/usr/include/bamtools/api/BamWriter.h is in libbamtools-dev 2.4.1+dfsg-1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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// BamWriter.h (c) 2009 Michael Str�mberg, Derek Barnett
// Marth Lab, Department of Biology, Boston College
// ---------------------------------------------------------------------------
// Last modified: 10 October 2011 (DB)
// ---------------------------------------------------------------------------
// Provides the basic functionality for producing BAM files
// ***************************************************************************
#ifndef BAMWRITER_H
#define BAMWRITER_H
#include "api/api_global.h"
#include "api/BamAux.h"
#include <string>
namespace BamTools {
class BamAlignment;
struct SamHeader;
//! \cond
namespace Internal {
class BamWriterPrivate;
} // namespace Internal
//! \endcond
class API_EXPORT BamWriter {
// enums
public:
enum CompressionMode { Compressed = 0
, Uncompressed
};
// ctor & dtor
public:
BamWriter(void);
~BamWriter(void);
// public interface
public:
// closes the current BAM file
void Close(void);
// returns a human-readable description of the last error that occurred
std::string GetErrorString(void) const;
// returns true if BAM file is open for writing
bool IsOpen(void) const;
// opens a BAM file for writing
bool Open(const std::string& filename,
const std::string& samHeaderText,
const RefVector& referenceSequences);
// opens a BAM file for writing
bool Open(const std::string& filename,
const SamHeader& samHeader,
const RefVector& referenceSequences);
// saves the alignment to the alignment archive
bool SaveAlignment(const BamAlignment& alignment);
// sets the output compression mode
void SetCompressionMode(const BamWriter::CompressionMode& compressionMode);
// private implementation
private:
Internal::BamWriterPrivate* d;
};
} // namespace BamTools
#endif // BAMWRITER_H
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