def test_locate_h5_objects(simple_h5):
matcher_cb = functools.partial(h5_utilities.h5_object_matcher_relname_in, ['c', 'e'])
matches = h5_utilities.locate_h5_objects(matcher_cb, simple_h5)
match_names = [ match.name for match in matches ]
assert( set(match_names) == set(['/a/e', '/a/b/c']) )
def test_locate_h5_objects(simple_h5):
matcher_cb = functools.partial(h5_utilities.h5_object_matcher_relname_in,
['c', 'e'])
matches = h5_utilities.locate_h5_objects(matcher_cb, simple_h5)
match_names = [match.name for match in matches]
assert (set(match_names) == set(['/a/e', '/a/b/c']))
def _find_stimulus_presentation_group(
nwb_file,
stimulus_name,
base_path=_STIMULUS_PRESENTATION_PATH,
group_patterns=_STIMULUS_PRESENTATION_PATTERNS):
''' Searches an NWB file for a stimulus presentation group.
Parameters
----------
nwb_file : h5py.File
File to search
stimulus_name : str
Identifier for this stimulus. Corresponds to the relative name of its h5
group.
base_path : str, optional
Begin the search from here. Defaults to 'stimulus/presentation'
group_patterns : array-like of str, optional
Patterns for the relative name of the stimulus' h5 group. Defaults to
the name, and the name suffixed by '_stimulus'
Returns
-------
h5py.Group, h5py.Dataset :
h5 object found
'''
group_candidates = [
pattern.format(stimulus_name) for pattern in group_patterns
]
matcher = functools.partial(h5_utilities.h5_object_matcher_relname_in,
group_candidates)
matches = h5_utilities.locate_h5_objects(matcher, nwb_file, base_path)
if len(matches) == 0:
raise MissingStimulusException(
'Unable to locate stimulus: {}. '
'Looked for this stimulus under the names: {} '.format(
stimulus_name, group_candidates))
if len(matches) > 1:
raise MissingStimulusException(
'Unable to locate stimulus: {}. '
'Found multiple matching stimuli: {}'.format(
stimulus_name, [match.name for match in matches]))
return matches[0]
def _find_stimulus_presentation_group(nwb_file,
stimulus_name,
base_path=_STIMULUS_PRESENTATION_PATH,
group_patterns=_STIMULUS_PRESENTATION_PATTERNS):
''' Searches an NWB file for a stimulus presentation group.
Parameters
----------
nwb_file : h5py.File
File to search
stimulus_name : str
Identifier for this stimulus. Corresponds to the relative name of its h5
group.
base_path : str, optional
Begin the search from here. Defaults to 'stimulus/presentation'
group_patterns : array-like of str, optional
Patterns for the relative name of the stimulus' h5 group. Defaults to
the name, and the name suffixed by '_stimulus'
Returns
-------
h5py.Group, h5py.Dataset :
h5 object found
'''
group_candidates = [ pattern.format(stimulus_name) for pattern in group_patterns ]
matcher = functools.partial(h5_utilities.h5_object_matcher_relname_in, group_candidates)
matches = h5_utilities.locate_h5_objects(matcher, nwb_file, base_path)
if len(matches) == 0:
raise MissingStimulusException(
'Unable to locate stimulus: {}. '
'Looked for this stimulus under the names: {} '.format(stimulus_name, group_candidates)
)
if len(matches) > 1:
raise MissingStimulusException(
'Unable to locate stimulus: {}. '
'Found multiple matching stimuli: {}'.format(stimulus_name, [match.name for match in matches])
)
return matches[0]