macOS / Apple MPS support, dependency fixes, and faster inference - #19

Closed

straussmaximilian wants to merge 9 commits into

Noble-Lab:mainfrom

straussmaximilian:macos-mps-and-inference-speedup

Commits on Sep 3, 2026

Stop tracking __pycache__ and add .gitignore

straussmaximilian
and
claude
committed
d9a32ff
Fix compatibility with pyteomics 5

straussmaximilian
and
claude
committed
c8b2fcb
Disable the nested-tensor fast path in the spectrum encoder

straussmaximilian
and
claude
committed
c314c87
Speed up inference ~20x with single encoding and KV-cached decoding

straussmaximilian
and
claude
committed
7596a4a
Speed up .asf writing and parsing

straussmaximilian
and
claude
committed
f747f6e
Run on Apple MPS and current PyTorch; add --device and phase timings

straussmaximilian
and
claude
committed
ec38f1c
Anchor the data/ ignore pattern to the repository root

straussmaximilian
and
claude
committed
30004bc
Use in-process data loading on Windows too

straussmaximilian
and
claude
committed
ceb6ed2
Relax dependency pins so fresh installs resolve on current Python

straussmaximilian
and
claude
committed
665b8d7