Fixed a bug in ps.initparm
Initialized protein, stdAtoms, hetAtoms, hbondDonors, hbondAcceptors and ligand to {} instead of []
Added opacity: 0.9 and transparent: true
Filtered out atom.elem === 'H' in stdAtoms
Removed hetAtoms
Renamed stdAtoms to surface
Added surface to objects
Initialized objects from html
Renamed drawBox to createBox, drawBondsAsLine to createLineRepresentation, drawBondsAsStick to createStickRepresentation, and drawAtomsAsSphere to createSphereRepresentation
Removed doubleSided = true from drawSurface
Renamed drawSurface to createSurface
Removed createDashedLine. Created HBond representation using THREE.LinePieces