Re: [Freesurfer] recon-all error

2013-06-01 Thread Bruce Fischl
Hi Lily Can you send us the entire output and the recon-all.log file? Cheers Bruce On Jun 1, 2013, at 10:17 PM, "小麦" <841615...@qq.com> wrote: > Hi expert, > After I had finished the command recon-all -i image -s zxm -autorecon1 > without any error,I executed the command recon-all -s zxm -aut

[Freesurfer] recon-all error

2013-06-01 Thread ????
Hi expert, After I had finished the command recon-all -i image -s zxm -autorecon1 without any error,I executed the command recon-all -s zxm -autorecon2,and I met errors,details are as follows. Build stamp:freesurfer-Linux-centos4-stable-pub-v5.1.0 Debain version:5.0 Kernel info:Linux 2.6.28-11-g

Re: [Freesurfer] REPOST: NFS v4 on CentOS 5.4 or Red Hat 6.2

2013-06-01 Thread Garikoitz Lerma-Usabiaga
No idea, I think the sysadmins set up that way after the file system change, but I couldn't tell... at least it is working now, many thanks for your help! Gari On Sat, Jun 1, 2013 at 11:28 PM, Watson, Christopher < christopher.wat...@childrens.harvard.edu> wrote: > I've never had any problems wi

Re: [Freesurfer] REPOST: NFS v4 on CentOS 5.4 or Red Hat 6.2

2013-06-01 Thread Watson, Christopher
I've never had any problems with sym links, but what you have is definitely confusing! Is there any reason you have it that way? As a rule of thumb, i'd keep things as simple as possible. From: Garikoitz Lerma-Usabiaga [gariko...@gmail.com] Sent: Saturday,

Re: [Freesurfer] possible to display data obtained through mri_segment as heatmap?

2013-06-01 Thread Salil Soman
Dear Doug, Thank you for your response. I am not sure I understand what I would be overlaying. I would like to display the T1 volume for the subject, but for each voxel color value, I would like that to reflect the mean intensity value that I calculated using mri_segstats. I do not see a way to d

Re: [Freesurfer] REPOST: NFS v4 on CentOS 5.4 or Red Hat 6.2

2013-06-01 Thread Garikoitz Lerma-Usabiaga
Hello list, we found the problem, symbolic links: /home/glerma/ is the home of the app server where fs is installed. /home/glerma/glerma/freesurfer/subjects was the SUBJECTS_DIR, but it has a sym link, since: glerma -> /bcbl/home/home_g-m/glerma so changing SUBJECTS_DIR to: /bcbl/home/home_g-m/gle