def _prepare_slices_in_y_orientation(normalized_scan: np.ndarray, scan: Scan) -> None:
"""Prepare and save Slices in Y orientation.
:param normalized_scan: Numpy array with 3D normalized Scan
:param scan: Scan object to which new Slices should be added
"""
for y in range(normalized_scan.shape[1]):
location = 100.0 * y / normalized_scan.shape[1]
slice_pixels = normalized_scan[:, y, :]
_slice = scan.add_slice(SliceOrientation.Y)
_slice.update_location(location)
_slice.update_size(*slice_pixels.shape)
_convert_to_png_and_store(_slice, slice_pixels)
def add_new_scan(category: ScanCategory, number_of_slices: int,
user: Optional[User]) -> Scan:
"""Add new Scan to the database.
:param category: Scan's Category object
:param number_of_slices: number of Slices that will be uploaded
:param user: User that uploaded scan
:return: Scan object
"""
with db_session() as session:
scan = Scan(category, number_of_slices, user)
session.add(scan)
return scan
def add_new_scan(dataset: Dataset,
number_of_slices: int,
user: User = None) -> Scan:
"""Add new Scan to the database.
:param dataset: Dataset object
:param number_of_slices: number of Slices that will be uploaded
:param user: (optional) User that uploaded scan
:return: Scan object
"""
scan = Scan(dataset, number_of_slices, user)
with db_transaction_session() as session:
session.add(scan)
return scan