@DocumentedFeature public class AccumulateVariantCallingMetrics extends CommandLineProgram
| Modifier and Type | Field | Description |
|---|---|---|
List<File> |
INPUT |
|
File |
OUTPUT |
COMPRESSION_LEVEL, CREATE_INDEX, CREATE_MD5_FILE, GA4GH_CLIENT_SECRETS, MAX_RECORDS_IN_RAM, QUIET, REFERENCE_SEQUENCE, referenceSequence, specialArgumentsCollection, TMP_DIR, USE_JDK_DEFLATER, USE_JDK_INFLATER, VALIDATION_STRINGENCY, VERBOSITY| Constructor | Description |
|---|---|
AccumulateVariantCallingMetrics() |
| Modifier and Type | Method | Description |
|---|---|---|
protected int |
doWork() |
Do the work after command line has been parsed.
|
customCommandLineValidation, getCommandLine, getCommandLineParser, getDefaultHeaders, getFaqLink, getMetricsFile, getStandardUsagePreamble, getStandardUsagePreamble, getVersion, hasWebDocumentation, instanceMain, instanceMainWithExit, makeReferenceArgumentCollection, parseArgs, requiresReference, setDefaultHeaders, useLegacyParser@Argument(shortName="I",
doc="Paths (except for the file extensions) of Variant Calling Metrics files to read and merge.",
minElements=1)
public List<File> INPUT
@Argument(shortName="O",
doc="Path (except for the file extension) of output metrics files to write.")
public File OUTPUT
protected int doWork()
CommandLineProgramdoWork in class CommandLineProgram