mask_to_submission.py

#!/usr/bin/env python3

import os
import numpy as np
import matplotlib.image as mpimg
import re

foreground_threshold = (
    0.25  # percentage of pixels > 1 required to assign a foreground label to a patch
)


# assign a label to a patch
def patch_to_label(patch):
    df = np.mean(patch)
    if df > foreground_threshold:
        return 1
    else:
        return 0


def mask_to_submission_strings(image_filename):
    """Reads a single image and outputs the strings that should go into the submission file"""
    img_number = int(re.search(r"\d+", image_filename).group(0))
    im = mpimg.imread(image_filename)
    patch_size = 16
    for j in range(0, im.shape[1], patch_size):
        for i in range(0, im.shape[0], patch_size):
            patch = im[i : i + patch_size, j : j + patch_size]
            label = patch_to_label(patch)
            yield ("{:03d}_{}_{},{}".format(img_number, j, i, label))


def masks_to_submission(submission_filename, *image_filenames):
    """Converts images into a submission file"""
    with open(submission_filename, "w") as f:
        f.write("id,prediction\n")
        for fn in image_filenames[0:]:
            f.writelines("{}\n".format(s) for s in mask_to_submission_strings(fn))


if __name__ == "__main__":
    submission_filename = "new_submission.csv"
    image_filenames = []
    for i in range(1, 51):
        image_filename = f"test_set_masks/test_{i}_mask.png"
        print(image_filename)
        image_filenames.append(image_filename)
    masks_to_submission(submission_filename, *image_filenames)