CHG: simplifying workflow and scripts

.github/workflows/c-cpp-apt.yml

@@ -0,0 +1,89 @@
+name: Compilation CI
+
+on:
+  push:
+    branches: [ "main" ]
+  pull_request:
+    branches: [ "main" ]
+env:
+  ISSM_DIR: ${{ github.workspace }}
+
+jobs:
+  build:
+
+    runs-on: ubuntu-latest
+
+    steps:
+
+      - run: echo "The job was automatically triggered by a ${{ github.event_name }} event."
+      - run: echo "This job is now running on a ${{ runner.os }} server hosted by GitHub!"
+      - run: echo "The name of your branch is ${{ github.ref }} and your repository is ${{ github.repository }}."
+
+      - name: Installing MATLAB
+        id:   setup-matlab
+        uses: matlab-actions/setup-matlab@v2
+        with:
+          release: R2023b
+
+      - name: Installling Open MPI, METIS and PETSc
+        run: |
+          sudo apt-get install -y libopenmpi-dev libmetis-dev petsc-dev
+
+      - name: Check out repository code
+        uses: actions/checkout@v4
+
+      - name: Install External packages
+        run: |
+          cd $ISSM_DIR/externalpackages/triangle && ./install-linux.sh && source $ISSM_DIR/etc/environment.sh
+          cd $ISSM_DIR/externalpackages/m1qn3    && ./install-linux.sh && source $ISSM_DIR/etc/environment.sh
+
+      - name: Reconfigure ISSM
+        run: |
+          autoreconf -ivf
+          ./configure --prefix=${ISSM_DIR} \
+          --disable-static \
+          --enable-development \
+          --enable-debugging \
+          --with-numthreads=4 \
+          --with-matlab-dir=${{ steps.setup-matlab.outputs.matlabroot }} \
+          --with-fortran-lib="-L/usr/lib/x86_64-linux-gnu -lgfortran" \
+          --with-mpi-include="/usr/lib/x86_64-linux-gnu/openmpi/include/" \
+          --with-mpi-libflags="-L/usr/lib/x86_64-linux-gnu/openmpi/lib -lmpi -lmpi_cxx" \
+          --with-petsc-dir="/usr/lib/petscdir/petsc-real/" \
+          --with-blas-lapack-dir="/usr/lib/petscdir/petsc-real/" \
+          --with-metis-dir="/usr/include" \
+          --with-scalapack-dir="/usr/lib/x86_64-linux-gnu/" \
+          --with-mumps-dir="/usr/lib/petscdir/petsc-real/" \
+          --with-triangle-dir="${ISSM_DIR}/externalpackages/triangle/install" \
+          --with-m1qn3-dir="${ISSM_DIR}/externalpackages/m1qn3/install"
+
+      - name: Compile ISSM
+        run: make -j8 install
+
+      - name: Prepare MATLAB script
+        run: |
+          cat > ${ISSM_DIR}/matlab_ci.m << EOF
+          % Go to the test directory
+          cd $ISSM_DIR/test/NightlyRun/
+
+          % Add ISSM tools to path
+          addpath('${ISSM_DIR}/src/m/dev');
+          devpath;
+
+          % Run tests
+          runme('exclude',[IdFromString('Dakota')],'id',101:110,'quitonerror',1);
+          quit(0);
+          EOF
+          cat ${ISSM_DIR}/matlab_ci.m
+
+      - name: Get run-matlab-command
+        run: |
+          wget -O /usr/local/bin/run-matlab-command https://ssd.mathworks.com/supportfiles/ci/run-matlab-command/v2/glnxa64/run-matlab-command
+          chmod +x /usr/local/bin/run-matlab-command
+
+      - name: Run MATLAB Command
+        run: |
+          source $ISSM_DIR/etc/environment.sh
+          LD_PRELOAD=/lib/x86_64-linux-gnu/libstdc++.so.6 run-matlab-command "matlab_ci"
+
+      - run: echo "This job's status is ${{ job.status }}."