def test_fetch_atlas_aal(tmp_path, request_mocker):
ho_dir = str(tmp_path / 'aal_SPM12' / 'aal' / 'atlas')
os.makedirs(ho_dir)
with open(os.path.join(ho_dir, 'AAL.xml'), 'w') as xml_file:
xml_file.write("<?xml version='1.0' encoding='us-ascii'?> "
"<metadata>"
"</metadata>")
dataset = atlas.fetch_atlas_aal(data_dir=str(tmp_path), verbose=0)
assert isinstance(dataset.maps, _basestring)
assert isinstance(dataset.labels, list)
assert isinstance(dataset.indices, list)
assert len(tst.mock_url_request.urls) == 1
with pytest.raises(ValueError,
match='The version of AAL requested "FLS33"'):
atlas.fetch_atlas_aal(version="FLS33",
data_dir=str(tmp_path),
verbose=0)
assert dataset.description != ''
def test_fetch_atlas_aal(tmp_path, request_mocker):
metadata = (b"<?xml version='1.0' encoding='us-ascii'?>"
b"<metadata></metadata>")
archive_root = Path("aal", "atlas")
aal_data = dict_to_archive({
archive_root / "AAL.xml": metadata,
archive_root / "AAL.nii": ""
})
request_mocker.url_mapping["*AAL_files*"] = aal_data
dataset = atlas.fetch_atlas_aal(data_dir=tmp_path, verbose=0)
assert isinstance(dataset.maps, str)
assert isinstance(dataset.labels, list)
assert isinstance(dataset.indices, list)
assert request_mocker.url_count == 1
with pytest.raises(ValueError,
match='The version of AAL requested "FLS33"'):
atlas.fetch_atlas_aal(version="FLS33", data_dir=tmp_path, verbose=0)
assert dataset.description != ''
def test_fetch_atlas_aal():
ho_dir = os.path.join(tst.tmpdir, 'aal_SPM12', 'aal', 'atlas')
os.makedirs(ho_dir)
with open(os.path.join(ho_dir, 'AAL.xml'), 'w') as xml_file:
xml_file.write("<?xml version='1.0' encoding='us-ascii'?> "
"<metadata>"
"</metadata>")
dataset = atlas.fetch_atlas_aal(data_dir=tst.tmpdir, verbose=0)
assert_true(isinstance(dataset.regions, _basestring))
assert_true(isinstance(dataset.labels, dict))
assert_equal(len(tst.mock_url_request.urls), 1)
assert_raises_regex(ValueError, 'The version of AAL requested "FLS33"',
atlas.fetch_atlas_aal, version="FLS33",
data_dir=tst.tmpdir, verbose=0)
assert_not_equal(dataset.description, '')
def test_fetch_atlas_aal():
ho_dir = os.path.join(tst.tmpdir, 'aal_SPM12', 'aal', 'atlas')
os.makedirs(ho_dir)
with open(os.path.join(ho_dir, 'AAL.xml'), 'w') as xml_file:
xml_file.write("<?xml version='1.0' encoding='us-ascii'?> "
"<metadata>"
"</metadata>")
dataset = atlas.fetch_atlas_aal(data_dir=tst.tmpdir, verbose=0)
assert_true(isinstance(dataset.regions, _basestring))
assert_true(isinstance(dataset.labels, dict))
assert_equal(len(tst.mock_url_request.urls), 1)
assert_raises_regex(ValueError, 'The version of AAL requested "FLS33"',
atlas.fetch_atlas_aal, version="FLS33",
data_dir=tst.tmpdir, verbose=0)
assert_not_equal(dataset.description, '')
def test_fetch_atlas_aal(version, archive_format, url_key, aal_archive_root,
tmp_path, request_mocker):
metadata = "A\tB\tC\n"
if version == 'SPM12':
metadata = (b"<?xml version='1.0' encoding='us-ascii'?>"
b"<metadata><label><index>1</index>"
b"<name>A</name></label></metadata>")
label_file = "AAL.xml" if version == 'SPM12' else "ROI_MNI_V4.txt"
atlas_file = "AAL.nii" if version == 'SPM12' else "ROI_MNI_V4.nii"
aal_data = dict_to_archive(
{aal_archive_root / label_file: metadata,
aal_archive_root / atlas_file: ""},
archive_format=archive_format
)
request_mocker.url_mapping[f"*{url_key}*"] = aal_data
dataset = atlas.fetch_atlas_aal(
version=version, data_dir=tmp_path, verbose=0
)
assert isinstance(dataset.maps, str)
assert isinstance(dataset.labels, list)
assert isinstance(dataset.indices, list)
assert request_mocker.url_count == 1
assert dataset.description != ''
def test_fetch_atlas_aal_version_error(tmp_path, request_mocker):
with pytest.raises(ValueError,
match='The version of AAL requested "FLS33"'):
atlas.fetch_atlas_aal(
version="FLS33", data_dir=tmp_path, verbose=0
)
