def test_combine_labels5():
in1 = [
OrderedDict(index=1, name='T1', abbr='blah'),
OrderedDict(index=2, name='T2')
]
in2 = [OrderedDict(index=1, name='T3'), OrderedDict(index=2, name='T4')]
with pytest.raises(ValueError):
utils.combine_labels(in1, in2)
def _update_args(args):
args.plugin_args = _get_plugin_args(args)
if args.analysis_level == 'participant':
if args.subcortical:
for req in [
'subcortical_model', 'subcortical_model_brain_mask',
'subcortical_atlas', 'subcortical_model_space'
]:
if getattr(args, req) is None:
raise ValueError(
'If "--subcortical" is set then {req} must be specified'
)
if args.intracranial_volume:
if args.intracranial_mask is None:
raise ValueError(
'If "--intracranial_volume" is set then "intracranial_mask" must be specified'
)
for label_name in ['atlas', 'tissue', 'subcortical']:
setattr(args, f'{label_name}_labels',
Labels.from_args(args, label_name))
setattr(
args, 'tissue_and_atlas_labels',
Labels.from_labels(
utils.combine_labels(args.tissue_labels.labels,
args.atlas_labels.labels)))
bids_filter = {}
for filter_par in [
'filter_session', 'filter_acquisition',
'filter_reconstruction', 'filter_run'
]:
if filter_par in args:
bids_filter[filter_par.split('_')[1]] = getattr(
args, filter_par)
args.bids_filter = bids_filter
def test_combine_labels():
in1 = [OrderedDict(index=1, name='T1'), OrderedDict(index=2, name='T2')]
in2 = [OrderedDict(index=1, name='T3'), OrderedDict(index=2, name='T4')]
out = utils.combine_labels(in1, in2)
indices = [1, 2, 3, 4]
names = ['T1+T3', 'T2+T3', 'T1+T4', 'T2+T4']
for outtmp, index, name in zip(out, indices, names):
assert outtmp['index'] == index
assert outtmp['name'] == name
def test_combine_labels2():
in1 = [
OrderedDict(index=1, name='T1'),
OrderedDict(index=2, name='T2'),
OrderedDict(index=3, name='T3')
]
in2 = [OrderedDict(index=1, name='T4'), OrderedDict(index=2, name='T5')]
out = utils.combine_labels(in1, in2)
indices = list(range(1, 7))
names = ['T1+T4', 'T2+T4', 'T3+T4', 'T1+T5', 'T2+T5', 'T3+T5']
for outtmp, index, name in zip(out, indices, names):
assert outtmp['index'] == index
assert outtmp['name'] == name
def test_combine_labels3():
in1 = [
OrderedDict(index=1, name='A1'),
OrderedDict(index=2, name='A2'),
OrderedDict(index=3, name='A3')
]
in2 = [OrderedDict(index=1, name='B1'), OrderedDict(index=2, name='B2')]
in3 = [OrderedDict(index=4, name='C4'), OrderedDict(index=5, name='C5')]
out = utils.combine_labels(in1, in2, in3)
indices = [19, 20, 21, 22, 23, 24, 25, 26, 27, 28, 29, 30]
names = [
'A1+B1+C4', 'A2+B1+C4', 'A3+B1+C4', 'A1+B2+C4', 'A2+B2+C4', 'A3+B2+C4',
'A1+B1+C5', 'A2+B1+C5', 'A3+B1+C5', 'A1+B2+C5', 'A2+B2+C5', 'A3+B2+C5'
]
for outtmp, index, name in zip(out, indices, names):
assert outtmp['index'] == index
assert outtmp['name'] == name
def test_combine_labels6():
in1 = [OrderedDict(index=1, name='T1'), OrderedDict(index=2, name='T2')]
in2 = [OrderedDict(index=1), OrderedDict(index=2)]
with pytest.raises(ValueError):
utils.combine_labels(in1, in2)
