java.lang.Object
- java.lang.Enum<MappingCounters>
- - fr.ens.biologie.genomique.eoulsan.modules.mapping.MappingCounters

All Implemented Interfaces:

Serializable, Comparable<MappingCounters>
```
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 Summary

Enum Constants
Enum Constant	Description
`ALIGNMENTS_REJECTED_BY_FILTERS_COUNTER`
`ALIGNMENTS_WITH_INVALID_SAM_FORMAT`
`ALIGNMENTS_WITH_MORE_ONE_HIT_COUNTER`
`GOOD_QUALITY_ALIGNMENTS_COUNTER`
`INPUT_ALIGNMENTS_COUNTER`
`INPUT_RAW_READS_COUNTER`
`INVALID_INPUT_PRETREATMENT_READS_COUNTER`
`MAPPER_WRITING_ERRORS`
`OUTPUT_FILTERED_ALIGNMENTS_COUNTER`
`OUTPUT_FILTERED_READS_COUNTER`
`OUTPUT_MAPPING_ALIGNMENTS_COUNTER`
`OUTPUT_PRETREATMENT_READS_COUNTER`
`READS_REJECTED_BY_FILTERS_COUNTER`
`UNMAP_READS_COUNTER`

Method Summary

All Methods Static Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`String`	`counterName()`	Get the name of the counter.
`String`	`toString()`
`static MappingCounters`	`valueOf(String name)`	Returns the enum constant of this type with the specified name.
`static MappingCounters[]`	`values()`	Returns an array containing the constants of this enum type, in the order they are declared.

Methods inherited from class java.lang.Enum
clone, compareTo, equals, finalize, getDeclaringClass, hashCode, name, ordinal, valueOf

Methods inherited from class java.lang.Object
getClass, notify, notifyAll, wait, wait, wait

- Enum Constant Detail
  - 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 Detail
  - values
```
public static MappingCounters[] values()
```
    Returns an array containing the constants of this enum type, in the order they are declared. This method may be used to iterate over the constants as follows:
    for (MappingCounters c : MappingCounters.values()) System.out.println(c);
    Returns:
    
    an array containing the constants of this enum type, in the order they are declared
  - valueOf
```
public static MappingCounters valueOf(String name)
```
    Returns the enum constant of this type with the specified name. The string must match exactly an identifier used to declare an enum constant in this type. (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 type 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>

Enum MappingCounters

Enum Constant Summary

Method Summary

Methods inherited from class java.lang.Enum

Methods inherited from class java.lang.Object

Enum Constant Detail

INPUT_RAW_READS_COUNTER

OUTPUT_PRETREATMENT_READS_COUNTER

INVALID_INPUT_PRETREATMENT_READS_COUNTER

OUTPUT_FILTERED_READS_COUNTER

READS_REJECTED_BY_FILTERS_COUNTER

OUTPUT_MAPPING_ALIGNMENTS_COUNTER

INPUT_ALIGNMENTS_COUNTER

UNMAP_READS_COUNTER

GOOD_QUALITY_ALIGNMENTS_COUNTER

MAPPER_WRITING_ERRORS

ALIGNMENTS_REJECTED_BY_FILTERS_COUNTER

ALIGNMENTS_WITH_INVALID_SAM_FORMAT

OUTPUT_FILTERED_ALIGNMENTS_COUNTER

ALIGNMENTS_WITH_MORE_ONE_HIT_COUNTER

Method Detail

values

valueOf

counterName

toString