choderalab / protons

OpenMM testbed for constant-pH methodologies.
http://protons.readthedocs.io/
MIT License
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Ligand parameterization update #136

Closed bas-rustenburg closed 5 years ago

bas-rustenburg commented 5 years ago

This PR updates the parameterization procedure of ligands.

It uses the ELF10 charge method of openeye now (fallback to old mechanism present in case useful). It also eliminates the openmoltools dependency.

Note that the charging bug we were seeing might be related to antechamber. Will have to debug that in a separate PR.