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