Package org.biojava.nbio.structure.align.pairwise

Class AlignmentResult

java.lang.Object
org.biojava.nbio.structure.align.pairwise.AlignmentResult
All Implemented Interfaces:
Serializable
public class AlignmentResult extends Object implements Serializable
A class to track the alignment results in a flat file
Author:
andreas
See Also:

  • Constructor Details

    • AlignmentResult

      public AlignmentResult()

  • Method Details

    • toString

      public String toString()
      Overrides:
      toString in class Object

    • getAlignments

      public AlternativeAlignment[] getAlignments()

    • setAlignments

      public void setAlignments(AlternativeAlignment[] alignments)
      we only keep the first alternative...
      Parameters:
      alignments -

    • getPdb1

      public String getPdb1()

    • setPdb1

      public void setPdb1(String pdb1)

    • getPdb2

      public String getPdb2()

    • setPdb2

      public void setPdb2(String pdb2)

    • getChain1

      public String getChain1()

    • setChain1

      public void setChain1(String chain1)

    • getChain2

      public String getChain2()

    • setChain2

      public void setChain2(String chain2)

    • getLength1

      public int getLength1()

    • setLength1

      public void setLength1(int length1)

    • getLength2

      public int getLength2()

    • setLength2

      public void setLength2(int length2)

    • getCalculationTime

      public long getCalculationTime()

    • setCalculationTime

      public void setCalculationTime(long calculationTime)

    • getIoTime

      public long getIoTime()

    • setIoTime

      public void setIoTime(long ioTime)

    • serialize

      public void serialize(File output) throws IOException
      Throws:
      IOException

    • deserialize

      public static AlignmentResult deserialize(File output) throws IOException, ClassNotFoundException
      Throws:
      IOException
      ClassNotFoundException