Hello Sampada, Can you please tell me the contents of the "build-stamp.txt" file in your FREESURFER_HOME directory?
-Zeke On 03/18/2015 06:06 PM, Dr Sampada Sinha wrote: > Hello Freesurfer experts, > > I am trying to learn dti using data downloaded from the martinis and > everything was running fine till I got this message: > > Wed Mar 18 16:54:54 CDT 2015 > --s Diff001 --mov > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/template.nii > --reg > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/reg.init.dat > --niters 1 --maxangle 90 --nobetmov --tmp > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/fslregister > --dof 6 --fsvol brainmask.mgz > $Id: fslregister,v 1.34.2.2 2012/11/08 16:18:56 greve Exp $ > rmbp.home > Darwin rmbp.home 12.5.0 Darwin Kernel Version 12.5.0: Sun Sep 29 > 13:33:47 PDT 2013; root:xnu-2050.48.12~1/RELEASE_X86_64 x86_64 > nIters 1 > -------------------------------------- > /Users/Sampada > mri_convert > /Users/Sampada/Desktop/dtimartinos/diffusion_recons//Diff001/mri/brainmask.mgz > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/fslregister/refvol.fslregister.nii > mri_convert > /Users/Sampada/Desktop/dtimartinos/diffusion_recons//Diff001/mri/brainmask.mgz > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/fslregister/refvol.fslregister.nii > > $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ > reading from > /Users/Sampada/Desktop/dtimartinos/diffusion_recons//Diff001/mri/brainmask.mgz... > TR=12.00, TE=4.76, TI=4.76, flip angle=20.00 > i_ras = (-1, 3.72529e-09, 2.09548e-09) > j_ras = (6.75209e-09, -1.93715e-07, -1) > k_ras = (1.11759e-08, 1, -3.72529e-08) > writing to > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/fslregister/refvol.fslregister.nii... > -------------------------------------- > /Users/Sampada > mri_convert > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/template.nii > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/fslregister/movvol.fslregister.nii > --frame 0 > mri_convert > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/template.nii > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/fslregister/movvol.fslregister.nii > --frame 0 > $Id: mri_convert.c,v 1.179.2.7 2012/09/05 21:55:16 mreuter Exp $ > reading from > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/template.nii... > TR=1000.00, TE=0.00, TI=0.00, flip angle=0.00 > i_ras = (-0.998075, -0.0596198, -0.0170599) > j_ras = (0.0587821, -0.997211, 0.0459901) > k_ras = (-0.0197543, 0.0448988, 0.998796) > keeping frame 0 > writing to > /Users/Sampada/Desktop/dtimartinos/diffusion_tutorial/Diff001/dtrecon/tmp.bbregister.49197/fslregister/movvol.fslregister.nii... > Mov determinant is 8 > Swapping dims for pos det > fslswapdim.fsl: Command not found. > > > Will you please let me know if the error is a part of the processing > for non-martinis site users? > > Appreciate all your help! > > Thanks and regards, > > Sampada > > -- > Sampada Sinha > Post-Doctoral Associate > University of Minnesota (East Bank) > Molecular and neuroimaging laboratory > Department of Psychiatry > Minneapolis-55415 > Phone number: 718-913-0636 > email: sin...@umn.edu <mailto:email%3asin...@umn.edu> > drsampadasi...@gmail.com <mailto:drsampadasi...@gmail.com> > > > > > > > */ > /* > > > > _______________________________________________ > Freesurfer mailing list > Freesurfer@nmr.mgh.harvard.edu > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > _______________________________________________ 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.
