Load TIFF image as numpy array

Question

I have a series of tiff images to load in Python.

First I use:

im=Image.open(*)

It loads and displays properly.

>>> im
PIL.TiffImagePlugin.TiffImageFile image mode=I;16 size=1408x1044 at 0x116154050
>>> type(im)
instance
>>> im.size
(1408, 1044)

Then I use:

imarray=numpy.array(im)

where

>>> imarray.shape
()
>>> imarray.size
1
>>> type(imarray)
numpy.ndarray
>>>  imarray
array(PIL.TiffImagePlugin.TiffImageFile image mode=I;16 size=1408x1044 at 0x116154050, dtype=object)

I have read this previous post and followed the instructions there, but I can't get imarray.shape and im.size to match.

This might have to do with your version of PIL. Have you tried the solutions suggested here? — unutbu
– unutbu, Commented Mar 18, 2015 at 19:11
If you're planning on doing any type of image manipulation I would suggest using OpenCV. They have Python bindings and make your life a lot easier including automatically converting the images into numpy arrays. — James Mertz
– James Mertz, Commented Mar 18, 2015 at 19:15
@KronoS OpenCV is massive overkill for simple image I/O. Pillow or even matplotlib offer much more lightweight solutions. — ali_m
– ali_m, Commented Mar 18, 2015 at 19:20
@ali_m I agree however if the OP is looking to do manipulation of the images, that's where the heavyweight of OpenCV comes into great usefulness. — James Mertz
– James Mertz, Commented Mar 18, 2015 at 19:23
@KronoS We don't yet know what the OP wants to actually do with the images, so I wouldn't jump straight to recommending OpenCV at this stage — ali_m
– ali_m, Commented Mar 18, 2015 at 19:28

Erotemic · Accepted Answer · 2017-11-06 14:48:11Z

3

Here is a solution that copies the data into the numpy array.

    from PIL import Image
    import numpy as np
    import ubelt as ub

    # Grab some test data
    fpath = ub.grabdata('http://www.topcoder.com/contest/problem/UrbanMapper3D/JAX_Tile_043_DTM.tif')

    # Open the tiff image
    pil_img = Image.open(fpath)

    # Map PIL mode to numpy dtype (note this may need to be extended)
    dtype = {'F': np.float32, 'L': np.uint8}[pil_img.mode]

    # Load the data into a flat numpy array and reshape
    np_img = np.array(pil_img.getdata(), dtype=dtype)
    w, h = pil_img.size
    np_img.shape = (h, w, np_img.size // (w * h))

answered Nov 6, 2017 at 14:48

Erotemic

5,3286 gold badges48 silver badges89 bronze badges

Sign up to request clarification or add additional context in comments.

2 Comments

Shovalt Over a year ago

Thank you, this helped a lot. Please take into consideration that the dtype conversion dict is only partial, and may raise a KeyError in special cases. For example, my image's "mode" was "I;16", which translates to np.uint16.

Erotemic Over a year ago

Yes, hence the "may need to be extended" comment.

Panfeng Li · Accepted Answer · 2018-11-19 16:06:53Z

3

For TIFF image, you can simply use imageio

im = imageio.imread('filename')

Sometimes you might further need

im = np.array(im)

edited Nov 19, 2018 at 16:06

answered Aug 31, 2018 at 20:04

Panfeng Li

3,6564 gold badges30 silver badges37 bronze badges

Collectives™ on Stack Overflow

Load TIFF image as numpy array

2 Answers 2

2 Comments

Comments

Your Answer

Linked

Hot Network Questions

Collectives™ on Stack Overflow

2 Answers 2

2 Comments

Comments

Your Answer

Sign up or log in

Post as a guest

Linked

Related