/usr/include/pbbam/internal/QueryBase.inl is in libpbbam-dev 0.7.4+ds-1build2.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
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//
// All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted (subject to the limitations in the
// disclaimer below) provided that the following conditions are met:
//
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions and the following disclaimer.
//
// * Redistributions in binary form must reproduce the above
// copyright notice, this list of conditions and the following
// disclaimer in the documentation and/or other materials provided
// with the distribution.
//
// * Neither the name of Pacific Biosciences nor the names of its
// contributors may be used to endorse or promote products derived
// from this software without specific prior written permission.
//
// NO EXPRESS OR IMPLIED LICENSES TO ANY PARTY'S PATENT RIGHTS ARE
// GRANTED BY THIS LICENSE. THIS SOFTWARE IS PROVIDED BY PACIFIC
// BIOSCIENCES AND ITS CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED
// WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES
// OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
// DISCLAIMED. IN NO EVENT SHALL PACIFIC BIOSCIENCES OR ITS
// CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
// SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT
// LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF
// USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND
// ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
// OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT
// OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF
// SUCH DAMAGE.
// Author: Derek Barnett
#include "pbbam/internal/QueryBase.h"
namespace PacBio {
namespace BAM {
namespace internal {
// -------------------
// QueryIteratorBase
// -------------------
template<typename T>
inline QueryIteratorBase<T>::QueryIteratorBase(void)
: query_(nullptr)
{ }
template<typename T>
inline QueryIteratorBase<T>::QueryIteratorBase(QueryBase<T>& query)
: query_(&query)
{ ReadNext(); }
template<typename T> inline
QueryIteratorBase<T>::~QueryIteratorBase(void) { }
template<typename T> inline
bool QueryIteratorBase<T>::operator==(const QueryIteratorBase<T>& other) const
{ return query_ == other.query_; }
template<typename T> inline
bool QueryIteratorBase<T>::operator!=(const QueryIteratorBase<T>& other) const
{ return !(*this == other); }
// -------------------
// QueryIterator
// -------------------
template<typename T> inline
QueryIterator<T>::QueryIterator(void) : QueryIteratorBase<T>() { }
template<typename T> inline
QueryIterator<T>::QueryIterator(QueryBase<T>& query)
: QueryIteratorBase<T>(query)
{ }
template<typename T> inline
T& QueryIterator<T>::operator*(void)
{ return QueryIteratorBase<T>::record_; }
template<typename T> inline
T* QueryIterator<T>::operator->(void)
{ return &(operator*()); }
template<typename T> inline
QueryIterator<T>& QueryIterator<T>::operator++(void)
{ QueryIteratorBase<T>::ReadNext(); return *this; }
template<typename T> inline
QueryIterator<T> QueryIterator<T>::operator++(int)
{
QueryIterator<T> result(*this);
++(*this);
return result;
}
// --------------------
// QueryConstIterator
// --------------------
template<typename T> inline
QueryConstIterator<T>::QueryConstIterator(void) : QueryIteratorBase<T>() { }
template<typename T> inline
QueryConstIterator<T>::QueryConstIterator(const QueryBase<T>& query)
: QueryIteratorBase<T>(const_cast<QueryBase<T>&>(query))
{ }
template<typename T> inline
const T& QueryConstIterator<T>::operator*(void) const
{ return QueryIteratorBase<T>::record_; }
template<typename T> inline
const T* QueryConstIterator<T>::operator->(void) const
{ return &(operator*()); }
template<typename T> inline
QueryConstIterator<T>& QueryConstIterator<T>::operator++(void)
{ QueryIteratorBase<T>::ReadNext(); return *this; }
template<typename T> inline
QueryConstIterator<T> QueryConstIterator<T>::operator++(int)
{
QueryConstIterator<T> result(*this);
++(*this);
return result;
}
// -----------
// QueryBase
// -----------
template<typename T> inline
QueryBase<T>::QueryBase(void) { }
template<typename T> inline
QueryBase<T>::~QueryBase(void) { }
template<typename T> inline
QueryConstIterator<T> QueryBase<T>::begin(void) const
{ return QueryConstIterator<T>(*this); }
template<typename T> inline
QueryIterator<T> QueryBase<T>::begin(void)
{ return QueryIterator<T>(*this); }
template<typename T> inline
QueryConstIterator<T> QueryBase<T>::cbegin(void) const
{ return QueryConstIterator<T>(*this); }
template<typename T> inline
QueryConstIterator<T> QueryBase<T>::cend(void) const
{ return QueryConstIterator<T>(); }
template<typename T> inline
QueryConstIterator<T> QueryBase<T>::end(void) const
{ return QueryConstIterator<T>(); }
template<typename T> inline
QueryIterator<T> QueryBase<T>::end(void)
{ return QueryIterator<T>(); }
template<typename T>
inline void QueryIteratorBase<T>::ReadNext(void)
{
assert(query_);
if (!query_->GetNext(record_))
query_ = nullptr;
}
} // namespace internal
} // namespace BAM
} // namespace PacBio
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