🛠️ Refactor: Neuroscience Strategy & Diffusion Safety#449
🛠️ Refactor: Neuroscience Strategy & Diffusion Safety#449
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- Implemented `GatingKinetics` trait (Strategy Pattern) in `neuroscience` to decouple ion channel logic from `HodgkinHuxleyModel`. - Replaced hardcoded kinetics in `HodgkinHuxleyModel` with `Arc<dyn GatingKinetics>`. - Updated `HodgkinHuxleyParameters` to remove `Copy` and `PartialEq` derivations, using `Clone` where necessary. - Refactored `FiniteDifference1D::apply` in `diffusion` module to use safe `windows(3)` and `zip` iterators, removing all `unsafe` blocks while preserving logic. - Verified changes with existing tests, including `test_turing_system_logic_preservation`. Co-authored-by: google-labs-jules[bot] <161369871+google-labs-jules[bot]@users.noreply.github.com>
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Ran `cargo fmt` to address: - Multiline formatting for `if/else` block in `diffusion.rs` - Extra newline removal in `model.rs` Co-authored-by: google-labs-jules[bot] <161369871+google-labs-jules[bot]@users.noreply.github.com>
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This PR refactors the
biologymodule to improve modularity and safety.Neuroscience Module:
GatingKineticstrait to allow custom ion channel dynamics.HodgkinHuxleyModelnow usesArc<dyn GatingKinetics>, enabling dependency injection of kinetic strategies (OCP).Copyderivation fromHodgkinHuxleyParametersas it now holds anArc.Diffusion Module:
unsafepointer arithmetic inFiniteDifference1Dwith safe Rust iterators (windows,zip).Verification:
cargo checkandcargo test.test_turing_system_logic_preservationpassed, confirming diffusion logic remains correct.PR created automatically by Jules for task 9594661652775542424 started by @fderuiter