Closed
Description
Summary
It looks like there is some incompatibility currently with FSL interfaces (and possibly others) with py2 and traits 5.0
https://neurostars.org/t/cant-pickle-instancemethod-when-using-mapnode-in-nipype/4052/4?u=mgxd
Actual behavior
from nipype import MapNode, Workflow
from nipype.interfaces.fsl import BET
better = MapNode(BET(), iterfield=['in_file'], name='better')
better.inputs.in_file = ['/path/to/some/image'] * 2
wf = Workflow('testwf')
wf.add_nodes([better])
wf.run()
...
...
TypeError: can't pickle instancemethod objectsExpected behavior
[Node] Finished "testwf.better".
Platform details:
{'commit_hash': 'ec7457c23',
'commit_source': 'installation',
'networkx_version': '2.2',
'nibabel_version': '2.3.0',
'nipype_version': '1.1.3',
'numpy_version': '1.15.2',
'pkg_path': '/om2/user/mathiasg/miniconda/envs/py2/lib/python2.7/site-packages/nipype',
'scipy_version': '1.1.0',
'sys_executable': '/om2/user/mathiasg/miniconda/envs/py2/bin/python',
'sys_platform': 'linux2',
'sys_version': '2.7.14 |Anaconda, Inc.| (default, Mar 12 2018, 12:37:12) \n[GCC 7.2.0]',
'traits_version': '5.0.0'}
Execution environment
Choose one
- My python environment outside container