Rendered url{} form in PDF is used as local link if opened in PDF Viewer
Links created with the url{}
label like in line 73 can work as rendered PDF if viewed online, or with an in-browser pdf viewer, but if the PDF is downloaded and viewed in an application running locally, a link like "github.com/datadesk/notebooks" looks nicer without the "https://", but will break.
Software can be found here: \url{github.com/datadesk/notebooks}
I suggest using the href{}{}
label, which allows entering the address and the text that is meant to reference. For example:
\href{https://www.github.com/datadesk/notebooks}{github.com/datadesk/notebooks}
\href{https://www.github.com/datadesk/notebooks}{github.com/datadesk/notebooks}
The important decision will be, whether it is enough to have the "correct/full" link in metadata (linked) or whether it also needs to be present in text form (when printed).