Gari, Hi, your situation seems odd. Freesurfer does not require anything special in terms of a file system, or modify system settings of any sort, so I'm not sure what is happening in your situation. The recon-all script does set 'umask 002', which clears the write-bit for 'other' users. Perhaps this is conflicting with some special system setting? although i have never heard of a problem with umask so i'm grasping at straws here. sorry!
Nick > Thanks for the answers. > I am not the sys admin, but I think I can answer both questions: >> I assume the system is in read-write mode since the rest of the programs > (i.e. Matlab) are working. >> The SUBJECT_DIR is in each personal space, I mean: > --- FS is installed in a Linux CentOS 5 machine, I have an account in that > machine (and I can work normally if my SUBJECTS_DIR is in that machine) > --- I have a personal drive space in the NFS 4, and I used to have my > SUBJECTS_DIR in that drive, but after they upgraded it to NFS 4, it didn't > work again. >> We have a new cluster now, they are testing it, it has Red Hat >> installed, > with FS 5.2, and I've been told that it cannot write (same problem). > > The strange thing is that other programs work fine with this setup. > > Do you think the problem is in the file system config (it seems so) or in > FS config to be able to work with NFS 4? > > I have asked the sys admin for the output of the system-config-nfs, I > don't > have admin privileges to run it. > > thanks again! > Gari > > > > On Fri, May 10, 2013 at 11:46 PM, Nick Schmansky > <ni...@nmr.mgh.harvard.edu>wrote: > >> Gari, >> >> At the NMR Center we use NFS v4 without problems with freesurfer. Is >> the >> SUBJECTS_DIR writable? Note that in the default freesurfer >> distribution, >> the freesurfer/subjects directory is not writable (contains sample and >> template subjects). >> >> Nick >> >> >> > Hi, >> > Has anybody got problems using FS with NFS v4? >> > We cannot write subjects if the SUBJECTS_DIR is in a NFS v4 system. >> > >> > Many thanks, >> > Gari >> > >> > ---------- Forwarded message ---------- >> > From: Garikoitz Lerma-Usabiaga <gariko...@gmail.com> >> > Date: Tue, May 7, 2013 at 5:25 PM >> > Subject: NFS v4 on CentOS 5.4 or Red Hat 6.2 >> > To: Freesurfer <freesurfer@nmr.mgh.harvard.edu> >> > >> > >> > Hi FS experts, >> > we have changed our file systems to NFS v4 and we found that FS cannot >> > write to it (I mean, FS installed in an app server and subjects in the >> > file >> > system is not working). >> > Last new I have is that FS in CentOS could read but not write and in >> Red >> > Hat could not write or read. >> > >> > Is it a known problem? Is it something going on with FS or the problem >> is >> > in our end? (the rest of the programs are working fine: FSL, >> Matlab...) >> > >> > >> > Many thanks, >> > Gari >> > _______________________________________________ >> > 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. >> >> > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
