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: lris...@uw.edu > > P Please consider the environment before printing this e-mail. > _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information in this e-mail is intended only for the person to whom it is addressed. If you believe this e-mail was sent to you in error and the e-mail contains patient information, please contact the Partners Compliance HelpLine at http://www.partners.org/complianceline . If the e-mail was sent to you in error but does not contain patient information, please contact the sender and properly dispose of the e-mail.
