Package org.snpeff.fileIterator
Class GenericMarkerFileIterator
- java.lang.Object
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- org.snpeff.fileIterator.FileIterator<M>
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- org.snpeff.fileIterator.MarkerFileIterator<GenericMarker>
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- org.snpeff.fileIterator.GenericMarkerFileIterator
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- All Implemented Interfaces:
java.lang.Iterable<GenericMarker>
,java.util.Iterator<GenericMarker>
public class GenericMarkerFileIterator extends MarkerFileIterator<GenericMarker>
Opens a file and creates generic markers (one per line)- Author:
- pcingola
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Field Summary
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Fields inherited from class org.snpeff.fileIterator.MarkerFileIterator
createChromos, genome, ignoreChromosomeErrors, inOffset
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Constructor Summary
Constructors Constructor Description GenericMarkerFileIterator(java.lang.String fileName, int colChr, int colStart, int colEnd, int inOffset)
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description protected GenericMarker
readNext()
Read next element-
Methods inherited from class org.snpeff.fileIterator.MarkerFileIterator
getChromosome, getGenome, init, isIgnoreChromosomeErrors, loadMarkers, parsePosition, sanityCheckChromo, setCreateChromos, setIgnoreChromosomeErrors, setInOffset
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Methods inherited from class org.snpeff.fileIterator.FileIterator
close, countNewLineChars, getFilePointer, getLine, getLineNum, guessNewLineChars, hasNext, hasSeek, isDebug, iterator, load, next, readLine, ready, remove, seek, setAutoClose, setDebug, setVerbose, toString
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Method Detail
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readNext
protected GenericMarker readNext()
Description copied from class:FileIterator
Read next element- Specified by:
readNext
in classFileIterator<GenericMarker>
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