We read every piece of feedback, and take your input very seriously.
To see all available qualifiers, see our documentation.
Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.
By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.
Already on GitHub? Sign in to your account
Interface crashes because of "-" before algorithm specification.
RuntimeError: Command:
dwibiascorrect -mask <mask_file> -ants <in_file> <out_file> Standard output: Standard error: Error: argument algorithm: invalid choice: <in_file> (choose from 'ants', 'fsl') Usage: dwibiascorrect algorithm [ options ] ... (Run dwibiascorrect -help for more information) Return code: 1
The expected behavior would be to execute the following command:
dwibiascorrect ants [options] <in_file> <out_file>
To replicate the behavior, simply execute:
import nipype.interface.mrtrix3 as mrt bc = mrt.DWIBiasCorrect() bc.inputs.in_file = <in_file> bc.inputs.out_file = <out_file> bc.inputs.use_ants = True bc.run()
Running on a 64 bit Linux machine (Ubuntu)
{'commit_hash': '72945ef34', 'commit_source': 'installation', 'networkx_version': '2.4', 'nibabel_version': '3.0.0', 'nipype_version': '1.5.0', 'numpy_version': '1.19.0', 'pkg_path': '/home/groot/Projects/labbing/venv/lib/python3.7/site-packages/nipype', 'scipy_version': '1.5.0', 'sys_executable': '/home/groot/Projects/labbing/venv/bin/python', 'sys_platform': 'linux', 'sys_version': '3.7.8 (default, Jun 29 2020, 04:26:04) \n[GCC 9.3.0]', 'traits_version': '6.1.1'}
The text was updated successfully, but these errors were encountered:
Successfully merging a pull request may close this issue.
Interface crashes because of "-" before algorithm specification.
The expected behavior would be to execute the following command:
To replicate the behavior, simply execute:
Running on a 64 bit Linux machine (Ubuntu)
The text was updated successfully, but these errors were encountered: