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rationalize python and rust code #2949

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bluegenes opened this issue Jan 27, 2024 · 2 comments
Open

rationalize python and rust code #2949

bluegenes opened this issue Jan 27, 2024 · 2 comments

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@bluegenes
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With the updated rust core, we need to go through and rationalize (and unify) rust and python code so we don't, for example, create sigs/zips that break rust assumptions.

from luiz: rust and python should support same ops. I started unifying a bunch of the code in #2728 but at this point that's very outdated

@ctb
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ctb commented Jan 27, 2024

I think this will happen naturally as long as we pay attention to the Python tests; there are a lot of tests for corner cases at fairly high API levels (usually the CLI). An unanticipated benefit of functional tests over unit tests I guess? :)

I do think this provides a pretty good argument and incentive for more strongly prioritizing integration of branchwater-plugin-style speed and functionality into the core sourmash package. FBFW, the sourmash Python layer is pretty thoroughly tested, while the branchwater plugin is pretty light on tests.

@luizirber
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from luiz: rust and python should support same ops. I started unifying a bunch of the code in #2728 but at this point that's very outdated

Note this was a comment on KmerMinHash/KmerMinHashBTree on the Rust side, not across Python/Rust.

But it is connected on the Frozen/Mutable discussion between Python/Rust, since in general Frozen == KmerMinHash and Mutable == KmerMinHashBTree

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