fmriprep: indexed_gzip.indexed_gzip.ZranError: zran_seek returned error: -1

DS000115 / sub-31 DS000119 / sub-74 DS000052 / sub-08 DS000121 / sub-04

Seems like a bad interaction between nilearn and the indexed_gzip or memory errors.

Node: fmriprep_wf.single_subject_31_wf.func_preproc_task_letter2backtask_wf.bold_mni_trans_wf.merge
Working directory: /scratch/03763/oesteban/fmriprep-phase1/work/ds000115/fmriprep_wf/single_subject_31_wf/func_preproc_task_letter2backtask_wf/bold_mni_trans_wf/merge

Node inputs:

compress = True
dtype = f4
header_source = /work/03843/crn_plab/stampede2/fmriprep-phase2/data/openfmri/ds000115/sub-31/func/sub-31_task-letter2backtask_bold.nii.gz
ignore_exception = False
in_files = [ ... ]

Traceback (most recent call last):
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/pipeline/plugins/multiproc.py", line 51, 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 407, in run
    self._run_interface()
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/pipeline/engine/nodes.py", line 517, 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 650, in _run_command
    result = self._interface.run()
  File "/usr/local/miniconda/lib/python3.6/site-packages/niworkflows/nipype/interfaces/base.py", line 1088, in run
    runtime = self._run_interface(runtime)
  File "/usr/local/miniconda/lib/python3.6/site-packages/fmriprep/interfaces/nilearn.py", line 94, in _run_interface
    new_nii = concat_imgs(self.inputs.in_files, dtype=self.inputs.dtype)
  File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/_utils/niimg_conversions.py", line 464, in concat_niimgs
    memory=memory, memory_level=memory_level))):
  File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/_utils/niimg_conversions.py", line 133, in _iter_check_niimg
    dtype=dtype)
  File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/_utils/niimg_conversions.py", line 271, in check_niimg
    niimg = load_niimg(niimg, dtype=dtype)
  File "/usr/local/miniconda/lib/python3.6/site-packages/nilearn/_utils/niimg.py", line 116, in load_niimg
    dtype = _get_target_dtype(niimg.get_data().dtype, dtype)
  File "/usr/local/miniconda/lib/python3.6/site-packages/nibabel/dataobj_images.py", line 202, in get_data
    data = np.asanyarray(self._dataobj)
  File "/usr/local/miniconda/lib/python3.6/site-packages/numpy/core/numeric.py", line 583, in asanyarray
    return array(a, dtype, copy=False, order=order, subok=True)
  File "/usr/local/miniconda/lib/python3.6/site-packages/nibabel/arrayproxy.py", line 290, in __array__
    raw_data = self.get_unscaled()
  File "/usr/local/miniconda/lib/python3.6/site-packages/nibabel/arrayproxy.py", line 285, in get_unscaled
    mmap=self._mmap)
  File "/usr/local/miniconda/lib/python3.6/site-packages/nibabel/volumeutils.py", line 521, in array_from_file
    infile.seek(offset)
  File "indexed_gzip/indexed_gzip.pyx", line 311, in indexed_gzip.indexed_gzip.IndexedGzipFile.seek
indexed_gzip.indexed_gzip.ZranError: zran_seek returned error: -1