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: lris...@uw.edu P Please consider the environment before printing this e-mail.
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