def test_pass_meta_ins_multi():
"""
Test pass_meta_ins_multi functionality
"""
base_dir = str(Path(__file__).parent / "examples")
conn_model_func = 'cor'
conn_model_struct = 'cov'
est_path_func = f"{base_dir}/miscellaneous/002_modality-func_rsn" \
f"-Default_model-cov_nodetype-spheres-2mm_smooth-2fwhm" \
f"_hpass-0.1Hz_template-MNI152_T1_thrtype-PROP_thr-" \
f"0.95.npy"
est_path_struct = f"{base_dir}/miscellaneous/0025427_modality-dwi_model-" \
f"csd_nodetype-parc_samples-10000streams_tt-particle_" \
f"dg-prob_ml-10_template-MNI152_T1_thrtype-PROP_thr-" \
f"1.0.npy"
network_func = 'Default'
network_struct = 'Default'
thr_func = 0.95
thr_struct = 1.00
prune_func = True
prune_struct = False
ID_func = '002'
ID_struct = '25659'
roi_func = f"{base_dir}/miscellaneous/pDMN_3_bin.nii.gz"
roi_struct = f"{base_dir}/miscellaneous/pDMN_3_bin.nii.gz"
norm_func = 1
norm_struct = 2
binary_func = False
binary_struct = True
[
conn_model_iterlist, est_path_iterlist, network_iterlist, thr_iterlist,
prune_iterlist, ID_iterlist, roi_iterlist, norm_iterlist,
binary_iterlist
] = utils.pass_meta_ins_multi(conn_model_func, est_path_func, network_func,
thr_func, prune_func, ID_func, roi_func,
norm_func, binary_func, conn_model_struct,
est_path_struct, network_struct, thr_struct,
prune_struct, ID_struct, roi_struct,
norm_struct, binary_struct)
assert len(conn_model_iterlist) == 2
assert len(est_path_iterlist) == 2
assert len(network_iterlist) == 2
assert len(thr_iterlist) == 2
assert len(prune_iterlist) == 2
assert len(ID_iterlist) == 2
assert len(roi_iterlist) == 2
assert len(norm_iterlist) == 2
assert len(binary_iterlist) == 2
def test_pass_meta_ins_multi():
"""
Test pass_meta_ins_multi functionality
"""
base_dir = str(Path(__file__).parent / "examples")
dmri_path = base_dir + '/002/dmri'
func_path = base_dir + '/002/fmri'
conn_model_func = 'cor'
conn_model_struct = 'cov'
est_path_func = func_path + '/002_Default_est_cov_0.95propTEST_mm3_nb2_fwhm0.1_Hz.npy'
est_path_struct = dmri_path + \
'/DesikanKlein2012/0021001_Default_est_tensor_0.05dens_100000samples_particle_track.npy'
network_func = 'Default'
network_struct = 'Default'
thr_func = 0.6
thr_struct = 0.8
prune_func = True
prune_struct = False
ID_func = '002'
ID_struct = '002'
roi_func = func_path + '/pDMN_3_bin_mask.nii.gz'
roi_struct = func_path + '/pDMN_3_bin_mask.nii.gz'
norm_func = 1
norm_struct = 2
binary_func = False
binary_struct = True
[
conn_model_iterlist, est_path_iterlist, network_iterlist, thr_iterlist,
prune_iterlist, ID_iterlist, roi_iterlist, norm_iterlist,
binary_iterlist
] = utils.pass_meta_ins_multi(conn_model_func, est_path_func, network_func,
thr_func, prune_func, ID_func, roi_func,
norm_func, binary_func, conn_model_struct,
est_path_struct, network_struct, thr_struct,
prune_struct, ID_struct, roi_struct,
norm_struct, binary_struct)
assert len(conn_model_iterlist) == 2
assert len(est_path_iterlist) == 2
assert len(network_iterlist) == 2
assert len(thr_iterlist) == 2
assert len(prune_iterlist) == 2
assert len(ID_iterlist) == 2
assert len(roi_iterlist) == 2
assert len(norm_iterlist) == 2
assert len(binary_iterlist) == 2
def test_pass_meta_outs():
"""
Test pass_meta_outs functionality
"""
base_dir = str(Path(__file__).parent/"examples")
dmri_path = base_dir + '/002/dmri'
func_path = base_dir + '/002/fmri'
conn_model_func = 'cor'
conn_model_struct = 'cov'
est_path_func = dmri_path + '/DesikanKlein2012/0021001_Default_est_tensor_0.05dens_100000samples_particle_track.npy'
est_path_struct = dmri_path + '/DesikanKlein2012/0021001_Default_est_tensor_0.05dens_100000samples_particle_track.npy'
network_func = 'Default'
network_struct = 'Default'
thr_func = 0.6
thr_struct = 0.8
prune_func = True
prune_struct = False
ID_func = '002'
ID_struct = '002'
roi_func = func_path + 'pDMN_3_bin_mask.nii.gz'
roi_struct = func_path + 'pDMN_3_bin_mask.nii.gz'
norm_func = 1
norm_struct = 2
binary_func = False
binary_struct = True
[conn_model_iterlist, est_path_iterlist, network_iterlist, thr_iterlist, prune_iterlist, ID_iterlist, roi_iterlist,
norm_iterlist, binary_iterlist] = utils.pass_meta_ins_multi(
conn_model_func, est_path_func, network_func, thr_func, prune_func, ID_func, roi_func, norm_func, binary_func,
conn_model_struct, est_path_struct, network_struct, thr_struct, prune_struct, ID_struct, roi_struct,
norm_struct, binary_struct)
[conn_model_iterlist_out, est_path_iterlist_out, network_iterlist_out, thr_iterlist_out, prune_iterlist_out,
ID_iterlist_out, roi_iterlist_out, norm_iterlist_out, binary_iterlist_out] = utils.pass_meta_outs(
conn_model_iterlist, est_path_iterlist, network_iterlist, thr_iterlist, prune_iterlist, ID_iterlist,
roi_iterlist, norm_iterlist, binary_iterlist, embed=None, multimodal=False, multiplex=False)
assert conn_model_iterlist_out is not None
assert est_path_iterlist_out is not None
assert network_iterlist_out is not None
assert thr_iterlist_out is not None
assert prune_iterlist_out is not None
assert ID_iterlist_out is not None
assert roi_iterlist_out is not None
assert norm_iterlist_out is not None
assert binary_iterlist_out is not None
def test_pass_meta_ins_multi(gen_mat_data, random_mni_roi_data):
"""
Test pass_meta_ins_multi functionality
"""
base_dir = os.path.abspath(
pkg_resources.resource_filename("pynets", "../data/examples"))
conn_model_func = 'cor'
conn_model_struct = 'cov'
est_path_func = gen_mat_data(binary=True,
mat_type='er')['mat_file_list'][0]
est_path_struct = gen_mat_data()['mat_file_list'][0]
subnet_func = 'Default'
subnet_struct = 'Default'
thr_func = 0.95
thr_struct = 1.00
prune_func = True
prune_struct = False
ID_func = '002'
ID_struct = '25659'
roi_func = random_mni_roi_data['roi_file']
roi_struct = random_mni_roi_data['roi_file']
norm_func = 1
norm_struct = 2
binary_func = False
binary_struct = True
[
conn_model_iterlist, est_path_iterlist, subnet_iterlist, thr_iterlist,
prune_iterlist, ID_iterlist, roi_iterlist, norm_iterlist,
binary_iterlist
] = utils.pass_meta_ins_multi(conn_model_func, est_path_func, subnet_func,
thr_func, prune_func, ID_func, roi_func,
norm_func, binary_func, conn_model_struct,
est_path_struct, subnet_struct, thr_struct,
prune_struct, ID_struct, roi_struct,
norm_struct, binary_struct)
assert len(conn_model_iterlist) == 2
assert len(est_path_iterlist) == 2
assert len(subnet_iterlist) == 2
assert len(thr_iterlist) == 2
assert len(prune_iterlist) == 2
assert len(ID_iterlist) == 2
assert len(roi_iterlist) == 2
assert len(norm_iterlist) == 2
assert len(binary_iterlist) == 2
def test_pass_meta_outs(embed_multimodal_multiplex):
"""
Test pass_meta_outs functionality
Note: omni argument may be failing due to functions in netmotifs or due to
an unexpected input. Marked for xfail and should be updated after tests for
netmotifs are created.
"""
base_dir = str(Path(__file__).parent / "examples")
dmri_path = base_dir + '/002/dmri'
func_path = base_dir + '/002/fmri'
conn_model_func = 'corr'
conn_model_struct = 'csa'
network_func = 'Default'
network_struct = 'Default'
thr_func = 0.6
thr_struct = 0.8
prune_func = True
prune_struct = False
ID_func = '002'
ID_struct = '002'
roi_func = func_path + '/pDMN_3_bin_mask.nii.gz'
roi_struct = dmri_path + '/pDMN_3_bin_mask.nii.gz' # this doesn't exists
norm_func = 1
norm_struct = 2
binary_func = False
binary_struct = True
embed = embed_multimodal_multiplex[0]
multimodal = embed_multimodal_multiplex[1]
multiplex = embed_multimodal_multiplex[2]
node_size = 6
smooth = 6
c_boot = 1000
thr_type = 'prop'
hpass = 100
parc = True
directget = 'prob'
max_length = 200
thr_type = 'prop'
target_samples = 10
track_type = 'local'
conn_matrix_diff = np.random.rand(10, 10)
conn_matrix_func = np.random.rand(10, 10)
est_path_func = utils.create_est_path_func(ID_func, network_func,
conn_model_func, thr_func,
roi_func, func_path, node_size,
smooth, c_boot, thr_type, hpass,
parc)
est_path_diff = utils.create_est_path_diff(ID_struct, network_struct,
conn_model_struct, thr_struct,
roi_struct, dmri_path,
node_size, target_samples,
track_type, thr_type, parc,
directget, max_length)
utils.save_mat(conn_matrix_diff, est_path_diff)
utils.save_mat(conn_matrix_func, est_path_func)
[
conn_model_iterlist, est_path_iterlist, network_iterlist, thr_iterlist,
prune_iterlist, ID_iterlist, roi_iterlist, norm_iterlist,
binary_iterlist
] = utils.pass_meta_ins_multi(conn_model_func, est_path_func, network_func,
thr_func, prune_func, ID_func, roi_func,
norm_func, binary_func, conn_model_struct,
est_path_diff, network_struct, thr_struct,
prune_struct, ID_struct, roi_struct,
norm_struct, binary_struct)
[
conn_model_iterlist_out, est_path_iterlist_out, network_iterlist_out,
thr_iterlist_out, prune_iterlist_out, ID_iterlist_out,
roi_iterlist_out, norm_iterlist_out, binary_iterlist_out
] = utils.pass_meta_outs(conn_model_iterlist, est_path_iterlist,
network_iterlist, thr_iterlist, prune_iterlist,
ID_iterlist, roi_iterlist, norm_iterlist,
binary_iterlist, embed, multimodal, multiplex)
assert conn_model_iterlist_out is not None
assert est_path_iterlist_out is not None
assert network_iterlist_out is not None
assert thr_iterlist_out is not None
assert prune_iterlist_out is not None
assert ID_iterlist_out is not None
assert roi_iterlist_out is not None
assert norm_iterlist_out is not None
assert binary_iterlist_out is not None
