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Convert the clustering Python code to C++ #16

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mr-eyes opened this issue Jul 20, 2022 · 3 comments
Open

Convert the clustering Python code to C++ #16

mr-eyes opened this issue Jul 20, 2022 · 3 comments

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@mr-eyes
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mr-eyes commented Jul 20, 2022

The clustering script is currently written in Python, inefficient in large pairwise matrices. The adopted clustering technique relies on the graph-connected components.

I can consider working with retworkx, and I hope it's thread safe. I can also consider other C++ graph libs.
@mr-eyes
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mr-eyes commented Jul 22, 2022

retworkx 3 Billion edges inserted in 75 minutes. 🚀

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mr-eyes commented Jul 22, 2022

Most of the time is IO.

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mr-eyes commented Jul 22, 2022

3,352,079,582 edges inserted in 1:27:12.

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