IoUtils

Value Members

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

   

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2. final def ##(): Int

   

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

   

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4. final def asInstanceOf[T0]: T0

   

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5. def clone(): AnyRef

   

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6. def copyDir(inputDir: File, externalDir: File): Unit

   

7. def copyFile(in: File, out: File, createDirs: Boolean = false): Unit

   

8. def copyStreamToFile(in: InputStream, out: File, createDirs: Boolean = false): Unit

   

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

   

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10. def equals(arg0: Any): Boolean

    

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11. def executableExist(exe: String): Boolean

    

12. def finalize(): Unit

    

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

    

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14. def getLinesFromFile(file: File): List[String]

    

    This return the contends of a file as a List[String]

15. def getUncompressedFileName(f: File, exts: Set[String] = zipExtensions): String

    

    Given a file object and a set of compression extensions, return the filename without any of the compression extensions.

    Given a file object and a set of compression extensions, return the filename without any of the compression extensions.

    Examples:

    • my_file.fq.gz returns "my_file.fq"
    • my_other_file.fastq returns "my_file.fastq"

    f

    Input file object.

    exts

    Possible compression extensions to trim.

    returns

    Filename without compression extension.

16. def hashCode(): Int

    

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17. final def isInstanceOf[T0]: Boolean

    

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

    

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19. final def notify(): Unit

    

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20. final def notifyAll(): Unit

    

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

    

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22. def toString(): String

    

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23. final def wait(): Unit

    

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

    

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

    

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26. def writeLinesToFile(output: File, lines: List[String]): Unit

    

27. val zipExtensions: Set[String]

    

    Possible compression extensions to trim from input files.