In order to give an estimate of the required time to run the provided package, we are giving some example of fresh runs on our machine (Intel Core i7-8700 CPU @ 3.20GHz × 12, 64 GB RAM; Operating system: Ubuntu 18.04):
For ‘sample1.in’,
Time for alignment = 2 minutes
Time for the whole pipeline = 3 minutes
For ‘sample2.in’,
Time for alignment = 10 minutes
Time for the whole pipeline = 27 minutes
For ‘supercluster_IL.in’,
Time for alignment = 16 hours 52 minutes
Time for the whole pipeline = 17 hours 37 minutes
For ‘supercluster_HL.in’,
Time for alignment = 11 minutes
Time for the whole pipeline = 1 hours 17 minutes