PamlWriter

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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. final def eq(arg0: AnyRef): Boolean

   

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7. def equals(arg0: Any): Boolean

   

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8. def finalize(): Unit

   

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9. val fout: FileOutputStream

   

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

    

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11. def hashCode(): Int

    

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12. final def isInstanceOf[T0]: Boolean

    

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

    

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14. final def notify(): Unit

    

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15. final def notifyAll(): Unit

    

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16. var sequence_width: Int

    

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

    

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18. def toString(): String

    

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19. final def wait(): Unit

    

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

    

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

    

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22. def write[T <: AbstractSequence](list: List[T]): Unit

    

    Write PAML Paml format.

    Write PAML Paml format. The difference with the standard Paml implementation is that it writes longer ID's and makes sure there are two spaces between ID and sequence, as PAML wants it.

    Example:

    import bio.io.Control._ val tmpfn = File.createTempFile("BioScala-PAML-",".phy") using(new FileOutputStream(tmpfn)) { stream => new PamlWriter(stream).write(seqlist) }