update CI

.github/workflows/CI.yml

@@ -4,6 +4,8 @@ jobs:
 
   Build:
     runs-on: ${{ matrix.os }}
+    permissions:
+      contents: write
     strategy:
       fail-fast: false
       matrix:
@@ -16,34 +18,37 @@ jobs:
 
     steps:
     - name: Checkout code
-      uses: actions/checkout@v3.0.2
+      uses: actions/checkout@v3
       with:
         submodules: recursive
 
-    - name: Set up Python 3.x
-      uses: actions/setup-python@v1 # Use pip to install latest CMake, & FORD/Jin2For, etc.
+    - name: Install Python
+      uses: actions/setup-python@v4 # Use pip to install latest CMake, & FORD/Jin2For, etc.
       with:
         python-version: ${{ matrix.python-version }}
 
     - name: Setup Graphviz
       uses: ts-graphviz/setup-graphviz@v1
 
     - name: Setup Fortran Package Manager
-      uses: fortran-lang/setup-fpm@v4
+      uses: fortran-lang/setup-fpm@v5
       with:
         github-token: ${{ secrets.GITHUB_TOKEN }}
 
     - name: Install Python dependencies
       if: contains( matrix.os, 'ubuntu')
       run: |
         python -m pip install --upgrade pip
-        pip install matplotlib ford
+        pip install ford numpy matplotlib
         if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
 
     - name: Install GFortran Linux
       if: contains( matrix.os, 'ubuntu')
       run: |
         sudo apt-get install lcov
+        sudo add-apt-repository ppa:ubuntu-toolchain-r/test
+        sudo apt-get update
+        sudo apt-get install -y gcc-${{ matrix.gcc_v }} gfortran-${{ matrix.gcc_v }}
         sudo update-alternatives \
            --install /usr/bin/gcc gcc /usr/bin/gcc-${{ matrix.gcc_v }} 100 \
            --slave /usr/bin/gfortran gfortran /usr/bin/gfortran-${{ matrix.gcc_v }} \
@@ -58,14 +63,15 @@ jobs:
     - name: Create coverage report
       run: |
         mkdir -p ${{ env.COV_DIR }}
-        lcov --capture --initial --base-directory . --directory build/gfortran_*/ --output-file ${{ env.COV_DIR }}/coverage.base
-        lcov --capture --base-directory . --directory build/gfortran_*/ --output-file ${{ env.COV_DIR }}/coverage.capture
+        mv ./build/gfortran_*/*/* ${{ env.COV_DIR }}
+        lcov --capture --initial --base-directory . --directory ${{ env.COV_DIR }} --output-file ${{ env.COV_DIR }}/coverage.base
+        lcov --capture           --base-directory . --directory ${{ env.COV_DIR }} --output-file ${{ env.COV_DIR }}/coverage.capture
         lcov --add-tracefile ${{ env.COV_DIR }}/coverage.base --add-tracefile ${{ env.COV_DIR }}/coverage.capture --output-file ${{ env.COV_DIR }}/coverage.info
       env:
         COV_DIR: build/coverage
 
     - name: Upload coverage report
-      uses: codecov/codecov-action@v2
+      uses: codecov/codecov-action@v3
       with:
         files: build/coverage/coverage.info
 
@@ -74,7 +80,7 @@ jobs:
 
     - name: Deploy Documentation
       if: github.ref == 'refs/heads/master'
-      uses: JamesIves/github-pages-deploy-action@v4.3.3
+      uses: JamesIves/github-pages-deploy-action@v4.4.1
       with:
         branch: gh-pages # The branch the action should deploy to.
         folder: doc  # The folder the action should deploy.