Global symbol "$ID2" requires explicit package name at /home/choia2/scripts/BowtieCompare.pl line 50.
Global symbol "$ID2" requires explicit package name at /home/choia2/scripts/BowtieCompare.pl line 51.
Global symbol "$Seq1" requires explicit package name at /home/choia2/scripts/BowtieCompare.pl line 53.
Global symbol "$Seq2" requires explicit package name at /home/choia2/scripts/BowtieCompare.pl line 53.
Global symbol "$Seq1" requires explicit package name at /home/choia2/scripts/BowtieCompare.pl line 56.
Global symbol "$Seq2" requires explicit package name at /home/choia2/scripts/BowtieCompare.pl line 56.
Execution of /home/choia2/scripts/BowtieCompare.pl aborted due to compilation errors.