Package htsjdk.samtools.cram.build
Class CramSpanContainerIterator
- java.lang.Object
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- htsjdk.samtools.cram.build.CramContainerIterator
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- htsjdk.samtools.cram.build.CramSpanContainerIterator
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- All Implemented Interfaces:
Closeable
,AutoCloseable
,Iterator<Container>
public final class CramSpanContainerIterator extends CramContainerIterator
An iterator of CRAM containers read from locations in aSeekableStream
. The locations are specified with pairs of coordinates, and are basically file pointers as returned for example bySamReader.Indexing.getFilePointerSpanningReads()
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Method Summary
All Methods Static Methods Instance Methods Concrete Methods Modifier and Type Method Description static CramSpanContainerIterator
fromFileSpan(SeekableStream seekableStream, long[] coordinates)
boolean
hasNext()
Container
next()
void
remove()
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Methods inherited from class htsjdk.samtools.cram.build.CramContainerIterator
close, containerFromStream, getCramHeader, getSamFileHeader
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Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
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Methods inherited from interface java.util.Iterator
forEachRemaining
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Method Detail
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fromFileSpan
public static CramSpanContainerIterator fromFileSpan(SeekableStream seekableStream, long[] coordinates)
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hasNext
public boolean hasNext()
- Specified by:
hasNext
in interfaceIterator<Container>
- Overrides:
hasNext
in classCramContainerIterator
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next
public Container next()
- Specified by:
next
in interfaceIterator<Container>
- Overrides:
next
in classCramContainerIterator
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remove
public void remove()
- Specified by:
remove
in interfaceIterator<Container>
- Overrides:
remove
in classCramContainerIterator
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