I have a parameterized RMarkdown PDF report that I am running from a Shiny dashboard (after copying it to a temporary directory).
Example code:
Shiny dashboard:
---
title: "Company Report Frontend"
output:
flexdashboard::flex_dashboard:
orientation: columns
vertical_layout: fill
runtime: shiny
---
```{r global, include=FALSE}
library(flexdashboard)
library(shiny)
```
### Select Company
```{r}
textInput('name', label ='Firm')
```
### Report
```{r}
uiOutput("downloadUI")
# Create the actual downloadButton
output$downloadUI <- renderUI( {
downloadButton("downBtn", "Download Report")
})
# Add download handling
output$downBtn <- downloadHandler(
filename = "full_report.pdf",
content = function(file) {
tempReport <- file.path(tempdir())
file.copy("test_report.Rmd", paste0(tempReport, "/test_report.Rmd"), overwrite = TRUE)
rmarkdown::render(paste0(tempReport, "/test_report.Rmd"), output_file = file,
params = list(input=input),
envir = new.env(parent = globalenv()), clean = FALSE,
knit_root_dir = tempReport,
)
}
)
```
test_report.RMD:
---
title: "Report"
header-includes:
\usepackage{graphicx}
params:
input: NA
output:
pdf_document:
latex_engine: xelatex
---
```{r}
input <- params$input
data(mtcars)
plot(mtcars$hp, mtcars$mpg)
title(input$name)
```
When I run it, it successfully produces the .tex file but then can't compile it. When I try to compile the .tex file directly in a LaTeX editor, I get undefined control sequence and Missing endcsname defined errors on any \includegraphics lines like this one:
\includegraphics{C:/User/LONGUS~1/Temp/file5b381fa967c8_files/figure-latex/unnamed-chunk-1-1.pdf}
where LONGUS~1 is a shortened folder name from the actual Windows username LONGUSERNAME.
The error goes away, and the PDF compiles, if I replace LONGUS~1 with LONGUSERNAME, or just point it to the relative filepath. LaTeX does tend to get finicky about filepaths sometimes.
How can I instruct RMarkdown to either avoid shortening folder names, or skip the absolute filepath and just use the relative? test_report.RMD compiles fine if I run it by itself (and specify a default input), so I'd guess this is something to do with the use of tempdir() or at least something in the render() function. But I really should keep the tempdir() stuff in the case of multiple simultaneous users of the shiny app. I did try removing the knit_root_dir option but that didn't fix it.
Any suggestions welcome. Thank you!