gotm.def

Bootstrap: localimage
From: /home/singularity/baseOS.sif

####
##
## Authors: Carsten Lackner, Technische Universität Berlin <carsten.lackner@tu-berlin.de>
##          Michael Wathen, Plymouth Marine Laboratory <miwa@pml.ac.uk>
##
## Definition file for building XIOS Singularity Containers
##
#####

%files
    /home/singularity/gotm.zip

%post
    BASE=/home/singularity
    cd $BASE

    unzip gotm.zip
    echo "Cloning ERSEM"
    #git clone -b master --single-branch https://github.com/pmlmodelling/ersem.git ersem

    echo "Cloning FABM"
    #git clone https://github.com/fabm-model/fabm.git fabm

    echo "Cloning GOTM"
    #git clone -b v6.0 --single-branch https://github.com/gotm-model/code.git gotm
    #cd gotm && git submodule update --init --recursive && cd ..

    GOTM_BASE=$BASE/gotm
    FABM_BASE=$BASE/fabm
    ERSEM_BASE=$BASE/ersem

    #alias nc-config='/opt/netcdf/install/bin/nc-config'
    #alias nf-config='/opt/netcdf/install/bin/nf-config'
    NETCDF=/opt/netcdf/install
    echo "Compiling gotm"
    # baseOS does not know nc-config, we need to specify netcdf include and lib
    mkdir /opt/gotm && cd /opt/gotm
    cmake $GOTM_BASE -DFABM_BASE=$FABM_BASE -DFABM_ERSEM_BASE=$ERSEM_BASE -DNetCDF_INCLUDE_DIRS=$NETCDF/include -DNetCDF_LIBRARIES=$NETCDF/lib
    #-DNetCDF_CONFIG_EXECUTABLE=$NETCDF/bin/nc-config 
    #-DNetCDF_INCLUDE_DIRS=$NETCDF/include 
    #-DNetCDF_LIBRARIES=$NETCDF/lib
    make install -j $CPU

    rm -r $GOTM_BASE
    rm -r $FABM_BASE
    rm -r $ERSEM_BASE
    echo "Finished"
        
%environment
    
    export GOTM_DIR=/home/singularity/gotm_build
    export GOTM_HOME=$GOTM_DIR

%runscript
    #!/bin/bash

    /opt/gotm/gotm

%labels
    Author carsten.lackner@tu-berlin.de

%help
    The definition file used to build GOTM:

    To build the container, run

        singularity build gotm.sif /home/singularity/gotm.def