[ome-users] getPlane memory leak

[Sebastien Besson]

Hi Alexander,

I have not been able to reproduce your bug on our test servers using the code you pasted below.
Can you give us a little more information about:
- the versions of the server and of OMERO.matlab you are using,
- the size of the image you are working with,
- how you know there is a Java memory leak. Do you get an exception thrown in Matlab?

Thanks
Sebastien

On 30 Apr 2013, at 18:55, Alexander Tournier wrote:

Hi there,

I've been trolling the web for a solution to this but I just don't see it,
Any ideas why the following would create a memory leak in java??
Notice the close statement at the end!
And the offending object (IceInternal.Outgoing) is created during the call to setPixelsId according to visualvm and not destroyed by the close statement.

store = session.createRawPixelsStore();
store.setPixelsId(imageId, false);

Stack = zeros([sizeX,sizeY,sizeZ],'uint16');

for z = 1:sizeZ
   plane = store.getPlane( z-1, channel, t);
   tPlane = toMatrix(plane, pixels);
   Stack(:,:,z) = tPlane;
end

store.close();


Any ideas??
Thanks
Alexander

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Dr Sébastien Besson
Open Microscopy Environment / Harvard Medical School
Wellcome Trust Centre for Gene Regulation and Expression,
College of Life Sciences, University of Dundee, Dow Street,
Dundee DD1 5EH Scotland UK   Tel: (01382) 386364


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