Hi Doug, Thanks for the tip. I can load the volume now!
I'm getting different types of errors when I proceed with my analyses though. Can you help me to understand why it works when data are decompressed and in what way data are different now. Thanks a lot, Ilaria -----Original Message----- From: freesurfer-boun...@nmr.mgh.harvard.edu [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Douglas N Greve Sent: Thursday, April 6, 2017 3:43 PM To: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] MRIread (load_nifti)- Out of memory is it a compressed nifti (nii.gz)? If so, try uncompressing it first On 04/06/2017 02:53 PM, Ilaria Sani wrote: > Hi Bruce, > > Not sure this answer your question... > > In matlab workspace, I am able to load data in two halves: > > H1=MRIread(half1) > H2=MRIread(half2) > > And then concatenate the volumes > concatenate them var=cat(4,H1,H2). > > So, somehow matlab can handle... > > However, when those operations are embedded inside a function (like in the > case of load_nifti and MRIread) I get the error. > > > Thanks, > Ilaria > > > -----Original Message----- > From: freesurfer-boun...@nmr.mgh.harvard.edu > [mailto:freesurfer-boun...@nmr.mgh.harvard.edu] On Behalf Of Bruce > Fischl > Sent: Thursday, April 6, 2017 1:36 PM > To: Freesurfer support list <freesurfer@nmr.mgh.harvard.edu> > Subject: Re: [Freesurfer] MRIread (load_nifti)- Out of memory > > Hi Ilaria > > do you have any reason to believe that it isn't just out of memory? If > so, there's not much to do other than get more RAM or use a different > machine > > cheers > Bruce > > > On Thu, > 6 Apr 2017, Ilaria Sani wrote: > >> Dear All, >> >> >> >> I’m trying to load a pretty big diffusion MRI dataset (320x320x260x122). >> >> I’m running matlab 2015a 64bit on a linux machine. >> >> >> >> I’m using MRIread, which in turn calls load_nifti. >> >> I’m getting the following error: >> >> >> >> Error using + >> >> Out of memory. Type HELP MEMORY for your options. >> >> >> >> Error in load_nifti (line 158) >> >> hdr.vol = hdr.vol * hdr.scl_slope + hdr.scl_inter; >> >> >> >> Error in MRIread (line 158) >> >> hdr = load_nifti(fspec,headeronly); >> >> >> >> When I load half dataset (320x320x260x61) it works ok. >> >> I tried to increase the Maximum array size in Matalb (default 1,000 - now >> 10,000), but I’m still getting the error. >> >> I tried to change machine (which runs matlab 2013a on linux) and it worked >> fine. >> >> >> >> I think this is due to some matlab settings. >> >> Can anyone help? >> >> >> >> Thanks a lot, >> >> Ilaria >> >> >> >> >> >> ------------------------------------------- >> Ilaria Sani, PhD >> Postdoctoral Fellow, Freiwald Lab >> The Rockefeller University >> 1230 York Ave., New York, NY 10065. >> Phone: (212) 327 7699 >> Fax: (212) 327 7698 >> Email: isan...@rockefeller.edu >> >> >> >> >> > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://urldefense.proofpoint.com/v2/url?u=https-3A__mail.nmr.mgh.harv > ard.edu_mailman_listinfo_freesurfer&d=DwIGCQ&c=JeTkUgVztGMmhKYjxsy2rfo > WYibK1YmxXez1G3oNStg&r=d4z88RzwDKeicDL3VVuTqQcuSf1y8Z7V7XewX20Ubmk&m=T > wHxSFAJ26NQtkppj0LKxgphSKdwYAmvUro9McGq0Go&s=U95y-XJlyTRcgzsYZ4BI3aWEN > BXJrmcsbcj8WCzxjaE&e= > > -- Douglas N. 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