AFQ - No fibers in fiber group

[Larry-Lai]

Hi

Having problem here with Siemens Prisma 3T DTI/T1 data.

1. dcm2nii -> dti.nii.gz bvals, bvecs and t1.nii.gz -> dtiInit
2. AFQ_example -> from dt6.mat

Thanks for considering my request!

-- scale=[1.0,1.0,3.0]mm, track=1, interp=1, step=1.0mm, fa=0.20, angle=30.0deg, puncture=0.20, minLength=50.0mm, maxLength=250.0mm Tracking 54305 fibers (679 fibers per tick): ................................................................................ 10733 fibers passed length threshold of 50.0 (out of 54305 seeds). Elapsed time is 14.051691 seconds. 10733 fibers, mean length 64mm (max 164mm; min 50mm).

mesh can be rotated with arrow keys You chose to recompute ROIs Fibers that get as close to the ROIs as 2mm will become candidates for the Mori Groups Smoothing by 0 & 8mm.. Coarse Affine Registration.. Fine Affine Registration.. 3D CT Norm... iteration 1: FWHM = 10.66 Var = 6.47286 iteration 2: FWHM = 8.768 Var = 1.09323 iteration 3: FWHM = 8.403 Var = 0.855632 iteration 4: FWHM = 8.435 Var = 0.841511 iteration 5: FWHM = 8.396 Var = 0.835772 iteration 6: FWHM = 8.414 Var = 0.835772 iteration 7: FWHM = 8.398 Var = 0.835325 iteration 8: FWHM = 8.41 Var = 0.835325 iteration 9: FWHM = 8.4 Var = 0.835285 iteration 10: FWHM = 8.409 Var = 0.835285 iteration 11: FWHM = 8.401 Var = 0.835285 iteration 12: FWHM = 8.408 Var = 0.835285 iteration 13: FWHM = 8.403 Var = 0.835285 iteration 14: FWHM = 8.408 Var = 0.835285 iteration 15: FWHM = 8.402 Var = 0.835285 iteration 16: FWHM = 8.408 Var = 0.835285 Computing inverse deformation... dtiCleanFibers: Keeping 10733 out of 10733 fibers. dtiSplitInterhemisphericFibers: Splitting every fiber below Z=-10 Fiber group is empty: Left Corticospinal Fiber group is empty: Left IFOF Fiber group is empty: Left Uncinate

Left Uncinate number of fibers: 0 No fibers in fiber groupFiber group is empty: Left Uncinate Fiber group is empty: Left Uncinate

Left Thalamic Radiation number of fibers: 0 No fibers in fiber group Right Thalamic Radiation number of fibers: 0 No fibers in fiber group Left Corticospinal number of fibers: 0 No fibers in fiber group Right Corticospinal number of fibers: 0 No fibers in fiber group Left Cingulum Cingulate number of fibers: 0 No fibers in fiber group Right Cingulum Cingulate number of fibers: 0 No fibers in fiber group Left Cingulum Hippocampus number of fibers: 0 No fibers in fiber group Right Cingulum Hippocampus number of fibers: 0 No fibers in fiber group Callosum Forceps Major number of fibers: 0 No fibers in fiber group Callosum Forceps Minor number of fibers: 0 No fibers in fiber group Left IFOF number of fibers: 0 No fibers in fiber group Right IFOF number of fibers: 0 No fibers in fiber group Left ILF number of fibers: 274 Left ILF number of fibers: 259 Right ILF number of fibers: 166 Right ILF number of fibers: 156 Left SLF number of fibers: 410 Left SLF number of fibers: 384 Right SLF number of fibers: 1097 Right SLF number of fibers: 1046 Left Uncinate number of fibers: 0 No fibers in fiber group Right Uncinate number of fibers: 0 No fibers in fiber group Left Arcuate number of fibers: 351 Left Arcuate number of fibers: 327 Right Arcuate number of fibers: 0 No fibers in fiber group mesh can be rotated with arrow keys Fiber group is empty: Left Corticospinal Fiber group is empty: Left IFOF Fiber group is empty: Left Uncinate

Warning: Error creating or updating Surface Error in value of property CData Array is wrong shape or size Warning: Error creating or updating Surface Error in value of property CData Array is wrong shape or size

Cheers Larry