rust/fused-plan7: Rust port of the fused Plan7+transducer kernel#119
Open
ihh wants to merge 1 commit into
Open
rust/fused-plan7: Rust port of the fused Plan7+transducer kernel#119ihh wants to merge 1 commit into
ihh wants to merge 1 commit into
Conversation
A faithful, sparse Rust implementation of the CPU/WebGPU fused Plan7 GeneWise kernel (js/webgpu/cpu/fused-plan7.mjs): Forward + Viterbi (logsumexp/maxplus), N/C/J flanking + multihit J-loop. The transducer transitions are iterated SPARSELY (O(L*K*nnz)) instead of the dense S_td^2 of the JS reference, so a ~100-state transducer like prot2dna is tractable. Validated bit-for-bit (~7e-15) against the JS CPU reference and the boss CLI; builds native and wasm32-unknown-unknown. Co-Authored-By: Claude Opus 4.8 (1M context) <noreply@anthropic.com>
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
1 participant
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
A faithful, sparse Rust implementation of the CPU/WebGPU fused Plan7 GeneWise kernel (js/webgpu/cpu/fused-plan7.mjs): Forward + Viterbi (logsumexp/maxplus), N/C/J flanking + multihit J-loop. The transducer transitions are iterated SPARSELY (O(LKnnz)) instead of the dense S_td^2 of the JS reference, so a ~100-state transducer like prot2dna is tractable. Validated bit-for-bit (~7e-15) against the JS CPU reference and the boss CLI; builds native and wasm32-unknown-unknown.
Summary
Brief description of the changes.
Test plan
make test)pytest python/machineboss/)Checklist