JP2ToTiff.sh

#!/bin/bash

# Convert directory with JP2 images to TIFF
# Requires Kakadu (kdu_expand) and ExifTool

# Display usage message if command line does not contain expected
# number of arguments
if [ "$#" -ne 2 ] ; then
  echo "Usage: JP2ToTiff.sh dirIn dirOut" >&2
  exit 1
fi

# Input and output directories
dirIn="$1"
dirOut="$2"

if ! [ -d "$dirIn" ] ; then
  echo "input directory does not exist" >&2
  exit 1
fi

if ! [ -d "$dirOut" ] ; then
  mkdir "$dirOut"
fi

# Location of Kakadu binaries
kduPath=~/kakadu

# Add Kakadu path to LD_LIBRARY_PATH
export LD_LIBRARY_PATH=$LD_LIBRARY_PATH:$kduPath

# Files to store Kakadu stdout, stderr
stdoutKakadu="kdu_out.txt"
stderrKakadu="kdu_err.txt"

# Remove these files if they exist already (writing to them will be done in append mode!)

if [ -f $stdoutKakadu ] ; then
  rm $stdoutKakadu
fi

if [ -f $stderrKakadu ] ; then
  rm $stderrKakadu
fi

while IFS= read -d $'\0' -r file ; do

    # File basename, extension removed
    bName=$(basename "$file" | cut -f 1 -d '.')
    
    # Output name
    outName=$bName.tiff

    # Full output path
    tiffOut="$dirOut/$outName"

    # Kakadu command line
    kduCmd="$kduPath/kdu_expand -i "$file"
            -o "$tiffOut""

    # Convert to TIFF   
    $kduCmd >>$stdoutKakadu 2>>$stderrKakadu

    # Remove XMP tags, except xmp-tiff ones
    # Skipping this step results in not well-formed XML
    # in round-trip JP2 generation with Kakadu (uuidbox)
    exiftool -xmp:all= "-all:all<xmp-tiff:all" "$tiffOut"

done < <(find $dirIn -maxdepth 1 -type f -regex '.*\.\(jp2\|JP2\)' -print0)