Reproducible Publishing and literate programming with Quarto
Preparation
If you would like to follow along on your own computer during the workshop, please install Quarto and prepare your setup following the instructions below. For demonstrations, we will mostly be using RStudio. However, if you prefer to work with Python and Visual Studio Code, that is also fine - we provide parallel instructions for most parts of the workshop material.
For general instructions on how to install Quarto, see https://quarto.org/docs/get-started/.
R / RStudio setup
Recent versions of RStudio comes with built-in support for Quarto. Thus, we recommend installing a recent version of R (the current release version is 4.4) and RStudio, e.g. following the links and instructions available at https://posit.co/download/rstudio-desktop/.
In order to render documents into pdf format, Quarto needs to be able to access LaTeX. You can use Quarto to install TinyTeX by following the instructions at https://quarto.org/docs/output-formats/pdf-basics.html - i.e., type
in the terminal (this can be done from the RStudio Terminal window).
Python / Visual Studio Code setup
For instructions on how to get started with Quarto in VS Code, see https://quarto.org/docs/get-started/hello/vscode.html.
First, make sure that Python is available. For example, use conda to create an environment (here named quartoenv) with the packages that we will use in this workshop:
Instructions on how to install VS Code can be found at https://code.visualstudio.com/.
You will need to add a few extensions to VS Code (you can do this from inside VS Code by clicking on the Extensions tab). The extensions we need are Python, Quarto, and Jupyter.
Next, open the Command Palette by pressing Ctrl + Shift + P (Cmd + Shift + P on macOS), and search for the command Python: Select Interpreter. Click on it and select the interpreter corresponding to the conda environment that you created above.
Finally, in order to render documents into pdf format, Quarto needs to be able to access LaTeX. You can use Quarto to install TinyTeX by following the instructions at https://quarto.org/docs/output-formats/pdf-basics.html - i.e., type
in the terminal (this can be done from the VS Code Terminal panel).