Within your while loop you have a FILE error.

while(<MYINPUTFILE>) {
        my($line) = $_;
        chomp($line);
        print FILE2 "$line\n";
        print FILE2 "you need to do this\n";
        print FILE " \n";  <------ *HERE*
    } else {
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Should probably be FILE2. I am making an assumption though because we don't have all of the code and you could possibly have FILE defined further up.