knitr:运行Rmarkdown文档中的所有块 [英] knitr: run all chunks in an Rmarkdown document

问题描述

我有一个.rmd文件，该文件的编织过程很好.

I have an .Rmd document which knitr process just fine.

我想运行文档中的所有块，以便我可以探索 结果出现在我的R shell中.

I would like to run all the chunks in the document, so that I can explore the results in my R shell.

在Rstudio中，有一个选项可以运行文档中的所有块， 但是我找不到在简单的R会话(在终端中打开)中达到相同效果的方法.

In Rstudio there is an option to run all the chunks in the document, but I can't find a way to achieve the same effect in a simple R session (opened in my terminal).

有没有办法做到这一点?

Is there a way to do this?

推荐答案

使用Run all chunks等效于:

• 创建一个临时R文件
• 使用knitr::purl将所有R个块提取到临时文件中
• 使用source()运行文件
• 删除临时文件

• Create a temporary R file
• Use knitr::purl to extract all the R chunks into the temp file
• Use source() to run the file
• Delete the temp file

赞:

tempR <- tempfile(fileext = ".R")
library(knitr)
purl("SO-tag-package-dependencies.Rmd", output=tempR)
source(tempR)
unlink(tempR)

但是您将需要将其转换为功能.这很容易，除了必须使用sys.source在全局环境中运行R脚本:

But you will want to turn this into a function. This is easy enough, except you have to use sys.source to run the R script in the global environment:

runAllChunks <- function(rmd, envir=globalenv()){
  tempR <- tempfile(tmpdir = ".", fileext = ".R")
  on.exit(unlink(tempR))
  knitr::purl(rmd, output=tempR)
  sys.source(tempR, envir=envir)
}

runAllChunks("SO-tag-package-dependencies.Rmd")

这篇关于knitr:运行Rmarkdown文档中的所有块的文章就介绍到这了，希望我们推荐的答案对大家有所帮助，也希望大家多多支持IT屋！