Moved from repository src2 to private2/dicom_scripts/clitk

[clitk.git] / scripts / create_mhd_4D.sh

diff --git a/scripts/create_mhd_4D.sh b/scripts/create_mhd_4D.sh
deleted file mode 100755 (executable)
index 24d3fd1..0000000
--- a/scripts/create_mhd_4D.sh
+++ /dev/null
@@ -1,154 +0,0 @@
-#!/bin/sh +x
-
-
-write_mhd_4D()
-{
-  cat $orig | sed "s/NDims = .*/NDims = 4/
-                 s/TransformMatrix = .*/TransformMatrix = 1 0 0 0 0 1 0 0 0 0 1 0 0 0 0 1/
-                 /Offset/ s/.*/& 0/
-                 /CenterOfRotation/ s/.*/& 0/
-                 s/AnatomicalOrientation = .*/AnatomicalOrientation = ????/
-                 /ElementSpacing/ s/.*/& 1/
-                 /DimSize/ s/.*/& $nbph/
-                 s/ElementDataFile = .*/ElementDataFile = LIST/" > "$1/$file_name_4D"
-  
-  for ph in ${listph[@]}
-  do
-    ph=`basename $ph`
-    echo "$ph" >> "$1/$file_name_4D"
-  done
-  echo $1/$file_name_4D
-}
-
-#################################################
-# create_mhd_4D        argument : repertoire   #
-#################################################
-if [ $# -lt 1 ]
-then
-  echo "Usage: create_mhd_4D.sh DIRECTORY"
-  exit 1
-fi
-
-nb_phase_file=`find $1 -maxdepth 1 -iname "*[0-9]*.mhd" | wc -l`
-if [ $nb_phase_file = 0 ]
-then
-  echo "No phase found in $1"
-  exit 1
-fi
-
-
-list_prefix=""
-list_phase_file=`find $1 -maxdepth 1 -iname "*[0-9]*.mhd"`
-for phase_file in $list_phase_file
-do
-  if grep -q "NDims = 4" $phase_file 2> /dev/null
-  then
-    #echo $phase_file is 4D
-    continue;
-  fi;
-
-  phase_file_name=`basename $phase_file .mhd`
-#   if [[ ! -z `echo "$phase_file_name" | grep "__[0-9]"` ]]
-#   then
-#     prefix=`echo $phase_file_name | sed "s/__[0-9].*/__/"`
-#   else
-#     if [[ ! -z `echo "$phase_file_name" | grep "[0-9]-.*\]"` ]] 
-#     then
-#       if [[ ! -z `echo "$phase_file_name" | grep "[0-9][0-9]-.*\]"` ]]
-#       then
-#      prefix=`echo $phase_file_name | sed "s/[0-9][0-9]-.*//"`
-#       else
-#      prefix=`echo $phase_file_name | sed "s/[0-9]-.*//"`
-#       fi
-#     else
-#       prefix="NONE"
-#     fi
-#   fi
-
-  # preffix: grep sequence of characters followed by sequence of numbers and remove sequence of numbers
-  # prefix=`echo $phase_file_name | grep -o "\(^[[:alpha:][:punct:]]*\)\([[:digit:]\.\_\-]\+\)" | sed 's/\(^[[:alpha:][:punct:]]*\)\([[:digit:]\.\_\-]\+\)/\1/'`
-  prefix=`echo $phase_file_name | grep -o "\(^[[:alpha:][:punct:]]*\)\([[:digit:]]\+\)\([\.\_\-]*\)"`
-  prefix=`echo $prefix | sed 's/^\-\+//' | sed 's/\(^[[:alpha:][:punct:]]*\)\([[:digit:]]\+\)\([\.\_\-]*\)/\1/'`
-  if [[ -z $prefix ]]
-  then 
-    prefix="NONE"
-  fi
-
-  # register new preffix if not yet done
-  if [[ -z `echo "$list_prefix" | grep -w -- "$prefix"` ]]
-  then
-    list_prefix="$list_prefix $prefix"
-  fi
-done
-
-
-for prefix in $list_prefix
-do
-  if [ "$prefix" = "NONE" ]
-  then
-    prefix=""
-  fi
-
-  list_suffix=""
-  list_phase_file_prefix=`find $1 -maxdepth 1 -iname "${prefix}[0-9]*.mhd"`
-  for phase_file_prefix in $list_phase_file_prefix
-  do
-    if grep -q "NDims = 4" $phase_file_prefix  2> /dev/null
-    then
-      #echo $phase_file_prefix is 4D
-      continue;
-    fi;
-    phase_file_prefix_name=`basename $phase_file_prefix .mhd`
-#     if [[ ! -z `echo "$phase_file_prefix_name" | grep "__[0-9]"` ]]
-#     then
-#       suffix="NONE"
-#     else
-#       if [[ ! -z `echo "$phase_file_prefix_name" | grep "[0-9]-.*\]"` ]]
-#       then
-#      suffix=`echo $phase_file_prefix_name | sed "s/.*[0-9]-//;s/_\.mhd//;s/\.mhd//"`
-#       else
-#      suffix="NONE"
-#       fi
-#     fi
-# 
-
-    # suffix: grep sequence of numbers followed by sequence of characters and remove sequence of numbers
-    # suffix=`echo $phase_file_prefix_name | grep -o "\([[:digit:]\.\_\-]\+\)\([[:alpha:][:punct:]]*$\)" | sed 's/\([[:digit:]\.\_\-]\+\)\([[:alpha:][:punct:]]*$\)/\2/'`
-    suffix=`echo $phase_file_prefix_name | grep -o "\([\.\_\-]*\)\([[:digit:]]\+\)\([[:alpha:][:punct:]]*$\)"`
-    if ! echo $suffix | grep -qo "^\-\+"; then
-      suffix=`echo $suffix | sed 's/\([\.\_\-]*\)\([[:digit:]]\+\)\([[:alpha:][:punct:]]*$\)/\3/'`
-    fi
-    suffix=`echo $suffix | sed 's/[\.\_\-]\+$//'`
-    if [[ -z $suffix ]]
-    then 
-      suffix="NONE"
-    fi
-
-    # register new suffix if not yet done
-    if [[ -z `echo "$list_suffix" | grep -w -- "$suffix"` ]]
-    then
-      list_suffix="$list_suffix $suffix"
-    fi
-  done
-
-  
-  for suffix in $list_suffix
-  do
-    if [ "$suffix" = "NONE" ]
-    then
-      suffix=""
-    fi
-    orig=`find $1 -maxdepth 1 -iname "${prefix}[0-9]*${suffix}*.mhd" | grep "${prefix}[[:digit:][:punct:]]\+${suffix}[\.\_\-]*.mhd" | sort | head -n 1`
-    listph=( `find $1 -maxdepth 1 -iname "${prefix}[0-9]*${suffix}*.*raw" | grep "${prefix}[[:digit:][:punct:]]\+${suffix}[\.\_\-]*.z*raw" | sort` )
-    nbph=${#listph[@]}
-
-    # only create 4D file if potential number of phases is > 1
-    if [ $nbph -gt 1 ]; then
-      file_name_4D="${prefix}4D${suffix}.mhd"
-      write_mhd_4D $1
-    fi
-
-  done
-
-done
-