def test_get_age(ophys_lims_experiment_id, compare_val):
ophys_lims_api = OphysLimsExtractor(ophys_lims_experiment_id)
if compare_val is None:
expected_fail = False
try:
ophys_lims_api.get_age()
except OneResultExpectedError:
expected_fail = True
assert expected_fail is True
else:
assert ophys_lims_api.get_age() == compare_val
def test_get_maxint_file(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_max_projection_file
key = 'maxint_file'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_ophys_experiment_dir(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_ophys_experiment_dir
key = 'ophys_dir'
if ophys_experiment_id in api_data:
assert f() == os.path.normpath(api_data[ophys_experiment_id][key])
else:
expected_fail(f)
def test_get_full_genotype(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_full_genotype
key = 'full_genotype'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_workflow_state(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_workflow_state
key = 'workflow_state'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_reporter_line(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_reporter_line
key = 'reporter_line'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_mouse_ID(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_external_specimen_name
key = 'mouse_id'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_stimulus_name(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_stimulus_name
key = 'stimulus_name'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_imaging_depth(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_imaging_depth
key = 'imaging_depth'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_targeted_structure(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_targeted_structure
key = 'targeted_structure'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_rigid_motion_transform_file(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_rigid_motion_transform_file
key = 'rigid_motion_transform_file'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_average_intensity_projection_image(ophys_experiment_id, api_data):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
f = ophys_lims_api.get_average_intensity_projection_image_file
key = 'avgint_a1X_file'
if ophys_experiment_id in api_data:
assert f() == api_data[ophys_experiment_id][key]
else:
expected_fail(f)
def test_get_ophys_segmentation_run_id(ophys_experiment_id):
ophys_lims_api = OphysLimsExtractor(ophys_experiment_id)
_ = ophys_lims_api.get_ophys_cell_segmentation_run_id()