From ff53b40688c674c30e7f2989eb1a083ef0a23f42 Mon Sep 17 00:00:00 2001
From: Candace Savonen <cansav09@gmail.com>
Date: Fri, 25 Feb 2022 10:33:26 -0500
Subject: [PATCH 1/3] Update preview script

---
 scripts/update-preview.R | 31 +++++++++++++++++++++++++++++++
 1 file changed, 31 insertions(+)
 create mode 100644 scripts/update-preview.R

diff --git a/scripts/update-preview.R b/scripts/update-preview.R
new file mode 100644
index 000000000..22e416e3b
--- /dev/null
+++ b/scripts/update-preview.R
@@ -0,0 +1,31 @@
+#!/usr/bin/env Rscript
+
+# Written by Candace Savonen Sept 2021
+
+if (!("optparse" %in% installed.packages())){
+  install.packages("optparse")
+}
+
+library(optparse)
+
+option_list <- list(
+  optparse::make_option(
+    c("--repo"),
+    type = "character",
+    default = NULL,
+    help = "GitHub repository name, e.g. jhudsl/OTTR_Template",
+  ),
+  optparse::make_option(
+    c("--git_pat"),
+    type = "character",
+    default = NULL,
+    help = "GitHub personal access token",
+  )
+)
+
+# Read the arguments passed
+opt_parser <- optparse::OptionParser(option_list = option_list)
+opt <- optparse::parse_args(opt_parser)
+
+repo <- opt$repo
+git_pat <- opt$git_pat

From c628fab181479bc39462d0e33ff630c43e87d72b Mon Sep 17 00:00:00 2001
From: Candace Savonen <cansav09@gmail.com>
Date: Fri, 25 Feb 2022 11:34:04 -0500
Subject: [PATCH 2/3] Specify libs directory

---
 .github/workflows/pull_request.yml | 4 +++-
 1 file changed, 3 insertions(+), 1 deletion(-)

diff --git a/.github/workflows/pull_request.yml b/.github/workflows/pull_request.yml
index c71bdc73e..c86934aa3 100644
--- a/.github/workflows/pull_request.yml
+++ b/.github/workflows/pull_request.yml
@@ -324,7 +324,9 @@ jobs:
       # Run bookdown rendering
       - name: Run bookdown render
         id: bookdown
-        run: Rscript -e "bookdown::render_book('index.Rmd', output_format = 'all')"
+        run: |
+          Rscript -e "bookdown::render_book('index.Rmd', output_format = 'all',
+          bookdown::gitbook(lib_dir = 'https://raw.githubusercontent.com/jhudsl/OTTR_Template/$branch_name/docs/libs/'))"
 
       # Run TOC-less version
       # Rendered content for Leanpub and Coursera is very similar.

From 4d2875a1e44f4f2102c37ec535c38e8cde20b634 Mon Sep 17 00:00:00 2001
From: Candace Savonen <cansav09@gmail.com>
Date: Fri, 25 Feb 2022 11:39:17 -0500
Subject: [PATCH 3/3] Specify gitbook

---
 .github/workflows/pull_request.yml | 3 +--
 1 file changed, 1 insertion(+), 2 deletions(-)

diff --git a/.github/workflows/pull_request.yml b/.github/workflows/pull_request.yml
index c86934aa3..79ac163bb 100644
--- a/.github/workflows/pull_request.yml
+++ b/.github/workflows/pull_request.yml
@@ -325,8 +325,7 @@ jobs:
       - name: Run bookdown render
         id: bookdown
         run: |
-          Rscript -e "bookdown::render_book('index.Rmd', output_format = 'all',
-          bookdown::gitbook(lib_dir = 'https://raw.githubusercontent.com/jhudsl/OTTR_Template/$branch_name/docs/libs/'))"
+          echo bookdown::gitbook(lib_dir = 'https://raw.githubusercontent.com/jhudsl/OTTR_Template/$branch_name/docs/libs/')
 
       # Run TOC-less version
       # Rendered content for Leanpub and Coursera is very similar.