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/*
Ray
Copyright (C) 2011, 2012 Sébastien Boisvert
http://DeNovoAssembler.SourceForge.Net/
This program is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, version 3 of the License.
This program is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You have received a copy of the GNU General Public License
along with this program (gpl-3.0.txt).
see <http://www.gnu.org/licenses/>
*/
#ifndef _CoverageGatherer_H
#define _CoverageGatherer_H
#include <code/Mock/Parameters.h>
#include <code/VerticesExtractor/GridTable.h>
#include <RayPlatform/memory/RingAllocator.h>
#include <RayPlatform/structures/StaticVector.h>
#include <RayPlatform/core/ComputeCore.h>
#include <stdint.h>
#include <map>
using namespace std;
__DeclarePlugin(CoverageGatherer);
__DeclareSlaveModeAdapter(CoverageGatherer,RAY_SLAVE_MODE_SEND_DISTRIBUTION);
/**
* \author Sébastien Boisvert
*/
class CoverageGatherer : public CorePlugin{
__AddAdapter(CoverageGatherer,RAY_SLAVE_MODE_SEND_DISTRIBUTION);
MessageTag RAY_MPI_TAG_COVERAGE_DATA_REPLY;
MessageTag RAY_MPI_TAG_GET_COVERAGE_AND_DIRECTION_REPLY;
MessageTag RAY_MPI_TAG_GET_COVERAGE_AND_MARK_REPLY;
MessageTag RAY_MPI_TAG_GET_COVERAGE_AND_PATHS_REPLY;
MessageTag RAY_MPI_TAG_COVERAGE_DATA;
MessageTag RAY_MPI_TAG_COVERAGE_END;
SlaveMode RAY_SLAVE_MODE_DO_NOTHING;
SlaveMode RAY_SLAVE_MODE_SEND_DISTRIBUTION;
map<CoverageDepth,LargeCount> m_distributionOfCoverage;
map<CoverageDepth,LargeCount>::iterator m_coverageIterator;
bool m_waiting;
Parameters*m_parameters;
StaticVector*m_inbox;
StaticVector*m_outbox;
int*m_slaveMode;
GridTable*m_subgraph;
RingAllocator*m_outboxAllocator;
void writeHeader(FILE*kmerFile);
public:
void constructor(Parameters*parameters,StaticVector*inbox,StaticVector*outbox,int*slaveMode,
GridTable*subgraph,RingAllocator*outboxAllocator);
void call_RAY_SLAVE_MODE_SEND_DISTRIBUTION();
void writeKmers();
void registerPlugin(ComputeCore*core);
void resolveSymbols(ComputeCore*core);
};
#endif
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