fix -H/-G input parameters for group_info
I noticed that pantools group_info
has broken when giving it homology group IDs with -H
or -G
.
This merge request streamlines the gathering of homology group node IDs with MSA where it works.
It therefore replaces the old parsing of homology groups that was done.
Also, I replaced all old print statements with log4j statements for pantools group_info
.