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Did you try reducing the FOV to only include the brain regions? The out of memory error means you are unable to allocate enough memory to FAST. You can either switch to 64bit where you will be able to allocate as much RAM as you want, or need to reduce the amount of RAM that you need. Reducing the FOV is one option for doing this. Peace, Matt. _____ From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Jayanth Kolar Sent: Monday, March 16, 2009 12:56 PM To: [log in to unmask] Subject: Re: [FSL] FAST - Out of Memory Error Hi Matt, I have 4GB alloted to my virtual machine (32 bit). But I am still getting the out of memory error when I run the 512x512x110 image and use the apriori maps in FAST4. However the program is running without error if I donot use the 'apriori maps' option. Does this new information change anything? Is it a different problem or is it still a problem with the 32 bit virtual machine? Do I have no other option but to switch to a 64 bit Linux OS (I am hoping I dont have to) ? Thanks, Jayanth. On Fri, Mar 13, 2009 at 2:47 PM, Matt Glasser <[log in to unmask]> wrote: Perhaps reducing the image FOV would help (crop the extra empty space around the image), however you are going to be very limited with the 32bit virtual machine (and I am not aware of a 64-bit version). You should make sure that your virtual machine has access to at least 3GB of the system RAM (you will only be able to allocate 2GB to any given process at 32bit, but the extra 1GB can be allocated to system processes. For any kind of intensive FSL processing it is certainly better to run FSL in an operating system in which it can run natively, for example 64bit Linux or Mac. I recommend Ubuntu if you decide to go the Linux route. Peace, Matt. _____ From: FSL - FMRIB's Software Library [mailto:[log in to unmask]] On Behalf Of Jayanth Kolar Sent: Friday, March 13, 2009 2:05 PM To: [log in to unmask] Subject: Re: [FSL] FAST - Out of Memory Error Hi Rolf, Yes. I have betted the images and the bet results are accurate. Thanks, Jayanth On Fri, Mar 13, 2009 at 1:37 PM, Rolf Heckemann <[log in to unmask]> wrote: Hi Jayanth Not sure about your architecture, but I have seen this error with problematic data sets. Is your image brain-extracted? Rolf On Fri, Mar 13, 2009 at 05:34:43PM +0000, Jayanth Kolar wrote: > > Hi All, > I am running the FSL FAST gui (with apriori maps for initialization > and final segmentation) on a 64 bit Windows machine using Virtual > Machine FSL_VM_32. I upgraded to 6GB RAM from 2GB but I am still > getting the following out of memory error when I try to segment a > 512x512x110 image. > Image Exception : #99 :: Out of memory > terminate called after throwing an instance of > 'RBD_COMMON::BaseException' > Does anyone else have the same trouble ? Please suggest a suitable fix > because the RAM doesnt seem to be the problem. > Also if it is a problem with the 32 bit virtual machine, please let me > know where I can download the 64bit FSL virtual machine ? I couuld > only find the download link for FSL_VM_32 on the downlaods page. > Thanks for your help. I appreciate it. > Jayanth. -- Rolf A Heckemann, PhD Research Associate Division of Neuroscience and Mental Health MRC Clinical Sciences Centre Imperial College London Hammersmith Hospital Campus Du Cane Road London W12 0HS United Kingdom 1236969289 -----BEGIN PGP SIGNATURE----- Version: GnuPG v1.4.6 (GNU/Linux) iD8DBQFJuqfvfcTkNtF0exYRArnTAJ0XfS0kZdH2d2GEQPdSQWBTqzkK3gCcCiDy NgP4EQxKt8tB1GXLdc9ShaQ= =kFMk -----END PGP SIGNATURE----- -- Jayanth Kolar Graduate Research Assistant Physiological Imaging and Modeling Lab University of Illinois at Chicago Chicago IL - 60607 1-408-398-0097 http://www.ece.uic.edu/~jkolar <http://www.ece.uic.edu/%7Ejkolar> -- Jayanth Kolar Graduate Research Assistant Physiological Imaging and Modeling Lab University of Illinois at Chicago Chicago IL - 60607 1-408-398-0097 http://www.ece.uic.edu/~jkolar