Do you have a subject called "tal_before"? Janani Dhinakaran wrote: > > I also checked without the '--surf orig'. Still not found. > > > On 8 March 2010 14:22, Janani Dhinakaran <janinthe...@gmail.com > <mailto:janinthe...@gmail.com>> wrote: > > Here is how I checked if it was done okay > Looks like it wasn't. > > s0964...@cric-0012:~$ export SUBJECTS_DIR=~/Desktop/Newdata > s0964...@cric-0012:~$ tkregister2 --mgz --s tal_before --fstal > --surf orig > tkregister_tcl /usr/local/freesurfer/lib/tcl/tkregister2.tcl > surfname set to orig > INFO: no target volume specified, assuming FreeSurfer orig volume. > target volume orig > movable volume (null) > reg file (null) > LoadVol 1 > ZeroCRAS 1 > $Id: tkregister2.c,v 1.86.2.12 2009/03/19 22:04:20 greve Exp $ > Diagnostic Level -1 > > > WARNING: cannot write to > /home/s0964091/Desktop/Newdata/tal_before/mri/transforms. > You will not be able to save any edits. > Hit Enter to continue: > ... continuing > > regio_read_mincxfm: No such file or directory > ERROR: could not read > /home/s0964091/Desktop/Newdata/tal_before/mri/transforms/talairach.xfm > > > > > On 8 March 2010 14:09, Douglas N Greve <gr...@nmr.mgh.harvard.edu > <mailto:gr...@nmr.mgh.harvard.edu>> wrote: > > That is a message from the routine that we use to > automatically check the tal transform. Sometimes it is too > conservative. You should check the transform manually with > tkregister2. If it looks ok, then you can run recon-all with > -notal-check. See > http://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/Talairach > for more info. > > doug > > Janani Dhinakaran wrote: > > Any idea what this means and what I can do about it? > > Mon Mar 8 12:46:58 GMT 2010 > talairach_avi done > #-------------------------------------------- > #...@# Talairach Failure Detection Mon Mar 8 12:46:58 GMT 2010 > /home/s0964091/Desktop/Newdata/JS/mri > > talairach_afd -T 0.005 -xfm transforms/talairach.xfm > > ERROR: talairach_afd: Talairach Transform: > transforms/talairach.xfm ***FAILED*** (p=0.0000, > pval=0.0000 < threshold=0.0050) > Linux CRIC-0012 2.6.31-20-generic #57-Ubuntu SMP Mon Feb 8 > 09:02:26 UTC 2010 x86_64 GNU/Linux > > recon-all exited with ERRORS at Mon Mar 8 12:46:58 GMT 2010 > > Thank you > Jan > -- > I am the Sun, I know no darkness. > > ------------------------------------------------------------------------ > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > <mailto: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 <mailto:gr...@nmr.mgh.harvard.edu> > Phone Number: 617-724-2358 Fax: 617-726-7422 > > Bugs: surfer.nmr.mgh.harvard.edu/fswiki/BugReporting > <http://surfer.nmr.mgh.harvard.edu/fswiki/BugReporting> > FileDrop: www.nmr.mgh.harvard.edu/facility/filedrop/index.html > <http://www.nmr.mgh.harvard.edu/facility/filedrop/index.html> > > > > > -- > I am the Sun, I know no darkness. > > > > > -- > I am the Sun, I know no darkness.
-- 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 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.
