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Makefile fix

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omp-walther
StefanoPetrilli 3 years ago
parent 32777cc15c
commit 36bd3a51a2
17 changed files with 233 additions and 242 deletions
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13
amgprec/impl/aggregator/Makefile
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@ -62,9 +62,22 @@ amg_s_parmatch_smth_bld.o \
amg_s_parmatch_spmm_bld_inner.o
MPCOBJS=MatchBoxPC.o \
sendBundledMessages.o \
initialize.o \
extractUChunk.o \
isAlreadyMatched.o \
findOwnerOfGhost.o \
computeCandidateMate.o \
parallelComputeCandidateMateB.o \
processMatchedVertices.o \
processCrossEdge.o \
queueTransfer.o \
processMessages.o \
processExposedVertex.o \
algoDistEdgeApproxDomEdgesLinearSearchMesgBndlSmallMateC.o \
algoDistEdgeApproxDomEdgesLinearSearchMesgBndlSmallMateCMP.o
OBJS = $(FOBJS) $(MPCOBJS)
LIBNAME=libamg_prec.a

314
amgprec/impl/aggregator/MatchBoxPC.h
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@ -64,7 +64,10 @@
#include "dataStrStaticQueue.h"
using namespace std;
#define NUM_THREAD 4
#define UCHUNK 1000
const MilanLongInt REQUEST = 1;
const MilanLongInt SUCCESS = 2;
const MilanLongInt FAILURE = 3;
@ -166,119 +169,206 @@ extern "C"
#define MilanRealMin MINUS_INFINITY
#endif
// Function of find the owner of a ghost vertex using binary search:
inline MilanInt findOwnerOfGhost(MilanLongInt vtxIndex, MilanLongInt *mVerDistance,
MilanInt myRank, MilanInt numProcs);
inline MilanLongInt firstComputeCandidateMate(MilanLongInt adj1,
MilanLongInt adj2,
MilanLongInt *verLocInd,
MilanReal *edgeLocWeight);
inline bool isAlreadyMatched(MilanLongInt node,
MilanLongInt StartIndex,
MilanLongInt EndIndex,
vector<MilanLongInt> &GMate,
MilanLongInt *Mate,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap);
inline MilanLongInt computeCandidateMate(MilanLongInt adj1,
MilanLongInt adj2,
MilanReal *edgeLocWeight,
MilanLongInt k,
MilanLongInt *verLocInd,
MilanLongInt StartIndex,
MilanLongInt EndIndex,
vector<MilanLongInt> &GMate,
MilanLongInt *Mate,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap);
inline void initialize(MilanLongInt NLVer, MilanLongInt NLEdge,
MilanLongInt StartIndex, MilanLongInt EndIndex,
MilanLongInt *numGhostEdgesPtr,
MilanLongInt *numGhostVerticesPtr,
MilanLongInt *S,
MilanLongInt *verLocInd,
MilanLongInt *verLocPtr,
omp_lock_t *MateLock,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap,
vector<MilanLongInt> &Counter,
vector<MilanLongInt> &verGhostPtr,
vector<MilanLongInt> &verGhostInd,
vector<MilanLongInt> &tempCounter,
vector<MilanLongInt> &GMate,
vector<MilanLongInt> &Message,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,
vector<MilanLongInt> &QMsgType,
vector<MilanInt> &QOwner,
MilanLongInt *&candidateMate,
staticQueue &U,
staticQueue &privateU,
staticQueue &privateQLocalVtx,
staticQueue &privateQGhostVtx,
staticQueue &privateQMsgType,
staticQueue &privateQOwner);
inline void PARALLEL_COMPUTE_CANDIDATE_MATE_B(MilanLongInt NLVer,
MilanLongInt *verLocPtr,
MilanLongInt *verLocInd,
MilanInt myRank,
MilanReal *edgeLocWeight,
MilanLongInt *candidateMate);
inline void PARALLEL_PROCESS_EXPOSED_VERTEX_B(MilanLongInt NLVer,
MilanLongInt *candidateMate,
MilanLongInt *verLocInd,
MilanLongInt *verLocPtr,
MilanLongInt StartIndex,
MilanLongInt EndIndex,
MilanLongInt *Mate,
vector<MilanLongInt> &GMate,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap,
MilanReal *edgeLocWeight,
MilanLongInt *myCardPtr,
MilanLongInt *msgIndPtr,
MilanLongInt *NumMessagesBundledPtr,
MilanLongInt *SPtr,
MilanLongInt *verDistance,
MilanLongInt *PCounter,
vector<MilanLongInt> &Counter,
MilanInt myRank,
MilanInt numProcs,
staticQueue &U,
staticQueue &privateU,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,
vector<MilanLongInt> &QMsgType,
vector<MilanInt> &QOwner,
staticQueue &privateQLocalVtx,
staticQueue &privateQGhostVtx,
staticQueue &privateQMsgType,
staticQueue &privateQOwner);
inline void queuesTransfer(staticQueue &U,
staticQueue &privateU,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,
vector<MilanLongInt> &QMsgType,
vector<MilanInt> &QOwner,
staticQueue &privateQLocalVtx,
staticQueue &privateQGhostVtx,
staticQueue &privateQMsgType,
staticQueue &privateQOwner);
void dalgoDistEdgeApproxDomEdgesLinearSearchMesgBndlSmallMateCMP(
MilanLongInt NLVer, MilanLongInt NLEdge,
MilanLongInt *verLocPtr, MilanLongInt *verLocInd, MilanReal *edgeLocWeight,
MilanLongInt *verDistance,
MilanLongInt *Mate,
MilanInt myRank, MilanInt numProcs, MPI_Comm comm,
MilanLongInt *msgIndSent, MilanLongInt *msgActualSent, MilanReal *msgPercent,
MilanReal *ph0_time, MilanReal *ph1_time, MilanReal *ph2_time,
MilanLongInt *ph1_card, MilanLongInt *ph2_card);
MilanInt findOwnerOfGhost(MilanLongInt vtxIndex, MilanLongInt *mVerDistance,
MilanInt myRank, MilanInt numProcs);
MilanLongInt firstComputeCandidateMate(MilanLongInt adj1,
MilanLongInt adj2,
MilanLongInt *verLocInd,
MilanReal *edgeLocWeight);
void queuesTransfer(staticQueue &U,
staticQueue &privateU,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,
vector<MilanLongInt> &QMsgType,
vector<MilanInt> &QOwner,
staticQueue &privateQLocalVtx,
staticQueue &privateQGhostVtx,
staticQueue &privateQMsgType,
staticQueue &privateQOwner);
bool isAlreadyMatched(MilanLongInt node,
MilanLongInt StartIndex,
MilanLongInt EndIndex,
vector<MilanLongInt> &GMate,
MilanLongInt *Mate,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap);
MilanLongInt computeCandidateMate(MilanLongInt adj1,
MilanLongInt adj2,
MilanReal *edgeLocWeight,
MilanLongInt k,
MilanLongInt *verLocInd,
MilanLongInt StartIndex,
MilanLongInt EndIndex,
vector<MilanLongInt> &GMate,
MilanLongInt *Mate,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap);
void initialize(MilanLongInt NLVer, MilanLongInt NLEdge,
MilanLongInt StartIndex, MilanLongInt EndIndex,
MilanLongInt *numGhostEdgesPtr,
MilanLongInt *numGhostVerticesPtr,
MilanLongInt *S,
MilanLongInt *verLocInd,
MilanLongInt *verLocPtr,
omp_lock_t *MateLock,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap,
vector<MilanLongInt> &Counter,
vector<MilanLongInt> &verGhostPtr,
vector<MilanLongInt> &verGhostInd,
vector<MilanLongInt> &tempCounter,
vector<MilanLongInt> &GMate,
vector<MilanLongInt> &Message,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,
vector<MilanLongInt> &QMsgType,
vector<MilanInt> &QOwner,
MilanLongInt *&candidateMate,
staticQueue &U,
staticQueue &privateU,
staticQueue &privateQLocalVtx,
staticQueue &privateQGhostVtx,
staticQueue &privateQMsgType,
staticQueue &privateQOwner);
void clean(MilanInt myRank,
MilanLongInt MessageIndex,
vector<MPI_Request> &SRequest,
vector<MPI_Status> &SStatus,
MilanInt BufferSize,
MilanLongInt *Buffer,
MilanLongInt msgActual,
MilanLongInt *msgActualSent,
MilanLongInt msgInd,
MilanLongInt *msgIndSent,
MilanLongInt NumMessagesBundled,
MilanReal *msgPercent);
void PARALLEL_COMPUTE_CANDIDATE_MATE_B(MilanLongInt NLVer,
MilanLongInt *verLocPtr,
MilanLongInt *verLocInd,
MilanInt myRank,
MilanReal *edgeLocWeight,
MilanLongInt *candidateMate);
void PARALLEL_PROCESS_EXPOSED_VERTEX_B(MilanLongInt NLVer,
MilanLongInt *candidateMate,
MilanLongInt *verLocInd,
MilanLongInt *verLocPtr,
MilanLongInt StartIndex,
MilanLongInt EndIndex,
MilanLongInt *Mate,
vector<MilanLongInt> &GMate,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap,
MilanReal *edgeLocWeight,
MilanLongInt *myCardPtr,
MilanLongInt *msgIndPtr,
MilanLongInt *NumMessagesBundledPtr,
MilanLongInt *SPtr,
MilanLongInt *verDistance,
MilanLongInt *PCounter,
vector<MilanLongInt> &Counter,
MilanInt myRank,
MilanInt numProcs,
staticQueue &U,
staticQueue &privateU,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,
vector<MilanLongInt> &QMsgType,
vector<MilanInt> &QOwner,
staticQueue &privateQLocalVtx,
staticQueue &privateQGhostVtx,
staticQueue &privateQMsgType,
staticQueue &privateQOwner);
void PROCESS_CROSS_EDGE(vector<MilanLongInt> &Counter,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap,
MilanLongInt edge,
MilanLongInt *SPtr);
void processMatchedVertices(
MilanLongInt NLVer,
vector<MilanLongInt> &UChunkBeingProcessed,
staticQueue &U,
staticQueue &privateU,
MilanLongInt StartIndex,
MilanLongInt EndIndex,
MilanLongInt *myCardPtr,
MilanLongInt *msgIndPtr,
MilanLongInt *NumMessagesBundledPtr,
MilanLongInt *SPtr,
MilanLongInt *verLocPtr,
MilanLongInt *verLocInd,
MilanLongInt *verDistance,
MilanLongInt *PCounter,
vector<MilanLongInt> &Counter,
MilanInt myRank,
MilanInt numProcs,
MilanLongInt *candidateMate,
vector<MilanLongInt> &GMate,
MilanLongInt *Mate,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap,
MilanReal *edgeLocWeight,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,
vector<MilanLongInt> &QMsgType,
vector<MilanInt> &QOwner,
staticQueue &privateQLocalVtx,
staticQueue &privateQGhostVtx,
staticQueue &privateQMsgType,
staticQueue &privateQOwner);
void sendBundledMessages(MilanLongInt *numGhostEdgesPtr,
MilanInt *BufferSizePtr,
MilanLongInt *Buffer,
vector<MilanLongInt> &PCumulative,
vector<MilanLongInt> &PMessageBundle,
vector<MilanLongInt> &PSizeInfoMessages,
MilanLongInt *PCounter,
MilanLongInt NumMessagesBundled,
MilanLongInt *msgActualPtr,
MilanLongInt *MessageIndexPtr,
MilanInt numProcs,
MilanInt myRank,
int ComputeTag,
int BundleTag,
MPI_Comm comm,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,
vector<MilanLongInt> &QMsgType,
vector<MilanInt> &QOwner,
vector<MPI_Request> &SRequest,
vector<MPI_Status> &SStatus);
void processMessages(int error_codeC,
MilanInt numProcs,
MilanInt myRank,
int ComputeTag,
int BundleTag,
MPI_Comm comm,
vector<MilanLongInt> &Message,
char *error_message,
int message_length,
vector<MilanLongInt> &ReceiveBuffer,
MilanLongInt *BundleSizePtr);
void extractUChunk(
vector<MilanLongInt> &UChunkBeingProcessed,
staticQueue &U,
staticQueue &privateU);
void dalgoDistEdgeApproxDomEdgesLinearSearchMesgBndlSmallMateCMP(
MilanLongInt NLVer, MilanLongInt NLEdge,
MilanLongInt *verLocPtr, MilanLongInt *verLocInd, MilanReal *edgeLocWeight,
MilanLongInt *verDistance,
MilanLongInt *Mate,
MilanInt myRank, MilanInt numProcs, MPI_Comm comm,
MilanLongInt *msgIndSent, MilanLongInt *msgActualSent, MilanReal *msgPercent,
MilanReal *ph0_time, MilanReal *ph1_time, MilanReal *ph2_time,
MilanLongInt *ph1_card, MilanLongInt *ph2_card);
void dalgoDistEdgeApproxDomEdgesLinearSearchMesgBndlSmallMateC(
MilanLongInt NLVer, MilanLongInt NLEdge,

6
amgprec/impl/aggregator/algoDistEdgeApproxDomEdgesLinearSearchMesgBndlSmallMateC.cpp
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@ -72,12 +72,6 @@
#ifdef SERIAL_MPI
#else
//MPI type map
template<typename T> MPI_Datatype TypeMap();
template<> inline MPI_Datatype TypeMap<int64_t>() { return MPI_LONG_LONG; }
template<> inline MPI_Datatype TypeMap<int>() { return MPI_INT; }
template<> inline MPI_Datatype TypeMap<double>() { return MPI_DOUBLE; }
template<> inline MPI_Datatype TypeMap<float>() { return MPI_FLOAT; }
// DOUBLE PRECISION VERSION
//WARNING: The vertex block on a given rank is contiguous

12
amgprec/impl/aggregator/algoDistEdgeApproxDomEdgesLinearSearchMesgBndlSmallMateCMP.cpp
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@ -1,16 +1,4 @@
#include "MatchBoxPC.h"
#include <omp.h>
#include <stdio.h>
#include "isAlreadyMatched.cpp"
#include "findOwnerOfGhost.cpp"
#include "computeCandidateMate.cpp"
#include "initialize.cpp"
#include "parallelComputeCandidateMateB.cpp"
#include "processExposedVertex.cpp"
#include "processMatchedVertices.cpp"
#include "sendBundledMessages.cpp"
#include "processMessages.cpp"
#include "clean.cpp"
// ***********************************************************************
//

11
amgprec/impl/aggregator/clean.cpp
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@ -1,19 +1,10 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <assert.h>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
//TODO comment
//TODO use task
//TODO destroy the locks
inline void clean(MilanInt myRank,
void clean(MilanInt myRank,
MilanLongInt MessageIndex,
vector<MPI_Request> &SRequest,
vector<MPI_Status> &SStatus,

4
amgprec/impl/aggregator/computeCandidateMate.cpp
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@ -9,7 +9,7 @@
* @param edgeLocWeight
* @return
*/
inline MilanLongInt firstComputeCandidateMate(MilanLongInt adj1,
MilanLongInt firstComputeCandidateMate(MilanLongInt adj1,
MilanLongInt adj2,
MilanLongInt *verLocInd,
MilanReal *edgeLocWeight)
@ -45,7 +45,7 @@ inline MilanLongInt firstComputeCandidateMate(MilanLongInt adj1,
* @param Ghost2LocalMap
* @return
*/
inline MilanLongInt computeCandidateMate(MilanLongInt adj1,
MilanLongInt computeCandidateMate(MilanLongInt adj1,
MilanLongInt adj2,
MilanReal *edgeLocWeight,
MilanLongInt k,

11
amgprec/impl/aggregator/extractUChunk.cpp
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@ -1,15 +1,6 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
#define UCHUNK 1000
inline void extractUChunk(
void extractUChunk(
vector<MilanLongInt> &UChunkBeingProcessed,
staticQueue &U,
staticQueue &privateU)

8
amgprec/impl/aggregator/findOwnerOfGhost.cpp
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@ -1,13 +1,7 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <stdlib.h>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
///Find the owner of a ghost node:
inline MilanInt findOwnerOfGhost(MilanLongInt vtxIndex, MilanLongInt *mVerDistance,
MilanInt findOwnerOfGhost(MilanLongInt vtxIndex, MilanLongInt *mVerDistance,
MilanInt myRank, MilanInt numProcs) {
//MilanLongInt Size = mVerDistance.size();
MilanLongInt mStartInd = mVerDistance[myRank];

14
amgprec/impl/aggregator/initialize.cpp
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@ -1,16 +1,6 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <assert.h>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
#define NUM_THREAD 4
inline void initialize(MilanLongInt NLVer, MilanLongInt NLEdge,
void initialize(MilanLongInt NLVer, MilanLongInt NLEdge,
MilanLongInt StartIndex, MilanLongInt EndIndex,
MilanLongInt *numGhostEdgesPtr,
MilanLongInt *numGhostVerticesPtr,

8
amgprec/impl/aggregator/isAlreadyMatched.cpp
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@ -1,10 +1,4 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <stdlib.h>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
/**
* //TODO documentation
@ -17,7 +11,7 @@
* @param Ghost2LocalMap
* @return
*/
inline bool isAlreadyMatched(MilanLongInt node,
bool isAlreadyMatched(MilanLongInt node,
MilanLongInt StartIndex,
MilanLongInt EndIndex,
vector <MilanLongInt> &GMate,

10
amgprec/impl/aggregator/parallelComputeCandidateMateB.cpp
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@ -1,14 +1,6 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <assert.h>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
inline void PARALLEL_COMPUTE_CANDIDATE_MATE_B(MilanLongInt NLVer,
void PARALLEL_COMPUTE_CANDIDATE_MATE_B(MilanLongInt NLVer,
MilanLongInt *verLocPtr,
MilanLongInt *verLocInd,
MilanInt myRank,

10
amgprec/impl/aggregator/processCrossEdge.cpp
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@ -1,14 +1,6 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <assert.h>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
inline void PROCESS_CROSS_EDGE(vector<MilanLongInt> &Counter,
void PROCESS_CROSS_EDGE(vector<MilanLongInt> &Counter,
map<MilanLongInt, MilanLongInt> &Ghost2LocalMap,
MilanLongInt edge,
MilanLongInt *SPtr)

14
amgprec/impl/aggregator/processExposedVertex.cpp
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@ -1,16 +1,6 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <assert.h>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
#include "queueTransfer.cpp"
#include "processCrossEdge.cpp"
inline void PARALLEL_PROCESS_EXPOSED_VERTEX_B(MilanLongInt NLVer,
void PARALLEL_PROCESS_EXPOSED_VERTEX_B(MilanLongInt NLVer,
MilanLongInt *candidateMate,
MilanLongInt *verLocInd,
MilanLongInt *verLocPtr,

11
amgprec/impl/aggregator/processMatchedVertices.cpp
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@ -1,16 +1,8 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
#include "extractUChunk.cpp"
//#define privateQueues
inline void processMatchedVertices(
void processMatchedVertices(
MilanLongInt NLVer,
vector<MilanLongInt> &UChunkBeingProcessed,
staticQueue &U,
@ -61,6 +53,7 @@ inline void processMatchedVertices(
#endif
// TODO what would be the optimal UCHUNK
// TODO refactor
vector<MilanLongInt> UChunkBeingProcessed;
UChunkBeingProcessed.reserve(UCHUNK);

9
amgprec/impl/aggregator/processMessages.cpp
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@ -1,13 +1,6 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
inline void processMessages(int error_codeC,
void processMessages(int error_codeC,
MilanInt numProcs,
MilanInt myRank,
int ComputeTag,

9
amgprec/impl/aggregator/queueTransfer.cpp
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@ -1,13 +1,6 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
inline void queuesTransfer(staticQueue &U,
void queuesTransfer(staticQueue &U,
staticQueue &privateU,
vector<MilanLongInt> &QLocalVtx,
vector<MilanLongInt> &QGhostVtx,

11
amgprec/impl/aggregator/sendBundledMessages.cpp
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@ -1,13 +1,6 @@
#include "MatchBoxPC.h"
#include <stdio.h>
#include <iostream>
#include <map>
#include <vector>
#include "primitiveDataTypeDefinitions.h"
#include "dataStrStaticQueue.h"
#include "omp.h"
inline void sendBundledMessages(MilanLongInt *numGhostEdgesPtr,
void sendBundledMessages(MilanLongInt *numGhostEdgesPtr,
MilanInt *BufferSizePtr,
MilanLongInt *Buffer,
vector<MilanLongInt> &PCumulative,

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