Nipype fails with new networkx (>=2.0) because of API changes

[mvdoc]

Summary

Nipype installed from scratch with miniconda from conda-forge fails because networkx changed API and Graphs are missing in_edges_iter. See NetworkX 2.0 announcement. Works fine by downgrading networkx.

Actual behavior

# python -c 'from nipype.workflows.dmri.fsl.artifacts import all_fmb_pipeline;allcorr = all_fmb_pipeline()'

Traceback (most recent call last):
  File "<string>", line 1, in <module>
  File "/home/contematto/miniconda3/envs/nipype/lib/python3.6/site-packages/nipype/workflows/dmri/fsl/artifacts.py", line 72, in all_fmb_pipeline
    hmc = hmc_pipeline()
  File "/home/contematto/miniconda3/envs/nipype/lib/python3.6/site-packages/nipype/workflows/dmri/fsl/artifacts.py", line 394, in hmc_pipeline
    (insmat, outputnode, [('out', 'out_xfms')])
  File "/home/contematto/miniconda3/envs/nipype/lib/python3.6/site-packages/nipype/pipeline/engine/workflows.py", line 207, in connect
    if not destnode._check_inputs(dest):
  File "/home/contematto/miniconda3/envs/nipype/lib/python3.6/site-packages/nipype/pipeline/engine/workflows.py", line 741, in _check_inputs
    return self._has_attr(parameter, subtype='in')
  File "/home/contematto/miniconda3/envs/nipype/lib/python3.6/site-packages/nipype/pipeline/engine/workflows.py", line 712, in _has_attr
    subobject = self.inputs
  File "/home/contematto/miniconda3/envs/nipype/lib/python3.6/site-packages/nipype/pipeline/engine/workflows.py", line 356, in inputs
    return self._get_inputs()
  File "/home/contematto/miniconda3/envs/nipype/lib/python3.6/site-packages/nipype/pipeline/engine/workflows.py", line 756, in _get_inputs
    for _, _, d in self._graph.in_edges_iter(nbunch=node,
AttributeError: 'DiGraph' object has no attribute 'in_edges_iter'

How to replicate the behavior

conda create -n nipype python=3.6 scipy numpy jupyter seaborn
source activate nipype
conda install -c conda-forge nipype
python -c 'from nipype.workflows.dmri.fsl.artifacts import all_fmb_pipeline;allcorr = all_fmb_pipeline()'

Platform details:

{'pkg_path': '/home/contematto/miniconda3/envs/nipype/lib/python3.6/site-packages/nipype', 'commit_source': 'archive substitution', 'commit_hash': '%h', 'nipype_version': '0.13.1', 'sys_version': '3.6.3 |Anaconda, Inc.| (default, Oct 27 2017, 19:41:01) \n[GCC 7.2.0]', 'sys_executable': '/home/contematto/miniconda3/envs/nipype/bin/python', 'sys_platform': 'linux', 'numpy_version': '1.13.3', 'scipy_version': '0.19.1', 'networkx_version': '2.0', 'nibabel_version': '2.2.0', 'traits_version': '4.6.0'}

[oesteban]

That should be fixed as of #2196, however that happened after the latest release. Updating to current master should do.

[mvdoc]

👍 sorry, didn't see that PR/issues.