1 // ***************************************************************************
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2 // BamWriter.h (c) 2009 Michael Str�mberg, Derek Barnett
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3 // Marth Lab, Department of Biology, Boston College
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4 // All rights reserved.
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5 // ---------------------------------------------------------------------------
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6 // Last modified: 19 November 2010 (DB)
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7 // ---------------------------------------------------------------------------
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8 // Provides the basic functionality for producing BAM files
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9 // ***************************************************************************
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14 #include <api/api_global.h>
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15 #include <api/BamAlignment.h>
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18 namespace BamTools {
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20 namespace Internal {
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21 class BamWriterPrivate;
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22 } // namespace Internal
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24 class API_EXPORT BamWriter {
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26 // constructor/destructor
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33 // closes the alignment archive
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35 // opens the alignment archive
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36 bool Open(const std::string& filename,
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37 const std::string& samHeader,
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38 const BamTools::RefVector& referenceSequences,
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39 bool writeUncompressed = false);
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40 // saves the alignment to the alignment archive
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41 void SaveAlignment(const BamTools::BamAlignment& al);
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43 // private implementation
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45 Internal::BamWriterPrivate* d;
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48 } // namespace BamTools
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50 #endif // BAMWRITER_H
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