AFNI's SkullStrip needs a $DISPLAY again after version 16.2.07

[oesteban]

Summary

It seems that AFNI's 3dSkullStrip is again linking libraries that need a functional X server.

Actual behavior

2017-09-25 20:17:53,524 workflow:INFO Running: 3dSkullStrip -input /scratch/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..circle-tests..sub-50137..anat..sub-50137_T1w.nii.gz/skullstrip/sub-50137_T1w_conformed_corrected.nii.gz -prefix sub-50137_T1w_conformed_corrected_skullstrip.nii.gz
2017-09-25 20:17:53,613 workflow:ERROR ['Node skullstrip.a0 failed to run on host 96ff9afc656c.']
2017-09-25 20:17:53,614 workflow:INFO Saving crash info to /scratch/out/logs/crash-20170925-201753-root-skullstrip.a0-c8da4299-b3c4-4afd-bda5-14d2a723f97d.txt
2017-09-25 20:17:53,614 workflow:INFO Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/pipeline/plugins/multiproc.py", line 52, in run_node
    result['result'] = node.run(updatehash=updatehash)
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/pipeline/engine/nodes.py", line 372, in run
    self._run_interface()
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/pipeline/engine/nodes.py", line 482, in _run_interface
    self._result = self._run_command(execute)
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/pipeline/engine/nodes.py", line 613, in _run_command
    result = self._interface.run()
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/interfaces/base.py", line 1084, in run
    runtime = self._run_wrapper(runtime)
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/interfaces/base.py", line 1758, in _run_wrapper
    runtime = self._run_interface(runtime)
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/interfaces/afni/base.py", line 188, in _run_interface
    return super(AFNICommand, self)._run_interface(runtime)
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/interfaces/afni/base.py", line 126, in _run_interface
    return super(AFNICommandBase, self)._run_interface(runtime)
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/interfaces/base.py", line 1792, in _run_interface
    self.raise_exception(runtime)
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/interfaces/base.py", line 1716, in raise_exception
    **runtime.dictcopy()))
RuntimeError: Command:
3dSkullStrip -input /scratch/work/workflow_enumerator/anatMRIQCT1w/AFNISkullStripWorkflow/_in_file_..data..circle-tests..sub-50137..anat..sub-50137_T1w.nii.gz/skullstrip/sub-50137_T1w_conformed_corrected.nii.gz -prefix sub-50137_T1w_conformed_corrected_skullstrip.nii.gz
Standard output:

Standard error:
freeglut (3dSkullStrip): failed to open display ':1'

Return code: 1
Interface SkullStrip failed to run.

Expected behavior

The interface should run, opening an Xvfb if no X is available.

Other

• How to replicate the behavior
• Script/Workflow details
• Platform details:
• Execution environment

All of that on MRIQC's tests: https://circleci.com/gh/poldracklab/mriqc/1935