Summary

When running nipy/mindboggle, nipype raises a UnicodeEncodeError in multiple places where files are written. This is fixed when adding "encoding='utf-8'".

Actual behavior

Here are three instances in two files:

File "/opt/miniconda-latest/envs/mb/lib/python3.6/site-packages/nipype/utils/filemanip.py", line 694, in crash2txt
fp.write('Node inputs:\n{}\n'.format(node.inputs))
UnicodeEncodeError: 'ascii' codec can't encode character '\u2019' in position 495764: ordinal not in range(128)

File "/opt/miniconda-latest/envs/mb/lib/python3.6/site-packages/nipype/pipeline/engine/utils.py", li
ne 225, in write_report

File "/opt/miniconda-latest/envs/mb/lib/python3.6/site-packages/nipype/pipeline/engine/utils.py", line 141, in write_report
fp.write('\n'.join(lines))
UnicodeEncodeError: 'ascii' codec can't encode character '\u2019' in position 1765: ordinal not in range(128)

Expected behavior

How to replicate the behavior

Script/Workflow details

Please put URL to code or code here (if not too long).

Platform details:

neurodocker.sh:
--miniconda
conda_install="python=3.6 pip jupyter cmake mesalib vtk=8.2 pandas
matplotlib colormath nipype>=1.1.4 tbb-devel nose" \

nipype 1.2.0-py36_0

{'commit_hash': '%h',
 'commit_source': 'archive substitution',
 'networkx_version': '2.3',
 'nibabel_version': '2.4.1',
 'nipype_version': '1.2.0',
 'numpy_version': '1.16.4',
 'pkg_path': '/opt/miniconda-latest/envs/mb/lib/python3.6/site-packages/nipype',
 'scipy_version': '1.3.0',
 'sys_executable': '/opt/miniconda-latest/envs/mb/bin/python',
 'sys_platform': 'linux',
 'sys_version': '3.6.7 | packaged by conda-forge | (default, Feb 28 2019, '
                '09:07:38) \n'
                '[GCC 7.3.0]',
 'traits_version': '5.1.1'}

Execution environment

Choose one

• Container [Tag: nipy/mindboggle]
• My python environment inside container [Base Tag: ???]
  Python 3.6.7 | packaged by conda-forge | (default, Feb 28 2019, 09:07:38)
• My python environment outside container