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Jupytext setup (for *nix and Windows)

Installation

Run this command to install the jupytext extension:

conda install jupytext -c conda-forge

Start/restart jupyter. In the environment used to launch jupyter notebook you should now see the File > Jupytext menu. In jupyter lab, Jupytext adds a set of commands to the command palette (View / Activate Command Palette, or Ctrl+Shift+C):

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library(bigrquery)
library(magrittr)
library(dplyr)
library(tidyr)
project <- "gbqproject"
dataset_writeable <- "gbqdataset"
dataset_readonly <- "gbqdataset_source"

# test query to prompt for GBQ Credentials
# RStudio can't just run the whole file at once

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How to hold back or keep specific R version on Ubuntu

See https://askubuntu.com/questions/18654/how-to-prevent-updating-of-a-specific-package for additional details on package holding.

You have all system R packages as you want them:

If so, run the following:

apt-mark hold r-base r-base-core r-base-dev r-base-html r-cran-boot r-cran-class r-cran-cluster r-cran-codetools r-cran-foreign r-cran-kernsmooth r-cran-lattice r-cran-mass r-cran-matrix r-cran-mgcv r-cran-nlme r-cran-nnet r-cran-rpart r-cran-spatial r-cran-survival r-doc-html r-doc-info r-recommended

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JupyterHub Setup

System Setup

Setup Users/Groups/paths

sudo addgroup pythonusers
sudo gpasswd -M sethr,rebullm,tellb,dewittp pythonusers
sudo mkdir /opt/miniconda3

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name: hvplot_example
channels:
  - conda-forge
  - defaults
dependencies:
  - python=3.10
  - hvplot
  - intake
  - intake-parquet
  - intake-xarray

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How to use R, RStudio, and conda

I created a post to try to combine questions/issues people had as well as solutions I found.

See https://forum.posit.co/t/rstudio-and-conda/186130

RStudio Desktop

Key here is to make sure both R and LD_LIBRARY_PATH are coming from the desired conda environment.