Corrected inclusion of deSolve package for here-be-dragons vignette.

DESCRIPTION

@@ -25,7 +25,8 @@ Imports:
     RcppParallel (>= 5.0.1),
     rlang,
     rstan (>= 2.18.1),
-    rstantools (>= 2.3.1.1)
+    rstantools (>= 2.3.1.1),
+    deSolve
 LinkingTo: 
     BH (>= 1.66.0),
     Rcpp (>= 0.12.0),

R/hmde-package.R

@@ -9,11 +9,11 @@
 #' @import methods
 #' @import Rcpp
 #' @import dplyr
-#' @import deSolve
 #' @importFrom rstan sampling
 #' @importFrom rstantools rstan_config
 #' @importFrom RcppParallel RcppParallelLibs
 #' @importFrom stats median
+#' @importFrom deSolve ode
 #'
 #' @references
 #' Stan Development Team (NA). RStan: the R interface to Stan. R package version 2.26.23. https://mc-stan.org

R/hmde_run.R

@@ -14,7 +14,6 @@ hmde_run <- function(model_template, ...) {
 
   # Detect model
   out <- switch(model_template$model,
-         linear = rstan::sampling(stanmodels$linear, data = model_template, ...),
          constant_single_ind = rstan::sampling(stanmodels$constant_single_ind, data = model_template, ...),
          constant_multi_ind = rstan::sampling(stanmodels$constant_multi_ind, data = model_template, ...),
          canham_single_ind = rstan::sampling(stanmodels$canham_single_ind, data = model_template, ...),

vignettes/here_be_dragons.Rmd

@@ -24,12 +24,14 @@ knitr::opts_chunk$set(
 options(rmarkdown.html_vignette.check_title = FALSE)
 ```
 
+## Load dependencies
 ```{r}
 #remotes::install_github("traitecoevo/hmde@a93e02e48657bb648378f584c4a2166d38fea263", force = TRUE)
 
 library(hmde)
 library(dplyr)
 library(ggplot2)
+library(deSolve)
 ```
 
 This vignette demonstrates an interaction between errors from numerical integration methods and MCMC sampling. The underlying issue is that if, given errors in the chosen numerical integration method, two sets of parameters for a differential equation $f$ give "the same" (more in a second) output for