Package jgromacs.data

Class SequencePosition

  • All Implemented Interfaces:
    java.lang.Cloneable
    public class SequencePosition
extends java.lang.Object
implements java.lang.Cloneable
    Objects of this class represent a single sequence position

    • Constructor Summary

      Constructors 
      Constructor Description
      SequencePosition()
      Constructs a new SequencePosition object
      SequencePosition​(int index, java.lang.String annotation)
      Constructs a new SequencePosition object of given index and annotation
      SequencePosition​(int index, ResidueType residueType)
      Constructs a new SequencePosition object of given index and residue type
      SequencePosition​(int index, ResidueType residueType, java.lang.String annotation)
      Constructs a new SequencePosition object of given index, residue type and annotation
      SequencePosition​(ResidueType residueType, java.lang.String annotation)
      Constructs a new SequencePosition object of residue type and annotation

    • Method Summary

      All Methods Instance Methods Concrete Methods 
      Modifier and Type Method Description
      java.lang.Object clone()
      Returns an identical SequencePosition object
      boolean equals​(java.lang.Object other)
      Returns true if the two sequence positions are identical
      java.lang.String getAnnotation()
      Returns the annotation of sequence position
      int getIndex()
      Returns the index of sequence position
      ResidueType getResidueType()
      Returns the residue type of sequence position
      int hashCode()
      Returns hash code
      void setAnnotation​(java.lang.String annotation)
      Sets the annotation of sequence position
      void setIndex​(int index)
      Sets the index of sequence position
      void setResidueType​(ResidueType residueType)
      Sets the residue type of sequence position
      java.lang.String toString()
      Returns the String representation of sequence position

      • Methods inherited from class java.lang.Object

        finalize, getClass, notify, notifyAll, wait, wait, wait

    • Constructor Detail

      • SequencePosition

        public SequencePosition()
        Constructs a new SequencePosition object

      • SequencePosition

        public SequencePosition​(int index,
                        ResidueType residueType)
        Constructs a new SequencePosition object of given index and residue type
        Parameters:
        index - index
        residueType - residue type

      • SequencePosition

        public SequencePosition​(int index,
                        java.lang.String annotation)
        Constructs a new SequencePosition object of given index and annotation
        Parameters:
        index - index
        annotation - annotation

      • SequencePosition

        public SequencePosition​(ResidueType residueType,
                        java.lang.String annotation)
        Constructs a new SequencePosition object of residue type and annotation
        Parameters:
        residueType - residue type
        annotation - annotation

      • SequencePosition

        public SequencePosition​(int index,
                        ResidueType residueType,
                        java.lang.String annotation)
        Constructs a new SequencePosition object of given index, residue type and annotation
        Parameters:
        index - index
        residueType - residue type
        annotation - annotation

    • Method Detail

      • getIndex

        public int getIndex()
        Returns the index of sequence position
        Returns:
        index of sequence position

      • setIndex

        public void setIndex​(int index)
        Sets the index of sequence position
        Parameters:
        index - index of sequence position

      • getAnnotation

        public java.lang.String getAnnotation()
        Returns the annotation of sequence position
        Returns:
        annotation of sequence position

      • setAnnotation

        public void setAnnotation​(java.lang.String annotation)
        Sets the annotation of sequence position
        Parameters:
        annotation - annotation of sequence position

      • getResidueType

        public ResidueType getResidueType()
        Returns the residue type of sequence position
        Returns:
        residue type of sequence position

      • setResidueType

        public void setResidueType​(ResidueType residueType)
        Sets the residue type of sequence position
        Parameters:
        residueType - residue type of sequence position

      • clone

        public java.lang.Object clone()
        Returns an identical SequencePosition object
        Overrides:
        clone in class java.lang.Object
        Returns:
        clone of the sequence position

      • equals

        public boolean equals​(java.lang.Object other)
        Returns true if the two sequence positions are identical
        Overrides:
        equals in class java.lang.Object
        Parameters:
        other - the other sequence position

      • hashCode

        public int hashCode()
        Returns hash code
        Overrides:
        hashCode in class java.lang.Object

      • toString

        public java.lang.String toString()
        Returns the String representation of sequence position
        Overrides:
        toString in class java.lang.Object
        Returns:
        String representation