Scaffold support for R files

[jaesmin]

Hello!
Running ploomber scaffold with a pipeline.yaml containing .R or .Rmd files returns this error, "This command does not support adding tasks with extension ".R", valid ones are .py and .sql."

Is scaffold able to create a pipeline with R files?

Thank you,
Jae

[edublancas]

Hi @jaesmin!

Unfortunately, ploomber scaffold does not work with .R/.Rmd files yet, but thanks for reporting this, we'll add it to the roadmap for the next release 😊

In the meantime, you can use our R example to get started quickly: https://github.com/ploomber/projects/tree/master/templates/spec-api-r

If you have ploomber installed, you can get the example executing:

ploomber examples -n templates/spec-api-r -o r-example

Then move to the r-example folder and execute:

ploomber build

Note that for R to work with Ploomber, you need to install and configure IRKernel, check out the instructions here: https://docs.ploomber.io/en/latest/user-guide/r-support.html#configuring-r-environment

Let me know if you're able to run the R example, if you have further questions, you can join our Slack community: https://ploomber.io/community

Thanks for your feedback!

[edublancas]

Hi, this has been fixed in Ploomber 0.14.5

Quick example:

# upgrade
pip install ploomber --upgrade

# get example
ploomber examples -n templates/spec-api-r -o example

# move to folder
cd example

Edit pipeline.yaml (e.g., here I add a new task at the end):

tasks:
  # use plain R scripts
  - source: raw.R
    product:
      # this is the executed version of your script
      # you can review tables and charts here
      nb: output/raw.html
      data: output/raw.csv

  - source: clean.R
    product:
      nb: output/clean.html
      data: output/clean.csv

  # R markdown files also supported
  - source: plot.Rmd
    product: output/plot.html

  # my new task
  - source: new-task.Rmd
    product: output/new-task.html

Then:

# add new task
ploomber scaffold

# build pipeline
ploomber build

If you're using RStudio, you can run the following to inject input paths on each file:

# inject cells
ploomber nb --inject

# now open any .Rmd files and execute them

More on that here: https://docs.ploomber.io/en/latest/user-guide/editors.html

Feel free to ask any questions and please submit any feedback you may have!

[edublancas]

We just uploaded an R screencast :) https://www.youtube.com/watch?v=AOd7JHXpchc

[jaesmin]

Amazing. Thank you!

[edublancas]

Forgot to post the blog post URL. Reach out if you have feedback questions :)