It automatically tries to figure out what format you use for your
analysis. It looks for mri/orig/XXX.mgz (which XXX is anything between
0-9). If it does not find that, it assumes COR. Specify -mgz to force mgz.
David Soscia wrote:
hey guys,
Im trying to process an orig scan from the terminal line:
[EMAIL PROTECTED] orig]$ recon-all -subjid 1768-4 -segmentation
INFO: SUBJECTS_DIR is /home/amc/freesurfer_new/freesurfer/subjects
########################################
program versions used
$Id: recon-all-nmr,v 1.72 2005/07/12 15:56:32 greve Exp $
$Id: mri_motion_correct2,v 1.9 2004/12/14 03:37:42 greve Exp $
mri_convert --version
$
$Header:
/software/source/minc/cvsroot/minc/progs/rawtominc/rawtominc.c,v 6.3
1999/10/19 14:45:31 neelin Exp $
minctracc.c
$Header:
/software/source/registration/mni_autoreg/minctracc/Main/minctracc.c,v
96.3 2000/03/15 08:42:41 stever Exp $
$Header:
/software/source/minc/cvsroot/minc/progs/mincresample/mincresample.c,v
6.2 1999/10/19 14:45:27 neelin Exp $
$Header:
/software/source/minc/cvsroot/minc/progs/mincaverage/mincaverage.c,v 6.1
1999/10/19 14:45:18 neelin Exp $
$Id: talairach2,v 1.7 2004/08/31 18:07:37 tosa Exp $
mri_convert --version
$
# $Id: mritotal.in,v 1.10 2000/06/14 12:55:01 louis Exp $
# $Id: nu_estimate.in,v 1.15 1999/08/10 18:05:42 jgsled Exp $
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
#######################################
~/freesurfer_new/freesurfer/subjects/1768-4
Using COR format
---------------------------------------------
Segmentation Thu Aug 18 14:30:56 EDT 2005
ERROR: cannot find brain/COR-.info
recon-all exited with errors at Thu Aug 18 14:30:56 EDT 2005
Notice how it says "using COR format." The file I am trying to convert
is in mgz format, using the new freesurfer version. I'm confused as to
why it is doing this.
Thanks,
Dave
David A. Soscia
Neurosciences Advanced Imaging Research Center
47 New Scotland Ave.
Albany, NY 12208-3479
Building S Rm. 132
P- (518)-262-0826
C- (518)-469-8317
[EMAIL PROTECTED]
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Douglas N. Greve, Ph.D.
MGH-NMR Center
[EMAIL PROTECTED]
Phone Number: 617-724-2358
Fax: 617-726-7422
_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
