Comet

Build the Comet mass spectrometry search engine from source. Use when building, rebuilding, or diagnosing compile/link errors in the Comet project (Comet.sln).

Run and interpret Comet performance benchmarks comparing batch search vs real-time search (RTS) throughput. Use when measuring search speed, comparing before/after changes, or analyzing Hz and ms/spectrum metrics.

Navigate the Comet codebase. Use when looking for where a feature is implemented, which file owns a function, how data flows between layers, or what global variables are involved in a code path.

Debug crashes, silent exits, or wrong results in Comet. Use when a search dies unexpectedly, produces no output, crashes during index build or search, or gives suspicious results.

Run Comet batch or real-time searches, interpret output files, and understand search parameters. Use when executing searches, reading results, or configuring search settings.