Re: [Freesurfer] wmfill error

Hi Nam, that means the fill failed. Can you send us the whole log file? cheers, Bruce On Wed, 22 Dec 2004, Joongnam Yang wrote: Hi all, During "create surface" on csurf, right after "fill white matter" is done, as soon as "tesselate RH white matter" starts, an error message comes up, which is ima

[Freesurfer] watershed values

Hi, I'm trying to adjust the watershed thresholds on a few images, and have a question about the default watershed value.   When I run the skullstrip without specifying a watershed value, the recon-all.log file typically says:   preflooding height equal to 25 percent Sorting... T1-wei

Re: [Freesurfer] recon-all -stage1 error

setenv LANG en_US(not eng_US) oongnam Yang wrote: Hi all, I ran recon-all -stage1 -subjid ID with the following errors. Any comment woud be appreciated. program versions used $Id: recon-all-nmr,v 1.37 2004/01/06 22:21:48 tosa Exp $ $Id: mri_motion_correc

[Freesurfer] stage1 error

Hi, I got the following error message when I ran recon-all -stage1 -subjid ID Any comments appreciated. Nam. Can't locate MNI/Startup.pm in @INC (@INC contains: /usr/lib/perl5/5.8.0/i386-linux-thread-multi /usr/lib/perl5/5.8.0 /usr/lib/perl5/site_perl/5.8.0/i386-linux-thread-multi /usr/lib/perl5

[Freesurfer] recon-all -stage1 error

Hi all, I ran recon-all -stage1 -subjid ID with the following errors. Any comment woud be appreciated. program versions used $Id: recon-all-nmr,v 1.37 2004/01/06 22:21:48 tosa Exp $ $Id: mri_motion_correct2,v 1.7 2004/01/16 20:25:10 tosa Exp $ mri_convert

Re: [Freesurfer] wmfill error

i had this problem recently. try using recon-all -stage one in a terminal window instead of process volume in csurf. or specify the corpus collosum and pons in the WMFill tab under Preferences->Expert Preferences in csurf. it probably cant find where to segment. you might want to check the archi

[Freesurfer] wmfill error

Hi all, During "create surface" on csurf, right after "fill white matter" is done, as soon as "tesselate RH white matter" starts, an error message comes up, which is images filled: somedirectory/mri/filled/COR-001...not found, wmfill first. I checked the directory of /mri/filled, which d

Re: [Freesurfer] Problem running recon-all

Hi, Damaraju: Can you do "ldd volume_stats"? I have RHEL3 Update 3 but this file does exists in /usr/lib: [EMAIL PROTECTED] lib]$ cat /etc/redhat-release Red Hat Enterprise Linux WS release 3 (Taroon Update 3) [EMAIL PROTECTED] lib]$ ls -l libstdc++-libc6.1-1.so.2 lrwxr-xr-x1 root root