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+vignettes/Residuals.bbl +vignettes/Residuals.blg +vignettes/Residuals.log +vignettes/Residuals.pdf +vignettes/Residuals.tex +vignettes/UserGuide.Rnw +vignettes/UserGuide.aux +vignettes/UserGuide.log +vignettes/UserGuide.out +vignettes/UserGuide.pdf +vignettes/UserGuide.tex +vignettes/atsa-labs-cover.jpg +vignettes/index.html +vignettes/mathdefs.tex diff --git a/DESCRIPTION b/DESCRIPTION index 9ee7179..d3a7315 100644 --- a/DESCRIPTION +++ b/DESCRIPTION @@ -1,7 +1,7 @@ Package: MARSS Type: Package Title: Multivariate Autoregressive State-Space Modeling -Version: 3.11.8 +Version: 3.11.9 Date: 2023-05-20 Depends: R (>= 3.5.0) Imports: diff --git a/NEWS.md b/NEWS.md index fb292fc..5e1c4c5 100644 --- a/NEWS.md +++ b/NEWS.md @@ -2,6 +2,12 @@ output: html_document --- +# MARSS 3.11.9 (GitHub) + +## ENHANCEMENT + +* Added the error message coming from a try-error to the message printed for the user. + # MARSS 3.11.8 (CRAN 2023-05-20) This combines the changes in GitHub releases 3.11.7 and 3.11.6. diff --git a/R/MARSS.R b/R/MARSS.R index e981c99..cc6175d 100644 --- a/R/MARSS.R +++ b/R/MARSS.R @@ -174,7 +174,7 @@ MARSS <- function(y, MLEobj.test$par <- MLEobj$start kftest <- try(MARSSkf(MLEobj.test), silent = TRUE) if (inherits(kftest, "try-error")) { - cat("Error: Stopped in MARSS() before fitting because", fun.kf, "stopped. Something in the model structure prevents the Kalman filter/smoother (KF) from running.\n Try setting fun.kf to use a different KF function (MARSSkfss or MARSSkfas) or use fit=FALSE and check the model you are trying to fit. You can also try trace=1 to get more progress output. You could try trace=-1 to bypass the initial KF check if you are using method='BFGS' and know the logLik function will run.\n") + cat("Error: Stopped in MARSS() before fitting because", fun.kf, "stopped. Something in the model structure prevents the Kalman filter/smoother (KF) from running.\n Try setting fun.kf to use a different KF function (MARSSkfss or MARSSkfas) or use fit=FALSE and check the model you are trying to fit. You can also try trace=1 to get more progress output. You could try trace=-1 to bypass the initial KF check if you are using method='BFGS' and know the logLik function will run.\n\n", kftest$condition) MLEobj.test$convergence <- 2 return(MLEobj.test) } @@ -190,7 +190,7 @@ MARSS <- function(y, if (fit && !model.is.fixed && MLEobj$control$trace != -1 && MLEobj$method %in% kem.methods) { Eytest <- try(MARSShatyt(MLEobj.test), silent = TRUE) if (inherits(Eytest, "try-error")) { - cat("Error: Stopped in MARSS() before fitting because MARSShatyt() stopped. Something is wrong with the model structure that prevents MARSShatyt() running.\n\n") + cat("Error: Stopped in MARSS() before fitting because MARSShatyt() stopped. Something is wrong with the model structure that prevents MARSShatyt() running.\n\n", Eytest$condition) MLEobj.test$convergence <- 2 MLEobj.test$Ey <- Eytest return(MLEobj.test) @@ -210,7 +210,7 @@ MARSS <- function(y, ## Fit and add param estimates to the object MLEobj <- try(MARSSfit(MLEobj), silent = TRUE) if (inherits(MLEobj, "try-error")) { - cat(paste("Error: Stopped in MARSS() when trying to fit. Try control$trace=1 for more information. You can also try another fitting method by passing in the method argument. This is especially helpful if you are seeing a chol error.\n")) + cat(paste("Error: Stopped in MARSS() when trying to fit. Try control$trace=1 for more information. You can also try another fitting method by passing in the method argument. This is especially helpful if you are seeing a chol error.\n\n", MLEobj$condition)) MLEobj.test$convergence <- 2 return(MLEobj.test) } @@ -269,7 +269,7 @@ MARSS <- function(y, if (fun.kf == "MARSSkfas") { kfss <- try(MARSSkfss(MLEobj, smoother = FALSE), silent = TRUE) if (inherits(kfss, "try-error") || !kfss$ok) { - msg <- "Not available. MARSSkfss() returned error." + msg <- c("Not available. MARSSkfss() returned error.", kfss$condition) kfss <- list(Innov = msg, Sigma = msg, J = msg, Kt = msg) } } else { diff --git a/R/MARSShatyt.r b/R/MARSShatyt.r index 809e074..0a00625 100644 --- a/R/MARSShatyt.r +++ b/R/MARSShatyt.r @@ -123,7 +123,7 @@ MARSShatyt <- function(MLEobj, only.kem = TRUE) { Rinv <- try(chol(mho.r %*% pari$R %*% t.mho.r)) # Catch errors before entering chol2inv if (inherits(Rinv, "try-error")) { - return(list(ok = FALSE, errors = "Stopped in MARSShatyt: chol(R) error.\n")) + return(list(ok = FALSE, errors = c("Stopped in MARSShatyt: chol(R) error.\n", Rinv$condition))) } Rinv <- chol2inv(Rinv) Delta.r <- I.n - pari$R %*% t.mho.r %*% Rinv %*% mho.r diff --git a/pkgdown/_pkgdown.yml b/pkgdown/_pkgdown.yml index 70fe112..7ae90ab 100644 --- a/pkgdown/_pkgdown.yml +++ b/pkgdown/_pkgdown.yml @@ -128,8 +128,8 @@ articles: contents: - Quick_Start - Learning_MARSS -- title: Algorithm Reports - desc: EM Derivation [PDF](https://atsa-es.r-universe.dev/MARSS/doc/EMDerivation.pdf)
Conditional Residuals [PDF](https://atsa-es.r-universe.dev/MARSS/doc/Residuals.pdf) +- title: PDFs + desc: User Guide [PDF](https://atsa-es.r-universe.dev/MARSS/doc/UserGuide.pdf)
EM Derivation [PDF](https://atsa-es.r-universe.dev/MARSS/doc/EMDerivation.pdf)
Conditional Residuals [PDF](https://atsa-es.r-universe.dev/MARSS/doc/Residuals.pdf) contents: