 |
 |
Hi, David, Thank you for your quick reply. My computer's cpu is Intel Core 2 Duo T7500, and it's 64bit, but my system is Ubuntu 8.10 32bit. Do you mean I have to re-install the system? Or do you have any other alternative suggestions? I am really confused that why probtrackx function occupies so huge memory even when I ONLY want to track the fiber through ONE POINT ? Thanks, Nicozuo On Mon, 1 Jun 2009 13:23:46 +0100, David Flitney <[log in to unmask]> wrote: >Hi, > >Can you confirm that your computer is a 64bit machine. If not then, >even though you have a lot of memory, probtrackx is still quite likely >to be running out of virtual memory - perhaps you have access to a >large memory profile 64bit machine for testing purposes? > >On 1 Jun 2009, at 12:38, Nicozuo wrote: > >> Dear all, >> >> I have downloaded some DTI data from https://www.mristudio.org/ . >> I want to practice the FDT tool on the data above. >> Unfortunately, after run "eddy_current" function and "bedpostx" >> function, >> I tried to run "probtrackx" to track the fibers through one seed >> points as >> the following command, >> [code] >> >> probtrackx -V 2 --mode=simple -- >> seedref=./bedpost.2fibers.bedpostX/nodif_brain_mask.nii.gz - >> o ./dti_probtrack -x ./dti_probtrack/fdt_coordinates.txt -c 0.2 -S >> 2000 -- >> steplength=0.5 -P 5000 --forcedir --opd - >> s ./bedpost.2fibers.bedpostX/merged - >> m ./bedpost.2fibers.bedpostX/nodif_brain_mask.nii.gz --dir=./ >> dti_probtrack >> >> [/code] >> >> and it promted the following errors, >> [error] >> basename ./bedpost.2fibers.bedpostX/merged >> maskfile ./bedpost.2fibers.bedpostX/nodif_brain_mask.nii.gz >> seeds ./dti_probtrack/fdt_coordinates.txt >> output ./dti_probtrack >> verbose 2 >> nparticles 5000 >> nsteps 2000 >> usef 0 >> rseed 12345 >> 1_1 >> 1_2 >> 1_3 >> 2_1 >> 2_2 >> Image Exception : #99 :: Out of memory >> terminate called after throwing an instance of >> 'RBD_COMMON::BaseException' >> Aborted >> [/error] >> >> Since I just try to track the fibers going through one seed points >> storing in >> the "fdt_coordinates.txt", why does it promt "Out of memory" ?? The >> version >> of FDT toobox is 2.0, and the memory of the system is 3G. The tested >> DTI >> data is 256*256*50*35, where 35 is the number of gradient direction >> (with 5 >> b=0 directions). >> >> Thanks for any clues, >> >> Nicozuo >> > >-- >Dave Flitney, IT Manager >Oxford Centre for Functional MRI of the Brain >E:[log in to unmask] W:+44-1865-222713 F:+44-1865-222717 >URL: http://www.fmrib.ox.ac.uk/~flitney > > > >