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Class iubio.readseq.PhylipSeqFormat

java.lang.Object
   |
   +----iubio.readseq.BioseqFormat
           |
           +----iubio.readseq.PhylipSeqFormat

public class PhylipSeqFormat
extends iubio.readseq.BioseqFormat

Constructor Index

 o PhylipSeqFormat()

Method Index

 o canread()
 o canwrite()
 o contentType()
 o formatName()
 o formatSuffix()
 o formatTestInit()
 o formatTestLine(OpenString, int, int)
 o interleaved()
 o needsamelength()
 o newReader()
 o newWriter()
 o readSpeciesLength(OpenString)
 o sequenceLength()
 o speciesCount()

Constructors

 o PhylipSeqFormat
 public PhylipSeqFormat()

Methods

 o formatName
 public java.lang.String formatName()
Overrides:
formatName in class iubio.readseq.BioseqFormat
 o formatSuffix
 public java.lang.String formatSuffix()
Overrides:
formatSuffix in class iubio.readseq.BioseqFormat
 o contentType
 public java.lang.String contentType()
Overrides:
contentType in class iubio.readseq.BioseqFormat
 o canread
 public boolean canread()
Overrides:
canread in class iubio.readseq.BioseqFormat
 o canwrite
 public boolean canwrite()
Overrides:
canwrite in class iubio.readseq.BioseqFormat
 o interleaved
 public boolean interleaved()
Overrides:
interleaved in class iubio.readseq.BioseqFormat
 o needsamelength
 public boolean needsamelength()
Overrides:
needsamelength in class iubio.readseq.BioseqFormat
 o newWriter
 public iubio.readseq.BioseqWriterIface newWriter()
Overrides:
newWriter in class iubio.readseq.BioseqFormat
 o newReader
 public iubio.readseq.BioseqReaderIface newReader()
Overrides:
newReader in class iubio.readseq.BioseqFormat
 o formatTestInit
 public void formatTestInit()
Overrides:
formatTestInit in class iubio.readseq.BioseqFormat
 o formatTestLine
 public boolean formatTestLine(flybase.OpenString sp,
                               int atline,
                               int skiplines)
Overrides:
formatTestLine in class iubio.readseq.BioseqFormat
 o speciesCount
 public final int speciesCount()
 o sequenceLength
 public final int sequenceLength()
 o readSpeciesLength
 public static iubio.readseq.NumSppBases readSpeciesLength(flybase.OpenString sp)

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