Hi, I'm following up on an earlier email about the mri_ca_normalize step
of autorecon2. I am getting an error while running autorecon2 in the
developmental freesurfer version on tkmeg at the nmr center.
The command I ran was:
<recon-all-nmr -subjid avm004 -autorecon2 -nosubcortseg -hemi lh -mail
margo>
and the output error is below. My directory is
/space/lucy/2/users/margo/subjects/
Any advice would be greatly appreciated.
Thanks,
Margo
INFO: SUBJECTS_DIR is /autofs/space/lucy_002/users/margo/subjects
Actual FREESURFER_HOME /autofs/space/freesurfer/centos4.0/dev2-0-0
-rw-rw-r-- 1 margo smsgp 203951 Dec 22 11:03
/autofs/space/lucy_002/users/margo/subjects/avm004/scripts/recon-all.log
Linux tkmeg 2.6.9-22.0.1.ELsmp #1 SMP Thu Oct 27 13:14:25 CDT 2005 i686
athlon i386 GNU/Linux
#######################################
GCA RB40_talairach_2005-07-20.gca
AvgCurvTif average.curvature.filled.buckner40.tif
GCS curvature.buckner40.filled.desikan_killiany.gcs
#######################################
/autofs/space/lucy_002/users/margo/subjects/avm004
Using mgz format
---------------------------------------------
Intensity Normalization2 Tue Jan 3 10:09:16 EST 2006
/autofs/space/lucy_002/users/margo/subjects/avm004/mri
mri_normalize -mask brain.mgz norm.mgz T1.mgz
reading from norm.mgz...
zcat:
/autofs/space/lucy_002/users/margo/subjects/avm004/mri/norm.mgz.gz: No
such file or directory
mghRead(/autofs/space/lucy_002/users/margo/subjects/avm004/mri/norm.mgz,
-1): read error
mri_normalize: could not open source file norm.mgz
using MR volume brain.mgz to mask input volume...
ERROR: mri_normalize exited with non-zero status
Linux tkmeg 2.6.9-22.0.1.ELsmp #1 SMP Thu Oct 27 13:14:25 CDT 2005 i686
athlon i386 GNU/Linux
recon-all exited with errors at Tue Jan 3 10:09:17 EST 2006
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