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Speed #1

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julianstanley opened this issue Oct 7, 2019 · 1 comment
Open

Speed #1

julianstanley opened this issue Oct 7, 2019 · 1 comment

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@julianstanley
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The Chimera pipeline is damn slow.

Ideas for eventual optimization:

  • Features at a radius of N CodeCogsEqn (3) Features at a radius of N-1. Keep track of lower radius features so that you don't have to compute as much.
@julianstanley
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It's still not fast, but removing excessive printing and logging in 4a7c1c1 made the pipeline very noticeably faster (maybe ~30s for one protein instead of 2-3 minutes)

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