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Suggests are now used
conditionally, as required by “Writing R Extensions”. Every function
that relies on a suggested package (bnlearn,
sensemakr, CausalImpact, vars,
RTransferEntropy, MASS, openxlsx)
now checks for it with requireNamespace() and raises an
informative error if it is missing.\donttest examples that exercise a suggested
package are now wrapped in
if (requireNamespace(<pkg>, quietly = TRUE)) (or, for
the Stan-based functions,
if (interactive() && requireNamespace("cmdstanr"))),
so they are skipped under _R_CHECK_DEPENDS_ONLY_=true
instead of failing. This resolves the CRAN check failure in the
run_hmm example.run_hmm() no longer depends on depmixS4
(which was archived from CRAN on 2026-07-04). The bivariate Poisson HMM
is now fitted by a self-contained base-R implementation of the
Baum-Welch (EM) algorithm with a numerically stable log-space
forward-backward pass, multi-start restarts, and Viterbi decoding.
depmixS4 has been dropped from Suggests.dir_csv, dir_out, dir_figs)
instead of global variables read from the caller’s environment. They
default to NULL, in which case the functions no longer
write to disk. Affected functions: run_hmm(),
run_dbn(), run_varx(),
run_sensemakr(), run_synth_bsts(),
run_transfer_entropy(), run_eba(),
rolling_oos().run_eba() now takes control_combos as an
explicit argument instead of reading it from the global
environment.run_hmm() now calls depmixS4::fit()
explicitly, so it works without attaching depmixS4 to the
search path.run_varx() now coerces its input to a
data.table internally, so it accepts a plain
data.frame.smoketest_floor_elpd_invariance()
that called a non-existent fit_one_internal(); it now calls
fit_one().export_results_xlsx()
that shadowed the fully featured implementation.ggplot2 and bayesplot
entries from Suggests.These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.