This is always a fucking lie, and I wish we (as a community) would band together to make it more painful for giant companies to just spam DMCA takedowns as part of their DRM strategy.
Ignoring the entire issue with the fact that there probably wasn't any copyrighted material in the repo to begin with and that code is speech, and speech is protected in the US - in other words, taking the most charitable (for corporations) interpretation of the DMCA and assuming that neither of those holds true, a fair use provision still should hold!
Circumvention for purposes of transposing your media to a different platform (time-shifting, archival) are already explicitly allowed per USC and rulings (if I'm not mistaken).
I don't have the energy to type more. All in all, the DMCA needs some fangs pulled. Or fangs added, in the "perjury" category for entities that send out bad faith takedowns for code that they don't like. Has anyone ever been held legally responsible for a bad-faith DMCA takedown request? Don't think I've seen it.