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openslide / openslide-python

Python bindings to OpenSlide
https://openslide.org/
GNU Lesser General Public License v2.1
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Different pixel value when opening same slide on Linux and Windows #183

Open loic-lb opened 2 years ago

loic-lb commented 2 years ago

Context

Issue type (bug report or feature request): Different pixel value when opening same slide on Linux and Windows Operating system (e.g. Fedora 24, Mac OS 10.11, Windows 10): Ubuntu 20.04.4 LTS, Windows 10 Platform (e.g. 64-bit x86, 32-bit ARM): OpenSlide Python version (openslide.__version__): 1.2.0 (on both OS) OpenSlide version (openslide.__library_version__): 3.4.1 (on both OS) Slide format (e.g. SVS, NDPI, MRXS): NDPI

Details

Dear all,

When trying to read a slide from Warwick HER2 dataset in a single array at level 5, I get different values depending I am using openslide on Windows or Linux. Both versions of openslide python are the same as the openslide library version. The offset value is relatively small since it seems to differ by only one unit (cf tables on the left of the screenshots I joined). However, this difference is enough to impact my processing afterward. You can also notice on the screenshots I joined that, for instance, you get something significantly different when summing the value of pixels.

Thank you for your help,

Linux capture: capture_openslide_issue_linux

Windows capture:

capture_openslide_issue_windows
bgilbert commented 2 years ago

OpenSlide shouldn't be doing anything different on different platforms. It's possible that there's a behavior difference in the underlying image libraries. I'd recommend comparing the versions of the JPEG library (either libjpeg or libjpeg-turbo), pixman, cairo, and possibly Pillow. You might try reducing divergence by comparing the latest OpenSlide Windows build with Ubuntu 22.04 or Fedora 36.

464hee commented 2 years ago

I also have this problem. Have you solved it now