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Implement KmerTable and BucketKmerTable in Rust #859

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Implement KmerTable and BucketKmerTable in Rust #859

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padix-key Jan 28, 2026
dd5ecba
Implement `KmerTable` in Rust
padix-key Jan 28, 2026
1edb7b3
fixup! Implement `KmerTable` in Rust
padix-key Jan 30, 2026
0e745c6
fixup! Implement `KmerTable` in Rust
padix-key Jan 30, 2026
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6 changes: 3 additions & 3 deletions Cargo.toml
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Original file line number Diff line number Diff line change
Expand Up @@ -4,12 +4,12 @@ version = "0.0.0"
edition = "2018"

[dependencies]
numpy = "0.25"
ndarray = "0.16"
numpy = "0.27"
ndarray = "0.17"
num-traits = "0.2"

[dependencies.pyo3]
version = "0.25"
version = "0.27"
features = ["extension-module"]

[lib]
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4 changes: 3 additions & 1 deletion src/rust/lib.rs
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@@ -1,6 +1,7 @@
use pyo3::prelude::*;
use pyo3::types::PyDict;

mod sequence;
mod structure;

/// Add a submodule to a module and make it discoverable as package
Expand All @@ -11,7 +12,7 @@ fn add_subpackage(
) -> PyResult<()> {
module.add_submodule(submodule)?;
let sys = PyModule::import(module.py(), "sys")?;
let sys_modules: Bound<'_, PyDict> = sys.getattr("modules")?.downcast_into()?;
let sys_modules: Bound<'_, PyDict> = sys.getattr("modules")?.cast_into()?;
submodule.setattr("__name__", submodule_name)?;
submodule.setattr("__package__", submodule_name)?;
sys_modules.set_item(submodule_name, submodule)?;
Expand All @@ -25,5 +26,6 @@ fn rust(module: &Bound<'_, PyModule>) -> PyResult<()> {
&structure::module(module)?,
"biotite.rust.structure",
)?;
add_subpackage(module, &sequence::module(module)?, "biotite.rust.sequence")?;
Ok(())
}
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