def test_copyfile_kit(tmpdir):
"""Test copying and renaming KIT files to a new location."""
output_path = str(tmpdir)
data_path = op.join(base_path, 'kit', 'tests', 'data')
raw_fname = op.join(data_path, 'test.sqd')
hpi_fname = op.join(data_path, 'test_mrk.sqd')
electrode_fname = op.join(data_path, 'test.elp')
headshape_fname = op.join(data_path, 'test.hsp')
subject_id = '01'
session_id = '01'
run = '01'
acq = '01'
task = 'testing'
raw = mne.io.read_raw_kit(
raw_fname, mrk=hpi_fname, elp=electrode_fname,
hsp=headshape_fname)
_, ext = _parse_ext(raw_fname, verbose=True)
datatype = _handle_datatype(raw)
bids_path = BIDSPath(
subject=subject_id, session=session_id, run=run, acquisition=acq,
task=task)
kit_bids_path = bids_path.copy().update(acquisition=None,
datatype=datatype,
root=output_path)
bids_fname = str(bids_path.copy().update(datatype=datatype,
suffix=datatype,
extension=ext,
root=output_path))
copyfile_kit(raw_fname, bids_fname, subject_id, session_id,
task, run, raw._init_kwargs)
assert op.exists(bids_fname)
_, ext = _parse_ext(hpi_fname, verbose=True)
if ext == '.sqd':
kit_bids_path.update(suffix='markers', extension='.sqd')
assert op.exists(kit_bids_path)
elif ext == '.mrk':
kit_bids_path.update(suffix='markers', extension='.mrk')
assert op.exists(kit_bids_path)
if op.exists(electrode_fname):
task, run, key = None, None, 'ELP'
elp_ext = '.pos'
elp_fname = BIDSPath(
subject=subject_id, session=session_id, task=task, run=run,
acquisition=key, suffix='headshape', extension=elp_ext,
datatype='meg', root=output_path)
assert op.exists(elp_fname)
if op.exists(headshape_fname):
task, run, key = None, None, 'HSP'
hsp_ext = '.pos'
hsp_fname = BIDSPath(
subject=subject_id, session=session_id, task=task, run=run,
acquisition=key, suffix='headshape', extension=hsp_ext,
datatype='meg', root=output_path)
assert op.exists(hsp_fname)
def test_copyfile_kit():
"""Test copying and renaming KIT files to a new location."""
output_path = _TempDir()
data_path = op.join(base_path, 'kit', 'tests', 'data')
raw_fname = op.join(data_path, 'test.sqd')
hpi_fname = op.join(data_path, 'test_mrk.sqd')
electrode_fname = op.join(data_path, 'test.elp')
headshape_fname = op.join(data_path, 'test.hsp')
subject_id = '01'
session_id = '01'
run = '01'
acq = '01'
task = 'testing'
bids_basename = make_bids_basename(
subject=subject_id, session=session_id, run=run, acquisition=acq,
task=task)
kit_bids_basename = bids_basename.copy().update(acquisition=None,
prefix=output_path)
raw = mne.io.read_raw_kit(
raw_fname, mrk=hpi_fname, elp=electrode_fname,
hsp=headshape_fname)
_, ext = _parse_ext(raw_fname, verbose=True)
kind = _handle_kind(raw)
bids_fname = str(bids_basename.copy().update(suffix=f'{kind}{ext}',
prefix=output_path))
copyfile_kit(raw_fname, bids_fname, subject_id, session_id,
task, run, raw._init_kwargs)
assert op.exists(bids_fname)
_, ext = _parse_ext(hpi_fname, verbose=True)
if ext == '.sqd':
kit_bids_basename.suffix = 'markers.sqd'
assert op.exists(kit_bids_basename)
elif ext == '.mrk':
kit_bids_basename.suffix = 'markers.mrk'
assert op.exists(kit_bids_basename)
if op.exists(electrode_fname):
task, run, key = None, None, 'ELP'
elp_ext = '.pos'
elp_fname = make_bids_basename(
subject=subject_id, session=session_id, task=task, run=run,
acquisition=key, suffix='headshape%s' % elp_ext,
prefix=output_path)
assert op.exists(elp_fname)
if op.exists(headshape_fname):
task, run, key = None, None, 'HSP'
hsp_ext = '.pos'
hsp_fname = make_bids_basename(
subject=subject_id, session=session_id, task=task, run=run,
acquisition=key, suffix='headshape%s' % hsp_ext,
prefix=output_path)
assert op.exists(hsp_fname)