It is one participant, with 2950 timepoints and 2mm isotropic voxels. The machine has 32gb of memory.
-Tim Timothy Hendrickson Neuroimaging Analyst/Staff Scientist University of Minnesota Informatics Institute University of Minnesota Bioinformatics M.S. Candidate Office: 612-624-0783 Mobile: 507-259-3434 (texts okay) On Fri, Aug 17, 2018 at 4:32 PM, Timothy Coalson <tsc...@mst.edu> wrote: > How much memory does the machine you are running this on have? What is > the number of timepoints and number of voxels of your concatenated input? > Are you trying to run more than one subject at once on the machine? > > I believe the way we are approaching multi-run fix is that we only > concatenate scans that were taken on the same day. > > Tim > > > On Fri, Aug 17, 2018 at 4:24 PM, Timothy Hendrickson <hendr...@umn.edu> > wrote: > >> Hmm, now I am getting a different error... >> >> Elapsed time is 1.67516 seconds. >> Elapsed time is 2.38414 seconds. >> >> error: out of memory or dimension too large for Octave's index type >> >> Timothy Hendrickson >> Neuroimaging Analyst/Staff Scientist >> University of Minnesota Informatics Institute >> University of Minnesota >> Bioinformatics M.S. Candidate >> Office: 612-624-0783 >> Mobile: 507-259-3434 (texts okay) >> >> On Fri, Aug 17, 2018 at 2:04 PM, Glasser, Matthew <glass...@wustl.edu> >> wrote: >> >>> I have attached an updated version of read_avw_img.m that forces matlab >>> to retain the same precision as the input file rather than converting >>> everything to doubles. >>> >>> Matt. >>> >>> From: <hcp-users-boun...@humanconnectome.org> on behalf of Timothy >>> Hendrickson <hendr...@umn.edu> >>> Date: Friday, August 17, 2018 at 1:58 PM >>> To: "hcp-users@humanconnectome.org" <HCP-Users@humanconnectome.org> >>> Subject: [HCP-Users] FSL FIX no memory with hcp_fix_multi_run >>> >>> Hello, >>> >>> I am attempting to run FIX cleanup on a rather large dataset (several >>> fMRI scans concatenated together via hcp_fix_multi_run) and am running into >>> the following error: >>> >>> * In fix_3_clean at 45 * >>> *Elapsed time is 1.153074 seconds.* >>> *Elapsed time is 1.077840 seconds.* >>> *Error using fread* >>> *Out of memory. Type HELP MEMORY for your options.* >>> >>> *Error in read_avw_img (line 24)* >>> >>> >>> >>> *Error in read_avw (line 34)* >>> >>> >>> >>> *Error in fix_3_clean (line 63)* >>> >>> >>> >>> *MATLAB:nomem* >>> >>> >>> How much memory does MATLAB require for this, and is there a way to >>> change this via an argument? >>> >>> -Tim >>> >>> _______________________________________________ >>> HCP-Users mailing list >>> HCP-Users@humanconnectome.org >>> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >>> >>> >>> ------------------------------ >>> >>> The materials in this message are private and may contain Protected >>> Healthcare Information or other information of a sensitive nature. If you >>> are not the intended recipient, be advised that any unauthorized use, >>> disclosure, copying or the taking of any action in reliance on the contents >>> of this information is strictly prohibited. If you have received this email >>> in error, please immediately notify the sender via telephone or return mail. >>> >> >> _______________________________________________ >> HCP-Users mailing list >> HCP-Users@humanconnectome.org >> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >> > > _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users
