HPC chain Stage 7 correctness: 2nd-pass Percolator, file_stems-aware reconciliation hash, Stage 6 hard-error gates - #37

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fix/hpc-chain-stage7-second-pass-percolator

Commits on May 19, 2026

HPC chain Stage 7 correctness: 2nd-pass Percolator at --join-at-pass=2,
brendanx67
committed
1dd0c9f

Commits on May 20, 2026

mzML: read isolation-window cvParams at f64 precision
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1fe4ff7
cal_match dump: bump fractional precision 10 -> 17 for f64 round-trip
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1089407
LDA scores dump: bump fractional precision 10 -> 17 for f64 round-trip
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3d2a0f5
scorer.xcorr: inline f64 windowing + sliding-window for calibration parity
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690194a
XCorr pipeline: f64 internal scratch + f32 storage cache
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a44f752
XCorr alignment: f64 accumulator + scorer.xcorr via cache narrowing
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f41ff88
Calibration pass 2: refresh LOESS dump + num_confident_peptides metadata
brendanx67
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b80d86b
Treat non-ppm precursor tolerance as 10 ppm default for MS1 envelope
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99c9e30
LOESS: sort by (lib_rt, measured_rt) tuple for deterministic dup-x order
brendanx67
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adfbea4

Commits on May 21, 2026