Runme

#!/bin/bash
# Initialization script for autowrfchem. Run this to set up for automatic
# running of WRF-Chem

cd `dirname $0`
mydir=`pwd -P`
cd ..

# Link the main executable up one directory to make it obvious which command to call
ln -s "$mydir/autowrfchem_main" autowrfchem 

# Check if all utilities needed are installed
doexit=false
which python >& /dev/null
if [ $? -ne 0 ]; then
    echo "python is not on your path. This is necessary to use autowrfchem."
    doexit=true
fi

which perl >& /dev/null
if [ $? -ne 0 ]; then
    echo "perl is not on your path. This is necessary to use autowrfchem."
    doexit=true
fi

which git >& /dev/null
if [ $? -ne 0 ]; then
    echo "git is not available on this system."
    doexit=true
fi

if $doexit; then
    exit 1
fi

rootrepo="https://github.com/CohenBerkeleyLab"

# These two arrays will be used in selecting the WPS version. The first is used to print out
# the menu options. The second should correspond to the remote branch name containing that version
# such that running "git checkout origin/${branchname[$sel]}" would checkout that branch.
# These are separated to allow more flexibility in naming the branches (in case there's a
# mistake in the naming) but the branches should REALLY be named with the version number for
# consistency. Note that the order of the two must be the same.
wpsmenu=("v3.5.1" "v3.6")
branchname=("v3.5.1" "v3.6")

# Determine if it needs to clone anything (WPS, NEI, MEGAN, MOZBC). WPS will need to know
# what version to clone (maintained as different branches in the WPS repo)
if [ ! -e WPS -o ! -e NEI -o ! -e MEGAN -o ! -e MOZBC ]; then
    echo "AUTOWRFCHEM expects the directories WPS, NEI, MEGAN, and MOZBC to be siblings to it."
    echo "One or more of these is missing; would you like to clone the missing ones automatically?"
    read -p "Enter y or n: " userans
    if [ "$userans" == "y" -o "$userans" == "Y" ]; then
        
        if [ ! -e WPS ]; then
            git clone ${rootrepo}/WPS.git WPS
            # Have the user choose the WPS version
            cd WPS
            echo "Choose the WPS version:"
            i=0
            for vers in "${wpsmenu[@]}"; do 
                i=$((i+1))
                echo "  $i: $vers"
            done
            while true; do
                echo -n "Enter choice (1-${i}): "
                read userin
                if [ $userin -ge 1 -a $userin -le $i ]; then break; fi
            done
            sel=$((userin-1))
            git checkout -b ${branchname[$sel]} origin/${branchname[$sel]}
            cd ..
        fi

        if [ ! -e NEI ]; then
            git clone ${rootrepo}/NEI.git NEI
        fi

        if [ ! -e MEGAN ]; then
            git clone ${rootrepo}/MEGAN.git MEGAN
        fi

        if [ ! -e MOZBC ]; then
            git clone ${rootrepo}/MOZBC.git MOZBC
        fi
    else
        echo "You have chosen not to clone the various components. They must still be provided for autowrfchem to work."
    fi
fi

if [ ! -e WRFV3 ]; then
    echo "Remember, WRFV3 must be a directory at this level, and it must contain a run subdirectory."
fi

exit 0