Hello!
We run probtrackx using the Fdt GUI, and now want to try running the same thing
with the command line. I am currently having some problems with the setup.
Specifications:
We are using a binary mask of a seedregion (when we use the GUI, under 'seed
space' we select 'single mask'). We use loopcheck. Using curvature threshold
of 0.2, # samples = 5000, max # of steps = 2000, step lenght= 0.5mm...I believe
those are all default so do not need to be in command line?
Being run in a subjects individual bedpostX directiory: Here is my latest
attempt:
[purkinje:005.bedpostX] (nmr-stable5.1-env) probtrackx -m
ctrl01_sess1_Left-antAL_binarydot5.nii.gz --dir=Left-antAL --forcedir -o
ctrl01_sess1_ptracx_Left-antAL.nii.gz --loopcheck
When I enter this into a terminal I get no error reports, it just shows me the
text from probtrackx --help.
Am I doing something wrong? Is there something I am not specifying?
Any help/suggestions are much appreciated,
Sandra
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