Hi all,
I ran recon-all -stage1 -subjid ID with the following errors.
Any comment woud be appreciated.
########################################
program versions used
$Id: recon-all-nmr,v 1.37 2004/01/06 22:21:48 tosa Exp $
$Id: mri_motion_correct2,v 1.7 2004/01/16 20:25:10 tosa Exp $
mri_convert --version
$
$Header: /software/source//minc/cvsroot/minc/progs/rawtominc/rawtominc.c,v
6.8 2002/08/05 00:53:50 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 6.11
2002/11/06 13:32:23 jason Exp $
$Header:
/software/source//minc/cvsroot/minc/progs/mincaverage/mincaverage.c,v 6.4
2001/04/24 13:38:42 neelin Exp $
$Id: talairach2,v 1.5 2003/08/28 21:45:48 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 $
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#######################################
INFO: SUBJECTS_DIR is /diskc/NAM/DATADec04/DPJ
---------------------------------------------
MotionCor Wed Dec 22 14:10:28 EST 2004
INFO: no runs were found in /diskc/NAM/DATADec04/DPJ/ANAT/mri/orig/XXX,
however, there is a volume in /diskc/NAM/DATADec04/DPJ/ANAT/mri/orig,
so I am just going to proceed with that as the input.
---------------------------------------------
Talairach Wed Dec 22 14:10:31 EST 2004
/diskc/NAM/DATADec04/DPJ/ANAT/mri
talairach2 ANAT
INFO: registering ANAT
Wed Dec 22 14:10:31 EST 2004
--------------------------------------------
mri_convert orig orig/orig.mnc
mri_convert orig orig/orig.mnc
reading from orig...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
writing to orig/orig.mnc...
--------------------------------------------
mritotal -verbose -debug -clobber -protocol icbm orig/orig.mnc
transforms/talairach.xfm
perl: warning: Setting locale failed.
perl: warning: Please check that your locale settings:
LANGUAGE = (unset),
LC_ALL = (unset),
LANG = "eng_US"
are supported and installed on your system.
perl: warning: Falling back to the standard locale ("C").
defined(@array) is deprecated at /usr/local/mni/lib/mni_autoreg/Startup.pm
line 231.
(Maybe you should just omit the defined()?)
--------------------------------------------
mri_add_xform_to_header
/diskc/NAM/DATADec04/DPJ/ANAT/mri/transforms/talairach.xfm
/diskc/NAM/DATADec04/DPJ/ANAT/mri/orig
/diskc/NAM/DATADec04/DPJ/ANAT/mri/orig
Wed Dec 22 14:12:14 EST 2004
---------------------------------------------
Nu Intensity Correction Wed Dec 22 14:12:14 EST 2004
mri_convert orig nu/nu0.mnc
mri_convert orig nu/nu0.mnc
reading from orig...
TR=0.00, TE=0.00, TI=0.00, flip angle=0.00
i_ras = (-1, 0, 0)
j_ras = (0, 0, -1)
k_ras = (0, 1, 0)
writing to nu/nu0.mnc...
nu_correct -clobber nu/nu0.mnc nu/nu1.mnc
perl: warning: Setting locale failed.
perl: warning: Please check that your locale settings:
LANGUAGE = (unset),
LC_ALL = (unset),
LANG = "eng_US"
are supported and installed on your system.
perl: warning: Falling back to the standard locale ("C").
Can't locate MNI/Startup.pm in @INC (@INC contains:
/usr/lib/perl5/5.8.0/i386-linux-thread-multi /usr/lib/perl5/5.8.0
/usr/lib/perl5/site_perl/5.8.0/i386-linux-thread-multi
/usr/lib/perl5/site_perl/5.8.0 /usr/lib/perl5/site_perl
/usr/lib/perl5/vendor_perl/5.8.0/i386-linux-thread-multi
/usr/lib/perl5/vendor_perl/5.8.0 /usr/lib/perl5/vendor_perl
/usr/lib/perl5/5.8.0/i386-linux-thread-multi /usr/lib/perl5/5.8.0 .) at
/usr/local/mni/bin/nu_correct line 37.
BEGIN failed--compilation aborted at /usr/local/mni/bin/nu_correct line 37.
ERROR: nu_correct
------------------------------------------
Filesystem 1K-blocks Used Available Use% Mounted on
/dev/hda7 54459572 26175492 25517692 51% /diskc
------------------------------------------
recon-all exited with errors at Wed Dec 22 14:12:24 EST 2004
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