Singularity.def

BootStrap: library
From: ubuntu:20.04

%environment
export PATH=/bioinf-tools:$PATH
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/lib
export LANG=C.UTF-8


%setup
    mkdir $SINGULARITY_ROOTFS/cte
    rsync -a .ci/install_dependencies.sh MANIFEST.in cte requirements.txt setup.py tests tox.ini $SINGULARITY_ROOTFS/cte


%post
    #_____________________ setup $PATH _______________________#
    export PATH=/bioinf-tools/:$PATH
    export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/lib

    /cte/install_dependencies.sh /bioinf-tools
    cd /cte
    tox
    pip3 install .

%runscript
    cte "$@"