Thanks Chris, > ls -l $SUBJECTS_DIR: it works > This is the output of the command (I cannot make sense out of it):
[glerma@cajal ~]$ cat /etc/fstab /dev/VolGroup00/LogVol00 / ext3 defaults 1 1 LABEL=/boot /boot ext3 defaults 1 2 tmpfs /dev/shm tmpfs defaults 0 0 devpts /dev/pts devpts gid=5,mode=620 0 0 sysfs /sys sysfs defaults 0 0 proc /proc proc defaults 0 0 /dev/VolGroup00/LogVol01 swap swap defaults 0 0 /var/lib/swap/swap_cajal.img swap swap defaults 0 0 #hippocampus-nfs:/data /data nfs defaults 0 2 #hippocampus-nfs:/home/BCBL /home/BCBL nfs defaults 0 2 ltm.bcbl.local:/root_vdm_1/home /bcbl/home nfs4 defaults 0 0 ltm.bcbl.local:/root_vdm_1/data /bcbl/data nfs4 defaults 0 0 #hippocampus-nfs:/home/BCBL /home/BCBL nfs rw,bg,intr,hard,timeo=600,wsize=32768,rsize=32768,nfsvers=3,tcp,noacl 0 2 (this is in the old app server, which worked before the migration to the new file system) thanks again! Gari On Sat, May 11, 2013 at 12:07 AM, Chris Watson < christopher.wat...@childrens.harvard.edu> wrote: > Can you check that the UID and GID both match on the client and server > sides? Is it the same user that is able to use other programs, yet unable > to write via Freesurfer? Is your user an NIS account? > > Can you output > # ls -l $SUBJECTS_DIR > > I assume that since you say other programs can write to the filesystem, it > is mounted properly, but can you show what is in /etc/fstab? i.e. make sure > you see "rw" instead of "ro". > > > On 05/10/2013 05:55 PM, Garikoitz Lerma-Usabiaga wrote: > > 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 > listfreesur...@nmr.mgh.harvard.eduhttps://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 > athttp://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. > >
_______________________________________________ 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.
