"""Save image tiles from the whole slide image."""
import pathlib
from tiatoolbox.wsicore.wsireader import WSIReader
[docs]def save_tiles(
input_path,
output_dir="tiles",
tile_objective_value=20,
tile_read_size=(5000, 5000),
verbose=True,
):
"""Save image tiles for whole slide image.
Default file format for tiles is jpg.
Args:
input_path (str or pathlib.Path):
Path to whole slide image
output_dir (str or pathlib.Path):
Path to output directory to save the output
tile_objective_value (int):
objective value at which tile is generated, default=20.
tile_read_size (tuple(int)):
Tile (width, height), default=(5000, 5000).
verbose (bool):
Print output, default=True
Examples:
>>> from tiatoolbox.wsicore.save_tiles import save_tiles
>>> from tiatoolbox.utils import misc
>>> file_types = ("*.ndpi", "*.svs", "*.mrxs", "*.jp2")
>>> files_all = misc.grab_files_from_dir(input_path,
... file_types=file_types)
>>> for curr_file in files_all:
... save_tiles(input_path=curr_file,
... output_dir="tiles",
... tile_objective_value=10,
... tile_read_size = (5000,5000))
"""
input_path = pathlib.Path(input_path)
if verbose:
print(input_path.name, flush=True)
wsi = WSIReader.open(input_img=input_path)
wsi.save_tiles(
output_dir=output_dir,
tile_objective_value=tile_objective_value,
tile_read_size=tile_read_size,
verbose=verbose,
)