Package htsjdk.samtools.util

Class SamRecordWithOrdinal

java.lang.Object
htsjdk.samtools.util.SamRecordWithOrdinal
public abstract class SamRecordWithOrdinal extends Object
A little class to store the unique index associated with this record. The index is determined as records are read in, so is in fact gives the ordinal of the record in the input file. All sub-classes should have a default constructor. Additionally, all implementations of this class must implement setResultState, as this class is typically used when wanting to return SAMRecord's in same input order, but only when some computation (ex. duplicate marking) has been performed.

  • Constructor Details

    • SamRecordWithOrdinal

      public SamRecordWithOrdinal()

    • SamRecordWithOrdinal

      public SamRecordWithOrdinal(SAMRecord record, long recordOrdinal)

  • Method Details

    • getRecord

      public SAMRecord getRecord()

    • setRecord

      public void setRecord(SAMRecord record)

    • getRecordOrdinal

      public long getRecordOrdinal()

    • setRecordOrdinal

      public void setRecordOrdinal(long recordOrdinal)

    • setResultState

      public abstract void setResultState(boolean resultState)
      Set the result state on this record.