Dear Freesurfers.
I am trying to run trac-all on one subject and have a problem with the bvecs file at the -prep stage. After dtifit is started an error massage occurs: Error: bvecs and bvals don't have the same number of entries. I checked the dmri/bvals and dmri/bvecs. There seems to be a problem at the -corr stage (-corr alone finishes without error).
My input file is one 4d .nii.gz file (with a total of 33 images, with the first being a b0 image).
(I have attached the files from the dmri folder)
The dmri/bvecs file only contains: 0,0000000 0,0000000 0,0000000
The original bvecs contains 3 columns and 33 lines.
The dmri/bvals seems to be ok (1 column and 33 lines).
eddy_correct processes 33 files (dmri/dwi_tmp0000 ... dmri/dwi_tmp0032).
I am running FSL(4.6.1) and Freesurfer v5.1.0 on Mac (10.6.4) (although the recon was done with 5.0.0, but I guess this not important at this stage, is it?)
******* My Configuration File:
set dtroot = $SUBJECTS_DIR/DTI set subjlist = (s02x)
set dcmroot = $SUBJECTS_DIR/DTI set dcmlist = (s02x/dti4d.nii.gz)
set bvalfile = /Users/.../DTI/bvals/bvals set bvecfile = /Users/.../DTI/bvals/bvecs set nb0 = 1
set doeddy = 1 set dorotbvecs = 1 set thrbet = 0.3 set doregflt = 1 set doregbbr = 0 *******
Thanks, Franz