run_test

#!/bin/bash

if [ $# == 0 ]; then
  mrtrix_location=~/mrtrix3
else
  mrtrix_location="$1"
fi

TMPFILE=/tmp/__mrtrix_testing_tmp_$$.mif

echo testing using MRtrix3 found in \"$mrtrix_location\"

(
  cd "$mrtrix_location"/testing
  ../build ../bin/mrconvert ../bin/mrinfo bin/testing_diff_image bin/testing_diff_header
)
export PATH="$mrtrix_location"/bin:"$mrtrix_location"/testing/bin:$PATH

if [[ "$2"x != "x" ]]; then 
    target_folders=("$2")
else
    target_folders=(*/)
fi

for folder in "${target_folders[@]}"; do (
  echo in \"$folder\"...
  cd "$folder"
  for image in *; do
    sequence=$(echo "${image%.*}" | mrinfo  ../../"$folder" -property comments 2>/dev/null | grep '\[MR\]')
    echo -n "  [ ${image%.*} ] ${sequence#*\[MR\] }: "
    rm -f $TMPFILE 2>/dev/null
    { 
      echo "${image%.*}" | mrconvert ../../"$folder" $TMPFILE 2>/dev/null && 
      testing_diff_image $TMPFILE "$image" -frac 1e-6 -quiet && 
      testing_diff_header $TMPFILE "$image" -keyval -quiet &&
      echo OK
    } || {
      echo ""
      echo "############################################################"
      echo "  ERROR: image $image (${sequence#*\[MR\]}) in folder $folder"
      echo "############################################################"
      echo ""
    }
    #mv $TMPFILE "$image"
  done


) done

rm -f $TMPFILE 2>/dev/null