Class AlchemyReader

  • All Implemented Interfaces:
    javajs.api.GenericLineReader

    public class AlchemyReader
    extends AtomSetCollectionReader
    TRIPOS simple Alchemy reader. atomtypes based on OpenBabel data/types.txt Somewhat flexible - for 3DNA compatibility. See http://rutchem.rutgers.edu/~xiangjun/3DNA/jmol/3dna_bp.alc) Bob Hanson 12/2008 also serves as MD3 reader
    • Field Detail

      • isM3D

        protected boolean isM3D
      • ac

        private int ac
      • bondCount

        private int bondCount
    • Constructor Detail

      • AlchemyReader

        public AlchemyReader()
    • Method Detail

      • readAtoms

        private void readAtoms()
                        throws java.lang.Exception
        Throws:
        java.lang.Exception
      • readBonds

        private void readBonds()
                        throws java.lang.Exception
        Throws:
        java.lang.Exception