Fix usage instruction at bin/workshop_check.py

[rnaseq-cwl-training.git] / bin / chunk-options.R

diff --git a/bin/chunk-options.R b/bin/chunk-options.R
index 5836973226adfab41d0423143aa0cccc09317c43..f9435842034b264d147ef9549eab7ed94b595dff 100644 (file)
--- a/bin/chunk-options.R
+++ b/bin/chunk-options.R
@@ -8,6 +8,18 @@ library("knitr")
 
 fix_fig_path <- function(pth) file.path("..", pth)
 
+
+## We set the path for the figures globally below, so if we want to
+## customize it for individual episodes, we can append a prefix to the
+## global path. For instance, if we call knitr_fig_path("01-") in the
+## first episode of the lesson, it will generate the figures in
+## `fig/rmd-01-`
+knitr_fig_path <- function(prefix) {
+    new_path <- paste0(opts_chunk$get("fig.path"),
+                      prefix)
+    opts_chunk$set(fig.path = new_path)
+}
+
 ## We use the rmd- prefix for the figures generated by the lssons so
 ## they can be easily identified and deleted by `make clean-rmd`.  The
 ## working directory when the lessons are generated is the root so the
@@ -25,7 +37,7 @@ opts_chunk$set(tidy = FALSE, results = "markup", comment = NA,
 hook_in <- function(x, options) {
   stringr::str_c("\n\n~~~\n",
                  paste0(x, collapse="\n"),
-                 "\n~~~\n{: .r}\n\n")
+                 "\n~~~\n{: .language-r}\n\n")
 }
 
 hook_out <- function(x, options) {