diff -up ./imagej.sh.patch1 ./imagej.sh
--- ./imagej.sh.patch1	2010-10-30 19:11:07.917624743 +0200
+++ ./imagej.sh	2010-10-30 19:10:56.181785972 +0200
@@ -6,50 +6,38 @@
 # This program is free software, but comes with no warrenty or guarantee
 # send bug reports or feedback to jjackson at familyjackson dot net
 # Author: Jon Jackson
-# Last modified date: $Date: 2009/12/14 20:16:33 $
-# $Revision: 1.1 $
+#
+# 
+# 
 #
-# INSTALLATION INSTRUCTIONS
 #
 ### WARNING ###########################################################
 # This file must be edited with a program that supports unix new line characters
 # - it won't run if edited in 'Notepad' !
 #######################################################################
 
-# Source location: http://rsb.info.nih.gov/ij/download/linux/unix-script.txt
-# 1) Save this script in the ImageJ directory as 'imagej'
-# 2) Modify path variables according to your system 
-# 3) Give the new file execute permission
-# 4) Be sure the 'imagej' wrapper is in the 'PATH' 
-
 # setup environment
-set +u # don't give error for unset variables (matters for environment variables)
+set +u 
+# don't give error for unset variables (matters for environment variables)
 shopt -s extglob # allow extended pattern matching
 
 ############ SITE SPECIFIC VARIABLES #########################
 # Trailing / is not required for path variables
 # IMAGEJ PATH - production installation
-ij_path='/local/ImageJ'
-# Path to ImageJ development installation
-ij_path_dev='/home/jjackson/ImageJ'
+ij_path='/usr/share/java'
+#path to data files
+ij_data_path='/usr/share/imagej'
+# Path to user
+ij_user_path="${HOME}/.imagej"
 # JAVA PATH
-# assumes executable is ${java_home}/bin/java
-# set java_home variables ='' to use JAVA_HOME environment variable
-if [[ -d /usr/java/jdk1.5 ]] ; then
-	java_home='/usr/java/jdk1.5'
-else
-	# Optionally specify java path for all available OS / architecture combinations
-	java_home_Linux="${ij_path}/jre"
-	java_home_Linux_x86_64="${ij_path}/jre64"
-	java_home_SunOS="${ij_path}/jre64"
-	# 
-fi
-ijadmin=''
+JAVA_HOME=$(dirname $(dirname $(readlink /etc/alternatives/java)))
+# report bug to https://bugs.mageia.org/
+ijadmin='Mageia'
 # DOCUMENTATION URL
 doc_url='http://rsb.info.nih.gov/ij/'
 
 # TEMP FOLDER
-ij_tmp='/tmp/imagej'
+ij_tmp="${HOME}/.imagej/tmp"
 # LOG FILE
 #ij_log="${ij_tmp}/log.txt"
 # default behaviour when an ImageJ window is already open
@@ -84,26 +72,17 @@ declare -i mem
 declare -i max_mem
 declare -i free_mem
 
-java_home="${java_home:-$JAVA_HOME}"
+java_path="${JAVA_HOME}/bin/java"
 
-if [[ "$OS" == 'SunOS' ]] ; then
-    java_arch='-d64'
-	JAVA_HOME="${java_home_SunOS:-$java_home}"	
-	max_mem=`vmstat | awk 'BEGIN{maxMem='$max_64bit'} NR == 3 {fmem=int($5 / 1024); if (fmem < maxMem) {print fmem} else {print maxMem}}'`
-	free_mem="max_mem"
-	mem=${free_mem}/2
-	if (( $mem > $default_mem || $mem < $min_mem )) ; then mem=$default_mem ; fi
-elif [[ "$OS" == 'Linux' ]] ; then
+if [[ "$OS" == 'Linux' ]] ; then
 	if [[ "$processor" == 'x86_64' ]] ; then
     	java_arch='-d64'
-        JAVA_HOME="${java_home_Linux_x86_64:-$java_home}"
     	max_mem=`free | awk -v maxMem=$max_64bit 'NR == 2 {fmem=int($2 / 1024); if (fmem < maxMem) {print fmem} else {print maxMem}}'`
 		free_mem=`free | awk -v maxMem=$max_64bit 'NR == 3 {fmem=int($4 / 1024); if (fmem < maxMem) {print fmem} else {print maxMem}}'`
 		mem=${free_mem}/3*2
 		if (( $mem > $default_mem || $mem < $min_mem )) ; then mem=$default_mem ; fi
 	else
 		java_arch='-d32'
-    	JAVA_HOME="${java_home_Linux:-$java_home}"
     	max_mem=`free | awk -v maxMem=$max_32bit 'NR == 2 {fmem=int($2 / 1024); if (fmem < maxMem) {print fmem} else {print maxMem}}'`
 		free_mem=`free | awk -v maxMem=$max_32bit 'NR == 3 {fmem=int($4 / 1024); if (fmem < maxMem) {print fmem} else {print maxMem}}'`
 		mem=${free_mem}/3*2
@@ -112,16 +91,38 @@ elif [[ "$OS" == 'Linux' ]] ; then
 fi
 
 
-# if tools.jar is not in ${ij_path}/jre/lib/ext/ edit the 'tools=' line 
-# to point to tools.jar. The -compile switch will load tools.jar into the 
-# classpath and enable plugins to be compiled in imagej
+# create plugins, macros, luts dirs
+mkdir -p $ij_user_path/plugins
+mkdir -p $ij_user_path/macros
+mkdir -p $ij_user_path/luts
 
-if [[ -f "${ij_path}/tools.jar" ]] ; then
-    tools="${ij_path}/tools.jar"
-else
-    tools=''
+if [[ ! -d "$ij_tmp" ]] ; then
+    mkdir -p "$ij_tmp"
 fi
 
+# makes symbolik links from shared plugins, macros and luts 
+
+ls $ij_data_path/plugins | while read p ; do
+  if [ ! -e "$ij_user_path/plugins/$p" ] ; then
+    ln -s $ij_data_path/plugins/$p $ij_user_path/plugins/$p
+  fi
+done
+
+ls $ij_data_path/macros | while read p; do
+  if [ ! -e "$ij_user_path/macros/$p" ] ; then
+      ln -s "$ij_data_path/macros/$p" "$ij_user_path/macros/$p"
+  fi
+done
+
+ls $ij_data_path/luts | while read p ; do
+    if [ ! -e "$ij_user_path/luts/$p" ] ; then
+	ln -s $ij_data_path/luts/$p $ij_user_path/luts/$p
+    fi
+done
+
+# enable plugins to be compiled with imageJ
+tools="${JAVA_HOME}/../lib/tools.jar"
+
 # End Site specific variables ---------------------------------------------------------
 
 # other variables 
@@ -320,9 +321,9 @@ fi	
 
 # Resolving ij.jar path.  If ij.jar is a symbolic link to ij_<version>.jar
 # this allows updating ij.jar without crashing running sessions
-ij_jar_path=$(derefln ${ij_path}/ij.jar)    
+ij_jar_path=$(derefln ${ij_path}/imagej.jar)    
                                          
-for mod_jar in ${ij_path}/lib/*jar  ; do
+for mod_jar in ${ij_path}/*jar  ; do
     modules="${modules:-}${modules+:}$mod_jar"
 done
 modules="-cp ${ij_jar_path}:${modules+:}${modules:-}"
@@ -470,9 +471,9 @@ if [[ "$portopen" == 'false' ]] ; then
 fi
 
 if (( $verbosity > 0 )) ; then
-    echo ${JAVA_HOME}/bin/java ${java_arch} -mx${mem}m ${modules} ij.ImageJ -ijpath ${ij_path} -port${count} ${images} ${macrocmd} ${macroargs}
+    echo ${JAVA_HOME}/bin/java ${java_arch} -mx${mem}m ${modules} ij.ImageJ -ijpath ${ij_user_path} -port${count} ${images} ${macrocmd} ${macroargs}
 fi
 
 cd "$dir"
-eval "${JAVA_HOME}/bin/java ${java_arch} -mx${mem}m ${modules} ij.ImageJ -ijpath ${ij_path} -port${count} ${images} ${macrocmd} ${macroargs} "
+eval "${JAVA_HOME}/bin/java ${java_arch} -mx${mem}m ${modules} ij.ImageJ -ijpath ${ij_user_path} -port${count} ${images} ${macrocmd} ${macroargs} "
 exit 0