Hi Anastasia:
I wish to echo David's sentiments. Thanks for this great software. I was able to process and extract data for all brains without losing any of the brains. Thanks so much.
best,
Alan
On Fri, Aug 16, 2013 at 12:14 PM, Anastasia Yendiki < ayendiki@nmr.mgh.harvard.edu> wrote:
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
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