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Calibration accepts a positive-definite discrepancy covariance scale
Uwith non-unit diagonal, preserving the original research experiment's discrepancy-to-observation variance ratio. -
Default emulator coefficient sampling to smoothed marginals conditional on a shared covariance draw. Add sampling = "joint" for coherent backward paths under both scalar-variance and inverse-Wishart covariance models.
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Let calibration preparation inherit or explicitly change the fitted sampling method, with sampling metadata retained in saved objects and fit summaries.
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Default calibration to one chain, one iteration, zero warmup, and one retained sample per emulator draw. Longer iterations and other controls remain options; warmup, retained-sample counts, and default controls adapt to the settings.
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Default the installed reproduction script to the marginal oneiter500 profile; update the vignettes and recorded example to these defaults.
- Add optional RStan calibration with Gaussian discrepancy marginalization, coherent posterior recovery, equal pooling of emulator conditionals, and conditional-fit diagnostics.
- Add a sigma2R option and complete metadata to the emulator wrapper.
- Add an offline GP for predicting AR design rows without further PDE solves. Its interpolation uncertainty remains excluded from calibration.
- Extend exact FFBS prediction with fixed coefficient trajectories, cached factors, and conditional covariance; preserve the default mean interface.
- Correct sigma2R trajectory sampling to condition backward on sampled states.
- Add compact calibration data, two package vignettes, and installed reproduction scripts. One-iteration runs are labeled execution experiments.
- Show 500 one-transition calibration samples in the end-to-end vignette, with eta histograms and a variance/discrepancy/field comparison panel.