frictionlesser.def

Bootstrap: library
From: ubuntu:22.04
%post
    # BUILD_REQUIREMENTS="git build-essential clang-15 cmake snakemake python3-pip"
    BUILD_REQUIREMENTS="git build-essential clang-15 cmake"

    mkdir -p /usr/local/bin
    mkdir /usr/local/pasteur
    cd /usr/local/pasteur

    # Update the available packages list.
    apt -y update
    # And add the "universe" repository (allow to install many more software).
    apt -y install software-properties-common
    add-apt-repository universe
    apt -y update
    # Update the operating systems (install last versions with bugfixes).
    apt -y dist-upgrade

    # Install dependencies for your project.
    # apt -y install dialog
    apt -y install $BUILD_REQUIREMENTS
    #pip3 install scanpy

    # Build ParadisEO.
    git clone --branch master --single-branch --recurse-submodules https://gitlab.pasteur.fr/jdreo/paradiseo.git
    cd paradiseo
    mkdir build
    cd build
    cmake -DCMAKE_BUILD_TYPE=Release -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON ..
    make
    cd ../..

    # Build frictionlesser.
    git clone --branch main --single-branch --recurse-submodules https://gitlab.pasteur.fr/jdreo/frictionlesser.git
    cd frictionlesser
    mkdir build
    cd build
    cmake -DBUILD_DOCS=OFF -DBUILD_TESTING=OFF -DCMAKE_BUILD_TYPE=Release -DPARADISEO_ROOT=../../paradiseo -DPARADISEO_BUILD=../../paradiseo/build -DUSE_LOCAL_PARADISEO=ON -DCMAKE_BUILD_WITH_INSTALL_RPATH=ON ..
    make
    # Install.
    cp app/frictionlesser /usr/local/bin/
    cd ../..

    # Clean-up of the APT cache (will lighten the container).
    apt -y purge software-properties-common $BUILD_REQUIREMENTS
    apt -y --purge autoremove
    apt -y autoclean
    apt clean

    # Delete builts remains.
    rm -rf paradiseo/build
    rm -rf frictionlesser/build
    # Keep the source code in the container, for reproducibility.

%environment

%runscript
    # When executing the container, this will be called,
    # and pass all the command line arguments.
    /usr/local/bin/frictionlesser $*

%labels
    Author Johann Dreo