Executable

Value Members

1. final def !=(arg0: Any): Boolean

   

   Definition Classes

   AnyRef → Any

2. final def ##(): Int

   

   Definition Classes

   AnyRef → Any

3. final def ==(arg0: Any): Boolean

   

   Definition Classes

   AnyRef → Any

4. def aboutText: String

   

   Definition Classes

   ToolCommand

5. def allTools: List[ToolCommand[_]]

   

6. def annotationTools: List[ToolCommand[_]]

   

7. def argsParser: ArgsParser

   

   Definition Classes

   Executable → ToolCommand

8. final def asInstanceOf[T0]: T0

   

   Definition Classes

   Any

9. def bamTools: List[ToolCommand[_]]

   

10. def clone(): AnyRef

    

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

11. def cmdArrayToArgs(args: Array[String]): Args

    

    Definition Classes

    ToolCommand

12. def contactText: String

    

    Definition Classes

    ToolCommand

13. def contributingText: String

    

    Definition Classes

    ToolCommand

14. def descriptionText: String

    

    Definition Classes

    Executable → ToolCommand

15. def documentationText: String

    

    Definition Classes

    ToolCommand

16. def emptyArgs: Args

    

    Definition Classes

    Executable → ToolCommand

17. final def eq(arg0: AnyRef): Boolean

    

    Definition Classes

    AnyRef

18. def equals(arg0: Any): Boolean

    

    Definition Classes

    AnyRef → Any

19. def example(args: String*): String

    

    Definition Classes

    ToolCommand

20. def exampleText: String

    

    Definition Classes

    Executable → ToolCommand

21. def fastqTools: List[ToolCommand[_]]

    

22. def finalize(): Unit

    

    Attributes

    protected[java.lang]

    Definition Classes

    AnyRef

    Annotations

    @throws( classOf[java.lang.Throwable] )

23. def generateDocumentation(outputDirectory: File, version: String, release: Boolean): Unit

    

    Definition Classes

    ToolCommand

24. def generateReadme(outputFile: File): Unit

    

    Definition Classes

    ToolCommand

25. final def getClass(): Class[_]

    

    Definition Classes

    AnyRef → Any

26. def hashCode(): Int

    

    Definition Classes

    AnyRef → Any

27. def installationText: String

    

    Definition Classes

    ToolCommand

28. final def isInstanceOf[T0]: Boolean

    

    Definition Classes

    Any

29. def logger: Logger

    

    Definition Classes

    Logging

30. def main(args: Array[String]): Unit

    

    Definition Classes

    Executable → ToolCommand

31. def mainPageContents: List[(String, String)]

    

    Definition Classes

    ToolCommand

32. def manualText: String

    

    Definition Classes

    Executable → ToolCommand

33. final def ne(arg0: AnyRef): Boolean

    

    Definition Classes

    AnyRef

34. final def notify(): Unit

    

    Definition Classes

    AnyRef

35. final def notifyAll(): Unit

    

    Definition Classes

    AnyRef

36. def otherTools: List[ToolCommand[_]]

    

37. def printToolList(title: String, tools: List[ToolCommand[_]]): Unit

    

38. def printToolList(): Unit

    

39. def readmeContents: List[(String, String)]

    

    Definition Classes

    ToolCommand

40. def sparkExample(args: String*): String

    

    Definition Classes

    ToolCommand

41. def sparkUnsafeExample(args: String*): String

    

    Definition Classes

    ToolCommand

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

    

    Definition Classes

    AnyRef

43. def toString(): String

    

    Definition Classes

    AnyRef → Any

44. def toolHtmlColumns(title: String, tools: List[ToolCommand[_]]): List[List[String]]

    

45. def toolName: String

    

    Definition Classes

    Executable → ToolCommand

46. def unsafeExample(args: String*): String

    

    Definition Classes

    ToolCommand

47. def urlToolName: String

    

    Definition Classes

    Executable → ToolCommand

48. def usageText: String

    

    Definition Classes

    ToolCommand

49. def vcfTools: List[ToolCommand[_]]

    

50. val versions: Map[ToolCommand[_], Option[String]]

    

51. final def wait(): Unit

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

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

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )

53. final def wait(arg0: Long): Unit

    

    Definition Classes

    AnyRef

    Annotations

    @throws( ... )