Hi, I apologize about this question in case its easy answer, I have been trying to run this script written in perl blast_rod_finder.pl (https://github.com/aleimba/bac-genomics-scripts/tree/master/rod_finder), which finds regions of difference between two genomes. It should be pretty straight forward but when I run it nothing happens. It should give back a folder with the results but that's not the case and is not giving me any errors so not sure how to figure out whats going wrong. I checked and all my bioperl modules are there... any tips greatly appreciated.
This is the script I am using:
perl blast_rod_finder.pl -q CarnobacteriummaltaromaticumSKLD3.gbk -r CarnobacteriummaltaromaticumSKLD3_blastout -m 2000
-q is GBK file of the query -r blast output between query and a reference genome![enter image description here -m is size