XIOS example resample

.github/workflows/buildTest.yml

@@ -1,11 +1,19 @@
 name: build-test-XIOS
 
-on: [push, pull_request]
+on: 
+  push:
+    branches:
+      - main
+  pull_request:
 
 jobs:
   build_test:
-    name: build XIOS and run tests
+    name: build test
     runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        # version: [XIOS/trunk@2252, XIOS2/trunk, XIOS3/trunk]
+        version: [XIOS/trunk@2252, XIOS2/trunk]
     steps:
       # Check out repository branch
       - uses: actions/checkout@v4
@@ -16,19 +24,33 @@ jobs:
             sudo apt -yq install $(<dependencies)
       - name: clone and build XIOS
         run: |
-          svn co http://forge.ipsl.jussieu.fr/ioserver/svn/XIOS2/trunk XIOS2
-          cp arch/* XIOS2/arch/
-          cd XIOS2
+          svn co http://forge.ipsl.jussieu.fr/ioserver/svn/${{ matrix.version }} XIOS
+          cp arch/* XIOS/arch/
+          cd XIOS
+          if [ ${{ matrix.version }} == 'XIOS3/trunk' ]; then
+            patch -p0 < ../patches/xios3/revert_svn2517_transport.patch
+            sed -i 's/<variable_group id="parameters" >/<variable_group id="parameters" > <variable id="transport_protocol" type="string" >p2p<\/variable>/g' generic_testcase/iodef.xml
+            cat generic_testcase/iodef.xml
+          fi
           ./make_xios --job 2 --arch GCC_LINUX_APT
-          ls -l lib/
-          ls -l inc/
-          ls -l bin/
           cd ..
+        shell: bash
       - name: run generic
         run: |
-          cd XIOS2/generic_testcase
+          cd XIOS/generic_testcase
           ln -s ../bin/generic_testcase.exe
           ln -s ../bin/xios_server.exe
           sed -i 's/nb_proc_atm=4/nb_proc_atm=1/g' param.def
           mpiexec -n 1 ./generic_testcase.exe : -n 1 ./xios_server.exe
           cd ../..
+      - name: run resample example
+        run: |
+          . arch/arch-GCC_LINUX_APT.env
+          . arch/arch-GCC_LINUX_APT.path
+          export XIOS_BINDIR=$PWD/XIOS/bin
+          export XIOS_INCDIR=$PWD/XIOS/inc
+          export XIOS_LIBDIR=$PWD/XIOS/lib
+
+          export MVER=${{ matrix.version }}
+
+          python3 -m unittest discover -v -s xios_examples

README.md

@@ -1,2 +1,12 @@
 # tcd-XIOS-demonstration
 Demonstration code for XML I/O server XIOS usage.
+
+Demonstrations of using XIOS are provided with Continuous Integration testing with respect to XIOS2 trunk.
+
+## Environments
+
+Environments are managed, with a little complication, to enable running on scientific desktop and on Github  Continuous Integration.
+
+There is a helper script that one can source, in the root directory, to ensure that the scientific desktop LFRic environment is loaded, using the environment variable setup for the Makefiles, which is also compatible with the Github CI runner.
+
+`. desktopEnv`

dependencies

@@ -6,3 +6,5 @@ libnetcdf-mpi-dev
 libnetcdff-dev
 libpnetcdf-dev
 netcdf-bin
+python3-numpy
+python3-netcdf4

desktopEnv

@@ -1,15 +1,34 @@
+# this environment management script needs to be sourced in order to provide
+# equivalent functionality on the MO Linux desktop to the Github CI environment.
+# `. desktopEnv`
+
+# Use the LFRic programming environment
 module purge
 module unuse /project/ukmo/rhel7/R/modulefiles; module unuse /project/ukmo/rhel7/fortran/opt/gfortran/modulefiles
 module use /project/extrasoftware/modulefiles.rhel7
 module use /data/users/lfric/software/modulefiles.rhel7
 
 module load environment/lfric/gcc
 
+# provide explit path set to the arch script for netCDF linking
 export NETCDF_LIB_DIR=$NETCDF_4_8_1_ROOT/lib:$NETCDF_4_8_1_ROOT/lib64
 export NETCDF_INC_DIR=$NETCDF_4_8_1_ROOT/include
 
 . arch/arch-GCC_LINUX_APT.path
 
+# provide explicit paths to all XIOS components
 export XIOS_INCDIR=$XIOS_R2252_2_ROOT/include
 export XIOS_LIBDIR=$XIOS_R2252_2_ROOT/lib
-export XIOS_BINDIR=$XIOS_R2252_2_ROOT/bin
+export XIOS_BINDIR=$XIOS_R2252_2_ROOT/bin
+
+# use an extend LFRic Python environment
+# that includes netCDF4-python built w.r.t. the LFRIC
+# netCDF
+. /data/users/itmh/pylfricpyexptl/bin/activate
+
+# dev-notes (starting from the lfric Python as provided by module)
+#    - python -m venv {/some/path} 
+#    - python -m pip install cython mpi4py
+#    - python -m pip install --no-build-isolation netCDF4==1.5.8
+#       - pinned version needed for compatability with libnetcdf 4.8.1
+#    - . activate {/some/path}