pages # The branch the action should deploy to.
-          FOLDER: docs # The folder the action should deploy.
-          CLEAN: true # Automatically remove deleted files from the deploy branch
+          path: docs/build/html
+
+  deploy:
+    name: Deploy documentation
+    needs: build
+    runs-on: ubuntu-latest
+    if: github.ref == 'refs/heads/main' && github.event_name == 'push'
+    permissions:
+      pages: write
+      id-token: write
+    environment:
+      name: github-pages
+      url: ${{ steps.deployment.outputs.page_url }}
+    concurrency:
+      group: github-pages
+      cancel-in-progress: false
+    steps:
+      - name: Deploy to GitHub Pages 🚀
+        id: deployment
+        uses: actions/deploy-pages@368f82528645a54fb793d4d04e342629a3f51346 # v5.0.1

.github/workflows/pypi-release.yml

@@ -1,4 +1,8 @@
-name: Build and Upload pythia-datasets to PyPI
+name: Build and Upload RadTraQ to PyPI
+
+permissions:
+  contents: read
+
 on:
   release:
     types:
@@ -9,17 +13,18 @@ jobs:
     runs-on: ubuntu-latest
     if: github.repository == 'ARM-Development/RadTraQ'
     steps:
-      - uses: actions/checkout@v6
+      - uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
         with:
+          persist-credentials: false
           fetch-depth: 0
-      - uses: actions/setup-python@v6
+      - uses: actions/setup-python@6d4fd22b20465ccc0f7354476588e8df7c9ca0e0 # v7.1.0
         name: Install Python
         with:
-          python-version: 3.11
+          python-version: 3.14.9
 
       - name: Install dependencies
         run: |
-          python -m pip install --upgrade pip
+          python -m pip install --upgrade "pip>=26.2.2" "certifi>=2026.10.19"
           python -m pip install setuptools setuptools-scm wheel twine check-manifest
       - name: Build tarball and wheels
         run: |
@@ -36,7 +41,7 @@ jobs:
           else
             echo "✅ Looks good"
           fi
-      - uses: actions/upload-artifact@v6
+      - uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
         with:
           name: releases
           path: dist
@@ -45,11 +50,11 @@ jobs:
     needs: build-artifacts
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/setup-python@v6
+      - uses: actions/setup-python@6d4fd22b20465ccc0f7354476588e8df7c9ca0e0 # v7.1.0
         name: Install Python
         with:
-          python-version: "3.x"
-      - uses: actions/download-artifact@v7
+          python-version: "3.14.9"
+      - uses: actions/download-artifact@9000827ccba6bdab643e8b6fd33ac0654aef8333 # v8.0.2
         with:
           name: releases
           path: dist
@@ -62,12 +67,12 @@ jobs:
     if: github.event_name == 'release'
     runs-on: ubuntu-latest
     steps:
-      - uses: actions/download-artifact@v7
+      - uses: actions/download-artifact@9000827ccba6bdab643e8b6fd33ac0654aef8333 # v8.0.2
         with:
           name: releases
           path: dist
       - name: Publish package to PyPI
-        uses: pypa/gh-action-pypi-publish@v1.13.0
+        uses: pypa/gh-action-pypi-publish@7245906fb61fa33a13554f9d5fb856fe61758086 # v1.14.3
         with:
           user: __token__
           password: ${{ secrets.PYPI_TOKEN }}

continuous_integration/environment_documentation.yml

@@ -23,5 +23,6 @@ dependencies:
   - sphinx-gallery
   - sphinx-rtd-theme
   - urllib3
+  - dask>=2024.12.1
   - pip:
       - git+https://github.com/openradar/open-radar-data