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Add v0.4.0 sign convention to the manuscript; real-archive validation section - #37

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Add v0.4.0 sign convention to the manuscript; real-archive validation section#37
mdenolle wants to merge 88 commits into
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docs/sign-convention-manuscript

Commits on Aug 10, 2026
- Add v0.4.0 sign convention to the manuscript; real-archive validation section
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Commits on Aug 11, 2026
- Address Copilot review on PR #37
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- Regenerate all synthetic demo figures under v0.4.0 physical dv/v; re-verify every quantitative claim
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- Fix Figure 10a y-axis symmetry and Figure 11 panel-c layout
  
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- Language audit: cut AI-tell filler, fix typos and grammar
  
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Commits on Aug 14, 2026
- Fix stretching-family estimators to interpolate current, not reference.
  
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Commits on Aug 15, 2026
- Add temporal-resolution explanation to Introduction and Substacking sections
  
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Commits on Aug 16, 2026
- Introduce and standardize $\sigma$ notation throughout manuscript
  
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- Move $\sigma$ subscript definitions to local context where introduced
  
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- Restore and fix notation definitions throughout manuscript
  
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- Clarify moving-reference behavior: caveat on trend preservation
  
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- Correct the moving-reference framing against what the survey actually reports
  
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Commits on Aug 17, 2026
- Retract the moving-reference null result; it was wrong on all three counts
  
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Commits on Aug 18, 2026
- Rebuild the reference section around what the literature actually does
  
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Commits on Sep 10, 2026
Commits on Sep 11, 2026
Commits on Sep 13, 2026
- Restore Fig 8 tile layout and fix legends, labels and titles of five figures (#38)
  
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- Correct the regressions of the iteration-2 review in the manuscript text (#38)
  
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- Log the P0 execution in the iteration-3 plan record (#38)
  
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- Merge pull request #51 from Denolle-Lab/iter3/P0
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- Stack on the daily grid, robust step metric, gate probe, held-out coverage and R-hat, corrected correlation length (#39)
  
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- Regenerate Figs 7, 12, 13, 14, the clean calibration run and the Bayes checks (#39)
  
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- Science corrections in the results and methods text (#39)
  
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- Log the P1 execution in the iteration-3 plan record (#39)
  
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- Exclude zero-variance rows from the residual autocorrelation (#39, Copilot review)
  
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- Survey hygiene: DOI-aware citation keys, denominators and coded reporting rates (#42)
  
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- Log the P4 execution in the iteration-3 plan record (#42)
  
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- Provenance, sidecar check, in-repo Gate 1 figure and a paper workflow (#41)
  
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- Address the Copilot review on #54: ignore untracked files in git_dirty, fix a literal tilde, soften the sidecar claim, check tildes in CI
  
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- Sidecar check: tolerate rounding noise at entries that are zero up to arithmetic
  
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- Regenerate the Gate 1 figure sidecar from a clean tree (git_dirty false) and the TeX
  
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  f7b41f3
- Address the Copilot review on #53: wavefield split among the measuring rows, the ADS-identified row, and the n/r code-span corruption
  
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- run_pipeline docstring: the gate applies to both references and every estimator (#39, Copilot review)
  
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- Log the P3 part-1 execution in the iteration-3 plan record (#41)
  
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- Sidecar check: scale the tolerance by either array (#54, Copilot review)
  
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Commits on Sep 14, 2026
Commits on Sep 15, 2026
- Cache the golden generator hash per process; SOURCES.md says which real-data figures regenerate (#41, Copilot review)
  
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Commits on Nov 1, 2026
- Merge pull request #52 from Denolle-Lab/iter3/P1
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- Merge the manuscript branch (P1) into P4; keep both plan log lines
  
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- Merge pull request #53 from Denolle-Lab/iter3/P4
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- Merge the manuscript branch (P1, P4) into P3
  
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- Merge pull request #54 from Denolle-Lab/iter3/P3
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- Archive the Gate 1 products, pin the run and recover the use case (#41, answers #46)
  
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- The archive checker reads digests only, and reports an unreadable file (#41, Copilot review)
  
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- The figure sources note states the pinned run instead of asking for it (#41, Copilot review)
  
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- Merge pull request #55 from Denolle-Lab/iter3/P3-archive
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  5d2d223

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Commits on Sep 14, 2026

Commits on Sep 15, 2026

Commits on Nov 1, 2026