SnapArgs

Instance Constructors

new SnapArgs()

Value Members

final def !=(arg0: Any): Boolean

Definition Classes
AnyRef → Any
final def ##(): Int

Definition Classes
AnyRef → Any
final def ==(arg0: Any): Boolean

Definition Classes
AnyRef → Any
var addFiles: Boolean
final def asInstanceOf[T0]: T0

Definition Classes
Any
def clone(): AnyRef

Attributes
protected[java.lang]
Definition Classes
AnyRef
Annotations
@throws( ... )
def createReadGroup(): ReadGroup

Create a read group from the arguments in this class.
Create a read group from the arguments in this class.
returns
a read group created from the arguments in this class.

Definition Classes
ReadGroupArgs
var doPrintUsage: Boolean

Definition Classes
Args4jBase
final def eq(arg0: AnyRef): Boolean

Definition Classes
AnyRef
def equals(arg0: Any): Boolean

Definition Classes
AnyRef → Any
var executable: String
def finalize(): Unit

Attributes
protected[java.lang]
Definition Classes
AnyRef
Annotations
@throws( classOf[java.lang.Throwable] )
var flowOrder: String

Definition Classes
ReadGroupArgs
final def getClass(): Class[_]

Definition Classes
AnyRef → Any
def hashCode(): Int

Definition Classes
AnyRef → Any
var image: String
var indexPath: String
final def isInstanceOf[T0]: Boolean

Definition Classes
Any
var keySequence: String

Definition Classes
ReadGroupArgs
var library: String

Definition Classes
ReadGroupArgs
final def ne(arg0: AnyRef): Boolean

Definition Classes
AnyRef
final def notify(): Unit

Definition Classes
AnyRef
final def notifyAll(): Unit

Definition Classes
AnyRef
var platform: String

Definition Classes
ReadGroupArgs
var platformModel: String

Definition Classes
ReadGroupArgs
var platformUnit: String

Definition Classes
ReadGroupArgs
var predictedMedianInsertSize: Integer

Definition Classes
ReadGroupArgs
var readGroup: ReadGroup

Read group, to specify directly.
Read group, to specify directly.

Definition Classes
ReadGroupArgs
var readGroupId: String

Definition Classes
ReadGroupArgs
var runDate: Long

Definition Classes
ReadGroupArgs
var sampleId: String

Definition Classes
ReadGroupArgs
var sequencingCenter: String

Definition Classes
ReadGroupArgs
var snapArgs: String
var stringency: String
var sudo: Boolean
final def synchronized[T0](arg0: ⇒ T0): T0

Definition Classes
AnyRef
def toString(): String

Definition Classes
AnyRef → Any
var useDocker: Boolean
var useSingularity: Boolean
final def wait(): Unit

Definition Classes
AnyRef
Annotations
@throws( ... )
final def wait(arg0: Long, arg1: Int): Unit

Definition Classes
AnyRef
Annotations
@throws( ... )
final def wait(arg0: Long): Unit

Definition Classes
AnyRef
Annotations
@throws( ... )

Related Doc: package cannoli

class SnapArgs extends ReadGroupArgs

Instance Constructors

new SnapArgs()

Value Members

final def !=(arg0: Any): Boolean

final def ##(): Int

final def ==(arg0: Any): Boolean

var addFiles: Boolean

final def asInstanceOf[T0]: T0

def clone(): AnyRef

def createReadGroup(): ReadGroup

var doPrintUsage: Boolean

final def eq(arg0: AnyRef): Boolean

def equals(arg0: Any): Boolean

var executable: String

def finalize(): Unit

var flowOrder: String

final def getClass(): Class[_]

def hashCode(): Int

var image: String

var indexPath: String

final def isInstanceOf[T0]: Boolean

var keySequence: String

var library: String

final def ne(arg0: AnyRef): Boolean

final def notify(): Unit

final def notifyAll(): Unit

var platform: String

var platformModel: String

var platformUnit: String

var predictedMedianInsertSize: Integer

var readGroup: ReadGroup

var readGroupId: String

var runDate: Long

var sampleId: String

var sequencingCenter: String

var snapArgs: String

var stringency: String

var sudo: Boolean

final def synchronized[T0](arg0: ⇒ T0): T0

def toString(): String

var useDocker: Boolean

var useSingularity: Boolean

final def wait(): Unit

final def wait(arg0: Long, arg1: Int): Unit

final def wait(arg0: Long): Unit

Inherited from ReadGroupArgs

Inherited from Args4jBase

Inherited from AnyRef

Inherited from Any

Ungrouped