imread() for tiff file returns wrong dimensions

[r0f1]

Consider this following code:

from pathlib import Path
from skimage.io import imread

a = sorted(Path(input_dir).glob("*.tiff"))[0]

imread(a).shape
imread(str(a)).shape

Output:

(64, 6)     # wrong
(64, 64, 6) # correct

I am trying to read a tiff file with 6 color channels. Why do I get different image dimension depending on whether I pass a PosixPath or a string to imread()? If PosixPaths are not supported by imread(), which is totally fine, could you please throw a ValueError?

[grlee77]

Thanks for reporting this! I can reproduce this issue with a tiff file bundled with the repository as well:

from pathlib import Path

io.imread(Path('skimage/data/multipage.tif')).shape
# (15, 10)

io.imread(str(Path('skimage/data/multipage.tif'))).shape
# (2, 15, 10)

[grlee77]

See #5546 for an explanation of why this was happening (basically a check for the file extension did not work properly when the input was a Path)

[r0f1]

Thanks, that's awesome!

[om-mishra-it]

Is this issue still open for a fix?

[grlee77]

@oreo2107, this one has a fix already proposed in #5546

[imagesc-bot]

This issue has been mentioned on Image.sc Forum. There might be relevant details there:

https://forum.image.sc/t/magic-gui-not-reading-image-stack/63284/2