From 960822d6456f45c5af22a5d6010375f975a9e9c4 Mon Sep 17 00:00:00 2001
From: Douglas Ezra Morrison <demorrison@ucdavis.edu>
Date: Thu, 3 Oct 2024 12:06:56 -0700
Subject: [PATCH] fix bibliography paths

---
 _pkgdown.yml                                   | 1 +
 vignettes/articles/enteric_fever_example.Rmd   | 2 +-
 vignettes/articles/scrubTyphus_example.Rmd     | 2 +-
 vignettes/articles/serocalculator.Rmd          | 2 +-
 vignettes/articles/simulate_xsectionalData.Rmd | 2 +-
 5 files changed, 5 insertions(+), 4 deletions(-)

diff --git a/_pkgdown.yml b/_pkgdown.yml
index f52e6d9e..e837b2fc 100644
--- a/_pkgdown.yml
+++ b/_pkgdown.yml
@@ -3,3 +3,4 @@ template:
   bootstrap: 5
   light-switch: true
 
+bibliography: vignettes/references.bib
diff --git a/vignettes/articles/enteric_fever_example.Rmd b/vignettes/articles/enteric_fever_example.Rmd
index d884e455..b7934dcb 100644
--- a/vignettes/articles/enteric_fever_example.Rmd
+++ b/vignettes/articles/enteric_fever_example.Rmd
@@ -9,7 +9,7 @@ vignette: >
   %\VignetteIndexEntry{Enteric Fever Seroincidence Vignette}
   %\VignetteEngine{knitr::rmarkdown}
   %\VignetteEncoding{UTF-8}
-bibliography: vignettes/references.bib
+bibliography: ../references.bib
 ---
 ## Introduction
 
diff --git a/vignettes/articles/scrubTyphus_example.Rmd b/vignettes/articles/scrubTyphus_example.Rmd
index 59954d93..5b47d544 100644
--- a/vignettes/articles/scrubTyphus_example.Rmd
+++ b/vignettes/articles/scrubTyphus_example.Rmd
@@ -9,7 +9,7 @@ vignette: >
   %\VignetteIndexEntry{Scrub Typhus Seroincidence Vignette}
   %\VignetteEngine{knitr::rmarkdown}
   %\VignetteEncoding{UTF-8}
-bibliography: vignettes/references.bib
+bibliography: ../references.bib
 
 ---
 ## Introduction
diff --git a/vignettes/articles/serocalculator.Rmd b/vignettes/articles/serocalculator.Rmd
index 6ae04d48..80c45af8 100644
--- a/vignettes/articles/serocalculator.Rmd
+++ b/vignettes/articles/serocalculator.Rmd
@@ -7,7 +7,7 @@ vignette: >
   %\VignetteIndexEntry{Introduction to serocalculator}
   %\VignetteEngine{knitr::rmarkdown}
   %\VignetteEncoding{UTF-8}
-bibliography: vignettes/references.bib
+bibliography: ../references.bib
 ---
 
 ## Overview
diff --git a/vignettes/articles/simulate_xsectionalData.Rmd b/vignettes/articles/simulate_xsectionalData.Rmd
index 684f09cf..d14dc2d4 100644
--- a/vignettes/articles/simulate_xsectionalData.Rmd
+++ b/vignettes/articles/simulate_xsectionalData.Rmd
@@ -11,7 +11,7 @@ vignette: >
   %\VignetteIndexEntry{simulate_xsectionalData}
   %\VignetteEngine{knitr::rmarkdown}
   %\VignetteEncoding{UTF-8}
-bibliography: vignettes/references.bib
+bibliography: ../references.bib
 ---