Mercurial > repos > thomaswollmann > scale_image
view scale_image.py @ 0:2d69cbf0f2d2 draft default tip
planemo upload for repository https://github.com/BMCV/galaxy-image-analysis/tools/scale_image/ commit 787ebcc8daa1834214bc92c201c921c704ef2d1f
author | thomaswollmann |
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date | Mon, 07 Jan 2019 05:39:54 -0500 |
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import argparse import sys import skimage.io import skimage.transform import scipy.misc import warnings import os from PIL import Image def scale_image(input_file, output_file, scale, order=1): with warnings.catch_warnings(): warnings.simplefilter("ignore") Image.MAX_IMAGE_PIXELS = 50000*50000 img_in = skimage.io.imread(input_file) if order == 0: interp = 'nearest' elif order == 1: interp = 'bilinear' elif order == 2: interp = 'bicubic' if ',' in scale: scale = scale[1:-1].split(',') scale.reverse() scale = [int(i) for i in scale] elif '.' in scale: scale = float(scale) else: scale = int(scale) res = scipy.misc.imresize(img_in, scale, interp=interp) skimage.io.imsave(output_file, res) if __name__ == "__main__": parser = argparse.ArgumentParser() parser.add_argument('input_file', type=argparse.FileType('r'), default=sys.stdin, help='input file') parser.add_argument('out_file', type=argparse.FileType('w'), default=sys.stdin, help='out file (PNG)') parser.add_argument('scale', type=str, help='fraction scaling factor(float), percentage scaling factor(int), output size(tuple(height,width))') # integer option not implemented in galaxy wrapper parser.add_argument('order', type=int, default=1, help='interpolation method') args = parser.parse_args() scale_image(args.input_file.name, args.out_file.name, args.scale, args.order)