| my %packages = $_;
You can't do this. When you passed the %new_db to the sub, it got broken apart into a list, which looks like (1, 'gedit', 2, 'ppp'). So when you write $_ you are getting the first thing in that list, but you wanted to get the whole thing.
You could fix it by writing @_[1..$#_] to get the whole thing, but that's pretty ugly. You could also write my ($count, %packages) = @_; which is less ugly and does the same thing.
The best thing is to not even break the hash into a list at all. You can do that by passing a reference to the sub.
Read about references at http://perldoc.com/perl5.8.0/pod/perlreftut.html
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