Package fr.ens.biologie.genomique.eoulsan.modules.mapping

Enum Class MappingCounters

java.lang.Object
java.lang.Enum<MappingCounters>
fr.ens.biologie.genomique.eoulsan.modules.mapping.MappingCounters
All Implemented Interfaces:
Serializable, Comparable<MappingCounters>, Constable
public enum MappingCounters extends Enum<MappingCounters>
This enum define the names of the counters of the steps of this package.
Since:
1.0
Author:
Laurent Jourdren

  • Enum Constant Details

    • INPUT_RAW_READS_COUNTER

      public static final MappingCounters INPUT_RAW_READS_COUNTER

    • OUTPUT_PRETREATMENT_READS_COUNTER

      public static final MappingCounters OUTPUT_PRETREATMENT_READS_COUNTER

    • INVALID_INPUT_PRETREATMENT_READS_COUNTER

      public static final MappingCounters INVALID_INPUT_PRETREATMENT_READS_COUNTER

    • OUTPUT_FILTERED_READS_COUNTER

      public static final MappingCounters OUTPUT_FILTERED_READS_COUNTER

    • READS_REJECTED_BY_FILTERS_COUNTER

      public static final MappingCounters READS_REJECTED_BY_FILTERS_COUNTER

    • OUTPUT_MAPPING_ALIGNMENTS_COUNTER

      public static final MappingCounters OUTPUT_MAPPING_ALIGNMENTS_COUNTER

    • INPUT_ALIGNMENTS_COUNTER

      public static final MappingCounters INPUT_ALIGNMENTS_COUNTER

    • UNMAP_READS_COUNTER

      public static final MappingCounters UNMAP_READS_COUNTER

    • GOOD_QUALITY_ALIGNMENTS_COUNTER

      public static final MappingCounters GOOD_QUALITY_ALIGNMENTS_COUNTER

    • MAPPER_WRITING_ERRORS

      public static final MappingCounters MAPPER_WRITING_ERRORS

    • ALIGNMENTS_REJECTED_BY_FILTERS_COUNTER

      public static final MappingCounters ALIGNMENTS_REJECTED_BY_FILTERS_COUNTER

    • ALIGNMENTS_WITH_INVALID_SAM_FORMAT

      public static final MappingCounters ALIGNMENTS_WITH_INVALID_SAM_FORMAT

    • OUTPUT_FILTERED_ALIGNMENTS_COUNTER

      public static final MappingCounters OUTPUT_FILTERED_ALIGNMENTS_COUNTER

    • ALIGNMENTS_WITH_MORE_ONE_HIT_COUNTER

      public static final MappingCounters ALIGNMENTS_WITH_MORE_ONE_HIT_COUNTER

  • Method Details

    • values

      public static MappingCounters[] values()
      Returns an array containing the constants of this enum class, in the order they are declared.
      Returns:
      an array containing the constants of this enum class, in the order they are declared

    • valueOf

      public static MappingCounters valueOf(String name)
      Returns the enum constant of this class with the specified name. The string must match exactly an identifier used to declare an enum constant in this class. (Extraneous whitespace characters are not permitted.)
      Parameters:
      name - the name of the enum constant to be returned.
      Returns:
      the enum constant with the specified name
      Throws:
      IllegalArgumentException - if this enum class has no constant with the specified name
      NullPointerException - if the argument is null

    • counterName

      public String counterName()
      Get the name of the counter.
      Returns:
      the name of the counter

    • toString

      public String toString()
      Overrides:
      toString in class Enum<MappingCounters>