Update doc/vignette

spict/R/plotting.R

@@ -3484,8 +3484,9 @@ plotspict.hindcast <- function(rep, add.mase = TRUE, CI = 0.95, verbose = TRUE,
 #' rep1 <- fit.spict(inp)
 #' inp$priors$logbkfrac <- c(log(0.3), 0.1, 1)
 #' rep2 <- fit.spict(inp)
+#' \dontrun{
 #' plotspict.compare.one(rep1, rep2, varname = "F")
-#'
+#' }
 plotspict.compare.one <- function(rep, ...,
                                   varname = c("B","F","C","BBmsy","FFmsy","P"),
                                   exp = TRUE, CI = 0.95, plot.unc = 1,

spict/inst/doc/spict_guidelines.html

@@ -30,39 +30,39 @@
 </script>
 
 <style type="text/css">
-  code{white-space: pre-wrap;}
-  span.smallcaps{font-variant: small-caps;}
-  span.underline{text-decoration: underline;}
-  div.column{display: inline-block; vertical-align: top; width: 50%;}
-  div.hanging-indent{margin-left: 1.5em; text-indent: -1.5em;}
-  ul.task-list{list-style: none;}
-    </style>
+code{white-space: pre-wrap;}
+span.smallcaps{font-variant: small-caps;}
+span.underline{text-decoration: underline;}
+div.column{display: inline-block; vertical-align: top; width: 50%;}
+div.hanging-indent{margin-left: 1.5em; text-indent: -1.5em;}
+ul.task-list{list-style: none;}
+</style>
 
 
 
 
 
 
 <style type="text/css">
-/* for pandoc --citeproc since 2.11 */
+
 div.csl-bib-body { }
 div.csl-entry {
-  clear: both;
+clear: both;
 }
 .hanging div.csl-entry {
-  margin-left:2em;
-  text-indent:-2em;
+margin-left:2em;
+text-indent:-2em;
 }
 div.csl-left-margin {
-  min-width:2em;
-  float:left;
+min-width:2em;
+float:left;
 }
 div.csl-right-inline {
-  margin-left:2em;
-  padding-left:1em;
+margin-left:2em;
+padding-left:1em;
 }
 div.csl-indent {
-  margin-left: 2em;
+margin-left: 2em;
 }
 </style>
 
@@ -261,7 +261,7 @@
 <h1 class="title toc-ignore">Guidelines for the stochastic production
 model in continuous time (SPiCT)</h1>
 <h4 class="author">T.K. Mildenberger, A. Kokkalis, C.W. Berg</h4>
-<h4 class="date">09 January, 2023</h4>
+<h4 class="date">08 December, 2023</h4>
 
 
 

spict/inst/doc/spict_handbook.Rmd

@@ -30,7 +30,7 @@ This vignette explains basic and more advanced functions of the `spict` package.
 ```{r, eval=FALSE}
 devtools::install_github("DTUAqua/spict/spict")
 ```
-installs the stable version of `spict`. When loading the package the user is greeted and the the installed version is shown:
+installs the stable version of `spict`. When loading the package the user is greeted and the installed version is shown:
 
 ```{r}
 library(spict)