R-tutorials-sandbox

Open in 2i2c

Repository for converting existing tutorials to Quarto and adding R code

The environments

Python: https://github.com/NASA-Openscapes/corn/blob/main/ci/environment.yml

R: rocker/geospatial:4.2

SET UP specific for the 2i2c Hub

This is important. The Dockerfile for RStudio has a bug such that it does not set the path correctly so that the Python is in the conda notebook environment. You only do this once!

Run this code in the R console:

usethis::edit_r_environ()

When the .Renviron file opens paste this into it.

PATH = "/usr/bin:/srv/conda/envs/notebook/bin:/srv/conda/condabin:/usr/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/sbin:/bin:/usr/local/texlive/bin/linux:/usr/local/texlive/bin/linux:/usr/lib/rstudio-server/bin/quarto/bin:/usr/lib/rstudio-server/bin/postback/postback:/usr/bin:/usr/bin:/usr/bin:"

Convert ipynb to qmd

You will need to edit the yaml at the top.

format:
  html:
    code-fold: true

input <- "tutorials/Earthdata_Search_Discovery_earthaccess.ipynb"
filename <- "tutorials/Earthdata_Search_Discovery"
rmarkdown::convert_ipynb(input, output = xfun::with_ext(filename, "qmd"))