def test_fetch_oasis_vbm():
local_url = "file://" + datadir
ids = np.asarray(['OAS1_%4d' % i for i in range(457)])
ids = ids.view(dtype=[('ID', 'S9')])
mock_fetch_files.add_csv('oasis_cross-sectional.csv', ids)
# Disabled: cannot be tested without actually fetching covariates CSV file
dataset = struct.fetch_oasis_vbm(data_dir=tmpdir, url=local_url, verbose=0)
assert_equal(len(dataset.gray_matter_maps), 403)
assert_equal(len(dataset.white_matter_maps), 403)
assert_true(isinstance(dataset.gray_matter_maps[0], _basestring))
assert_true(isinstance(dataset.white_matter_maps[0], _basestring))
assert_true(isinstance(dataset.ext_vars, np.recarray))
assert_true(isinstance(dataset.data_usage_agreement, _basestring))
assert_equal(len(mock_url_request.urls), 3)
dataset = struct.fetch_oasis_vbm(data_dir=tmpdir,
url=local_url,
dartel_version=False,
verbose=0)
assert_equal(len(dataset.gray_matter_maps), 415)
assert_equal(len(dataset.white_matter_maps), 415)
assert_true(isinstance(dataset.gray_matter_maps[0], _basestring))
assert_true(isinstance(dataset.white_matter_maps[0], _basestring))
assert_true(isinstance(dataset.ext_vars, np.recarray))
assert_true(isinstance(dataset.data_usage_agreement, _basestring))
assert_equal(len(mock_url_request.urls), 4)
def test_fetch_oasis_vbm(tmp_path, request_mocker):
local_url = "file://" + tst.datadir
ids = np.asarray(['OAS1_%4d' % i for i in range(457)])
ids = ids.view(dtype=[('ID', 'S9')])
tst.mock_fetch_files.add_csv('oasis_cross-sectional.csv', ids)
# Disabled: cannot be tested without actually fetching covariates CSV file
dataset = struct.fetch_oasis_vbm(data_dir=str(tmp_path), url=local_url,
verbose=0)
assert len(dataset.gray_matter_maps) == 403
assert len(dataset.white_matter_maps) == 403
assert isinstance(dataset.gray_matter_maps[0], str)
assert isinstance(dataset.white_matter_maps[0], str)
assert isinstance(dataset.ext_vars, np.recarray)
assert isinstance(dataset.data_usage_agreement, str)
assert len(tst.mock_url_request.urls) == 3
dataset = struct.fetch_oasis_vbm(data_dir=str(tmp_path), url=local_url,
dartel_version=False, verbose=0)
assert len(dataset.gray_matter_maps) == 415
assert len(dataset.white_matter_maps) == 415
assert isinstance(dataset.gray_matter_maps[0], str)
assert isinstance(dataset.white_matter_maps[0], str)
assert isinstance(dataset.ext_vars, np.recarray)
assert isinstance(dataset.data_usage_agreement, str)
assert len(tst.mock_url_request.urls) == 4
assert dataset.description != ''
def test_fetch_oasis_vbm():
local_url = "file://" + tst.datadir
ids = np.asarray(['OAS1_%4d' % i for i in range(457)])
ids = ids.view(dtype=[('ID', 'S9')])
tst.mock_fetch_files.add_csv('oasis_cross-sectional.csv', ids)
# Disabled: cannot be tested without actually fetching covariates CSV file
dataset = struct.fetch_oasis_vbm(data_dir=tst.tmpdir, url=local_url,
verbose=0)
assert_equal(len(dataset.gray_matter_maps), 403)
assert_equal(len(dataset.white_matter_maps), 403)
assert_true(isinstance(dataset.gray_matter_maps[0], _basestring))
assert_true(isinstance(dataset.white_matter_maps[0], _basestring))
assert_true(isinstance(dataset.ext_vars, np.recarray))
assert_true(isinstance(dataset.data_usage_agreement, _basestring))
assert_equal(len(tst.mock_url_request.urls), 3)
dataset = struct.fetch_oasis_vbm(data_dir=tst.tmpdir, url=local_url,
dartel_version=False, verbose=0)
assert_equal(len(dataset.gray_matter_maps), 415)
assert_equal(len(dataset.white_matter_maps), 415)
assert_true(isinstance(dataset.gray_matter_maps[0], _basestring))
assert_true(isinstance(dataset.white_matter_maps[0], _basestring))
assert_true(isinstance(dataset.ext_vars, np.recarray))
assert_true(isinstance(dataset.data_usage_agreement, _basestring))
assert_equal(len(tst.mock_url_request.urls), 4)
assert_not_equal(dataset.description, '')
def test_fetch_oasis_vbm(tmp_path, request_mocker, legacy_format):
request_mocker.url_mapping["*archive_dartel.tgz*"] = _make_oasis_data()
request_mocker.url_mapping["*archive.tgz*"] = _make_oasis_data(False)
dataset = struct.fetch_oasis_vbm(data_dir=str(tmp_path),
verbose=0,
legacy_format=legacy_format)
assert len(dataset.gray_matter_maps) == 403
assert len(dataset.white_matter_maps) == 403
assert isinstance(dataset.gray_matter_maps[0], str)
assert isinstance(dataset.white_matter_maps[0], str)
if legacy_format:
assert isinstance(dataset.ext_vars, np.recarray)
else:
assert isinstance(dataset.ext_vars, pd.DataFrame)
assert isinstance(dataset.data_usage_agreement, str)
assert request_mocker.url_count == 1
dataset = struct.fetch_oasis_vbm(data_dir=str(tmp_path),
dartel_version=False,
verbose=0,
legacy_format=legacy_format)
assert len(dataset.gray_matter_maps) == 415
assert len(dataset.white_matter_maps) == 415
assert isinstance(dataset.gray_matter_maps[0], str)
assert isinstance(dataset.white_matter_maps[0], str)
if legacy_format:
assert isinstance(dataset.ext_vars, np.recarray)
else:
assert isinstance(dataset.ext_vars, pd.DataFrame)
assert isinstance(dataset.data_usage_agreement, str)
assert request_mocker.url_count == 2
assert dataset.description != ''