This file records user-facing and developer-facing changes for fitPS.
It is a release-note summary, not a commit-by-commit history.
fitPS 1.0.6.013
Rationalise the Bayesian fitting API around method = “bayes” and
bayesOptions$posteriorMethod.
Add deprecated legacy aliases for numerical integration, MCMC,
Laplace, and importance posterior methods.
Preserve compatibility by translating legacy Bayesian method values
into canonical bayesOptions.
Add tests for Bayesian method alias translation and default option
handling.
Validated by the Stage 4.6.1.1 full package runner.
fitPS 1.0.6.011
Added an internal importance-sampling helper for zero-inflated zeta
Bayesian posteriors using the Laplace approximation as a proposal.
Returned weighted samples, posterior means, covariance estimates,
and diagnostics including effective sample size and maximum normalized
weight.
Added deterministic offline tests for weighted samples, seeded
reproducibility, and fitZIDist dispatch through
bayesOptions$posteriorMethod = “importance”.
Added ignore/build-ignore coverage for generated built-package path
files so package checks do not inspect runner artifacts.
Ran the full package validation workflow for this package-impacting
stage.
fitPS 1.0.6.010
Repaired the Stage 4.4 numerical posterior grid file by restoring
the missing bracket in the returned pi value.
Kept the Stage 4.4 Laplace approximation work unchanged while making
the installed R code parsable for roxygen documentation.
Preserved ignore/build-ignore coverage for generated built-package
path files so package checks do not inspect runner artifacts.
Ran the full package validation workflow for this package-impacting
repair stage.
fitPS 1.0.6.006
Added Bayesian options plumbing so method = “bayes” can select
posterior engines through bayesOptions$posteriorMethod.
Stripped inherited names from scalar transform inputs and outputs
before constructing working-scale vectors.
Routed fitDist() numerical integration through method = “bayes” with
posteriorMethod = “numerical” while retaining method = “integrate” as a
legacy alias.
Kept zero-inflated zeta MCMC available through posteriorMethod =
“mcmc” until the numerical Stage 4 posterior is implemented.
Kept deterministic offline test coverage unchanged while repairing
the helper implementation.
fitPS 1.0.6.001
Added the Stage 4.1 design audit for deterministic and
semi-deterministic Bayesian posterior approximations for zero-inflated
zeta fits.
Recorded the recommended path for transformed posterior helpers,
grid quadrature, Laplace diagnostics, importance sampling diagnostics,
and plotting integration.
Preserved existing Bayesian MCMC behavior and user-facing defaults;
this lightweight documentation stage did not run package
validation.
fitPS 1.0.5.008
Stabilised the generated stage runner so controlled paths are staged
one at a time.
Prevented absent optional directories from masking
git add failures and leaving new files untracked.
Preserved the controlled commit scope while keeping the workflow
compatible with package roots that do not contain every optional
directory.
Kept the no-ChatGPT-bundle workflow and completed-stage archive
cleanup behaviour.
Validated by the strict fitPS stage workflow.
fitPS 1.0.5.007
Added plotPosterior() for posterior-density plots from
Bayesian psFit objects.
Supported zeta MCMC chains, zeta numerical posterior density
functions, and zero-inflated MCMC chains for shape and
pi.
Kept existing plot.psFit() fitted-probability plots
unchanged for backward compatibility.
Added deterministic offline tests using small fake
psFit objects rather than long MCMC runs.
Validated by the strict fitPS stage workflow.
fitPS 1.0.5.003
Added Stage 3.2 workflow documentation for the Windows Ghostscript
R CMD check NOTE under dev/.
Kept strict package validation while allowing only the known
missing-Ghostscript PDF-size reduction NOTE in the stage runner.
Documented why the Ghostscript NOTE is a local check-environment
issue rather than a package failure.
Preserved the Stage 3 1.0.5.xxx build convention,
including one consumed build number per attempt.
Validated by the strict fitPS stage workflow.
fitPS 1.0.5.002
Added the Stage 3.1 Bayesian posterior plotting audit under
dev/.
Recommended a separate plotPosterior() API for
posterior parameter-density plots while preserving
plot.psFit() for fitted probabilities.
Documented support requirements for MCMC-backed zeta and
zero-inflated zeta fits, integrated zeta posterior densities, credible
intervals, deterministic tests, and shape-parameterisation
safeguards.
Reset the Stage 3 development series to the 1.0.5.xxx
build convention.
Validated by the strict fitPS stage workflow.
fitPS 1.0.4.018
Migrated the user-facing vignette sources from Sweave
.Rnw files to R Markdown .Rmd files.
Removed generated vignette build artifacts from the staged source
tree so they can be regenerated by the package toolchain.
Added rmarkdown to Suggests for the R
Markdown vignette builder.
Preserved the Stage 2 zeta shape wording while making the vignettes
easier to maintain.
fitPS 1.0.4.017
Removed user-facing discussion of VGAM’s shifted zeta
parameterisation from help and vignette source text.
Kept documentation focused on the fitPS shape parameter, where shape
> 1.
Corrected spelling, grammar, and punctuation issues in the vignette
source using NZ English conventions.
Regenerated help with devtools::document() during the strict stage
workflow.
fitPS 1.0.4.016
Cleaned roxygen comments and README wording for the Stage 2 zeta
shape parameterisation documentation.
Fixed spelling, punctuation, and grammar in the fitDist(),
fitZIDist(), and predict.psFit() help source.
Kept documentation on NZ English wording, including parameterisation
and optimisation.
Left generated help files to be refreshed by devtools::document()
during the stage workflow.
fitPS 1.0.4.015
Updated documentation so shape consistently refers
to the standard zeta parameter alpha with
shape > 1.
Removed obsolete VGAM-shifted wording from fitDist()
and fitZIDist() help text.
Documented that the default Bayesian prior is placed on
log(shape - 1), giving support only on valid standard-shape
values.
Added README guidance for users who compare fitPS results with
VGAM zeta functions.
Validated by the strict fitPS stage workflow. ## fitPS
1.0.4.014
Refactored zeta and zero-inflated zeta workflows so fitPS
shape means the standard zeta parameter alpha with
shape > 1.
Converted to VGAM’s shifted parameter only at VGAM boundaries
using shape - 1.
Added active regression tests for fitting, probability functions,
prediction, fitted values, and random generation under the
standard-shape convention.
Validated by the strict fitPS stage workflow.
fitPS 1.0.4.012
Added Stage 2.1.1 corrective notes for the zeta shape
parameterisation workflow.
Removed active target-behaviour tests from
tests/testthat because they intentionally fail before the
Stage 2.2 refactor.
Preserved the standard-shape expectations in dev/ so
Stage 2.2 can reinstate them with the implementation repair.
Validated by the strict fitPS stage workflow.
fitPS 1.0.4.010
Added README.md with installation, data-format, fitting, prediction,
comparison, and development-check examples.
Updated .gitignore to exclude the fitPS built-package
path marker produced by stage runners.
Kept the stage focused on documentation and local-build hygiene
without changing package APIs.
Validated by the strict stage 1.4 package workflow before
commit.
fitPS 1.0.4.009
Added NEWS.md as durable package release notes rather than a stage
transcript.
Recorded the stage 1 stabilization series, including baseline tests,
build hygiene, start-value handling, and zero-inflated prediction
fixes.
Kept entries version-numbered and newest-first for future fitPS
maintenance.
Validated by the strict stage 1.3 package workflow before
commit.
fitPS 1.0.4 development
series
Added baseline testthat infrastructure for core
psData and psFit workflows.
Added deterministic tests for data construction, CSV import, model
fitting, prediction, and logLik.psFit().
Repaired stage check issues by documenting the
fitDist()prior argument and adding required
stats imports.
Cleaned package-build inputs by excluding local development files,
generated archives, stage runners, scripts, and generated vignette
artifacts from R package builds.
Repaired start-value handling for fitDist() and
fitZIDist() while preserving backward-compatible
shape aliases.
Repaired zero-inflated zeta prediction logic so fitted predictions
use the model object’s pi component.
Validated through the staged fitPS workflow before completed stage
commits.