[Mrtrix-discussion] tckgen stuck

[basile pinsard]

Hi MRtrix experts,

running tckgen on a cluster and the nodes are centos 6.5, with this
specific set of option:

$ tckgen -force -act 5tt.nii.gz -info -maxlength 250 -nthreads 12 -number
10000 -seed_dynamic fod.nii.gz -step 0.2 fod.nii.gz track.tck
....
tckgen [INFO]: step size = 0.2 mm
tckgen [INFO]: maximum deviation angle = 14.4 deg
tckgen [INFO]: minimum radius of curvature = 1.25 mm
tckgen [INFO]: iFOD2 internal step size = 0.0666667 mm
tckgen [INFO]: opening image "fod.nii.gz"...
tckgen [INFO]: rejection sampling will use 7 directions with a ratio of
1.0728 (predicted number of samples per step = 8.0391)
   61056 generated,     9984 selected    [ 99%]

it runs until it almost reachs the total count of fibers requested then get
stuck there using all the cpu resources allocated with nthreads, it only
happens when using seed_dynamic.
A slightly earlier version of mrtrix3 (
52617b9f3a4d58f50d0e802d2609bc7fb503da21 ) does not have this bug. Looking
at the diff shows mainly changes related to strides but the fod have been
generated with the latest version.

thanks for you help.

cheers

-- 
Basile Pinsard

*PhD candidate*
Laboratoire d'Imagerie Biomédicale, UMR S 1146 / UMR 7371, Sorbonne
Universités, UPMC, INSERM, CNRS
Unité de Neuroimagerie Fonctionnelle, CRIUGM, Université de Montréal
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