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resp: the RSA rate no longer withholds a whole night on sensor gaps - #90
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rsaRespRate read the beat-rate Nyquist off span/(n−1). correctRr's beat times are re-anchored to the wall clock across dropouts and advance across rejected beats, so that ratio is the beat interval DIVIDED BY COVERAGE: the night was withheld whole as an "alias" whenever coverage fell below 48/HR (87 % at 55 bpm, 80 % at 60), with a note stating a heart rate the user never had. Edge's own two-device golden fixture shows it: a 60 bpm synthetic night with a 2 h hole reads "beat rate 45.08 bpm resolves only to 22.5 br/min … rate withheld", while its gap-free 30-min BRV bins all resolve 12.27 br/min. The per-sub-window ceiling had the same flaw, and the sub-window "time-complete" test measured first-to-last span, so two beats near the edges with a 3-minute hole between them passed it. The Nyquist of a beat-sampled tachogram is set by the beat rate, 0.5/NN (DeBoer, Karemaker & Strackee 1984); missing beats do not lower it. Both ceilings now use the median NN, each value one real interval between adjacent beats (rsaCeilingHz's argument is now named beatIntervalSec). Gaps belong to the completeness test, which now measures coverage: a sub-window needs Σ NN ≥ 80 % of its length, judged before the beat count so a stretch a dropout emptied is counted as gappy, with its own reason in the note. Lomb–Scargle already handles the uneven sampling (Press & Rybicki 1989). The alias guard stays: below ~48 bpm the night is still withheld, and the note now states the true sleeping heart rate and median beat interval. Because gappy nights now publish, a rate can rest on as few as three sub-windows (~12 min). Confidence therefore also scales with usable sub-windows, reaching full weight at 23: the 300 s sub-windows step by 150 s, so 23 of them are ≈ 1 h (12 would be ~33 min). A 12-minute night that read 0.9 now reads 0.2. RespEstimate reports usable_subwindows / subwindows so a reader can see how much of the night the rate rests on. Tests: a 75 %-covered 55 bpm night publishes within 1 br/min of its gap-free twin (three seeds); the alias note states the true heart rate; 12 contiguous minutes publish at ≤ 0.25 confidence (and ~33 minutes are still discounted) while 12 minutes scattered over an hour stay absent, named as gaps; a sub-window full of holes is counted as gappy, not as a low beat rate; a 25 s dropout every 150 s isolates the per-sub-window ceiling (fails if it reverts to span/(k−1)). Output changes: nights with dropouts or rejected beats now publish a respiratory rate; the alias note states the true heart rate; confidence scales with usable sub-windows; new usable_subwindows/subwindows keys. Requires kAlgoVersion bump (batched).
Reviewer's GuideRSA respiration estimation now derives beat-rate Nyquist limits from median NN intervals rather than dropout-stretched spans, filters sub-windows by 80% beat-time coverage, and reports resolvable rates from gappy nights with confidence and metadata scaled to usable evidence. Sequence diagram for gappy-night RSA rate publicationsequenceDiagram
participant Input as Clean NN input
participant RSA as rsaRespRate
participant Windows as RSA subwindows
participant Spectrum as LombScargle
participant Output as RespEstimate
Input->>RSA: median(nnMs)
RSA->>RSA: rsaCeilingHz(beatIntervalSec)
RSA->>Windows: evaluate 300 s overlapping windows
Windows->>Windows: sum NN coverage
alt coverage below 80%
Windows-->>RSA: count gappy
else coverage sufficient
Windows->>Windows: median(segNn)
Windows->>Spectrum: spectral peak from native beat times
Spectrum-->>RSA: usable peak
end
RSA->>RSA: compute confidence from usable subwindows
RSA-->>Output: RSA rate, confidence, usable_subwindows, subwindows
Flow diagram for gap-aware RSA respiration estimationflowchart TD
A[Clean NN intervals and beat times] --> B[Median NN interval]
B --> C[Whole-input Nyquist ceiling]
A --> D[300 s overlapping sub-windows]
D --> E{Sum NN covers at least 80%?}
E -- No --> F[Count as gappy]
E -- Yes --> G{At least 30 beats?}
G -- No --> H[Count as thin]
G -- Yes --> I[Per-window median-NN ceiling]
I --> J[LombScargle on native beat times]
J --> K[Usable RSA peaks]
K --> L[Median rate and agreement gate]
L --> M[Confidence weighted by usable subwindows]
M --> N[RespEstimate with usable_subwindows and subwindows]
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📝 WalkthroughWalkthroughRSA respiratory-rate estimation now uses median NN intervals for Nyquist ceilings and an 80% beat-coverage threshold for sub-windows. Absence explanations reflect the largest drop category. Estimates can report usable and attempted window counts, and confidence scales with usable windows. ChangesRSA estimation
Priority: ⬇️ Low Estimated code review effort: 3 (Moderate) | ~20 minutes Change: Bug fix Suggested reviewers: Merge Risk: 🔵 Low · up to Some absent estimates may show a misleading ceiling in their explanation. This is a localized reporting issue and does not block merging. 🚥 Pre-merge checks | ✅ 5✅ Passed checks (5 passed)
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Hey - I've found 3 issues
Prompt for AI Agents
Please address the comments from this code review:
## Individual Comments
### Comment 1
<location path="test/onehz/respiration_test.dart" line_range="321-322" />
<code_context>
+ // test (beats everywhere, holes everywhere) this is a night with too
+ // little signal in total, not a gappy one.
+ final s = gappyRsaNight(7, hours: 1, dropouts: [
+ for (var k = 0; k < 4; k++) (k * 0.25 + 0.05, k * 0.25 + 0.25)
+ ]);
+ final c = correctRr(s.rr, rrTsMs: s.t);
+ final m =
</code_context>
<issue_to_address>
**Scattered-signal test has long bursts**
When the test runs with its current dropout bounds, `RSA: 12 minutes scattered over an hour stay absent, and say why` uses four 0.20-hour bursts (12 minutes each), not four 3-minute bursts. Those bursts contain complete 300 s windows, so `expect(m.present, isFalse)` fails when the RSA estimate is correctly published.
Use bounds that leave four 3-minute bursts, then verify the intended sparse coverage in the fixture.
</issue_to_address>
### Comment 2
<location path="lib/src/onehz/respiration/resp_rate.dart" line_range="322" />
<code_context>
+ 'ceiling (${round6(hiHz * 60)} br/min)'
+ ),
+ (
+ gappy,
+ '$gappy of $total ${round6(segSec)}s sub-windows had less than 80 % '
+ 'of their time covered by clean beats (sensor gaps or rejected '
</code_context>
<issue_to_address>
**Gappy published rates omit gap reason**
When three or more sub-windows yield peaks while at least one other sub-window is rejected as gappy, when at least three sub-windows yield peaks despite other windows being gappy, the gappy reason is only formatted in the `peaks.length < 3` branch; the success note reports the usable count but not the gappy count or cause. Callers receive a rate without the gap explanation the PR says the note provides.
Include the gappy count and reason in the successful estimate's note when gappy sub-windows were rejected.
</issue_to_address>
### Comment 3
<location path="test/onehz/respiration_test.dart" line_range="367-368" />
<code_context>
+ rsaRespRate(c.nn, c.nnTimesMs, artifactFraction: 1 - c.cleanFraction);
+ expect(m.present, isTrue, reason: m.note);
+ expect(m.value!.brpm!, closeTo(15.0, 1.0));
+ expect(m.value!.subwindows, 46);
+ expect(m.value!.usableSubwindows, 46,
+ reason: 'every sub-window is ≥ 80 % covered and resolvable');
+ });
</code_context>
<issue_to_address>
**Per-window ceiling regression goes undetected**
When the per-sub-window Nyquist check is removed, `RSA: a sub-window's own ceiling comes from its median beat interval` checks only that the result is present and that 46 windows are counted as usable. Removing the per-window Nyquist guard still produces the 15 br/min peak and those counts, so the test passes without the behavior it is meant to protect.
Make the test fail when that check is removed, for example by asserting the computed per-window ceiling or by checking a case where an invalid peak would otherwise be accepted.
</issue_to_address>Sourcery assessment
Approval pending. 2 findings to address first.
Blocking findings: test/onehz/respiration_test.dart:322, test/onehz/respiration_test.dart:368
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Actionable comments posted: 1
- 🪄 Fix CodeRabbit comments on this PR
🤖 Prompt to fix review comments
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Inline comments:
Review comments at @lib/src/onehz/respiration/resp_rate.dart:
- Line 319: Update the absence note’s ceiling reporting so it reflects the
ceiling for the rejected sub-window, using its segment-specific value such as
segHi rather than the whole-input hiHz; alternatively, omit the numeric ceiling
if the rejected sub-window ceiling is not available.
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ALGORITHMS.mdlib/src/onehz/respiration/resp_rate.darttest/onehz/respiration_test.dart
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When sub-windows were rejected for peaking at their resolvable ceiling, the absence note printed the whole input's ceiling. Each sub-window's ceiling follows its own heart rate, so across a night the number shown could match none of them. The note now reports the range of the ceilings the rejected sub-windows actually had. Tests: a night whose heart rate drops below the HF band for its last stretch now fails if the per-sub-window ceiling check is removed (the existing ceiling test still passed without it). The scattered-bursts fixture now asserts it really is four ~3-minute bursts, ~12 min of beats.
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Why:
rsaRespRateread the beat-rate Nyquist off span/(n−1). Across dropouts and rejected beats that is the beat interval divided by coverage. Below 48/HR coverage (87 % at 55 bpm, 80 % at 60) a resolvable night was withheld whole as an "alias", with a note stating a heart rate the user never had. Edge's own two-device golden fixture shows it: a 60 bpm night reads "beat rate 45.08 bpm … withheld" while its 30-min BRV bins resolve 12.27 br/min.What changed:
usable_subwindows/subwindowsare reported.User-visible before → after: a gappy night showed "No respiratory rate — beat rate 45 bpm …"; it now shows its rate (e.g. 12.3 br/min).
Tests:
Output changes: gappy nights publish a rate; true-HR alias note; confidence scales with usable sub-windows; new keys.
Requires kAlgoVersion bump (batched).
🤖 Generated with Claude Code
Summary by Sourcery
Make RSA respiratory-rate estimation robust to sensor gaps without misclassifying resolvable nights as aliases.
New Features:
Bug Fixes:
Enhancements:
Documentation:
Tests:
Summary by CodeRabbit