Thanks Nick! I'll pass your answer to the sysadmin, let's see how it goes :)
On Sat, May 11, 2013 at 12:08 AM, Nick Schmansky <ni...@nmr.mgh.harvard.edu>wrote: > 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 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.
