#!/bin/sh

#   imcp - copy image files
#
#   Stephen Smith and Mark Jenkinson, FMRIB Image Analysis Group
#
#   Copyright (C) 1999-2004 University of Oxford
#
#   SHCOPYRIGHT

if [ $# -lt 1 ] ; then
  echo "Usage: $0 <file1> <file2>"
  echo "Usage: $0 <file1> <file2> ... <fileN> <directory>"
  echo "  Copies images from file1 to file2 (including all extensions)"
  echo "  NB: filenames can be basenames or include an extension"
  exit 1;
fi

if [ $# -eq 2 -a ! -d $2 ] ; then
  f1=`${FSLDIR}/bin/remove_ext $1`;
  f2=`${FSLDIR}/bin/remove_ext $2`;
  # do the copies
  if [ -f ${f1}.hdr ] ; then /bin/cp ${f1}.hdr ${f2}.hdr ; fi
  if [ -f ${f1}.hdr.gz ] ; then /bin/cp ${f1}.hdr.gz ${f2}.hdr.gz ; fi 
  if [ -f ${f1}.img ] ; then /bin/cp ${f1}.img ${f2}.img ; fi 
  if [ -f ${f1}.img.gz ] ; then /bin/cp ${f1}.img.gz ${f2}.img.gz ; fi 
  if [ -f ${f1}.nii ] ; then /bin/cp ${f1}.nii ${f2}.nii ; fi 
  if [ -f ${f1}.nii.gz ] ; then /bin/cp ${f1}.nii.gz ${f2}.nii.gz ; fi 
  if [ -f ${f1}.mnc ] ; then /bin/cp ${f1}.mnc ${f2}.mnc ; fi 
  if [ -f ${f1}.mnc.gz ] ; then /bin/cp ${f1}.mnc.gz ${f2}.mnc.gz ; fi 
fi

if [ $# -gt 2 -o -d $2 ] ; then
  for nm in $@ ; do
      dir=$nm;
  done
  if [ ! -d $dir ] ; then
      echo "When using multiple arguments, last name must be a directory"
      exit 1;
  fi
  # remove directory from list of files
  flist="echo $@ | sed s/$dir \*\$//";
  for fn in $flist ; do
      f1=`${FSLDIR}/bin/remove_ext $fn`;
      # do the copies
      if [ -f ${f1}.hdr ] ; then /bin/cp ${f1}.hdr ${dir} ; fi
      if [ -f ${f1}.hdr.gz ] ; then /bin/cp ${f1}.hdr.gz ${dir} ; fi 
      if [ -f ${f1}.img ] ; then /bin/cp ${f1}.img ${dir} ; fi 
      if [ -f ${f1}.img.gz ] ; then /bin/cp ${f1}.img.gz ${dir} ; fi 
      if [ -f ${f1}.nii ] ; then /bin/cp ${f1}.nii ${dir} ; fi 
      if [ -f ${f1}.nii.gz ] ; then /bin/cp ${f1}.nii.gz ${dir} ; fi 
      if [ -f ${f1}.mnc ] ; then /bin/cp ${f1}.mnc ${dir} ; fi 
      if [ -f ${f1}.mnc.gz ] ; then /bin/cp ${f1}.mnc.gz ${dir} ; fi 
  done
fi


