Hi Rodrigo, first check the talairach registration to see whether it really failed or not -- the automatic checker is often a bit conservative. If it did, then you can fix it by hand. If it did not, then you can re-run recon-all with -notal-check.
doug Rodrigo Zepeda wrote: > Hi, > > I'm getting an error trying to run a reconstruction. > > I'm working on multnomah and my subjects directory > is: /autofs/space/multnomah_002/users/Cashlab/ > > *I'm using the following command:* > > [multnomah:Cashlab] (nmr-std-env) recon-all -autorecon1 -autorecon2 > -subject MG15_SurferOutput -i > MG15/MG_15_SPGR/1.2.840.113619.2.176.3596.6688992.17364.1172489897.387.dcm > > > *I get the following error:* > > #...@# Talairach Failure Detection Sun Dec 13 11:51:46 EST 2009 > /autofs/space/multnomah_002/users/Cashlab/MG15_SurferOutput/mri > > talairach_afd -T 0.005 -xfm transforms/talairach.xfm > > ERROR: talairach_afd: Talairach Transform: transforms/talairach.xfm > ***FAILED*** (p=0.0308, pval=0.0034 < threshold=0.0050) > Linux multnomah 2.6.9-67.ELsmp #1 SMP Fri Nov 16 12:48:03 EST 2007 > i686 i686 i386 GNU/Linux > > recon-all exited with ERRORS at Sun Dec 13 11:51:46 EST 2009 > > > *My environment information is:* > > -------- freesurfer-Linux-centos4-stable-v4.5.0-20091124 -------- > Setting up environment for FreeSurfer/FS-FAST (and FSL) > FREESURFER_HOME /usr/local/freesurfer/stable4 > FSFAST_HOME /usr/local/freesurfer/stable4/fsfast > FSF_OUTPUT_FORMAT nii > SUBJECTS_DIR /space/sake/3/users/inverse/subjects > MNI_DIR /usr/local/freesurfer/stable4/mni > FSL_DIR /usr/pubsw/packages/fsl/current > > > Any help will be appreciated! > > Thanks, > > Rodrigo Zepeda > ------------------------------------------------------------------------ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer -- Douglas N. Greve, Ph.D. MGH-NMR Center gr...@nmr.mgh.harvard.edu Phone Number: 617-724-2358 Fax: 617-726-7422 Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html _______________________________________________ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
