Hi,
I'm glad you found that option. The ADNI advanced protocol (also used by several other studies) uses the same b values, with 6 directions at b = 500, and many more at b > 500 s/mm^2, all in approximately isotropic shells. But with a minimal number of directions at b = 500, and no great need for more, it does tend to run up against eddy's default opinion of what constitutes a shell.
Best regards,
Rob
-----Original Message-----
From: FSL - FMRIB's Software Library <[log in to unmask]> On Behalf Of Alessandra Caporale
Sent: Tuesday, January 24, 2023 5:43 AM
To: [log in to unmask]
Subject: [EXTERNAL] [FSL] FSL - eddy_cuda
I post this just as an update: I have solved the problems I had with eddy_cuda.
I had the correct version of CUDA, so I tried to run eddy_cuda on other diffusion data, and it went well.
The problem with the new diffusion dataset was that the diffusion data included several b-values (b=0,500,1000,2000), and I had omitted the flag --data_is_shelled.
With that flag added at the end of the command, eddy_cuda ran without a hitch!
I thank you again for your support and quick reply, which were both much appreciated!
Stella
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