I have 2000 images stored as single binary file "file.dat" and a head of 512 bytes to this file. Format of every image is 512*512*2 bytes (unsigned int 16). My task is to visualize all this images as video. How can I do this in python? My problem is starting from reading the sequence of images. I'm newbie in python.
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1python has opencv bindings. I would start thereHammer– Hammer2013-11-27 15:27:41 +00:00Commented Nov 27, 2013 at 15:27
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1 Answer
Numpy is quite handy for reading in simple binary file formats.
From the sound of it, you have a large binary file of uin16's that you want to read into a 3D array and visualize. We don't have to load it all into memory, but for this example, we will.
Here's a basic idea of what the code would look like:
import numpy as np
import matplotlib.pyplot as plt
def main():
data = read_data('test.dat', 512, 512)
visualize(data)
def read_data(filename, width, height):
with open(filename, 'r') as infile:
# Skip the header
infile.seek(512)
data = np.fromfile(infile, dtype=np.uint16)
# Reshape the data into a 3D array. (-1 is a placeholder for however many
# images are in the file... E.g. 2000)
return data.reshape((width, height, -1))
def visualize(data):
# There are better ways to do this, but let's keep it simple
plt.ion()
fig, ax = plt.subplots()
im = ax.imshow(data[:,:,0], cmap=plt.cm.gray)
for i in xrange(data.shape[-1]):
image = data[:,:,i]
im.set(data=image, clim=[image.min(), image.max()])
fig.canvas.draw()
main()
