I modified recon-all to try to autodetect the input format (but
introduced a bug). It should work if you add -COR to the command-line.
In the mean time I'll fix my mistake.
doug
Tamara Knutsen wrote:
when i source:
Setting up environment for FreeSurfer/FS-FAST
FREESURFER_HOME /usr/local/freesurfer/dev
FSFAST_HOME /usr/local/freesurfer/dev/fsfast
SUBJECTS_DIR /space/sake/3/users/inverse/subjects
FUNCTIONALS_DIR /usr/local/freesurfer/dev/sessions
MINC_BIN_DIR /usr/pubsw/packages/mni/current/bin
MINC_LIB_DIR /usr/pubsw/packages/mni/current/lib
FSL_DIR /usr/pubsw/packages/fsl/current
QTDIR /usr/lib/qt3-gcc2.96
setenv SUBJECTS_DIR /space/orsay/2/knutsen
and then run:
recon-all-nmr -subjid ben -stage4b
i get this error:
[whatever:knutsen] (nmr-dev-env) recon-all-nmr -subjid jerry -stage4b
INFO: SUBJECTS_DIR is /autofs/space/orsay_002/knutsen
########################################
program versions used
$Id: recon-all-nmr,v 1.68 2005/07/07 04:59:34 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 $
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
$
#######################################
ERROR: cannot determine format of input
When Leeland runs the same thing from his computer, it runs fine.
What is wrong with my setup that I cannot run this?
Thanks,
Tamara
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--
Douglas N. Greve, Ph.D.
MGH-NMR Center
[EMAIL PROTECTED]
Phone Number: 617-724-2358
Fax: 617-726-7422
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