The goal

Automating the Rmd code chunk testing

How to use this

• Check if there is an error in the git repo HEAD Rmds with the CircleCI badge etc.

• The CircleCI runs all Rmds in https://github.com/cytoscape/cytoscape-automation/tree/master/for-scripters/R/notebooks and generate the report as HTML.

• You can check the result HTML in the CircleCI ARTIFACTS tab.

• We need to replace

  knitr::opts_chunk$set(
    eval=FALSE
  )
  

  to

  knitr::opts_chunk$set(
    eval=TRUE
  )
  

  in the all Rmds.

How can I update the CircleCI configulation?

You can update it with editing https://github.com/cytoscape/cytoscape-automation/blob/master/.circleci/config.yml

When will the CircleCI run?

Every time you commit https://github.com/cytoscape/cytoscape-automation, it will run.

What is the CircleCI badge status?