Re: IJ under linux performance problem

Posted by Michael Doube on Sep 30, 2008; 8:54am
URL: http://imagej.273.s1.nabble.com/Re-IJ-under-linux-performance-problem-tp3694933p3694935.html

Jon

I have no particular workaround for this, except to disable desktop
effects (compiz) if you have them running.
I feel your pain though; it takes time to collapse all the taskbar icons
and then expand them out again, which is noticable (and distracting)
when you're working on a bunch of images.

Java / Gnome issues are being addressed to some extent by Sun, though a
bit slowly (I filed this report some months ago...
http://bugs.sun.com/bugdatabase/view_bug.do?bug_id=6752009 )

You could try a development version of JDK7 and see if the bug is still
there:
https://jdk7.dev.java.net/

Mike

Jonathan Jackson wrote:

> Hi,
>
> I recently started using java 1.6 with ImageJ on linux and am having some
> issues that were discussed on the list about a year ago - has anyone found a
> work-around?  
>
> It seems that when I run a menu command, like Multiply, all open images that
> are on the task bar (Gnome, not ImageJ) are 'closed' one by one, until there
> is just a single ImageJ window listed on the task bar.  Then the Dialog box
> pops up.  Once the command is completed, all images are listed again on the
> task bar. When ImageJ is running on the local machine, there's a fraction of
> a second delay per open image, but when it's running on a remote server, the
> delay is a whole second per image; just a little bit impractical!
>
> On the other hand, some things, like Sync Windows, work much faster under
> Java 1.6
>
> Thanks in advance,
> Jon
>
> On Wed, 29 Aug 2007 13:05:27 +0100, Gabriel Landini <[hidden email]>
> wrote:
>
>  
>> Hi,
>> I think I may have mentioned if before. Running ImageJ 1.39d under opensuse
>> with Java 1.6.0_02-ea I have the following performance problem:
>>
>> I open the mri-stack sample and convert it from stack to images (i.e. 27
>> images open).
>> If I do some operation on one of the images (like a Multiply by 2, or a
>> Maximum filter) then IJ starts to behave very slow.
>> For the Math dialog "Multiply" to appear it takes 6 seconds or so. Anything
>> that shows a dialog, takes approximately this time to open.
>>
>> Then when I try to close the processed window, the "Save changes?" window
>> takes another 5 sec to appear. However, closing the other images -which have
>> not been processed  and do not show a dialog- close quite quickly.
>>
>> The macro below works fine and reports 256 ms to close the processed image in
>> my machine (P4, 2GHz).
>>
>> run("MRI Stack (528K)");
>> run("Convert Stack to Images");
>> selectWindow("mri-stack-0001");
>> run("Multiply...", "value=2");
>> t=getTime();
>> close();
>> print("time: "+getTime()-t);
>>
>> However doing it by hand (the first 4 lines) introduces the delays mentioned
>> abovE, and it seems that the more images, the longer the delay (with 54
>> images this is about 12 sec delay!). It happens every time I try.
>>
>> Has anybody seen this behaviour?
>> Where should one start to solve this problem?
>>
>> Java 1.5.0 does not seem to be affected, but there are some advantages in
>> using 1.6.0: less memory use when loading 8 bit and RGB images (so it would
>> be a shame not to take advantage of it).
>>
>> Thanks in advance.
>>
>> Gabriel
>> =========================================================================
>>