https://github.com/audy/make-rmarkdown

Make + RMarkdown for minimally replicable scientific computing.
https://github.com/audy/make-rmarkdown

Last synced: about 1 month ago
JSON representation

Make + RMarkdown for minimally replicable scientific computing.

• Host: GitHub
• URL: https://github.com/audy/make-rmarkdown
• Owner: audy
• License: mit
• Created: 2014-12-22T20:26:31.000Z (almost 10 years ago)
• Default Branch: master
• Last Pushed: 2016-07-01T19:45:55.000Z (over 8 years ago)
• Last Synced: 2024-10-02T17:41:28.035Z (about 2 months ago)
• Language: Makefile
• Homepage: http://blog.agdr.co/2014/12/22/RMarkdown-+-Make.html
• Size: 10.7 KB
• Stars: 9
• Watchers: 2
• Forks: 3
• Open Issues: 1
• Metadata Files:
  • Readme: readme.md
  • License: LICENSE

Awesome Lists containing this project

README

        
# make + rmarkdown

![travis-ci](https://travis-ci.org/audy/make-rmarkdown.svg)

by: Austin G. Davis-Richardson 

Example of using knitR + Make + RMarkdown for minimally replicable scientific

computing. Use this as a skeleton for new R projects.

## Instructions

1. Data goes in `data/` (I usually use symlinks or git modules and track this in

   a separate repository).

2. Rmarkdown files go in `notebooks`. I've been trying to treat them like a lab

   notebook and write one per day.

3. Type `make` (this renders all Rmarkdown files to HTML).

You should see something like:

```bash

$ make

notebooks/1-hello-world.Rmd -> notebooks/1-hello-world.html

echo "library(knitr); knit(\"notebooks/1-hello-world.Rmd\", \"notebooks/1-hello-world.html\")" | R --slave --vanilla --no-save

processing file: notebooks/1-hello-world.Rmd

  |.................................................................| 100%

  ordinary text without R code

output file: notebooks/1-hello-world.html

[1] "notebooks/1-hello-world.html"

```

Or, using Docker:

```bash

$ docker build --tag myrproject

$ docker run myrproject

```

## TODO

- Add Packrat for dependency management/vendoring.