OpenSlide Error with Pixman Version 0.38 (Ubuntu 20.x) about tiatoolbox HOT 2 CLOSED

[Fixing the problem in Linux Ubuntu 20.04.3]

There are several solutions reported to solve this problem. For example:

1. if you are using Conda environments, you can easily call the following command to install the right version of the pixman library:
   conda install -c conda-forge pixman
   this will install the latest version of the pixman lib (0.4.0) which has this bug resolved.
2. Some of the Linux distributions officially support other versions of the the pixman library. Check the following link to see if you can install one of the working versions (0.34, 0.36, 0.40) on your Linux distribution using apt-get install command.
3. For the worst case scenario (no conda and Ubuntu version 20.04.3 for example) you can build the pixman lib from the source. It doesn't have any particular dependency so it's easy to build manually. Follow the instruction here: https://www.linuxfromscratch.org/blfs/view/svn/general/pixman.html, you only need to install pip install meson, ninja beforehand.

from tiatoolbox.

Currently I'm using the following Linux distribution:

NAME="Ubuntu"
VERSION="20.04.3 LTS (Focal Fossa)"
ID=ubuntu
ID_LIKE=debian
PRETTY_NAME="Ubuntu 20.04.3 LTS"
VERSION_ID="20.04"

Which has libpixman version 0.38.4 installed. I'm running into the same issue reported here. Here is an example code for extracting slide overview:

wsi = wsireader.WSIReader.open(file)
overview = wsi.slide_thumbnail(resolution=4, units='level')
cv2.imwrite('save_path.png', overview[:,:,::-1])

the result looks like this:

I also tried extracting some patches, results

:

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