I tried redefining the \\FancyVerbLine to have a \\large, but that didn't help. Is there another way to do this?
That should do the trick. How exactly does your \\FancyVerbLine
look like? Notice that it's not enough to put the formatting in – you also need to include the counter command:
\renewcommand\theFancyVerbLine{\large\arabic{FancyVerbLine}}
This should work.
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