[OpenSPIM] 64-bit Fiji Memory Limit Issue

[Roberts, Thomas]

Hi everyone,


This is probably a wider issue with Fiji than OpenSPIM, but I was wondering if anyone else encountered the same problem we are having.


For reference, we are running 64-bit Windows 7 on a monster machine with 64GB RAM, an Intel Xeon E5-2650 and an nVidia Quadro 5000.


We generally run the 32-bit version of OpenSPIM for acquisition, but opening large image datasets (such as the ones in the Registation tutorial: http://openspim.org/Registration) results in Fiji reaching its memory limit. Because of this, I downloaded the 64-bit version of OpenSPIM/MM/Fiji in an attempt to increase the memory limit.


If I set the memory limit to a large value (20,000 MB) by going to Edit > Options > Memory & Threads, I get the same error message, as below:


Loading C:\Users\SPIM\Documents\OpenSPIM Dresden Data\tiffs\\spim_TL05_Angle0.tif
>>>>>>>>>>>>>>>>>>>>>>>>>>>
<Out of memory>
<All available memory (505MB) has been>
<used. To make more available, use the>
<Edit>Options>Memory & Threads command.>
>>>>>>>>>>>>>>>>>>>>>>>>>>>

This is really odd, because if I go to Help > About ImageJ, it says that 13MB out of 20000MB (<1%) is in use. Put another way, Fiji accepts that I want to increase the memory limit, but it still doesn't use more than 505MB of memory.

As a sanity check, I have installed 64-bit Fiji on my office computer and I can open the Registration tutorial data there, but my personal computer is really slow at manipulating the large datasets!

Has anyone else experienced this problem? Or does anyone have any suggestions for how to solve the issue?

It's really frustrating as our behemoth PC refuses to do what it was bought to do!

Many thanks in advance for any replies.
Tom Roberts

-----
Research Associate
UCL Centre for Advanced Biomedical Imaging
thomas.roberts.10 at ucl.ac.uk




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