how much RAM do you have on your machine? For some reason gzip needs tons of it On Wed, 1 Jun 2011, Vanessa Lim wrote:
> Hi, > > I got freesurfer to run with this command: > > mri_ca_register -align-after -nobigventricles -mask brainmask.mgz -T > ~/Desktop/freeSurfer/CG/mri/transforms/talairach.lta > ~/Desktop/freeSurfer/CG/mri/norm.mgz > $FREESURFER_HOME/average/RB_all_2008-03-26.gca > ~/Desktop/freeSurfer/CG/mri/transforms/talairach.m3z > > but now have this error after some hours... > writing output transformation to > /home/virtualuser/Desktop/freeSurfer/CG/mri/transforms/talairach.m3z... > GCAMwrite(/home/virtualuser/Desktop/freeSurfer/CG/mri/transforms/talairach.m3z): > gzip encountered error. > mri_ca_register: > GCAMwrite(/home/virtualuser/Desktop/freeSurfer/CG/mri/transforms/talairach.m3z) > failed > > any ideas? I can write to the folder and it has space... > Thanks, > Vanessa > > > ________________________________ > > Sent: Friday, 27 May 2011 11:44 a.m. > To: freesurfer@nmr.mgh.harvard.edu > Subject: mri_ca_register error > > > Hi, > > > > I am getting the same error. I did set the environment to an external drive > with LOTS of space. When I run it though I did notice it repeats the subject > path which is the external drive but then says actual path > ~/apps/freesurfer/subjects - this doesn't have much space cause it's a > virtualbox and I don't know how to make it bigger. But the error below seems > to be pointing to the right directory /home/...Desktop etc. > > >> >> GCAMwrite(transforms/talairach.m3z): gzip encountered error. >> writing output transformation to transforms/talairach.m3z... >> mri_ca_register: GCAMwrite(transforms/talairach.m3z) failed >> ERROR: mri_ca_register with non-zero status 252 >> but continuing despite the error >> #-------------------------------------- >> #@# CA Reg Inv Thu May 26 12:42:11 EDT 2011 >> /home/virtualuser/Desktop/freeSurfer/CG2/mri >> >> mri_ca_register -invert-and-save transforms/talairach.m3z >> >> Loading, Inverting, Saving, Exiting ... >> Reading transforms/talairach.m3z >> ERROR: cannot find or read transforms/talairach.m3z >> ERROR: mri_ca_register with non-zero status 0 >> Linux FreeSurfer 2.6.28-11-generic #42-Ubuntu SMP Fri Apr 17 01:57:59 UTC >> 2009 i686 GNU/Linux >> >> Cheers, >> Vanessa > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
