tmp: disable tests

.github/actions/ngen-build/action.yaml

@@ -177,34 +177,34 @@ runs:
             echo "CPLUS_INCLUDE_PATH=$(brew --prefix)/include" >> $GITHUB_ENV
           shell: bash
 
-        - name: Cmake Initialization
-          id: cmake_init
-          run: |
-            export BOOST_ROOT="$(pwd)/boost_1_79_0"
-            export CFLAGS="-fsanitize=address -O1 -g -fno-omit-frame-pointer -Werror"
-            export CXXFLAGS="-fsanitize=address -O1 -g -fno-omit-frame-pointer -pedantic-errors -Werror -Wpessimizing-move -Wparentheses -Wrange-loop-construct -Wsuggest-override"
-            . .venv/bin/activate
-            [ ! -d "$BOOST_ROOT" ] && echo "Error: no Boost root found at $BOOST_ROOT" && exit 1
-            cmake -B ${{ inputs.build-dir }} \
-              -DNGEN_WITH_BMI_C:BOOL=${{ inputs.bmi_c }} \
-              -DNGEN_WITH_PYTHON:BOOL=${{ inputs.use_python }} \
-              -DNGEN_WITH_UDUNITS:BOOL=${{ inputs.use_udunits }} \
-              -DNGEN_WITH_BMI_FORTRAN:BOOL=${{ inputs.bmi_fortran }} \
-              -DNGEN_WITH_ROUTING:BOOL=${{ inputs.use_troute }} \
-              -DNGEN_WITH_NETCDF:BOOL=${{ inputs.use_netcdf }} \
-              -DNGEN_WITH_SQLITE:BOOL=${{ inputs.use_sqlite }} \
-              -DNGEN_WITH_MPI:BOOL=${{ inputs.use_mpi }} -S .
-            echo "build-dir=$(echo ${{ inputs.build-dir }})" >> $GITHUB_OUTPUT
-          shell: bash
-
-        - name: Build Targets
-          #cmake >= 3.15 can build multiple targets
-          run: |
-            # Build Targets
-            # Disable leak detection during test enumeration
-            export ASAN_OPTIONS=detect_leaks=false
-            # Activate venv so that test discovery run during build works
-            . .venv/bin/activate
-            cmake --build ${{ inputs.build-dir }} --target ${{ inputs.targets }} -- -j  ${{ inputs.build-cores }}
-          shell: bash
+        #- name: Cmake Initialization
+        #  id: cmake_init
+        #  run: |
+        #    export BOOST_ROOT="$(pwd)/boost_1_79_0"
+        #    export CFLAGS="-fsanitize=address -O1 -g -fno-omit-frame-pointer -Werror"
+        #    export CXXFLAGS="-fsanitize=address -O1 -g -fno-omit-frame-pointer -pedantic-errors -Werror -Wpessimizing-move -Wparentheses -Wrange-loop-construct -Wsuggest-override"
+        #    . .venv/bin/activate
+        #    [ ! -d "$BOOST_ROOT" ] && echo "Error: no Boost root found at $BOOST_ROOT" && exit 1
+        #    cmake -B ${{ inputs.build-dir }} \
+        #      -DNGEN_WITH_BMI_C:BOOL=${{ inputs.bmi_c }} \
+        #      -DNGEN_WITH_PYTHON:BOOL=${{ inputs.use_python }} \
+        #      -DNGEN_WITH_UDUNITS:BOOL=${{ inputs.use_udunits }} \
+        #      -DNGEN_WITH_BMI_FORTRAN:BOOL=${{ inputs.bmi_fortran }} \
+        #      -DNGEN_WITH_ROUTING:BOOL=${{ inputs.use_troute }} \
+        #      -DNGEN_WITH_NETCDF:BOOL=${{ inputs.use_netcdf }} \
+        #      -DNGEN_WITH_SQLITE:BOOL=${{ inputs.use_sqlite }} \
+        #      -DNGEN_WITH_MPI:BOOL=${{ inputs.use_mpi }} -S .
+        #    echo "build-dir=$(echo ${{ inputs.build-dir }})" >> $GITHUB_OUTPUT
+        #  shell: bash
+
+        #- name: Build Targets
+        #  #cmake >= 3.15 can build multiple targets
+        #  run: |
+        #    # Build Targets
+        #    # Disable leak detection during test enumeration
+        #    export ASAN_OPTIONS=detect_leaks=false
+        #    # Activate venv so that test discovery run during build works
+        #    . .venv/bin/activate
+        #    cmake --build ${{ inputs.build-dir }} --target ${{ inputs.targets }} -- -j  ${{ inputs.build-cores }}
+        #  shell: bash
 

.github/workflows/module_integration.yml

@@ -17,40 +17,40 @@ env:
 
 # A workflow run is made up of one or more jobs that can run sequentially or in parallel
 jobs:
-  # Run general unit tests in linux environment
-  test_surfacebmi_plus_cfe:
-    # The type of runner that the job will run on
-    strategy:
-      matrix:
-        os: [ubuntu-22.04, macos-12]
-      fail-fast: false
-    runs-on: ${{ matrix.os }}
+  # # Run general unit tests in linux environment
+  # test_surfacebmi_plus_cfe:
+  #   # The type of runner that the job will run on
+  #   strategy:
+  #     matrix:
+  #       os: [ubuntu-22.04, macos-12]
+  #     fail-fast: false
+  #   runs-on: ${{ matrix.os }}
 
-    # Steps represent a sequence of tasks that will be executed as part of the job
-    steps:
-    # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
-      - uses: actions/checkout@v3
+  #   # Steps represent a sequence of tasks that will be executed as part of the job
+  #   steps:
+  #   # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
+  #     - uses: actions/checkout@v3
 
-      - name: Build NGen
-        uses: ./.github/actions/ngen-build
-        with:
-          targets: "ngen"
-          build-cores: ${{ env.LINUX_NUM_PROC_CORES }}
-          bmi_c: 'ON'
-          bmi_fortran: 'ON'
-        timeout-minutes: 15
+  #     - name: Build NGen
+  #       uses: ./.github/actions/ngen-build
+  #       with:
+  #         targets: "ngen"
+  #         build-cores: ${{ env.LINUX_NUM_PROC_CORES }}
+  #         bmi_c: 'ON'
+  #         bmi_fortran: 'ON'
+  #       timeout-minutes: 15
 
-      - name: Run surfacebmi plus cfebmi
-        run: |
-          inputfile='data/example_bmi_multi_realization_config.json'
-          ./cmake_build/ngen || true
-          ./cmake_build/ngen data/catchment_data.geojson "cat-27" data/nexus_data.geojson "nex-26" $inputfile
+  #     - name: Run surfacebmi plus cfebmi
+  #       run: |
+  #         inputfile='data/example_bmi_multi_realization_config.json'
+  #         ./cmake_build/ngen || true
+  #         ./cmake_build/ngen data/catchment_data.geojson "cat-27" data/nexus_data.geojson "nex-26" $inputfile
 
-      - name: Run surfacebmi, cfebmi and petbmi
-        run: |
-          inputfile='data/example_bmi_multi_realization_config_w_noah_pet_cfe.json'
-          ./cmake_build/ngen || true
-          ./cmake_build/ngen data/catchment_data.geojson "cat-27" data/nexus_data.geojson "nex-26" $inputfile
+  #     - name: Run surfacebmi, cfebmi and petbmi
+  #       run: |
+  #         inputfile='data/example_bmi_multi_realization_config_w_noah_pet_cfe.json'
+  #         ./cmake_build/ngen || true
+  #         ./cmake_build/ngen data/catchment_data.geojson "cat-27" data/nexus_data.geojson "nex-26" $inputfile
 
 # Run t-route/pybind integration test
   test_troute_integration:
@@ -66,15 +66,15 @@ jobs:
       # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it
       - uses: actions/checkout@v3
 
-      #- name: Build Ngen
-      #  uses: ./.github/actions/ngen-build
-      #  with:
-      #    targets: "test_routing_pybind"
-      #    build-cores: ${{ env.LINUX_NUM_PROC_CORES }}
-      #    #is this required for this test?
-      #    use_python: 'ON'
-      #    use_troute: 'ON'
-      #  timeout-minutes: 15
+      - name: Build Ngen
+        uses: ./.github/actions/ngen-build
+        with:
+          targets: "test_routing_pybind"
+          build-cores: ${{ env.LINUX_NUM_PROC_CORES }}
+          #is this required for this test?
+          use_python: 'ON'
+          use_troute: 'ON'
+        timeout-minutes: 15
       # Disabling this cache for the time being for a few reasons
       # 1) t-route build/install can be tricky without pre-cythonized sources
       # 2) may not want to use a cached version of t-route if we are testing its integration
@@ -93,16 +93,6 @@ jobs:
           repository: NOAA-OWP/t-route
           path: t-route
 
-      #This step should come after ngen build???
-      - name: Configure Fortran Compiler
-        run: |
-          if [ ${{ runner.os }} == 'macOS' ] 
-          then
-            sudo ln -s $(which gfortran-11) $(dirname $(which gfortran-11))/gfortran
-            export FC=gfortran-11
-            export F90=gfortran-11
-          fi
-
       - name: Build T-route Dependency
         #if: steps.cache-linux-troute-dep.outputs.cache-hit != 'true'
         #MacOS pybind has issues with egg links, so install all packages without egg links on that os
@@ -114,12 +104,7 @@ jobs:
           pip install -U setuptools
           pip install -r requirements.txt
           pip install deprecated 'pyarrow==11.0.0' tables geopandas numpy wheel
-          if [ ${{ runner.os }} == 'macOS' ] 
-          then
-            export LIBRARY_PATH=/usr/local/lib/gcc/11/
-            export LD_LIBRARY_PATH=/usr/local/lib/gcc/11/
-          fi
-          sed -i.bak 's/NETCDF}"/NETCDF}\/include"/' compiler.sh
+          export NETCDFALTERNATIVE=${NETCDF}/include
           export FC=gfortran
           export F90=gfortran 
           ./compiler.sh