Singularity.tutorial

BootStrap: library
From: jcsda/public/jedi-gnu-openmpi-dev:latest

%labels
MAINTAINER Mark Miesch
SPECIES JEDI

%environment
    TERM=xterm
    export TERM
    GIT_MERGE_AUTOEDIT=no
    export GIT_MERGE_AUTOEDIT
    export LANG=en_US.UTF-8
    export LANGUAGE=en_US:en
    export PATH=/usr/local/bin:/usr/local/miniconda3/bin:/usr/local/sbin:/usr/sbin:/usr/bin:/sbin:/bin:/opt/jedi/build/bin:/opt/PanoplyJ
    alias pip=/usr/local/miniconda3/bin/pip

%post
    echo "Hello from inside the container"
    apt-get update
    apt-get install -y --no-install-recommends mesa-utils libgl1-mesa-glx
    git config --global credential.helper 'cache --timeout=3600'
    git config --global --add credential.helper 'store'
    git config --global url.ssh://git@github.com/.insteadOf https://github.com/
    git lfs install --skip-repo
    cd /opt/jedi
    git clone -b 1.1.1 https://github.com/jcsda/fv3-bundle.git
    cd fv3-bundle
    git clone https://github.com/JCSDA/jedi-cmake.git -b 1.1.0 --depth=1 
    git clone https://github.com/JCSDA/oops.git -b 1.1.0 --depth=1 
    git clone https://github.com/JCSDA/saber.git -b 1.1.0 --depth=1 
    git clone https://github.com/JCSDA/ioda.git -b 2.0.0 --depth=1 
    git clone https://github.com/JCSDA/ufo.git -b 1.1.0 --depth=1 
    git clone https://github.com/JCSDA/femps.git -b 1.1.0 --depth=1 
    git clone https://github.com/JCSDA/crtm.git -b v2.3-jedi.0 --depth=1
    git clone https://github.com/JCSDA/fv3-jedi-linearmodel.git -b 1.1.0 --depth=1 fv3-jedi-lm
    git clone https://github.com/JCSDA/fv3-jedi.git -b 1.1.0 --depth=1
    mkdir -p /opt/jedi/build
    cd /opt/jedi/build
    ecbuild --build=Release -DBUILD_PYTHON_BINDINGS=ON ../fv3-bundle
    chmod a+rx /opt/jedi/fv3-bundle/ioda/src/engines/Examples/Python/*
    make -j4
    ctest -R get_
    cd /opt/jedi
    git clone -b 1.1.0 --depth=1 https://github.com/jcsda-internal/fv3-jedi-tools
    cd fv3-jedi-tools
    /usr/local/miniconda3/bin/pip install .
    rm -rf /var/lib/apt/lists/*

%runscript
    bash -l