Changed iview license from MIT to Apache License 2.0
Removed loadProteinInPDB, loadLigandInPDB, loadLigandInMOL2, loadLigandInSDF, and loadLigandInXYZ
Removed secondary structure support
Renamed primaryStructure to protein. Removed nothing in protein
Reordered options
Renamed colorBy to colorProteinBy
Renamed colorBy to colorProteinBy
Reordered code
Renamed loadProteinInPDBQT to parseProtein, and loadLigandInPDBQT to parseLigand
Breaked parsing ligand when encountering ENDMDL
Used query string to locate box.conf, protein.pdbqt and ligands.pdbqt