When I updated the version of Hugo, I no longer see the following Gist page.

<script src="https://gist.github.com/takoikatakotako/5aba51305d74c009a2c878897837e006.js"></script>

It worked by rewriting it as follows.

Reference: Shortcodes

I used Atom's regular expression substitution function to do the substitution in bulk.