HDF5 image stack writing, suitable for HDFView video player

image_stack_hdf5.m

Simg = load('clown');
imgs = Simg.X;

file = 'img.h5';
name = '/img';

h5create(file, name, size(imgs))
h5write(file, name, imgs)

h5writeatt(file, name, 'CLASS', 'IMAGE')
h5writeatt(file, name, 'IMAGE_VERSION', '1.2')
h5writeatt(file, name, 'IMAGE_SUBCLASS', 'IMAGE_GRAYSCALE')
h5writeatt(file, name, "DISPLAY_ORIGIN", "LL")
h5writeatt(file, name, "IMAGE_WHITE_IS_ZERO", uint8(0))

image_stack_hdf5.py

import numpy as np
import h5py

# images is a numpy ndarray N x X x Y images

with h5py.File("image.h5", "w") as f:
    h = f.create_dataset("/images", data=images)
    h.attrs["CLASS"] = np.string_("IMAGE")
    h.attrs["IMAGE_VERSION"] = np.string_("1.2")
    h.attrs["IMAGE_SUBCLASS"] = np.string_("IMAGE_GRAYSCALE")
    h.attrs["DISPLAY_ORIGIN"] = np.string_("LL")
    h.attrs["IMAGE_WHITE_IS_ZERO"] = np.uint8(0)