Fix the full-repository review findings - #240

Merged

henrikjacobsenfys merged 66 commits into

Aug 17, 2026

Commits on Aug 13, 2026

Add Bayesian posterior sampling to Analysis1d

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a8946ce
Add Bayesian posterior sampling to Analysis and ParameterAnalysis

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7db52f9
Label the posterior plot axes with units and quantities

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7ad2900
Qualify parameter labels by model name, and cover the remaining branches

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0c3c689
Warm the tutorial data cache before running notebooks in parallel

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46d745a
Rebuild the fitter when a binding changes shape, and stabilise the integration tests

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ff50a2c
Address the review findings on the sampling API

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b28b9e4
Cover the review fixes, and drop a redundant guard

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439135a
Gather the per-Q chains on Analysis after independent sampling

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e6bd67c
Step through the per-Q corner plots with a slider

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6170a43
Show the per-Q corner slider in the Bayesian tutorial

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1292f44
Put the corner slider under the figure

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442a5bd
Reach the whole library through one namespace

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619c46a

Commits on Aug 14, 2026

Compose the posterior sampler instead of mixing it in

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bb10623
Compose the sampler into Analysis and ParameterAnalysis

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ca72513
Merge branch 'bayesian-analysis' into import-style
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11a5e14
Export the multi-Q sampler and drop the mixin's name

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8297346
Merge branch 'bayesian-analysis' into import-style
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4441138
Point the front door at the composed sampler

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29f27ff
Unwrap the security-issue line again

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c8cf9e0
Warm the tutorial data cache before running notebooks in parallel

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85f8a71
Merge branch 'bayesian' into bayesian-analysis
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7b11a44
Merge branch 'bayesian-analysis' into import-style
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f1218ec

Commits on Aug 16, 2026

Mark setup, action and expectation apart in the new tests

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7e53eb7
Merge branch 'bayesian' into bayesian-analysis
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cecb994
Mark setup, action and expectation apart in the multi-Q tests

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2ecc29f
Merge branch 'bayesian-analysis' into import-style
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d711bf2
Mark setup, action and expectation apart in the namespace tests

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522a6e9
Give the sampler its own test file

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fbfedd6
Merge branch 'bayesian' into bayesian-analysis
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1814139
Put each test in the file of the class it exercises

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c6d3e1b
Merge branch 'bayesian-analysis' into import-style
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017e4c0

Commits on Aug 17, 2026

Refuse silent chain corruption and harden the posterior sampler

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f6756c7
Merge branch 'bayesian' into bayesian-analysis
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46b45b4
Version collections so stale plans and caches rebuild

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d3d4679
Repair detailed balance, diffusion collections and bound handling

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03c60d4
Track model versions per consumer and wire missing invalidation

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fbc2078
Declare runtime dependencies and align packaging, docs and tooling

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8ca876d
Evaluate expressions in a coherent scale and express them in y_unit

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c8be2ae
Cover counts-bearing units in the expression conversion tests

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2b33a04
Keep the multi-Q sampler pointed at the chain the user actually ran

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2839da4
Merge branch 'bayesian-analysis' into import-style
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edf2904
Merge branch 'import-style' into review-fixes
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9172d10
Add marginal posteriors, correlation heatmaps and sampling progress

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6ccc0ba
Merge branch 'bayesian' into bayesian-analysis
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26a0836
Align test files with the layout conventions and hoist imports

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882ad87
Justify the exact no-op comparisons in the coefficient rescale

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8585771
Move the remaining stray tests into their classes

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e9093a0
Give every posterior plot a Q slider over independent chains

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74fa676
Merge branch 'bayesian' into bayesian-analysis
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866e1b2
Write the progress line through sys.stdout

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26c168b
Show the new posterior plots in the Bayesian tutorial

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fa94bb2
Apply the formatting fixes

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7a7dfe3
Satisfy the docstring and formatting checks

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132fc59
Merge branch 'bayesian' into bayesian-analysis
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75a0e45
Document propagated exceptions the way the docstring linter expects

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fbe8dd4
Merge branch 'bayesian-analysis' into import-style
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5074a8f
Merge branch 'import-style' into review-fixes
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b06d984
Satisfy the linters across the merged fix branch

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9cff699
Keep prettier current and contained to the repository

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22fbde5
Merge remote-tracking branch 'origin/develop' into bayesian-analysis
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2b218d5
Give the Bayesian tutorial the widget backend its sliders need

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6310e72
Merge branch 'bayesian-analysis' into import-style
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2de049f
Merge branch 'import-style' into review-fixes
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2f8c7fc
Merge remote-tracking branch 'origin/develop' into review-fixes
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28f8ce8
Drop the duplicate line and unused import the tie-merge reintroduced

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1f43013