Bulk Processing with GPT

#!/bin/bash
#

############################################
# User Configuration
############################################

# adapt this path to your needs
gptPath="/opt/beam-4.9.0.111/bin/gpt.sh"

############################################
# Command line handling
############################################

# first parameter is a path to the graph xml
graphXmlPath="$1"

# second parameter is a path to a parameter file
parameterFilePath="$2"

# use third parameter for path to source products
sourceDirectory="$3"

# the fourth parameter is a file prefix for the target product name,
# typically indicating the type of processing
targetFilePrefix="$4"


############################################
# Helper functions
############################################

# Borrowed from http://www.linuxjournal.com/content/normalizing-path-names-bash
function normalizePath() {
    # Remove all /./ sequences.
    local path="${1//\/.\//\/}"
    # Remove first dir/.. sequence.
    local npath=$(echo "$path" | sed -e 's;[^/][^/]*/\.\./;;')
    # Remove remaining dir/.. sequence.
    while [[ "$npath" != "$path" ]]; do
        path="$npath"
        npath=$(echo "$path" | sed -e 's;[^/][^/]*/\.\./;;')
    done
    echo "$path"
}

getAbsolutePath() {
    file="$1"
    if [ "${file:0:1}" = "/" ]; then
        # already absolute
        echo "$file"
        return
    fi
    absfile="$(pwd)/${file}"
    absfile="$(normalizePath "${absfile}")"
    echo "${absfile}"
}

removeExtension() {
    file="$1"
    echo "$(echo "$file" | sed -r 's/\.[^\.]*$//')"
}

############################################
# Main processing
############################################

targetDirectory="${sourceDirectory}/output"
# Create the target directory
mkdir -p "${targetDirectory}"

IFS=$'\n'
for F in $(ls -1 "${sourceDirectory}"/*.N1); do
  sourceFile="$(getAbsolutePath "$F")"
  targetFile="${targetDirectory}/${targetFilePrefix}_$(removeExtension "${F}").dim"
  procCmd="\"${gptPath}\" \"${graphXmlPath}\" -e -p \"${parameterFilePath}\" -Ssource=\"${sourceFile}\" -t \"${targetFile}\""
  "${procCmd}"
done