Hi,

I am having a problem with running the recon-all script. As soon as I get to
intensity normalization, the script stops and gives an error for nu_correct (see
output below). The MNI tools seem to be set up correctly however. The
environment is set up as such that:

MINC_BIN_DIR    /usr/local/freesurfer/lib/mni/bin

and this is where nu_correct does live. Any idea how to overcome this problem? I
am running Fedora Core 3 and both the RH9 dev release as well as the CentOS4_x64
dev release show this problem.

Thank you for your help,

Niels van Strien

Nu Intensity Correction Thu Jan 26 16:42:22 CET 2006
mri_convert orig.mgz nu0.mnc
mri_convert orig.mgz nu0.mnc
reading from orig.mgz...
TR=1000.00, 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 nu0.mnc...
nu_correct -clobber nu0.mnc nu1.mnc
nu_correct: Command not found.
ERROR: nu_correct
Linux VUMC 2.6.12-1.1381_FC3smp #1 SMP Fri Oct 21 04:22:48 EDT 2005 x86_64
x86_64 x86_64 GNU/Linux
recon-all exited with errors at Thu Jan 26 16:42:30 CET 2006

Niels M. van Strien (MSc)

Dept. of Anatomy
Vrije Universiteit University Medical Center
Room MF-G130

Van der Boechorststraat 7
1081 BT  Amsterdam
The Netherlands

tel: +31 20 44 48047
fax: + 31 84 222 7040

e-mail: n.vanstrien@vumc.nl

http://anatomie.med.vu.nl/afdeling/persons/vanstrien.html