Hi Lisa,
can you convert it to one of our supported formats? But even then, how will you know left from right?
Bruce On Mon, 13 Dec 2010, Lisa F. Akiyama wrote:
Hello FreeSurfer experts,
I am trying to run recon-all on old (back from late 1990's) raw MRI data. Each slice is in a raw format. When I try to execute recon-all, I get the error shown below:
todd:~$ recon-all -subjid A_H -i
$SUBJECTS_DIR/adults_jp/A_H/slices/HA970313a1997031316500756
Subject Stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v5.0.0
Current Stamp: freesurfer-Linux-centos4_x86_64-stable-pub-v5.0.0
INFO: SUBJECTS_DIR is /usr/local/freesurfer/subjects
Actual FREESURFER_HOME /usr/local/freesurfer
Linux neptune-ubuntu 2.6.35-23-generic #41-Ubuntu SMP Wed Nov 24 11:55:36
UTC 2010 x86_64 GNU/Linux
/usr/local/freesurfer/subjects/A_H
mri_convert /usr/local/freesurfer/subjects/adults_jp/A_H/slices/HA970313a1997031316500756 /usr/local/freesurfer/subjects/A_H/mri/orig/001.mgz
mri_convert /usr/local/freesurfer/subjects/adults_jp/A_H/slices/HA970313a1997031316500756 /usr/local/freesurfer/subjects/A_H/mri/orig/001.mgz
$Id: mri_convert.c,v 1.166.2.2 2010/08/10 19:11:50 greve Exp $
reading from
/usr/local/freesurfer/subjects/adults_jp/A_H/slices/HA970313a1997031316500756...
Getting Series No
INFO: Found 136 files in /usr/local/freesurfer/subjects/adults_jp/A_H/slices
INFO: Scanning for Series Number 32664
Scanning Directory
INFO: found 0 files in series
ERROR: could not find any files (SeriesList==NULL)
Linux neptune-ubuntu 2.6.35-23-generic #41-Ubuntu SMP Wed Nov 24 11:55:36
UTC 2010 x86_64 GNU/Linux
recon-all -s A_H exited with ERRORS at Mon Dec 13 14:34:21 PST 2010
Does anyone know how to resolve this issue?
Thank you.
Best, Lisa ______________________________ Lisa F. Akiyama Research Study Assistant Institute for Learning & Brain Sciences (I-LABS) University of Washington E-mail: lrisa87@uw.edu
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