/usr/include/pbbam/internal/PbiRawData.inl is in libpbbam-dev 0.7.4+ds-1build2.
This file is owned by root:root, with mode 0o644.
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//
// * Redistributions of source code must retain the above copyright
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// * Redistributions in binary form must reproduce the above
// copyright notice, this list of conditions and the following
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// with the distribution.
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// from this software without specific prior written permission.
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//
// File Description
/// \file PbiRawData.inl
/// \brief Inline implementations for the classes used for working with raw PBI
/// data.
//
// Author: Derek Barnett
#include "pbbam/PbiRawData.h"
namespace PacBio {
namespace BAM {
inline const PbiRawBarcodeData& PbiRawData::BarcodeData(void) const
{ return barcodeData_; }
inline PbiRawBarcodeData& PbiRawData::BarcodeData(void)
{ return barcodeData_; }
inline const PbiRawBasicData& PbiRawData::BasicData(void) const
{ return basicData_; }
inline PbiRawBasicData& PbiRawData::BasicData(void)
{ return basicData_; }
inline std::string PbiRawData::Filename(void) const
{ return filename_; }
inline PbiFile::Sections PbiRawData::FileSections(void) const
{ return sections_; }
inline PbiRawData& PbiRawData::FileSections(PbiFile::Sections sections)
{ sections_ = sections; return *this; }
inline bool PbiRawData::HasBarcodeData(void) const
{ return HasSection(PbiFile::BARCODE); }
inline bool PbiRawData::HasMappedData(void) const
{ return HasSection(PbiFile::MAPPED); }
inline bool PbiRawData::HasReferenceData(void) const
{ return HasSection(PbiFile::REFERENCE); }
inline bool PbiRawData::HasSection(const PbiFile::Section section) const
{ return (sections_ & section) != 0; }
inline uint32_t PbiRawData::NumReads(void) const
{ return numReads_; }
inline PbiRawData& PbiRawData::NumReads(uint32_t num)
{ numReads_ = num; return *this; }
inline const PbiRawMappedData& PbiRawData::MappedData(void) const
{ return mappedData_; }
inline PbiRawMappedData& PbiRawData::MappedData(void)
{ return mappedData_; }
inline const PbiRawReferenceData& PbiRawData::ReferenceData(void) const
{ return referenceData_; }
inline PbiRawReferenceData& PbiRawData::ReferenceData(void)
{ return referenceData_; }
inline PbiFile::VersionEnum PbiRawData::Version(void) const
{ return version_; }
inline PbiRawData& PbiRawData::Version(PbiFile::VersionEnum version)
{ version_ = version; return *this; }
inline bool PbiReferenceEntry::operator==(const PbiReferenceEntry& other) const
{
return tId_ == other.tId_ &&
beginRow_ == other.beginRow_ &&
endRow_ == other.endRow_;
}
} // namespace BAM
} // namespace PacBio
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