vv/scripts/dcm_sort_by_field.sh

   1 #!/bin/bash
   2 if [ $# -lt 1 ]
   3 then
   4     echo Usage: dcm_sort_by_field.sh \"field name\"
   5     exit
   6 fi
   7 [ -d sorted ] && rm -r sorted
   8 find . -type f -iname "*.dcm" > dicom_files
   9 finished=0
  10 total=$(wc -l dicom_files)
  11 mkdir sorted
  12 cat dicom_files | while :
  13 do
  14     jobrunning=0
  15     conc_jobs=50
  16     while [ $jobrunning -lt $conc_jobs ]
  17     do
  18         read i || { wait; break 2; }
  19         {
  20             name="$(clitkDicomInfo "$i" | grep "$1" | sed "s/.*\[//;s/.$//;s/ /_/g")"
  21             [ -z "$name" ] && echo "Warning: key not found in file $i" 1>&2 && exit 1 #don't do anything if dicom key not found
  22             [ -z `echo $name | grep "/"` ] || name=`echo $name | sed 's/\//\_/'`
  23             [ -d "sorted/$name" ] || mkdir "sorted/$name" 2>>/dev/null
  24             basename=$(basename "$i")
  25             cp -l "$i" "sorted/$name/$basename"
  26         }&
  27         jobrunning=$(( $jobrunning + 1 ))
  28     done
  29     finished=$(( $finished + $conc_jobs  ))
  30     echo -e -n "( $finished / $total )\r"
  31     wait
  32 done
  33 rm dicom_files