Closed KateJGodfrey closed 2 years ago
Can you try reproducing the ants registration issue without the nipype layer?
Can you try printing myar.cmdline
and post that here?
No moving mask is provided in the nipype call, thus, this output is expected. The call is probably --masks [<fixedmask>]
Describe the problem
ANTs registration issue: file NULL does not exist.
Script worked previously so I am wondering if it's a version issue, however ANTs and nipype work for previous steps (N4 bias correction and brain extraction). The following step (ANTs atropos) requires a mask and also works. It's just the registration step.
220719-12:10:01,0 nipype.interface INFO: stderr 2022-07-19T12:10:01.000322: file NULL does not exist .
220719-12:10:01,26 nipype.interface INFO: stderr 2022-07-19T12:10:01.026533: file NULL does not exist .
220719-12:10:01,55 nipype.interface INFO: stderr 2022-07-19T12:10:01.055746: file NULL does not exist .
To Reproduce
Script to reproduce the issue and example data provided. Previous steps (bias field correction and brain extraction) retained as comments for context.
ANTS-Reg-Issue.zip
Code was run through terminal
python3 reg_issue.py
Problem code provided here
System information (please complete the following information)
ANTs version information