There is probably a better solution, and I suspect it has something to do with the seek.
Indeed. This is how I've fixed it:
$. = 0;
seek $fh, 0, 0
or die "Can't rewind handle to $file: $!\n";
(Updated: Actually, you also have to move that code so that it gets run before 'print' (for example) gets called, which is required else $. would be tied to STDOUT.)
Alternately, you can do:
{ my $eof = <$fh>; $. = 0; }
seek...
Or I could just open the file twice.
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