read_whole_sliding_images.py

import matplotlib.pyplot as plt
from tiatoolbox.data import small_svs
from tiatoolbox.wsicore.wsireader import WSIReader
import gradio as gr
from pprint import pprint
from PIL import Image

wsi2png_examples = [['images/sample_wsi_small.svs']]


def wsi2png(wsi_file):
    print(wsi_file.name)
    reader = WSIReader.open(wsi_file.name)
    reader.info.objective_power = 1.0
    info_dict = reader.info.as_dict()
    pprint(info_dict)
    thumbnail = reader.slide_thumbnail(resolution=0.1, units="mpp")
    return thumbnail


read_bounds_examples = [['images/sample_wsi_small.png']]


def read_bounds_of_image(image):
    return image


mask_wsi_examples = [['images/sample_wsi_small.svs']]


def mask_image(wsi_file, resolution):
    reader = WSIReader.open(wsi_file.name)
    mask_reader = reader.tissue_mask(resolution=resolution, units="mpp")
    mask_thumbnail = mask_reader.slide_thumbnail(resolution=resolution, units="power")
    mask_thumbnail *= 255
    return mask_thumbnail