requested by Andriy. Computes all IPS metrics on a per-interface basis

requested by Andriy. Computes all ICS metrics on a per-interface basis

enable contact scores and separate dockq and per-interface qs scores

CAD score computation requires residue numbers in model and reference
to match. This raises an error in the Scorer object otherwise.
Catch this early on and raise an error specific to compare-structures
action with instructions on how to get rid of it.

Mainly for reporting in the compare-structures action
residues are reported as strings in format:
<cname>.<rnum>.<ins_code>, atoms are reported as
<cname>.<rnum>.<ins_code>.<aname>. This changes behaviour of
compare-structures and ost.mol.alg.stereochemistry
(ToJSON functions of violation info objects for the latter).

- Tell the user that biounit indices are 0-based
- More info in output on what chains are actually processed

This code is considered deprecated as of release 2.4.0. The new lDDT
implementation has already been integrated into
qsscoring.py/compare-structures. I prefer to leave this completely legacy.

before: Scoring was only affected by mapped chains. Penalties for additional
chains in reference/model could be added by enabling "penalize_extra_chains"
flag.
now: Non-mapped chains from the reference penalize the lDDT score. Penalties
for additional chains in model can be added by enabling "penalize_extra_chains"
flag.

If fault_tolerant is enabled, it might happily read a cif file as PDB file.
As a consequence, there are no residues in the returned entity.

Executed command: 2to3-2.7 -n -w actions/ost-compare-structures