Setting knitr to output separate images

Question

I'm trying to get the PNG plots from knitr output to write to disk as separate files without doing it manually.

What I tried

The dev = 'png' setting from http://gforge.se/2014/01/fast-track-publishing-using-knitr-part-iii/ (also mentioned in this question)
self_contained: no from knitr: include figures in report *and* output figures to separate files.

Neither worked. The folder the knitting process ran in has no extra files, and the HTML document has base64 embedded images in its source.

Environment

RStudio 0.99.903
R 3.2.3
knitr 1.15.1

MWE: The RStudio RMarkdown file, with abovementioned options added:

---
title: "Untitled"
output: html_document
self_contained: no
---

```{r setup, include=FALSE}
knitr::opts_chunk$set(echo = TRUE)
knitr::opts_chunk$set(dev="png", 
                      dev.args=list(type="cairo"),
                      dpi=96)
```

## R Markdown

This is an R Markdown document. Markdown is a simple formatting syntax for authoring HTML, PDF, and MS Word documents. For more details on using R Markdown see <http://rmarkdown.rstudio.com>.

When you click the **Knit** button a document will be generated that includes both content as well as the output of any embedded R code chunks within the document. You can embed an R code chunk like this:

```{r cars}
summary(cars)
```

## Including Plots

You can also embed plots, for example:

```{r pressure, echo=FALSE}
plot(pressure)
```

Note that the `echo = FALSE` parameter was added to the code chunk to prevent printing of the R code that generated the plot.

score 3 · Accepted Answer · answered Dec 02 '16 at 00:04

self_contained is an option for html_document, not a top-level YAML setting. The document below works using just that. PNG is the default figure type, so you don't need to specify that.

---
title: "Untitled"
output: 
  html_document:
    self_contained: no
---

```{r setup, include=FALSE}
knitr::opts_chunk$set(echo = TRUE)
```

## Including Plots

You can also embed plots, for example:

```{r pressure, echo=FALSE}
plot(pressure)
```

Setting knitr to output separate images

What I tried

Environment

MWE: The RStudio RMarkdown file, with abovementioned options added:

1 Answers1