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// ==========================================================================
// SeqAn - The Library for Sequence Analysis
// ==========================================================================
// Copyright (c) 2006-2018, Knut Reinert, FU Berlin
// All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted 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 Knut Reinert or the FU Berlin nor the names of
// its contributors may be used to endorse or promote products derived
// from this software without specific prior written permission.
//
// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND 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 KNUT REINERT OR THE FU BERLIN 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: Rene Rahn <rene.rahn@fu-berlin.de>
// ==========================================================================
#ifndef INCLUDE_SEQAN_DP_PARALLEL_DP_PARALLEL_SCOUT_H_
#define INCLUDE_SEQAN_DP_PARALLEL_DP_PARALLEL_SCOUT_H_
namespace seqan
{
// ============================================================================
// Forwards
// ============================================================================
// ============================================================================
// Tags, Classes, Enums
// ============================================================================
// ----------------------------------------------------------------------------
// Class DPTileBuffer
// ----------------------------------------------------------------------------
// The structure owning the horizontal/vertical buffer.
template <typename TDPCellBuff, typename TBuffer = String<TDPCellBuff> >
struct DPTileBuffer
{
TBuffer horizontalBuffer;
TBuffer verticalBuffer;
};
// ----------------------------------------------------------------------------
// Tag DPTiled<TBuffer>
// ----------------------------------------------------------------------------
// Tag used to subclass DPScoutState and DPScout.
// T represents the buffer type.
template <typename TBuffer, typename TThreadContext = Default, typename TSimdSpec = void>
struct DPTiled;
// ----------------------------------------------------------------------------
// Class DPScoutState_; DPTiled
// ----------------------------------------------------------------------------
// The overloaded DPScoutState which simply stores the pointers to the corresponding buffer.
template <typename TBuffer, typename TThreadContext>
class DPScoutState_<DPTiled<TBuffer, TThreadContext, void> >
{
public:
using TDPCell = typename Value<typename Value<TBuffer>::Type, 1>::Type;
TBuffer* ptrHorBuffer = nullptr;
TBuffer* ptrVerBuffer = nullptr;
TThreadContext threadContext{};
DPScoutState_() = default;
DPScoutState_(TBuffer & horBuffer, TBuffer & verBuffer) :
ptrHorBuffer(&horBuffer),
ptrVerBuffer(&verBuffer)
{}
DPScoutState_(TBuffer & horBuffer, TBuffer & verBuffer, TThreadContext pThreadContext) :
ptrHorBuffer(&horBuffer),
ptrVerBuffer(&verBuffer),
threadContext(std::move(pThreadContext))
{}
};
// ----------------------------------------------------------------------------
// Class DPScout_; DPTiled
// ----------------------------------------------------------------------------
// Overloaded DPScout to store the corresponding buffer for the current dp tile.
template <typename TDPCell, typename TBuffer, typename TThreadContext>
class DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, void> > :
public DPScout_<TDPCell, Default>
{
public:
using TBase = DPScout_<TDPCell, Default>;
DPScoutState_<DPTiled<TBuffer, TThreadContext, void> > state;
size_t horizontalPos;
size_t verticalPos;
bool forceTracking;
DPScout_(DPScoutState_<DPTiled<TBuffer, TThreadContext, void> > state,
bool pForceTracking = false) :
TBase(),
state(state),
forceTracking(pForceTracking)
{}
};
// ============================================================================
// Metafunctions
// ============================================================================
// ----------------------------------------------------------------------------
// Metafunction ScoutSpecForSimdAlignment_
// ----------------------------------------------------------------------------
template<typename TAlignmentAlgorithm, typename TThreadContext, typename TBuffer>
struct ScoutSpecForAlignmentAlgorithm_<TAlignmentAlgorithm, DPScoutState_<DPTiled<TBuffer, TThreadContext, void> > >
{
using Type = DPTiled<TBuffer, TThreadContext, void>;
};
// ============================================================================
// Functions
// ============================================================================
template <typename TDPCell, typename TBuffer, typename TThreadContext, typename TSpec,
typename TIsLastColumn,
typename TIsLastRow>
inline bool
isTrackingEnabled(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, TSpec> > const & /*dpScout*/,
TIsLastColumn const & /*unused*/,
TIsLastRow const & /*unused*/)
{
return false;
}
template <typename TDPCell, typename TBuffer, typename TThreadContext>
inline bool
isTrackingEnabled(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, void> > const & dpScout,
True const & /*unused*/,
True const & /*unused*/)
{
return (dpScout.forceTracking || (dpScout.state.threadContext.task._lastHBlock &&
dpScout.state.threadContext.task._lastVBlock));
}
template <typename TDPCell, typename TBuffer, typename TThreadContext>
inline bool
isTrackingEnabled(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, void> > const & dpScout,
True const & /*unused*/,
False const & /*unused*/)
{
return (dpScout.forceTracking || dpScout.state.threadContext.task._lastHBlock);
}
template <typename TDPCell, typename TBuffer, typename TThreadContext>
inline bool
isTrackingEnabled(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, void> > const & dpScout,
False const & /*unused*/,
True const & /*unused*/)
{
return (dpScout.forceTracking || dpScout.state.threadContext.task._lastVBlock);
}
// ----------------------------------------------------------------------------
// Function _scoutBestScore()
// ----------------------------------------------------------------------------
template <typename TDPCell, typename TBuffer,
typename TTraceMatrixNavigator,
typename TIsLastColumn,
typename TIsLastRow>
inline void
_scoutBestScore(DPScout_<TDPCell, DPTiled<TBuffer, Default, void> > & dpScout,
TDPCell const & activeCell,
TTraceMatrixNavigator const & navigator,
TIsLastColumn const & isLastColumn,
TIsLastRow const & isLastRow)
{
using TBaseScout = typename DPScout_<TDPCell, DPTiled<TBuffer, Default, void> >::TBase;
_scoutBestScore(static_cast<TBaseScout&>(dpScout), activeCell, navigator, isLastColumn, isLastRow);
}
// Tracks the new score, if it is the new maximum.
template <typename TDPCell, typename TBuffer, typename TThreadContext, typename TTraceMatrixNavigator,
typename TIsLastColumn, typename TIsLastRow>
inline void
_scoutBestScore(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, void> > & dpScout,
TDPCell const & activeCell,
TTraceMatrixNavigator const & navigator,
TIsLastColumn const & isLastColumn,
TIsLastRow const & isLastRow)
{
using TBaseScout = typename DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, void> >::TBase;
if (isTrackingEnabled(dpScout, isLastColumn, isLastRow))
_scoutBestScore(static_cast<TBaseScout&>(dpScout), activeCell, navigator, isLastColumn, isLastRow);
}
// ----------------------------------------------------------------------------
// Function _preInitScoutHorizontal()
// ----------------------------------------------------------------------------
template <typename TDPCell, typename TBuffer, typename TThreadContext, typename TSpec>
inline void
_preInitScoutHorizontal(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, TSpec> > & scout)
{
scout.horizontalPos = 0;
}
// ----------------------------------------------------------------------------
// Function _preInitScoutVertical()
// ----------------------------------------------------------------------------
template <typename TDPCell, typename TBuffer, typename TThreadContext, typename TSpec>
inline void
_preInitScoutVertical(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, TSpec> > & scout)
{
scout.verticalPos = 0;
}
// ----------------------------------------------------------------------------
// Function _incHorizontalPos()
// ----------------------------------------------------------------------------
template <typename TDPCell, typename TBuffer, typename TThreadContext, typename TSpec>
inline void
_incHorizontalPos(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, TSpec> > & scout)
{
++scout.horizontalPos;
}
// ----------------------------------------------------------------------------
// Function _incVerticalPos()
// ----------------------------------------------------------------------------
template <typename TDPCell, typename TBuffer, typename TThreadContext, typename TSpec>
inline void
_incVerticalPos(DPScout_<TDPCell, DPTiled<TBuffer, TThreadContext, TSpec> > & scout)
{
++scout.verticalPos;
}
} // namespace seqan
#endif // #ifndef INCLUDE_SEQAN_DP_PARALLEL_DP_PARALLEL_SCOUT_H_
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