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peterjc / thapbi-pict

Tree Health and Plant Biosecurity Initiative - Phytophthora ITS1 Classifier Tool
https://thapbi-pict.readthedocs.io/
MIT License
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Sample tally tweaks #564

Closed peterjc closed 1 year ago

peterjc commented 1 year ago

This was running far more slowly than I expected locally, so I was looking at more logging and memory usage. (Turns out a rogue conda instance was bogging the machine down).

Worth noting that spike-in synthetic control detection is a bit slower than I'd like when using no or a very low abundance filter, but we're talking something like a minute overhead.

peterjc commented 1 year ago

It seems d00a3ae06b8820e158a7cf5b87056747919c31d8 does actually help with memory usage when trying no or a very low abundance filter (testing Python 3.10 on macOS).