def load_local_connectivity(self, local_connectivity_gid, from_step=None):
"""
Loads an existing local connectivity.
"""
lconn_index = load_entity_by_gid(local_connectivity_gid)
existent_lconn = LocalConnectivityCreatorModel()
lconn_h5_path = h5.path_for_stored_index(lconn_index)
with LocalConnectivityH5(lconn_h5_path) as lconn_h5:
lconn_h5.load_into(existent_lconn)
existent_lconn.surface = uuid.UUID(lconn_index.fk_surface_gid)
common.add2session(KEY_LCONN, existent_lconn)
existent_lconn.display_name = lconn_index.user_tag_1
if existent_lconn.equation:
msg = "Successfully loaded existent entity gid=%s" % (
local_connectivity_gid, )
else:
msg = "There is no equation specified for this local connectivity. "
msg += "The default equation is displayed into the spatial field."
common.set_message(msg)
if int(from_step) == 1:
return self.step_1()
if int(from_step) == 2:
return self.step_2()
def update_local_connectivity_metadata(file_path):
with LocalConnectivityH5(file_path) as f:
f.storage_manager.set_metadata(
{
'Shape': "(16384, 16384)",
'format': "csc",
"dtype": "<f8"
}, "/matrix")
f.storage_manager.set_metadata(
{
'cutoff': 40.0,
'state': "RAW_DATA",
'subject': "John Doe",
'user_tag_1': "srf_16k",
'user_tag_2': "",
'user_tag_3': "",
'user_tag_4': "",
'user_tag_5': "",
'type': "",
'create_date': date2string(datetime.now()),
'visible': True,
'is_nan': False,
'gid': UUID('3e551cbd-47ca-11e4-9f21-3c075431bf56').urn,
'surface': UUID('10467c4f-d487-4186-afa6-d9b1fd8383d8').urn
}, )
def test_store_load_local_connectivity(tmph5factory, surface_factory):
tmp_file = tmph5factory()
cortical_surface = surface_factory(5, cortical=True)
local_connectivity = LocalConnectivity(
surface=cortical_surface,
matrix=scipy.sparse.csc_matrix(numpy.eye(8) + numpy.eye(8)[:, ::-1]),
cutoff=12,
)
with LocalConnectivityH5(tmp_file) as f:
f.store(local_connectivity)
lc = LocalConnectivity()
f.load_into(lc)
assert type(lc.equation) == tvb.datatypes.equations.Gaussian