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