Help packages transition away from deprecated statements

[eddelbuettel]

As of a reverse depends run started 2025 Sep 11 the following packages exhibit 'deprecation' errors, either under Armadillo 15.0.2 or under Armadillo 14.6.3 with the deprecation suppressor turned off:

ATNr bayesEO BayesianLasso bayesImageS bayesm bayMDS BHMSMAfMRI BHSBVAR bigergm bssm BuyseTest ccaPP cccp cellWise CFC circumplex cIRT ClusterR CLVTools comat communication copre cord CoxPlus cpss cTMed deform dfms DIFM dina drclust dscore DSWE edina emIRT EstMix eulerr FBFsearch fclust fdacluster fdasrvf fourPNO funMoDisco glcm globpso GreedyEPL growfunctions GSE hdflex hdpGLM hgwrr hkevp hmcdm IBclust imagine intRinsic jSDM KODAMA Langevin ldsep lessSEM lvmcomp MAGEE magi maotai MDEI meshed miceFast milr MMVBVS momentuHMM moveHMM MSTest netClust netdiffuseR NetRep pacotest PAGFL pARI PartialNetwork pda PEPBVS PhylogeneticEM phyr pleiotest pmartR psgp psychonetrics pumBayes quadrupen QuantRegGLasso rbridge Rdimtools remstimate resemble Rfast2 RiemBase RMSS robslopes robustHD rpm rrum RSSL RStoolbox sanba SANple sdsfun seqHMM sgd simStateSpace simts sits skm smooth sorcering SpatMCA SpatPCA spBFA spCP spnn stochvol stratEst strucchangeRcpp SuperpixelImageSegmentation tidylda tidynorm TreeBUGS ubms UComp unmarked updog VarSelLCM womblR wv ZVCV

Of these the following have 'arma::is_finite' which should be replaced by 'std::isfinite' (note that they may also have other issue, we just grep'ed for presence of this error message)

bayesEO BayesianLasso bayesImageS BHMSMAfMRI BHSBVAR bigergm bssm BuyseTest cccp circumplex ClusterR CLVTools comat cpss deform dscore edina emIRT eulerr FBFsearch fclust fdacluster fourPNO funMoDisco glcm growfunctions hdflex hdpGLM hkevp intRinsic jSDM Langevin ldsep lessSEM lvmcomp MAGEE magi MDEI miceFast milr MMVBVS momentuHMM moveHMM MSTest netdiffuseR NetRep PAGFL PEPBVS PhylogeneticEM phyr pleiotest pmartR psychonetrics pumBayes Rfast2 RMSS robslopes rrum sanba SANple sdsfun seqHMM sgd simts sits smooth spBFA spCP stochvol stratEst strucchangeRcpp SuperpixelImageSegmentation tidynorm TreeBUGS ubms UComp unmarked updog womblR wv