diff --git a/NEWS.md b/NEWS.md index 789ef720..b36fca2f 100644 --- a/NEWS.md +++ b/NEWS.md @@ -1,5 +1,9 @@ # epichains (development version) +## Package + +- Removed the `as_is = TRUE` setting in vignette YAML headers to avoid partial incompatibility with incoming pkgdown versions. + # epichains 0.1.0 We are excited to announce the first minor release of `{epichains}`. diff --git a/inst/WORDLIST b/inst/WORDLIST index 03b3c263..87574536 100644 --- a/inst/WORDLIST +++ b/inst/WORDLIST @@ -2,6 +2,7 @@ Blumberg Borel CMD COVID +Codecov Epiverse Eq Inf @@ -13,6 +14,7 @@ Poisson R's TransPhylo Vukosi +YAML Zhian borel bpmodels @@ -28,10 +30,12 @@ fn frac geosocial geq +gh infectee infectees infector infectors +io json kS linelist @@ -45,12 +49,14 @@ outbreaker outbreakr packagename parameterised +pkgdown poisson rborel ringbp simulacr simulist superspreading +svg th truncdist unnormalised diff --git a/vignettes/branching_process_literature.Rmd b/vignettes/branching_process_literature.Rmd index b06dd34c..5f5f977f 100644 --- a/vignettes/branching_process_literature.Rmd +++ b/vignettes/branching_process_literature.Rmd @@ -4,8 +4,6 @@ output: bookdown::html_vignette2: fig_caption: yes code_folding: show -pkgdown: - as_is: true bibliography: branching_process_literature.json link-citations: true vignette: > diff --git a/vignettes/design-principles.Rmd b/vignettes/design-principles.Rmd index 5439ce93..4c6f52e1 100644 --- a/vignettes/design-principles.Rmd +++ b/vignettes/design-principles.Rmd @@ -1,8 +1,6 @@ --- title: "Design Principles for {epichains}" subtitle: "An R package for simulating, handling, and analysing transmission chains in R" -pkgdown: - as_is: true bibliography: references.json output: rmarkdown::html_vignette vignette: > diff --git a/vignettes/projecting_incidence.Rmd b/vignettes/projecting_incidence.Rmd index 1ab0568c..b03ad1d6 100644 --- a/vignettes/projecting_incidence.Rmd +++ b/vignettes/projecting_incidence.Rmd @@ -5,8 +5,6 @@ output: bookdown::html_vignette2: fig_caption: yes code_folding: show -pkgdown: - as_is: true bibliography: references.json link-citations: true vignette: >