Abdel,
This problem is truly strange. The filename seems to just disappear.
Can you send me the output of:
mris_anatomical_stats --all-info
Also, does this error repeat? That is, if you try:
cd $SUBJECTS_DIR/01_00/scripts mris_anatomical_stats -mgz -f ../stats/lh.aparc.stats \ -b -a ../label/lh.aparc.annot \ -c ../stats/aparc.annot.ctab 01_00 lh
does it fail again? And does this happen for other subjects?
Also, which freesurfer version is being used? To find out, type:
cat $FREESURFER_HOME/build-stamp.txt
And which Linux OS is it installed upon?
Nick
On Wed, 2006-08-16 at 17:16 +0100, Abdel Douiri wrote:
Thanks Bruce I have put the subject and that is "01_00" and the first and second autorecon was OK only the autorecon3 where it was the problem. Attached the log file. Thanks a lot for your help Abdel -----Original Message----- From: freesurfer-bounces@nmr.mgh.harvard.edu [mailto:freesurfer-bounces@nmr.mgh.harvard.edu] On Behalf Of Bruce Fischl Sent: 16 August 2006 14:01 To: Abdel Douiri Cc: freesurfer@nmr.mgh.harvard.edu Subject: Re: [Freesurfer] problem with mris_anatomical_stats
Hi Abdel,
is that the full command line? If so, you need to specify a subject with -subjid. If not, could you send us the full command line and recon-all.log?
cheers, Bruce
On Wed, 16 Aug 2006, Abdel Douiri wrote:
Hi all,
I will be grateful if someone can tell me what going wrong in the
following
problem:
When running "recon-all -autorecon3" the program stop with error exactly
in
the "mris_anatomical_stats" cmd stage and I have the following error:
mris_anatomical_stats -mgz -f ../stats/lh.aparc.stats -b -a ../label/lh.aparc.annot -c ../stats/aparc.annot.ctab 01_00 lh
computing statistics for each annotation in ../label/lh.aparc.annot.
reading volume .mgz...
zcat: /home/samba/user/douiri/freesurfer/subjects/01_00/scripts/.mgz.gz:
No
such file or directory
mghRead(/home/samba/user/douiri/freesurfer/subjects/01_00/scripts/.mgz,
-1):
read error
mris_anatomical_stats: could not read input volume .mgz
INFO: assuming MGZ format for volumes.
Linux img-179 2.6.16.22 #2 SMP Mon Jun 26 15:49:31 BST 2006 i686 unknown unknown GNU/Linux
recon-all exited with ERRORS at Tue Aug 15 20:52:49 BST 2006
Thanks
A
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