\(\DeclareMathOperator{\expit}{expit}\) \(\DeclareMathOperator{\logit}{logit}\) \(\DeclareMathOperator*{\argmin}{\arg\!\min}\) \(\newcommand{\indep}{\perp\!\!\!\perp}\) \(\newcommand{\coloneqq}{\mathrel{=}}\) \(\newcommand{\R}{\mathbb{R}}\) \(\newcommand{\E}{\mathbb{E}}\) \(\newcommand{\M}{\mathcal{M}}\) \(\renewcommand{\P}{\mathbb{P}}\) \(\newcommand{\I}{\mathbb{I}}\) \(\newcommand{\1}{\mathbbm{1}}\)
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[ENAR 2023 Short Course] Targeted Learning: Advanced Methods for Causal Machine Learning

Install Software Packages

Please set up the R virtual environment using the instructions. If you experiencing issues with the R environment, you may install the relevant software packages before the workshop using the installation script.

The tlverse packages depend on other packages that are also hosted on GitHub. Because of this, you may see the following error:

Error: HTTP error 403.
  API rate limit exceeded for 71.204.135.82. (But here's the good news:
  Authenticated requests get a higher rate limit. Check out the documentation
  for more details.)

  Rate limit remaining: 0/60
  Rate limit reset at: 2019-03-04 19:39:05 UTC

  To increase your GitHub API rate limit
  - Use `usethis::browse_github_pat()` to create a Personal Access Token.
  - Use `usethis::edit_r_environ()` and add the token as `GITHUB_PAT`.

This just means that R tried to install too many packages from GitHub in too short of a window. To fix this, you need to tell R how to use GitHub as your user (you’ll need a GitHub user account). Follow these two steps:

  1. Type usethis::browse_github_pat() in your R console, which will direct you to GitHub’s page to create a New Personal Access Token (PAT).

  2. Create a PAT simply by clicking “Generate token” at the bottom of the page.

  3. Copy your PAT, a long string of lowercase letters and numbers.

  4. Type usethis::edit_r_environ() in your R console, which will open your .Renviron file in the source window of RStudio.

    1. If your .Renviron file does not pop-up after calling usethis::edit_r_environ(); then try inputting Sys.setenv(GITHUB_PAT = "yourPAT"), replacing your PAT with inside the quotes. If this does not error, then skip to step 8.

  5. In your .Renviron file, type GITHUB_PAT= and then paste your PAT after the equals symbol with no space.

  6. In your .Renviron file, press the enter key to ensure that your .Renviron ends with a new line.

  7. Save your .Renviron file. The example below shows how this syntax should look.

GITHUB_PAT <- yourPAT
  1. Restart R. You can restart R via the drop-down menu on RStudio’s “Session” tab, which is located at the top of the RStudio interface. You have to restart R for the changes to take effect!

After following these steps, you should be able to successfully install the package which threw the error above.