Enumerate Rmd code chunks
I wrote the
RmdNameChunk package to automatically name the Rmd code chunks. This is important for my workflow because I don’t click “Knit” in RStudio, instead I run
rmarkdown::render(fn). This has the advantage of using the console environment instead of the RMarkdown environment, so all the objects are available for manipulation in the console. However, it is hard to debug when there are scores of unnamed chunks. Now, I can easily name all the code chunk and can quickly identify where issues are.
Install from github:
https://github.com/erikerhardt/RmdNameChunk
Example
Install from source by running this command:
devtools::install_github("erikerhardt/RmdNameChunk")
Read an Rmd file, update existing prefixed code chunks, and renumber.
library(RmdNameChunk)
rmd_name_chunks(
fn_in = "test_in.Rmd"
, fn_out = "test_out.Rmd"
, prefix_chunk_name = "chunk-"
)
Review the input and output files to see how the chunk header names have been updated.
Below is an example of the two Rmd files in the vignette.
test_in.Rmd was read in and test_out.Rmd was created. The chunk headers are shown below from each file.
test_in.Rmd
8 : ```{r setup, include=FALSE}
22 : ```{r cars}
28 : ```{r}
32 : ```{ r }
36 : ```{r, echo=FALSE}
40 : ```{ r, eval=FALSE}
44 : ```{r , eval=FALSE}
48 : ```{r chunk-2, eval=FALSE}
52 : ```{r chunk-XXX , eval=FALSE}
56 : ```{r chunk-XXX2 , eval=FALSE}
60 : ```{r chunk-XXX3 , eval=FALSE}
64 : ```{r chunk-XXX4 , eval=FALSE}
68 : ```{r chunk-XXX5 , eval=FALSE}
72 : ```{r chunk-XXX6 , eval=FALSE}
81 : ```{r pressure, echo=FALSE}
These code chunk headers were changed to those below:
test_out.Rmd
8 : ```{r setup, include=FALSE}
22 : ```{r cars}
28 : ```{r chunk-01}
32 : ```{r chunk-02}
36 : ```{r chunk-03, echo=FALSE}
40 : ```{r chunk-04, eval=FALSE}
44 : ```{r chunk-05, eval=FALSE}
48 : ```{r chunk-06, eval=FALSE}
52 : ```{r chunk-07, eval=FALSE}
56 : ```{r chunk-08, eval=FALSE}
60 : ```{r chunk-09, eval=FALSE}
64 : ```{r chunk-10, eval=FALSE}
68 : ```{r chunk-11, eval=FALSE}
72 : ```{r chunk-12, eval=FALSE}
81 : ```{r pressure, echo=FALSE}...
more
I downloaded the 
