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fix -H/-G input parameters for group_info

Workum, Dirk-Jan van requested to merge fix_group_info_homology_group_input into develop

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.

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