singularity.def

Bootstrap: localimage
From: aurora-base.sif

%labels Author lg4615@ic.ac.uk
	# adapted from Antoine Cully
    Version v0.0.1

%post
   export LD_LIBRARY_PATH="/workspace/lib:$LD_LIBRARY_PATH"
   cd /git/sferes2/exp/

    # Cloning repository
   git clone https://github.com/adaptive-intelligent-robotics/AURORA aurora/

    # Use setup.sh and fix_build.py from REPOSITORY
   cp /git/sferes2/exp/aurora/singularity/resources/setup.sh /git/sferes2/
   cp /git/sferes2/exp/aurora/singularity/resources/fix_build.py /git/sferes2/

   cd /git/sferes2/
   ./setup.sh -j 4 $SETUP_ARGS

    cd /git/sferes2/exp/aurora
    python3 -m singularity.hpc_config --path-folder-json /git/sferes2/exp/aurora/

%runscript
    bash -c 'sleep $[ ( $RANDOM % 90 )  + 1 ]s'

    export HOME=/tmp/home
    mkdir $HOME
    D=$(/opt/TurboVNC/bin/vncserver 2>&1 | grep "Desktop" | awk '{print $3}' | sed 's/.*://g')
    export DISPLAY=':'$D

    CURPATH=$(pwd)
    cd /git/sferes2/
    DIRNAME=results_$1
    PATHNAME=$(date +%Y-%m-%d_%H_%M_%S)_$$

    mkdir -p $CURPATH/$DIRNAME/
    if [ ! -z "${PBS_ARRAY_INDEX}" ]
     then
      tmp_dir=$CURPATH/$DIRNAME/$DIRNAME.${PBS_ARRAY_INDEX}
      mkdir -p $tmp_dir
      echo PBS_ARRAY_INDEX is defined, using the following results folder: $tmp_dir
    else
      PATHNAME=$(date +%Y-%m-%d_%H_%M_%S)_$$
      tmp_dir=$(mktemp -d -p $CURPATH/$DIRNAME/ $DIRNAME.XXX)
      echo PBS_ARRAY_INDEX not defined, using the following results folder: $tmp_dir
    fi

    executable_name=$1
    shift

    PATH_LAST_GEN_FILE="$(python3 get_last_gen_file.py -p $tmp_dir)"
    if [ ! -z "${PATH_LAST_GEN_FILE}" ]
    then
     echo Resuming: Launching command \'build/exp/aurora/$executable_name -d $tmp_dir -r $PATH_LAST_GEN_FILE "$@"\'
     build/exp/aurora/$executable_name -d $tmp_dir -r $PATH_LAST_GEN_FILE "$@"
    else
     echo First Launch: Launching command \'build/exp/aurora/$executable_name -d $tmp_dir "$@"\'
     build/exp/aurora/$executable_name -d $tmp_dir "$@"
    fi


%apprun gen_job_scripts
    python3 /git/sferes2/exp/aurora/submodules/gitlab_notebook/gen_job_script.py "$1"
    python3 /git/sferes2/exp/aurora/experiment_serialiser.py --chosen "$2" --container "$3"

%apprun analysis
    number_processes="${2:-30}"
    python3 /git/sferes2/exp/aurora/analysis/analysis_runner.py --data "$1" --number-processes "${number_processes}"
    CURPATH=$(pwd)
    echo "Runscript Analysis at "$CURPATH
    cd /git/sferes2/exp/aurora/
    git log --decorate --oneline --graph master -n 30 > $CURPATH/git_log.txt

    python3 ./submodules/gitlab_notebook/gen_report.py $CURPATH $CURPATH

%apprun generate_results_paper
    python3 /git/sferes2/exp/aurora/analysis/paper/generate_all_results_paper.py --folder-save-results "$1"