Singularity.old

Bootstrap: docker
From: scientificlinux/sl:7

%help
Container to build and utilize RAT
Direct questions, comments or bugs to Jamie at 
<jrajewski@ualberta.ca>

To build RAT:
- After acquiring the container, clone RAT from GitHub OUTSIDE the container
- Enter the following command, filling in the path to RAT with your own. This will mount your RAT repo to the directory /rat inside the container:
    singularity run -B path/to/rat:/rat rat-container.simg
- RAT is now ready to use!

To exit the container:
- Enter the command:
    exit

To update RAT:
- Outside of the container, `cd` into your RAT repo, and run:
    git fetch && git merge
- Then, follow the instructions above to (re)build RAT

To run RAT:
- Enter the following command, filling in the path to RAT with your own:
    singularity shell -B path/to/rat:/rat rat-container.simg
    * It is important to mount your rat dir to /rat as the build
    * scripts look there for it!
- RAT is primed, now you can navigate to /rat to run things
  in the repository. To use other directories as well, see below.

To read/write files from directories outside of RAT/home:
- Add additional bind mounts to your singularity shell command
- Example:
    singularity shell -B path/to/rat:/rat,other/path:/stuff rat-container.simg
- Now in the container, you have access to other/path by going to /stuff

To use a specific branch of RAT:
- Ensure you git checkout to the branch OUTSIDE the
  container to avoid issues, then run RAT like above


%labels
    Maintainer JamieRajewski
    Version v1.0


# This sources the following into the containers' environment
# but ONLY during RUN, not BUILD
%environment
    source /home/root/bin/thisroot.sh
    source /home/geant4.10.00.p02/bin/geant4.sh
    export RAT_SCONS=/home/scons-2.1.0
    if [ -f /rat/env.sh ]; then
       source /rat/env.sh
    fi


# This is where actual execution will get done when someone runs the container. Since
# typical usage will revolve around shelling into the container, we can make default
# execution the build-rat command
%runscript
    
    printf "Would you like to build RAT? (y/n): "                                   
    read ANSWER                                                                     
                                                                                    
    while [[ "$ANSWER" != "y" && "$ANSWER" != "n" ]]                                
    do                                                                              
        printf "Invalid answer; would you like to build RAT? (y/n): "               
        read ANSWER                                                                 
    done                                                                            
                                                                                    
    if [[ "$ANSWER" == "y" ]]; then                                                 
        echo "Now checking to see if RAT was mounted correctly..."                                                                  
    elif [[ "$ANSWER" == "n" ]]; then                                               
        echo "Now exiting..."
        exit 0                                                                  
    fi 

    # Ensure that a directory has been mounted so that rat can be cloned
    if [ -d /rat ]; then
        # Fetch and install the latest RAT and build from source
        cd /rat
        ./configure

        # Add execute permissions to the newly created env.sh
        /bin/bash -c 'chmod +x /rat/env.sh'
        
        # Now source it to make scons available
        source /rat/env.sh
	
        scons
    else
        echo "RAT was not mounted correctly; please ensure that it was mounted to /rat."
    fi


# This is where stuff gets installed AFTER the OS is set up (such as installing packages)
%post
    # Install all tools, compilers, libraries, languages, and general pre-requisites
    # for the SNO+ tools
    yum -y groups mark convert && \
    yum -y grouplist && \
    yum -y groupinstall "Compatibility Libraries" "Development Tools" "Scientific Support" && \
    yum -y install avahi-compat-libdns_sd-devel bc binutils binutils-devel bzip2 bzip2-devel cfitsio-devel \
    cmake coreutils curl curl-devel emacs expat-devel fftw fftw-devel fontconfig ftgl-devel g++ \
    gcc-4.8.5 gcc-gfortran git glew-devel glib2-devel glib-devel graphviz graphviz-devel \
    gsl gsl-devel gsl-static java-1.8.0-openjdk java-1.8.0-openjdk-devel libcurl-devel \
    libgfortran libgomp libldap-dev libX11-devel libXext-devel libXft-devel libxml2-devel \
    libXpm-devel libXt-devel make man mesa-libGL-devel mesa-libGLU-devel mysql-devel nano \
    openssl-devel pcre-devel python python-devel python-pip rsync strace valgrind wget

    # Fetch and install ROOT 5.34.36 from source
    cd /home
    wget https://root.cern.ch/download/root_v5.34.36.source.tar.gz
    tar zxvf root_v5.34.36.source.tar.gz
    cd root
    ./configure --enable-minuit2 --enable-python --enable-mathmore
    # Currently set to compile on 4 cores; increase this if you have more available
    make -j4
    chmod +x /home/root/bin/thisroot.sh && source /home/root/bin/thisroot.sh

    # Fetch and install GEANT4 from source
    cd /home
    wget http://geant4.cern.ch/support/source/geant4.10.00.p02.tar.gz
    tar zxvf geant4.10.00.p02.tar.gz
    mkdir geant4.10.00.p02-build
    cd geant4.10.00.p02-build
    cmake -DGEANT4_INSTALL_DATA=ON -DCMAKE_INSTALL_PREFIX=../geant4.10.00.p02 ../geant4.10.00.p02
    make -j4
    make install
    chmod +x /home/geant4.10.00.p02/bin/geant4.sh && source /home/geant4.10.00.p02/bin/geant4.sh
    chmod +x /home/geant4.10.00.p02/share/Geant4-10.0.2/geant4make/geant4make.sh
    source /home/geant4.10.00.p02/share/Geant4-10.0.2/geant4make/geant4make.sh

    # Fetch and install scons
    cd /home
    wget http://downloads.sourceforge.net/project/scons/scons/2.1.0/scons-2.1.0.tar.gz
    tar zxvf scons-2.1.0.tar.gz
    chmod +x scons-2.1.0/script/scons

    ### CLEANUP ###
    cd /home && yum -y clean all && rm -rf /var/cache/yum && rm *.gz*