Comments (5)
cellstar should work with python3 now
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Do you have a python3 compatible version of CellStar @amoghpj? I have run in to the same problem.
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Hi, I do not have a functional version of python3 yet. It looks like the conversion is non-trivial, and needs some in-depth understanding of the code. If the author of the project @Fafa87 thinks this is worthwhile, I would be willing to help with the effort, but in the meantime, I have used it successfully in a python2 virtual environment.
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I managed to get it to run in Python 3.7, with quite a bit of modifications that "seem" not to affect the segmentation. I think partially it is also related to versions of libraries having different behaviour. Check the included libraries.txt for my version.
However I found the algorithm oddly overdependent on the type of input images and literally nothing I had produced any usable result.
I couldn't find any documentation on the 25 or so parameters present and it makes it difficult.
The CellProfiler plugin doesn't work for me either, but yeah the last proven version I think is cell profiler 2 which doesn't even start.
from cellstar.
Python3 compatibility almost done.
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