fmriprep: FileNotFoundError: [Errno 2] No such file or directory: 'result_merge_confound_metadata.pklz'

Hello we’ve been getting file not found errors with fmriprep-docker.

I’ve tried running without the wrapper: sudo docker run -v /louis/raw_bids:/data -v /louis/derivatives:/out -v /louis/tmp:/scratch -v /usr/local/freesurfer:/freesurfer poldracklab/fmriprep:1.5.0 --fs-license-file=/freesurfer/license.txt --ignore slicetiming --output-spaces MNI152NLin2009cAsym:res-2 T1w fsaverage5 --participant-label 12345 -w /scratch /data /out participant

Rather late in processing the following error occurs:

Node: fmriprep_wf.single_subject_12345_wf.func_preproc_task_reapp_run_06_wf.bold_confounds_wf.merge_confound_metadata
Working directory: /scratch/fmriprep_wf/single_subject_12345_wf/func_preproc_task_reapp_run_06_wf/bold_confounds_wf/merge_confound_metadata

...

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/plugins/multiproc.py", line 316, in _send_procs_to_workers
    self.procs[jobid].run(updatehash=updatehash)
  File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 488, in run
    self, report_type='postexec', is_mapnode=isinstance(self, MapNode))
  File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/utils.py", line 152, in write_report
    result = node.result  # Locally cache result
  File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/nodes.py", line 198, in result
    op.join(self.output_dir(), 'result_%s.pklz' % self.name))[0]
  File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/pipeline/engine/utils.py", line 300, in load_resultfile
    result = loadpkl(results_file)
  File "/usr/local/miniconda/lib/python3.7/site-packages/nipype/utils/filemanip.py", line 687, in loadpkl
    pkl_file = pklopen(infile.name, 'rb')
  File "/usr/local/miniconda/lib/python3.7/gzip.py", line 53, in open
    binary_file = GzipFile(filename, gz_mode, compresslevel)
  File "/usr/local/miniconda/lib/python3.7/gzip.py", line 163, in __init__
    fileobj = self.myfileobj = builtins.open(filename, mode or 'rb')
FileNotFoundError: [Errno 2] No such file or directory: 'result_merge_confound_metadata.pklz'

A second error #1807 also occurs.

I will post the log of fmriprep-docker when that finishes.

I understand an update is slated for #1807, is this related?

Many thanks, Louis