25 lines
692 B
Java
25 lines
692 B
Java
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package org.broadinstitute.sting.gatk.io;
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import net.sf.samtools.SAMFileWriter;
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import net.sf.samtools.SAMFileHeader;
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/**
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* A writer that will allow unsorted BAM files to be written
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* and sorted on-the-fly.
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*
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* @author mhanna
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* @version 0.1
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*/
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public interface StingSAMFileWriter extends SAMFileWriter {
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/**
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* Writes the given custom header to SAM file output.
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* @param header The header to write.
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*/
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public void writeHeader(SAMFileHeader header);
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/**
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* Set Whether the BAM file to create is actually presorted.
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* @param presorted True if the BAM file is presorted. False otherwise.
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*/
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public void setPresorted(boolean presorted);
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}
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