Ok, actually the error about the data and bvals/bvecs not having the same size occured the first time you ran trac-all, but it seems to have been fixed the second time you ran it, based on the log file.
I suspect the current problem is caused by poor registration. Have you checked the aparc+aseg and/or the registration from diffusion to anatomical and from anatomical to MNI? On Fri, 16 Aug 2013, David Soto wrote: > hi - yes it as 65 -output pasted below, cheers > > dsoto@wmen-dsoto3:~/Documents/fmri/rsdtianawmgui/14AB/dmri$ mri_info > dwi.nii.gz Volume information for dwi.nii.gz > type: nii > dimensions: 96 x 96 x 46 x 65 > voxel sizes: 2.3333, 2.3333, 2.2999 > type: FLOAT (3) > fov: 224.000 > dof: 0 > xstart: -112.0, xend: 112.0 > ystart: -112.0, yend: 112.0 > zstart: -52.9, zend: 52.9 > TR: 1000.00 msec, TE: 0.00 msec, TI: 0.00 msec, flip angle: 0.00 > degrees > nframes: 65 > PhEncDir: UNKNOWN > ras xform present > xform info: x_r = -1.0000, y_r = 0.0000, z_r = 0.0000, c_r = > 0.0000 > : x_a = 0.0000, y_a = 0.9774, z_a = -0.2112, c_a = > 2.1015 > : x_s = 0.0000, y_s = 0.2112, z_s = 0.9774, c_s = > 19.9194 > Orientation : LAS > Primary Slice Direction: axial > > voxel to ras transform: > -2.3333 0.0000 0.0000 112.0000 > 0.0000 2.2807 -0.4858 -96.1994 > 0.0000 0.4928 2.2480 -55.4405 > 0.0000 0.0000 0.0000 1.0000 > > voxel-to-ras determinant -12.5217 > > ras to voxel transform: > -0.4286 0.0000 0.0000 48.0000 > -0.0000 0.4189 0.0905 45.3166 > -0.0000 -0.0918 0.4250 14.7274 > 0.0000 0.0000 0.0000 1.0000 > > http://www1.imperial.ac.uk/medicine/people/d.soto/ > On 16/08/13 16:13, Anastasia Yendiki wrote: >> mri_info dmri/dwi.nii.gz > > > _______________________________________________ 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.
