public static MultipleAlignmentJmol display ( MultipleAlignment multAln ) throws StructureException { List < Atom [ ] > rotatedAtoms = MultipleAlignmentDisplay . getRotatedAtoms ( multAln ) ; MultipleAlignmentJmol jmol = new MultipleAlignmentJmol ( multAln , rotatedAtoms ) ; jmol . setTitle ( jmol . getStructure ( ) . getPDBHeader ( ) . getTitle ( ) ) ; return jmol ; }
Display a MultipleAlignment with a JmolPanel . New structures are downloaded if they were not cached in the alignment and they are entirely transformed here with the superposition information in the Multiple Alignment .