[Debian-med-packaging] Bug#732222: imagej: does not "see" present JAVA

[Andreas Tille]

Hi Martin,

On Mon, Dec 16, 2013 at 02:04:34PM +0100, Martin Weiser wrote:
> Sorry. I hope I get it know:
> 
> louskacek at zouzel:~$ ./imagej.sh
> + ./imagej.sh
> + set +u
> + shopt -s extglob
> + '[' -z /usr/lib/jvm/java-1.7.0-openjdk-i386 ']'
> + ij_path=/usr/share/java
> + ij_user_path=/home/louskacek/.imagej
> + ijadmin=debian-med-packaging at lists.alioth.debian.org
> + doc_url=http://imagej.nih.gov/ij/
> + ij_tmp=/home/louskacek/.imagej/tmp
> + newwindow=true
> + separator=:
> + declare -i mem
> + declare -i default_mem=500
> + declare -i min_mem=16
> + declare -i max_mem
> + declare -i free_mem
> ++ pwd
> + dir=/home/louskacek
> ++ whoami
> + user=louskacek
> ++ hostname
> + host=zouzel
> + [[ -z :0 ]]
> + display=:0
> + declare -i port=0
> + declare -i verbosity=0
> + images=
> + macrocmd=
> + macroargs=
> ++ uname
> + [[ Linux == \S\u\n\O\S ]]
> ++ uname
> + [[ Linux == \L\i\n\u\x ]]
> ++ uname -m
> + [[ i686 == \x\8\6\_\6\4 ]]
> + arch=-d32
> + java_path=/usr/share/java/jre/bin/java
> ++ free
> ++ awk 'NR == 2 {fmem=int($2 / 1024); if (fmem < 1800) {print fmem} else
> {print 1800}}'
> + max_mem=1800
> ++ free
> ++ awk 'NR == 3 {fmem=int($4 / 1024); if (fmem < 1800) {print fmem} else
> {print 1800}}'
> + free_mem=1800
> + mem='1800/3*2'
> + ((  1200 > 500 || 1200 < 16  ))
> + mem=500
> + mkdir -p /home/louskacek/.imagej/plugins
> + mkdir -p /home/louskacek/.imagej/macros
> + mkdir -p /home/louskacek/.imagej/luts
> + [[ ! -d /home/louskacek/.imagej/tmp ]]
> + ls /usr/share/imagej/plugins
> + read p
> + '[' '!' -e /home/louskacek/.imagej/plugins/JavaScriptEvaluator.class
> ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/plugins/MacAdapter.class ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/plugins/MacClipboard.class ']'
> + read p
> + read p
> + ls /usr/share/imagej/macros
> + '[' '!' -e /home/louskacek/.imagej/macros/AddParticles.txt ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/macros/ConvertStackToBinary.txt ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/macros/EnlargeSelection.txt ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/macros/HyperStackMaker.txt ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/macros/MoveSelection.txt ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/macros/RotateSelection.txt ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/macros/Search.txt ']'
> + read p
> + '[' '!' -e '/home/louskacek/.imagej/macros/Stack Tools.txt' ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/macros/StartupMacros.txt ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/macros/TimeStamp.ijm ']'
> + read p
> + ls /usr/share/imagej/luts
> + read p
> + '[' '!' -e /home/louskacek/.imagej/luts/HiLo.lut.enc ']'
> + read p
> + '[' '!' -e /home/louskacek/.imagej/luts/RedHot.lut.enc ']'
> + read p
> + modules='-cp /usr/share/java/ij.jar'
> + tools=/usr/lib/jvm/java-1.7.0-openjdk-i386/lib/tools.jar
> + getopts b:ce:hi:m:op:r:vx: options
> + declare -i i=1
> + ((  i < 1  ))
> + [[ -n '' ]]
> + ((  0 > 0  ))
> + pushd /home/louskacek/.imagej/tmp
> + declare -i count=1
> + portopen=false
> + lockFileCreated=false
> + locklist=(`ls | grep '[0-9][0-9]-.*'`)
> ++ grep '[0-9][0-9]-.*'
> ++ ls
> + declare -a locklist
> + ((  0 > 0  ))
> + ((  0 > 0  ))
> + [[ true == \f\a\l\s\e ]]
> + [[ false == \f\a\l\s\e ]]
> + ((  0 == 0  ))
> + ((  0 == 0  ))
> + count=1
> ++ printf %02u 1
> + prefix=01
> + lockname=01-louskacek-zouzel-:0
> + ((  0 > 0  ))
> + touch 01-louskacek-zouzel-:0
> + trap '\rm -f ${ij_tmp}/$lockname >/dev/null ; exit 1' EXIT TERM
> + ((  0 > 0  ))
> + lockFileCreated=true
> + echo 'Open other images in this ImageJ panel as follows:'
> Open other images in this ImageJ panel as follows:
> + echo '  imagej -p 1 <image1> [<image2> ... <imageN>]'
>   imagej -p 1 <image1> [<image2> ... <imageN>]
> + ((  0 > 0  ))
> + echo
> 
> + popd
> + '[' -d /usr/share/imagej/jni/ ']'
> + '[' /usr/lib/jvm/java-1.7.0-openjdk-i386 ']'
> + ((  0 > 0  ))
> + eval /usr/lib/jvm/java-1.7.0-openjdk-i386/bin/java -d32 -mx500m
> -cp /usr/share/java/ij.jar ij.ImageJ -ijpath /home/louskacek/.imagej
> -port1
> ++ /usr/lib/jvm/java-1.7.0-openjdk-i386/bin/java -d32 -mx500m
> -cp /usr/share/java/ij.jar ij.ImageJ -ijpath /home/louskacek/.imagej
> -port1
> Exception in thread "main" java.awt.HeadlessException
> 	at
> java.awt.GraphicsEnvironment.checkHeadless(GraphicsEnvironment.java:207)
> 	at java.awt.Window.<init>(Window.java:535)
> 	at java.awt.Frame.<init>(Frame.java:420)
> 	at ij.ImageJ.<init>(ImageJ.java:129)
> 	at ij.ImageJ.main(ImageJ.java:597)
> + exit 0
> + rm -f /home/louskacek/.imagej/tmp/01-louskacek-zouzel-:0
> + exit 1
> louskacek at zouzel:~$ 
> 
> Is this OK?

This is what we wanted to know and it seems you are running this on a i386
system.  I tested the resulting call on my amd64 system by


/usr/lib/jvm/java-1.7.0-openjdk-amd64/bin/java -d64 -mx500m -cp /usr/share/java/ij.jar ij.ImageJ -ijpath /home/tillea/.imagej -port1


and it works perfectly.  I admit that I'm a bit lost now since I do not
have a clue what might be wrong at your side.  Anybody else who might
be able to reproduce this?

Kind regards

       Andreas.

-- 
http://fam-tille.de