public class StandardOptionDefinitions extends Object
Modifier and Type | Field and Description |
---|---|
static String |
ASSUME_SORTED_SHORT_NAME |
static String |
EXPECTED_INSERT_SIZE_SHORT_NAME |
static String |
INPUT_SHORT_NAME |
static String |
LANE_SHORT_NAME |
static String |
LIBRARY_NAME_SHORT_NAME |
static String |
METRICS_FILE_SHORT_NAME |
static String |
MINIMUM_LOD_SHORT_NAME |
static String |
MINIMUM_MAPPING_QUALITY_SHORT_NAME |
static String |
OUTPUT_SHORT_NAME |
static String |
PF_READS_ONLY_SHORT_NAME |
static String |
PROGRAM_RECORD_ID_SHORT_NAME |
static String |
READ_GROUP_ID_SHORT_NAME |
static String |
REFERENCE_SHORT_NAME |
static String |
SAMPLE_ALIAS_SHORT_NAME |
static String |
SEQUENCE_DICTIONARY_SHORT_NAME |
static String |
SORT_ORDER_SHORT_NAME |
static String |
USE_ORIGINAL_QUALITIES_SHORT_NAME |
Constructor and Description |
---|
StandardOptionDefinitions() |
public static final String INPUT_SHORT_NAME
public static final String OUTPUT_SHORT_NAME
public static final String REFERENCE_SHORT_NAME
public static final String SAMPLE_ALIAS_SHORT_NAME
public static final String LIBRARY_NAME_SHORT_NAME
public static final String EXPECTED_INSERT_SIZE_SHORT_NAME
public static final String LANE_SHORT_NAME
public static final String SEQUENCE_DICTIONARY_SHORT_NAME
public static final String METRICS_FILE_SHORT_NAME
public static final String ASSUME_SORTED_SHORT_NAME
public static final String PF_READS_ONLY_SHORT_NAME
public static final String MINIMUM_MAPPING_QUALITY_SHORT_NAME
public static final String READ_GROUP_ID_SHORT_NAME
public static final String PROGRAM_RECORD_ID_SHORT_NAME
public static final String MINIMUM_LOD_SHORT_NAME
public static final String SORT_ORDER_SHORT_NAME
public static final String USE_ORIGINAL_QUALITIES_SHORT_NAME