old_contents: #!/usr/bin/env python
  # -*- coding: utf-8 -*-
  # emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
  # vi: set ft=python sts=4 ts=4 sw=4 et:
  """
  Utilities to handle BIDS inputs
  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  
  Fetch some test data
  
      >>> import os
      >>> from niworkflows import data
      >>> data_root = data.get_bids_examples(variant='BIDS-examples-1-enh-ds054')
      >>> os.chdir(data_root)
  
  """
  import os
  import json
  from pathlib import Path
  
  
  def write_derivative_description(bids_dir, deriv_dir):
      from ..__about__ import __version__, __url__, DOWNLOAD_URL
  
      bids_dir = Path(bids_dir)
      deriv_dir = Path(deriv_dir)
      desc = {
          'Name': 'fMRIPrep - fMRI PREProcessing workflow',
          'BIDSVersion': '1.1.1',
          'PipelineDescription': {
              'Name': 'fMRIPrep',
              'Version': __version__,
              'CodeURL': DOWNLOAD_URL,
          },
          'CodeURL': __url__,
          'HowToAcknowledge':
              'Please cite our paper (https://doi.org/10.1038/s41592-018-0235-4), '
              'and include the generated citation boilerplate within the Methods '
              'section of the text.',
      }
  
      # Keys that can only be set by environment
      if 'FMRIPREP_DOCKER_TAG' in os.environ:
          desc['DockerHubContainerTag'] = os.environ['FMRIPREP_DOCKER_TAG']
      if 'FMRIPREP_SINGULARITY_URL' in os.environ:
          singularity_url = os.environ['FMRIPREP_SINGULARITY_URL']
          desc['SingularityContainerURL'] = singularity_url
  
          singularity_md5 = _get_shub_version(singularity_url)
          if singularity_md5 and singularity_md5 is not NotImplemented:
              desc['SingularityContainerMD5'] = _get_shub_version(singularity_url)
  
      # Keys deriving from source dataset
      orig_desc = {}
      fname = bids_dir / 'dataset_description.json'
      if fname.exists():
          with fname.open() as fobj:
              orig_desc = json.load(fobj)
  
      if 'DatasetDOI' in orig_desc:
          desc['SourceDatasetsURLs'] = ['https://doi.org/{}'.format(
              orig_desc['DatasetDOI'])]
      if 'License' in orig_desc:
          desc['License'] = orig_desc['License']
  
      with (deriv_dir / 'dataset_description.json').open('w') as fobj:
          json.dump(desc, fobj, indent=4)
  
  
  def _get_shub_version(singularity_url):
      return NotImplemented
  
new_contents: #!/usr/bin/env python
  # -*- coding: utf-8 -*-
  # emacs: -*- mode: python; py-indent-offset: 4; indent-tabs-mode: nil -*-
  # vi: set ft=python sts=4 ts=4 sw=4 et:
  """
  Utilities to handle BIDS inputs
  ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
  
  """
  import os
  import json
  from pathlib import Path
  
  
  def write_derivative_description(bids_dir, deriv_dir):
      from ..__about__ import __version__, __url__, DOWNLOAD_URL
  
      bids_dir = Path(bids_dir)
      deriv_dir = Path(deriv_dir)
      desc = {
          'Name': 'fMRIPrep - fMRI PREProcessing workflow',
          'BIDSVersion': '1.1.1',
          'PipelineDescription': {
              'Name': 'fMRIPrep',
              'Version': __version__,
              'CodeURL': DOWNLOAD_URL,
          },
          'CodeURL': __url__,
          'HowToAcknowledge':
              'Please cite our paper (https://doi.org/10.1038/s41592-018-0235-4), '
              'and include the generated citation boilerplate within the Methods '
              'section of the text.',
      }
  
      # Keys that can only be set by environment
      if 'FMRIPREP_DOCKER_TAG' in os.environ:
          desc['DockerHubContainerTag'] = os.environ['FMRIPREP_DOCKER_TAG']
      if 'FMRIPREP_SINGULARITY_URL' in os.environ:
          singularity_url = os.environ['FMRIPREP_SINGULARITY_URL']
          desc['SingularityContainerURL'] = singularity_url
  
          singularity_md5 = _get_shub_version(singularity_url)
          if singularity_md5 and singularity_md5 is not NotImplemented:
              desc['SingularityContainerMD5'] = _get_shub_version(singularity_url)
  
      # Keys deriving from source dataset
      orig_desc = {}
      fname = bids_dir / 'dataset_description.json'
      if fname.exists():
          with fname.open() as fobj:
              orig_desc = json.load(fobj)
  
      if 'DatasetDOI' in orig_desc:
          desc['SourceDatasetsURLs'] = ['https://doi.org/{}'.format(
              orig_desc['DatasetDOI'])]
      if 'License' in orig_desc:
          desc['License'] = orig_desc['License']
  
      with (deriv_dir / 'dataset_description.json').open('w') as fobj:
          json.dump(desc, fobj, indent=4)
  
  
  def _get_shub_version(singularity_url):
      return NotImplemented
  
subject: Update bids.py