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sssp.cu
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//
// Created by gxl on 2021/1/6.
//
#include "sssp.cuh"
void conventionParticipateSSSP(uint sourceNodeSample, string ssspPath) {
cout << "===============conventionParticipateSSSP==============" << endl;
uint testNumNodes = 0;
ulong testNumEdge = 0;
ulong traverseSum = 0;
uint *nodePointersI;
EdgeWithWeight *edgeList;
auto startReadGraph = std::chrono::steady_clock::now();
ifstream infile(ssspPath, ios::in | ios::binary);
infile.read((char *) &testNumNodes, sizeof(uint));
uint numEdge = 0;
infile.read((char *) &numEdge, sizeof(uint));
testNumEdge = numEdge;
cout << "vertex num: " << testNumNodes << " edge num: " << testNumEdge << endl;
nodePointersI = new uint[testNumNodes];
infile.read((char *) nodePointersI, sizeof(uint) * testNumNodes);
edgeList = new EdgeWithWeight[testNumEdge];
infile.read((char *) edgeList, sizeof(EdgeWithWeight) * testNumEdge);
infile.close();
unsigned long max_partition_size;
unsigned long total_gpu_size;
getMaxPartitionSize(max_partition_size, total_gpu_size, testNumNodes, 0.9, sizeof(EdgeWithWeight), 5);
uint partitionNum;
if (testNumEdge > max_partition_size) {
partitionNum = testNumEdge / max_partition_size + 1;
} else {
partitionNum = 1;
}
uint *degree = new uint[testNumNodes];
uint *value = new uint[testNumNodes];
bool *isActiveNodeList = new bool[testNumNodes];
CommonPartitionInfo *partitionInfoList = new CommonPartitionInfo[partitionNum];
bool *needTransferPartition = new bool[partitionNum];
for (uint i = 0; i < testNumNodes; i++) {
isActiveNodeList[i] = false;
value[i] = UINT_MAX;
if (i + 1 < testNumNodes) {
degree[i] = nodePointersI[i + 1] - nodePointersI[i];
} else {
degree[i] = testNumEdge - nodePointersI[i];
}
if (degree[i] > max_partition_size) {
cout << "node " << i << " degree > maxPartition " << endl;
return;
}
}
for (uint i = 0; i < partitionNum; i++) {
partitionInfoList[i].startVertex = -1;
partitionInfoList[i].endVertex = -1;
partitionInfoList[i].nodePointerOffset = -1;
partitionInfoList[i].partitionEdgeSize = -1;
}
int tempPartitionIndex = 0;
uint tempNodeIndex = 0;
while (tempNodeIndex < testNumNodes) {
if (partitionInfoList[tempPartitionIndex].startVertex == -1) {
partitionInfoList[tempPartitionIndex].startVertex = tempNodeIndex;
partitionInfoList[tempPartitionIndex].endVertex = tempNodeIndex;
partitionInfoList[tempPartitionIndex].nodePointerOffset = nodePointersI[tempNodeIndex];
partitionInfoList[tempPartitionIndex].partitionEdgeSize = degree[tempNodeIndex];
tempNodeIndex++;
} else {
if (partitionInfoList[tempPartitionIndex].partitionEdgeSize + degree[tempNodeIndex] > max_partition_size) {
tempPartitionIndex++;
} else {
partitionInfoList[tempPartitionIndex].endVertex = tempNodeIndex;
partitionInfoList[tempPartitionIndex].partitionEdgeSize += degree[tempNodeIndex];
tempNodeIndex++;
}
}
}
uint *degreeD;
bool *isActiveNodeListD;
bool *nextActiveNodeListD;
uint *nodePointerListD;
EdgeWithWeight *partitionEdgeListD;
uint *valueD;
cudaMalloc(°reeD, testNumNodes * sizeof(uint));
cudaMalloc(&valueD, testNumNodes * sizeof(uint));
cudaMalloc(&isActiveNodeListD, testNumNodes * sizeof(bool));
cudaMalloc(&nextActiveNodeListD, testNumNodes * sizeof(bool));
cudaMalloc(&nodePointerListD, testNumNodes * sizeof(uint));
cudaMalloc(&partitionEdgeListD, max_partition_size * sizeof(EdgeWithWeight));
cudaMemcpy(degreeD, degree, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice);
cudaMemcpy(nodePointerListD, nodePointersI, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice);
cudaMemset(nextActiveNodeListD, 0, testNumNodes * sizeof(bool));
//cacaulate the active node And make active node array
dim3 grid = dim3(56, 1, 1);
dim3 block = dim3(1024, 1, 1);
int testTimes = 1;
long timeSum = 0;
for (int i = 0; i < testTimes; i++) {
uint sourceNode = rand() % testNumNodes;
sourceNode = sourceNodeSample;
//sourceNode = 25838548;
//sourceNode = 26890152;
//sourceNode = 47235513;
cout << "sourceNode " << sourceNode << endl;
for (int j = 0; j < testNumNodes; j++) {
isActiveNodeList[j] = false;
value[j] = UINT_MAX;
}
isActiveNodeList[sourceNode] = true;
value[sourceNode] = 1;
cudaMemcpy(valueD, value, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice);
uint activeSum = 0;
int iteration = 0;
auto startProcessing = std::chrono::steady_clock::now();
while (true) {
uint activeNodeNum = 0;
checkNeedTransferPartitionOpt(needTransferPartition, partitionInfoList, isActiveNodeList, partitionNum,
testNumNodes, activeNodeNum);
if (activeNodeNum <= 0) {
break;
} else {
//cout << "iteration " << iteration << " activeNodes " << activeNodeNum << endl;
activeSum += activeNodeNum;
}
cudaMemcpy(isActiveNodeListD, isActiveNodeList, testNumNodes * sizeof(bool), cudaMemcpyHostToDevice);
for (int j = 0; j < partitionNum; j++) {
if (needTransferPartition[j]) {
cudaMemcpy(partitionEdgeListD, edgeList + partitionInfoList[j].nodePointerOffset,
partitionInfoList[j].partitionEdgeSize * sizeof(EdgeWithWeight), cudaMemcpyHostToDevice);
traverseSum += partitionInfoList[j].partitionEdgeSize * sizeof(EdgeWithWeight);
ssspKernel_CommonPartition<<<grid, block>>>(partitionInfoList[j].startVertex,
partitionInfoList[j].endVertex,
partitionInfoList[j].nodePointerOffset,
isActiveNodeListD, nodePointerListD,
partitionEdgeListD, degreeD, valueD,
nextActiveNodeListD);
cudaDeviceSynchronize();
gpuErrorcheck(cudaPeekAtLastError())
}
}
cudaMemcpy(isActiveNodeList, nextActiveNodeListD, testNumNodes * sizeof(bool), cudaMemcpyDeviceToHost);
cudaMemset(nextActiveNodeListD, 0, testNumNodes * sizeof(bool));
iteration++;
}
cout << "traverseSum " << traverseSum << endl;
cout << " activeSum " << activeSum << endl;
auto endRead = std::chrono::steady_clock::now();
long durationRead = std::chrono::duration_cast<std::chrono::milliseconds>(endRead - startProcessing).count();
cout << " finish time : " << durationRead << " ms" << endl;
}
free(nodePointersI);
free(edgeList);
free(degree);
free(isActiveNodeList);
cudaFree(isActiveNodeListD);
cudaFree(nextActiveNodeListD);
cudaFree(nodePointerListD);
cudaFree(partitionEdgeListD);
}
void ssspOpt(uint sourceNodeSample, string ssspPath, float adviseK) {
uint testNumNodes = 0;
ulong testNumEdge = 0;
uint *nodePointersI;
EdgeWithWeight *edgeList;
bool isUseShare = true;
auto startReadGraph = std::chrono::steady_clock::now();
ifstream infile(ssspPath, ios::in | ios::binary);
infile.read((char *) &testNumNodes, sizeof(uint));
uint numEdge = 0;
infile.read((char *) &numEdge, sizeof(uint));
testNumEdge = numEdge;
cout << "vertex num: " << testNumNodes << " edge num: " << testNumEdge << endl;
nodePointersI = new uint[testNumNodes + 1];
infile.read((char *) nodePointersI, sizeof(uint) * testNumNodes);
edgeList = new EdgeWithWeight[testNumEdge + 1];
infile.read((char *) edgeList, sizeof(EdgeWithWeight) * testNumEdge);
infile.close();
auto endReadGraph = std::chrono::steady_clock::now();
long durationReadGraph = std::chrono::duration_cast<std::chrono::milliseconds>(
endReadGraph - startReadGraph).count();
cout << "read graph time : " << durationReadGraph << "ms" << endl;
int testTimes = 1;
long timeSum = 0;
for (int i = 0; i < testTimes; i++) {
//uint sourceNode = 25838548;
//uint sourceNode = 26890152;
uint sourceNode = 47235513;
sourceNode = sourceNodeSample;
cout << i << " sourceNode " << sourceNode << endl;
timeSum += ssspCaculateCommonMemoryInnerAsyncRandom(testNumNodes, testNumEdge, nodePointersI, edgeList,
sourceNode, adviseK);
//timeSum += ssspCaculateCommonMemoryInnerAsyncVisitRecord(testNumNodes, testNumEdge, nodePointersI, edgeList, sourceNode, adviseK);
//break;
cout << i << "========================================" << endl;
}
}
void ssspShare(uint sourceNodeSample, string ssspPath) {
uint testNumNodes = 0;
ulong testNumEdge = 0;
uint *nodePointersI;
EdgeWithWeight *edgeList;
auto startReadGraph = std::chrono::steady_clock::now();
ifstream infile(ssspPath, ios::in | ios::binary);
infile.read((char *) &testNumNodes, sizeof(uint));
uint numEdge = 0;
infile.read((char *) &numEdge, sizeof(uint));
testNumEdge = numEdge;
cout << "vertex num: " << testNumNodes << " edge num: " << testNumEdge << endl;
gpuErrorcheck(cudaMallocManaged(&nodePointersI, (testNumNodes + 1) * sizeof(uint)));
infile.read((char *) nodePointersI, sizeof(uint) * testNumNodes);
gpuErrorcheck(cudaMallocManaged(&edgeList, (numEdge) * sizeof(EdgeWithWeight)));
cudaMemAdvise(nodePointersI, (testNumNodes + 1) * sizeof(uint), cudaMemAdviseSetReadMostly, 0);
cudaMemAdvise(edgeList, (numEdge) * sizeof(EdgeWithWeight), cudaMemAdviseSetReadMostly, 0);
infile.read((char *) edgeList, sizeof(EdgeWithWeight) * testNumEdge);
infile.close();
//preprocessData(nodePointersI, edgeList, testNumNodes, testNumEdge);
auto endReadGraph = std::chrono::steady_clock::now();
long durationReadGraph = std::chrono::duration_cast<std::chrono::milliseconds>(
endReadGraph - startReadGraph).count();
cout << "read graph time : " << durationReadGraph << "ms" << endl;
int testTimes = 1;
long timeSum = 0;
for (int i = 0; i < testTimes; i++) {
uint sourceNode = sourceNodeSample;
cout << i << " sourceNode " << sourceNode << endl;
ssspCaculateInShare(testNumNodes, testNumEdge, nodePointersI, edgeList, sourceNode);
break;
}
}
long ssspCaculateInShare(uint testNumNodes, uint testNumEdge, uint *nodePointersI, EdgeWithWeight *edgeList,
uint sourceNode) {
cout << "==================ssspshare==============" << endl;
auto start = std::chrono::steady_clock::now();
uint *degree;
uint *value;
uint sourceCode = 0;
gpuErrorcheck(cudaMallocManaged(°ree, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMallocManaged(&value, testNumNodes * sizeof(uint)));
auto startPreCaculate = std::chrono::steady_clock::now();
for (uint i = 0; i < testNumNodes - 1; i++) {
degree[i] = nodePointersI[i + 1] - nodePointersI[i];
}
degree[testNumNodes - 1] = testNumEdge - nodePointersI[testNumNodes - 1];
sourceCode = sourceNode;
bool *label;
gpuErrorcheck(cudaMallocManaged(&label, testNumNodes * sizeof(bool)));
for (uint i = 0; i < testNumNodes; i++) {
label[i] = false;
value[i] = UINT_MAX - 1;
}
label[sourceCode] = true;
value[sourceCode] = 1;
uint *activeNodeList;
cudaMallocManaged(&activeNodeList, testNumNodes * sizeof(uint));
//cacaulate the active node And make active node array
uint *activeNodeLabelingD;
gpuErrorcheck(cudaMallocManaged(&activeNodeLabelingD, testNumNodes * sizeof(unsigned int)));
uint *activeNodeLabelingPrefixD;
gpuErrorcheck(cudaMallocManaged(&activeNodeLabelingPrefixD, testNumNodes * sizeof(unsigned int)));
dim3 grid = dim3(56, 1, 1);
dim3 block = dim3(1024, 1, 1);
auto endPreCaculate = std::chrono::steady_clock::now();
long durationPreCaculate = std::chrono::duration_cast<std::chrono::milliseconds>(
endPreCaculate - startPreCaculate).count();
cout << "durationPreCaculate time : " << durationPreCaculate << " ms" << endl;
setLabeling<<<grid, block>>>(testNumNodes, label, activeNodeLabelingD);
thrust::device_ptr<unsigned int> ptr_labeling(activeNodeLabelingD);
thrust::device_ptr<unsigned int> ptr_labeling_prefixsum(activeNodeLabelingPrefixD);
uint activeNodesNum = thrust::reduce(ptr_labeling, ptr_labeling + testNumNodes);
int iter = 0;
uint nodeSum = activeNodesNum;
//vector<vector<uint>> visitRecordByIteration;
while (activeNodesNum > 0) {
iter++;
thrust::exclusive_scan(ptr_labeling, ptr_labeling + testNumNodes, ptr_labeling_prefixsum);
setActiveNodeArray<<<grid, block>>>(testNumNodes, activeNodeList, label, activeNodeLabelingPrefixD);
setLabelDefault<<<grid, block>>>(activeNodesNum, activeNodeList, label);
sssp_kernel<<<grid, block>>>(activeNodesNum, activeNodeList, nodePointersI, degree, edgeList, value, label);
cudaDeviceSynchronize();
gpuErrorcheck(cudaPeekAtLastError());
//visitRecordByIteration.push_back(countDataByIteration(testNumEdge, testNumNodes, nodePointersI, degree, activeNodeLabelingD));
setLabeling<<<grid, block>>>(testNumNodes, label, activeNodeLabelingD);
activeNodesNum = thrust::reduce(ptr_labeling, ptr_labeling + testNumNodes);
nodeSum += activeNodesNum;
cout << "iter: " << iter << " activeNodes: " << activeNodesNum << endl;
}
cudaDeviceSynchronize();
//writeTrunkVistInIteration(visitRecordByIteration, "./CountByIterationSSSP.txt");
cout << "nodeSum: " << nodeSum << endl;
auto endRead = std::chrono::steady_clock::now();
long durationRead = std::chrono::duration_cast<std::chrono::milliseconds>(endRead - start).count();
cout << "iter sum is " << iter << " finish time : " << durationRead << " ms" << endl;
return durationRead;
}
//std::thread
void ssspDynamic(int tId,
int numThreads,
unsigned int overloadNodeBegin,
unsigned int numActiveNodes,
unsigned int *outDegree,
unsigned int *activeNodesPointer,
unsigned int *nodePointer,
unsigned int *activeNodes,
EdgeWithWeight *edgeListOverload,
EdgeWithWeight *edgeList) {
unsigned int chunkSize = ceil((numActiveNodes - overloadNodeBegin) / numThreads) + 1;
unsigned int left, right;
left = tId * chunkSize + overloadNodeBegin;
right = min(left + chunkSize, numActiveNodes);
unsigned int thisNode;
unsigned int thisDegree;
unsigned int fromHere;
unsigned int fromThere;
for (unsigned int i = left; i < right; i++) {
thisNode = activeNodes[i];
thisDegree = outDegree[thisNode];
fromHere = activeNodesPointer[i];
fromThere = nodePointer[thisNode];
for (unsigned int j = 0; j < thisDegree; j++) {
uint temToNode, temWeight;
temToNode = edgeList[fromThere + j].toNode;
temWeight = edgeList[fromThere + j].weight;
edgeListOverload[fromHere + j].toNode = temToNode;
edgeListOverload[fromHere + j].weight = temWeight;
}
}
}
void ssspKernelThread(uint staticNodeNum, uint *activeNodeListD,
uint *staticNodePointerD, uint *degreeD,
EdgeWithWeight *staticEdgeListD, uint *valueD,
uint *isActiveD1,
uint *isActiveD2,
bool *isFinishedManaged, dim3 grid, dim3 block, cudaStream_t steamStatic) {
uint itr = 0;
bool isFinishedHost = true;
do {
itr++;
isFinishedHost = true;
cudaMemcpy(isFinishedManaged, &isFinishedHost, sizeof(bool), cudaMemcpyHostToDevice);
sssp_kernelStaticSwapOpt2Label<<<grid, block, 0, steamStatic>>>(staticNodeNum, activeNodeListD,
staticNodePointerD, degreeD,
staticEdgeListD, valueD,
itr % 2 == 1 ? isActiveD1 : isActiveD2,
itr % 2 == 1 ? isActiveD2 : isActiveD1,
isFinishedManaged);
cudaDeviceSynchronize();
gpuErrorcheck(cudaPeekAtLastError())
cudaMemcpy(&isFinishedHost, isFinishedManaged, sizeof(bool), cudaMemcpyDeviceToHost);
isFinishedHost = true;
} while (!isFinishedHost);
}
long
ssspCaculateCommonMemoryInnerAsync(uint testNumNodes, uint testNumEdge, uint *nodePointersI, EdgeWithWeight *edgeList,
uint sourceNode, float adviseK) {
cout << "=========ssspCaculateCommonMemoryInnerAsync========" << endl;
ulong edgeIterationMax = 0;
auto start = std::chrono::steady_clock::now();
auto startPreCaculate = std::chrono::steady_clock::now();
ulong transferSum = 0;
//CPU
long durationRead;
uint fragmentNum = testNumEdge / fragment_size;
unsigned long max_partition_size;
unsigned long total_gpu_size;
uint staticFragmentNum;
uint maxStaticNode = 0;
uint *degree;
uint *value;
uint *label;
uint *staticFragmentToNormalMap;
bool *isInStatic;
uint *overloadNodeList;
uint *staticNodePointer;
uint *staticFragmentData;
uint *overloadFragmentData;
uint *activeNodeList;
uint *activeOverloadNodePointers;
vector<PartEdgeListInfo> partEdgeListInfoArr;
EdgeWithWeight *overloadEdgeList;
FragmentData *fragmentData;
bool isFromTail = true;
//GPU
EdgeWithWeight *staticEdgeListD;
EdgeWithWeight *overloadEdgeListD;
bool *isInStaticD;
uint *overloadNodeListD;
uint *staticNodePointerD;
uint *nodePointerD;
uint *staticFragmentVisitRecordsD;
uint *staticFragmentDataD;
uint *canSwapStaticFragmentDataD;
uint *canSwapFragmentPrefixSumD;
uint *degreeD;
// async need two labels
uint *isActiveD1;
uint *isActiveD2;
uint *isStaticActive;
uint *isOverloadActive;
uint *valueD;
uint *activeNodeListD;
uint *activeNodeLabelingPrefixD;
uint *activeOverloadNodePointersD;
uint *activeOverloadDegreeD;
bool *isFinishedDevice;
degree = new uint[testNumNodes];
value = new uint[testNumNodes];
label = new uint[testNumNodes];
isInStatic = new bool[testNumNodes];
overloadNodeList = new uint[testNumNodes];
staticNodePointer = new uint[testNumNodes];
activeNodeList = new uint[testNumNodes];
activeOverloadNodePointers = new uint[testNumNodes];
fragmentData = new FragmentData[fragmentNum];
getMaxPartitionSize(max_partition_size, total_gpu_size, testNumNodes, adviseK, sizeof(EdgeWithWeight), testNumEdge,
15);
staticFragmentNum = max_partition_size / fragment_size;
staticFragmentToNormalMap = new uint[staticFragmentNum];
staticFragmentData = new uint[staticFragmentNum];
overloadFragmentData = new uint[fragmentNum];
//caculate degree
uint meanDegree = testNumEdge / testNumNodes;
cout << " meanDegree " << meanDegree << endl;
uint degree0Sum = 0;
for (uint i = 0; i < testNumNodes - 1; i++) {
if (nodePointersI[i] > testNumEdge) {
cout << i << " " << nodePointersI[i] << endl;
break;
}
degree[i] = nodePointersI[i + 1] - nodePointersI[i];
}
degree[testNumNodes - 1] = testNumEdge - nodePointersI[testNumNodes - 1];
memcpy(staticNodePointer, nodePointersI, testNumNodes * sizeof(uint));
//caculate static staticEdgeListD
gpuErrorcheck(cudaMalloc(&isFinishedDevice, 1 * sizeof(bool)));
gpuErrorcheck(cudaMalloc(&staticEdgeListD, max_partition_size * sizeof(EdgeWithWeight)));
auto startmove = std::chrono::steady_clock::now();
gpuErrorcheck(
cudaMemcpy(staticEdgeListD, edgeList, max_partition_size * sizeof(EdgeWithWeight), cudaMemcpyHostToDevice));
auto endMove = std::chrono::steady_clock::now();
long testDuration = std::chrono::duration_cast<std::chrono::milliseconds>(
endMove - startmove).count();
cout << "move duration " << testDuration << endl;
gpuErrorcheck(cudaMalloc(&isInStaticD, testNumNodes * sizeof(bool)))
gpuErrorcheck(cudaMalloc(&overloadNodeListD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&staticNodePointerD, testNumNodes * sizeof(uint)))
gpuErrorcheck(cudaMemcpy(staticNodePointerD, nodePointersI, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMalloc(&nodePointerD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMemcpy(nodePointerD, nodePointersI, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
for (uint i = 0; i < testNumNodes; i++) {
label[i] = 0;
value[i] = UINT_MAX;
uint pointStartFragmentIndex = nodePointersI[i] / fragment_size;
uint pointEndFragmentIndex =
degree[i] == 0 ? pointStartFragmentIndex : (nodePointersI[i] + degree[i] - 1) / fragment_size;
if (pointStartFragmentIndex == pointEndFragmentIndex && pointStartFragmentIndex >= 0 &&
pointStartFragmentIndex < fragmentNum) {
if (fragmentData[pointStartFragmentIndex].vertexNum == 0) {
fragmentData[pointStartFragmentIndex].startVertex = i;
} else if (fragmentData[pointStartFragmentIndex].startVertex > i) {
fragmentData[pointStartFragmentIndex].startVertex = i;
}
fragmentData[pointStartFragmentIndex].vertexNum++;
}
if (nodePointersI[i] < max_partition_size && (nodePointersI[i] + degree[i] - 1) < max_partition_size) {
isInStatic[i] = true;
if (i > maxStaticNode) maxStaticNode = i;
} else {
isInStatic[i] = false;
}
}
label[sourceNode] = 1;
value[sourceNode] = 1;
cudaMemcpy(isInStaticD, isInStatic, testNumNodes * sizeof(bool), cudaMemcpyHostToDevice);
cout << "max_partition_size: " << max_partition_size << " maxStaticNode: " << maxStaticNode << endl;
cout << "fragmentNum " << fragmentNum << " staticFragmentNum " << staticFragmentNum << endl;
for (int i = 0; i < staticFragmentNum; i++) {
fragmentData[i].isIn = true;
}
for (uint i = 0; i < staticFragmentNum; i++) {
staticFragmentToNormalMap[i] = i;
}
uint partOverloadSize = total_gpu_size - max_partition_size;
uint overloadSize = testNumEdge - nodePointersI[maxStaticNode + 1];
cout << " partOverloadSize " << partOverloadSize << " overloadSize " << overloadSize << endl;
//overloadEdgeList = (EdgeWithWeight *) malloc(overloadSize * sizeof(EdgeWithWeight));
overloadEdgeList = new EdgeWithWeight[overloadSize];
gpuErrorcheck(cudaMalloc(&overloadEdgeListD, partOverloadSize * sizeof(EdgeWithWeight)));
//gpuErrorcheck(cudaMallocManaged(&edgeListOverloadManage, overloadSize * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&staticFragmentDataD, staticFragmentNum * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&staticFragmentVisitRecordsD, staticFragmentNum * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&canSwapStaticFragmentDataD, staticFragmentNum * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&canSwapFragmentPrefixSumD, staticFragmentNum * sizeof(uint)));
thrust::device_ptr<unsigned int> ptr_canSwapFragment(canSwapStaticFragmentDataD);
thrust::device_ptr<unsigned int> ptr_canSwapFragmentPrefixSum(canSwapFragmentPrefixSumD);
gpuErrorcheck(cudaMalloc(°reeD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&isActiveD1, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&isActiveD2, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&isStaticActive, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&isOverloadActive, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&valueD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&activeNodeLabelingPrefixD, testNumNodes * sizeof(unsigned int)));
gpuErrorcheck(cudaMalloc(&activeNodeListD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&activeOverloadNodePointersD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&activeOverloadDegreeD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMemcpy(degreeD, degree, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMemcpy(valueD, value, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMemcpy(isActiveD1, label, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMemset(isActiveD2, 0, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMemset(isStaticActive, 0, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMemset(isOverloadActive, 0, testNumNodes * sizeof(uint)));
//cacaulate the active node And make active node array
dim3 grid = dim3(56, 1, 1);
dim3 block = dim3(1024, 1, 1);
//setLabeling<<<grid, block>>>(testNumNodes, labelD, activeNodeLabelingD);
thrust::device_ptr<unsigned int> ptr_labeling(isActiveD1);
thrust::device_ptr<unsigned int> ptr_labeling_static(isStaticActive);
thrust::device_ptr<unsigned int> ptr_labeling_overload(isOverloadActive);
thrust::device_ptr<unsigned int> ptr_labeling_prefixsum(activeNodeLabelingPrefixD);
thrust::device_ptr<unsigned int> ptrOverloadDegree(activeOverloadDegreeD);
thrust::device_ptr<unsigned int> ptrOverloadPrefixsum(activeOverloadNodePointersD);
uint activeNodesNum = thrust::reduce(ptr_labeling, ptr_labeling + testNumNodes);
int iter = 0;
uint nodeSum = activeNodesNum;
ulong overloadEdgeSum = 0;
auto startCpu = std::chrono::steady_clock::now();
auto endReadCpu = std::chrono::steady_clock::now();
long durationReadCpu = 0;
auto startSwap = std::chrono::steady_clock::now();
auto endSwap = std::chrono::steady_clock::now();
long durationSwap = 0;
auto startGpuProcessing = std::chrono::steady_clock::now();
auto endGpuProcessing = std::chrono::steady_clock::now();
long durationGpuProcessing = 0;
auto startOverloadGpuProcessing = std::chrono::steady_clock::now();
auto endOverloadGpuProcessing = std::chrono::steady_clock::now();
long durationOverloadGpuProcessing = 0;
auto startPreGpuProcessing = std::chrono::steady_clock::now();
auto endPreGpuProcessing = std::chrono::steady_clock::now();
long durationPreGpuProcessing = 0;
auto endPreCaculate = std::chrono::steady_clock::now();
long durationPreCaculate = std::chrono::duration_cast<std::chrono::milliseconds>(
endPreCaculate - startPreCaculate).count();
cout << "durationPreCaculate time : " << durationPreCaculate << " ms" << endl;
cudaStream_t steamStatic, streamDynamic;
cudaStreamCreate(&steamStatic);
cudaStreamCreate(&streamDynamic);
auto startMemoryTraverse = std::chrono::steady_clock::now();
auto endMemoryTraverse = std::chrono::steady_clock::now();
long durationMemoryTraverse = 0;
uint cursorStartSwap = isFromTail ? fragmentNum - 1 : staticFragmentNum + 1;
//uint cursorStartSwap = staticFragmentNum + 1;
uint swapValidNodeSum = 0;
uint swapValidEdgeSum = 0;
uint swapNotValidNodeSum = 0;
uint swapNotValidEdgeSum = 0;
uint visitEdgeSum = 0;
uint swapInEdgeSum = 0;
auto startProcessing = std::chrono::steady_clock::now();
auto startTest = std::chrono::steady_clock::now();
auto endTest = std::chrono::steady_clock::now();
long durationTest = 0;
while (activeNodesNum > 0) {
iter++;
cout << "iter " << iter << " activeNodesNum " << activeNodesNum << endl;
startPreGpuProcessing = std::chrono::steady_clock::now();
cleanStaticAndOverloadLabel<<<grid, block>>>(testNumNodes, isStaticActive, isOverloadActive);
setStaticAndOverloadLabel<<<grid, block>>>(testNumNodes, isActiveD1, isStaticActive, isOverloadActive,
isInStaticD);
uint staticNodeNum = thrust::reduce(ptr_labeling_static, ptr_labeling_static + testNumNodes);
cout << "iter " << iter << " staticNodeNum " << staticNodeNum << endl;
thrust::exclusive_scan(ptr_labeling_static, ptr_labeling_static + testNumNodes, ptr_labeling_prefixsum);
setStaticActiveNodeArray<<<grid, block>>>(testNumNodes, activeNodeListD, isStaticActive,
activeNodeLabelingPrefixD);
uint overloadNodeNum = thrust::reduce(ptr_labeling_overload, ptr_labeling_overload + testNumNodes);
cout << "iter " << iter << " overloadNodeNum " << overloadNodeNum << endl;
thrust::exclusive_scan(ptr_labeling_overload, ptr_labeling_overload + testNumNodes, ptr_labeling_prefixsum);
setOverloadNodePointerSwap<<<grid, block>>>(testNumNodes, overloadNodeListD, activeOverloadDegreeD,
isOverloadActive,
activeNodeLabelingPrefixD, degreeD);
thrust::exclusive_scan(ptrOverloadDegree, ptrOverloadDegree + overloadNodeNum, activeOverloadNodePointersD);
uint overloadEdgeNum = thrust::reduce(thrust::device, ptrOverloadDegree,
ptrOverloadDegree + overloadNodeNum, 0);
cout << "iter " << iter << " overloadEdgeNum " << overloadEdgeNum << endl;
overloadEdgeSum += overloadEdgeNum;
if (overloadEdgeNum > edgeIterationMax) {
edgeIterationMax = overloadEdgeNum;
}
endPreGpuProcessing = std::chrono::steady_clock::now();
durationPreGpuProcessing += std::chrono::duration_cast<std::chrono::milliseconds>(
endPreGpuProcessing - startPreGpuProcessing).count();
startGpuProcessing = std::chrono::steady_clock::now();
mixDynamicPartLabel<<<grid, block, 0, steamStatic>>>(staticNodeNum, 0, activeNodeListD, isActiveD1,
isActiveD2);
/*sssp_kernelStaticSwapOpt2Label<<<grid, block, 0, steamStatic>>>(staticNodeNum, activeNodeListD,
staticNodePointerD, degreeD,
staticEdgeListD, valueD, isActiveD1, isActiveD2,
isFinishedManaged);*/
thread staticSSSPKernel = thread(ssspKernelThread, staticNodeNum, activeNodeListD, staticNodePointerD, degreeD,
staticEdgeListD, valueD, isActiveD1, isActiveD2, isFinishedDevice, grid,
block,
steamStatic);
if (overloadNodeNum > 0) {
startCpu = std::chrono::steady_clock::now();
/*cudaMemcpyAsync(staticActiveNodeList, activeNodeListD, activeNodesNum * sizeof(uint), cudaMemcpyDeviceToHost,
streamDynamic);*/
cudaMemcpyAsync(overloadNodeList, overloadNodeListD, overloadNodeNum * sizeof(uint), cudaMemcpyDeviceToHost,
streamDynamic);
cudaMemcpyAsync(activeOverloadNodePointers, activeOverloadNodePointersD, overloadNodeNum * sizeof(uint),
cudaMemcpyDeviceToHost, streamDynamic);
int threadNum = 20;
if (overloadNodeNum < 50) {
threadNum = 1;
}
thread runThreads[threadNum];
for (int i = 0; i < threadNum; i++) {
runThreads[i] = thread(ssspDynamic,
i,
threadNum,
0,
overloadNodeNum,
degree,
activeOverloadNodePointers,
nodePointersI,
overloadNodeList,
overloadEdgeList,
edgeList);
}
for (unsigned int t = 0; t < threadNum; t++) {
runThreads[t].join();
}
caculatePartInfoForEdgeList(activeOverloadNodePointers, overloadNodeList, degree, partEdgeListInfoArr,
overloadNodeNum, partOverloadSize, overloadEdgeNum);
endReadCpu = std::chrono::steady_clock::now();
durationReadCpu += std::chrono::duration_cast<std::chrono::milliseconds>(endReadCpu - startCpu).count();
if (staticSSSPKernel.joinable()) {
staticSSSPKernel.join();
}
cudaDeviceSynchronize();
endGpuProcessing = std::chrono::steady_clock::now();
durationGpuProcessing += std::chrono::duration_cast<std::chrono::milliseconds>(
endGpuProcessing - startGpuProcessing).count();
for (auto &i : partEdgeListInfoArr) {
startTest = std::chrono::steady_clock::now();
startMemoryTraverse = std::chrono::steady_clock::now();
gpuErrorcheck(cudaMemcpy(overloadEdgeListD, overloadEdgeList +
activeOverloadNodePointers[i.partStartIndex],
i.partEdgeNums * sizeof(EdgeWithWeight),
cudaMemcpyHostToDevice))
transferSum += i.partEdgeNums;
endMemoryTraverse = std::chrono::steady_clock::now();
durationMemoryTraverse += std::chrono::duration_cast<std::chrono::milliseconds>(
endMemoryTraverse - startMemoryTraverse).count();
startOverloadGpuProcessing = std::chrono::steady_clock::now();
mixDynamicPartLabel<<<grid, block, 0, streamDynamic>>>(i.partActiveNodeNums,
i.partStartIndex,
overloadNodeListD, isActiveD1,
isActiveD2);
uint itr = 0;
bool isFinishedHost = true;
do {
itr++;
isFinishedHost = true;
cudaMemcpy(isFinishedDevice, &isFinishedHost, sizeof(bool), cudaMemcpyHostToDevice);
sssp_kernelDynamicSwap2Label<<<grid, block, 0, streamDynamic>>>(
i.partStartIndex,
i.partActiveNodeNums,
overloadNodeListD, degreeD,
valueD, itr % 2 == 1 ? isActiveD1
: isActiveD2,
itr % 2 == 1 ? isActiveD2
: isActiveD1,
overloadEdgeListD,
activeOverloadNodePointersD,
isFinishedDevice);
cudaDeviceSynchronize();
cudaMemcpy(&isFinishedHost, isFinishedDevice, sizeof(bool), cudaMemcpyDeviceToHost);
//cout << "dynamic itr " << itr << " *isFinishedManaged " << *isFinishedManaged << endl;
//*isFinishedManaged = true;
isFinishedHost = true;
} while (!isFinishedHost);
endOverloadGpuProcessing = std::chrono::steady_clock::now();
durationOverloadGpuProcessing += std::chrono::duration_cast<std::chrono::milliseconds>(
endOverloadGpuProcessing - startOverloadGpuProcessing).count();
endTest = std::chrono::steady_clock::now();
durationTest += std::chrono::duration_cast<std::chrono::milliseconds>(
endTest - startTest).count();
}
//gpuErrorcheck(cudaPeekAtLastError())
} else {
if (staticSSSPKernel.joinable()) {
staticSSSPKernel.join();
}
endGpuProcessing = std::chrono::steady_clock::now();
durationGpuProcessing += std::chrono::duration_cast<std::chrono::milliseconds>(
endGpuProcessing - startGpuProcessing).count();
}
startPreGpuProcessing = std::chrono::steady_clock::now();
mixCommonLabel<<<grid, block, 0, streamDynamic>>>(testNumNodes, isActiveD1, isActiveD2);
activeNodesNum = thrust::reduce(ptr_labeling, ptr_labeling + testNumNodes);
nodeSum += activeNodesNum;
endPreGpuProcessing = std::chrono::steady_clock::now();
durationPreGpuProcessing += std::chrono::duration_cast<std::chrono::milliseconds>(
endPreGpuProcessing - startPreGpuProcessing).count();
}
auto endRead = std::chrono::steady_clock::now();
durationRead = std::chrono::duration_cast<std::chrono::milliseconds>(endRead - startProcessing).count();
cudaDeviceSynchronize();
cout << "nodeSum: " << nodeSum << endl;
transferSum += max_partition_size;
cout << "iterationSum " << iter << endl;
double edgeIterationAvg = (double) overloadEdgeSum / (double) testNumEdge / iter;
double edgeIterationMaxAvg = (double) edgeIterationMax / (double) testNumEdge;
cout << "edgeIterationAvg " << edgeIterationAvg << " edgeIterationMaxAvg " << edgeIterationMaxAvg << endl;
cout << "transferSum : " << transferSum * sizeof(EdgeWithWeight) << " bytes" << endl;
cout << "finish time : " << durationRead << " ms" << endl;
cout << "total time : " << testDuration + durationRead << " ms" << endl;
cout << "cpu time : " << durationReadCpu << " ms" << endl;
cout << "pre fact processing time : " << durationGpuProcessing << " ms" << endl;
cout << "dynamic fact processing time : " << durationOverloadGpuProcessing << " ms" << endl;
cout << "dynamic move time : " << durationMemoryTraverse << " ms" << endl;
cout << "gpu pre processing time : " << durationPreGpuProcessing << " ms" << endl;
cout << "swap processing time : " << durationSwap << " ms" << endl;
cout << "overloadEdgeSum : " << overloadEdgeSum << " " << endl;
cout << "durationTest : " << durationTest << " " << endl;
cout << "swapValidNodeSum " << swapValidNodeSum << " swapValidEdgeSum " << swapValidEdgeSum << endl;
cout << "swapNotValidNodeSum " << swapNotValidNodeSum << " swapNotValidEdgeSum " << swapNotValidEdgeSum
<< " visitSum " << visitEdgeSum << " swapInEdgeSum " << swapInEdgeSum << endl;
cudaFree(nodePointerD);
cudaFree(staticEdgeListD);
//cudaFree(edgeListOverloadManage);
cudaFree(degreeD);
cudaFree(isActiveD1);
cudaFree(isActiveD2);
cudaFree(valueD);
cudaFree(activeNodeListD);
cudaFree(activeNodeLabelingPrefixD);
cudaFree(activeOverloadNodePointersD);
cudaFree(activeOverloadDegreeD);
cudaFree(isInStaticD);
cudaFree(staticNodePointerD);
cudaFree(overloadNodeListD);
cudaFree(staticFragmentVisitRecordsD);
cudaFree(staticFragmentDataD);
cudaFree(canSwapStaticFragmentDataD);
cudaFree(canSwapFragmentPrefixSumD);
cudaFree(overloadEdgeListD);
cudaFree(isStaticActive);
cudaFree(isOverloadActive);
cudaFree(isFinishedDevice);
delete[] label;
delete[] degree;
delete[] value;
delete[] activeNodeList;
delete[] activeOverloadNodePointers;
delete[] staticFragmentData;
delete[] isInStatic;
delete[] overloadNodeList;
delete[] staticNodePointer;
delete[] staticFragmentToNormalMap;
delete[] fragmentData;
delete[] overloadFragmentData;
delete[] overloadEdgeList;
partEdgeListInfoArr.clear();
return durationRead;
}
long
ssspCaculateUVM(uint testNumNodes, uint testNumEdge, uint *nodePointersI, EdgeWithWeight *edgeList,
uint sourceNode) {
cout << "=========ssspCaculateCommonMemoryInnerAsync========" << endl;
auto start = std::chrono::steady_clock::now();
auto startPreCaculate = std::chrono::steady_clock::now();
ulong transferSum = 0;
//CPU
long durationRead;
uint fragmentNum = testNumEdge / fragment_size;
unsigned long max_partition_size;
unsigned long total_gpu_size;
uint staticFragmentNum;
uint maxStaticNode = 0;
uint *degree;
uint *value;
uint *label;
uint *staticFragmentToNormalMap;
bool *isInStatic;
uint *overloadNodeList;
uint *staticNodePointer;
uint *staticFragmentData;
uint *overloadFragmentData;
uint *activeNodeList;
uint *activeOverloadNodePointers;
//vector<PartEdgeListInfo> partEdgeListInfoArr;
EdgeWithWeight *overloadEdgeListManage;
FragmentData *fragmentData;
bool isFromTail = true;
//GPU
EdgeWithWeight *staticEdgeListD;
//EdgeWithWeight *overloadEdgeListD;
bool *isInStaticD;
uint *overloadNodeListD;
uint *staticNodePointerD;
uint *nodePointerD;
uint *staticFragmentVisitRecordsD;
uint *staticFragmentDataD;
uint *canSwapStaticFragmentDataD;
uint *canSwapFragmentPrefixSumD;
uint *degreeD;
// async need two labels
uint *isActiveD1;
uint *isActiveD2;
uint *isStaticActive;
uint *isOverloadActive;
uint *valueD;
uint *activeNodeListD;
uint *activeNodeLabelingPrefixD;
uint *activeOverloadNodePointersD;
uint *activeOverloadDegreeD;
bool *isFinishedDevice;
degree = new uint[testNumNodes];
value = new uint[testNumNodes];
label = new uint[testNumNodes];
isInStatic = new bool[testNumNodes];
overloadNodeList = new uint[testNumNodes];
staticNodePointer = new uint[testNumNodes];
activeNodeList = new uint[testNumNodes];
activeOverloadNodePointers = new uint[testNumNodes];
fragmentData = new FragmentData[fragmentNum];
getMaxPartitionSize(max_partition_size, total_gpu_size, testNumNodes, 0.88, sizeof(EdgeWithWeight), testNumEdge,
15);
staticFragmentNum = max_partition_size / fragment_size;
staticFragmentToNormalMap = new uint[staticFragmentNum];
staticFragmentData = new uint[staticFragmentNum];
overloadFragmentData = new uint[fragmentNum];
//caculate degree
uint meanDegree = testNumEdge / testNumNodes;
cout << " meanDegree " << meanDegree << endl;
uint degree0Sum = 0;
for (uint i = 0; i < testNumNodes - 1; i++) {
if (nodePointersI[i] > testNumEdge) {
cout << i << " " << nodePointersI[i] << endl;
break;
}
degree[i] = nodePointersI[i + 1] - nodePointersI[i];
}
degree[testNumNodes - 1] = testNumEdge - nodePointersI[testNumNodes - 1];
memcpy(staticNodePointer, nodePointersI, testNumNodes * sizeof(uint));
//caculate static staticEdgeListD
gpuErrorcheck(cudaMalloc(&isFinishedDevice, 1 * sizeof(bool)));
gpuErrorcheck(cudaMalloc(&staticEdgeListD, max_partition_size * sizeof(EdgeWithWeight)));
gpuErrorcheck(
cudaMemcpy(staticEdgeListD, edgeList, max_partition_size * sizeof(EdgeWithWeight), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMalloc(&isInStaticD, testNumNodes * sizeof(bool)))
gpuErrorcheck(cudaMalloc(&overloadNodeListD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&staticNodePointerD, testNumNodes * sizeof(uint)))
gpuErrorcheck(cudaMemcpy(staticNodePointerD, nodePointersI, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMalloc(&nodePointerD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMemcpy(nodePointerD, nodePointersI, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
for (uint i = 0; i < testNumNodes; i++) {
label[i] = 0;
value[i] = UINT_MAX;
uint pointStartFragmentIndex = nodePointersI[i] / fragment_size;
uint pointEndFragmentIndex =
degree[i] == 0 ? pointStartFragmentIndex : (nodePointersI[i] + degree[i] - 1) / fragment_size;
if (pointStartFragmentIndex == pointEndFragmentIndex && pointStartFragmentIndex >= 0 &&
pointStartFragmentIndex < fragmentNum) {
if (fragmentData[pointStartFragmentIndex].vertexNum == 0) {
fragmentData[pointStartFragmentIndex].startVertex = i;
} else if (fragmentData[pointStartFragmentIndex].startVertex > i) {
fragmentData[pointStartFragmentIndex].startVertex = i;
}
fragmentData[pointStartFragmentIndex].vertexNum++;
}
if (nodePointersI[i] < max_partition_size && (nodePointersI[i] + degree[i] - 1) < max_partition_size) {
isInStatic[i] = true;
if (i > maxStaticNode) maxStaticNode = i;
} else {
isInStatic[i] = false;
}
}
label[sourceNode] = 1;
value[sourceNode] = 1;
cudaMemcpy(isInStaticD, isInStatic, testNumNodes * sizeof(bool), cudaMemcpyHostToDevice);
cout << "max_partition_size: " << max_partition_size << " maxStaticNode: " << maxStaticNode << endl;
cout << "fragmentNum " << fragmentNum << " staticFragmentNum " << staticFragmentNum << endl;
for (int i = 0; i < staticFragmentNum; i++) {
fragmentData[i].isIn = true;
}
for (uint i = 0; i < staticFragmentNum; i++) {
staticFragmentToNormalMap[i] = i;
}
uint partOverloadSize = total_gpu_size - max_partition_size;
uint overloadSize = testNumEdge - nodePointersI[maxStaticNode + 1];
cout << " partOverloadSize " << partOverloadSize << " overloadSize " << overloadSize << endl;
//overloadEdgeList = (EdgeWithWeight *) malloc(overloadSize * sizeof(EdgeWithWeight));
gpuErrorcheck(cudaMallocManaged(&overloadEdgeListManage, overloadSize * sizeof(EdgeWithWeight)));
//overloadEdgeList = new EdgeWithWeight[overloadSize];
//gpuErrorcheck(cudaMalloc(&overloadEdgeListD, partOverloadSize * sizeof(EdgeWithWeight)));
//gpuErrorcheck(cudaMallocManaged(&edgeListOverloadManage, overloadSize * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&staticFragmentDataD, staticFragmentNum * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&staticFragmentVisitRecordsD, staticFragmentNum * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&canSwapStaticFragmentDataD, staticFragmentNum * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&canSwapFragmentPrefixSumD, staticFragmentNum * sizeof(uint)));
thrust::device_ptr<unsigned int> ptr_canSwapFragment(canSwapStaticFragmentDataD);
thrust::device_ptr<unsigned int> ptr_canSwapFragmentPrefixSum(canSwapFragmentPrefixSumD);
gpuErrorcheck(cudaMalloc(°reeD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&isActiveD1, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&isActiveD2, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&isStaticActive, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&isOverloadActive, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&valueD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&activeNodeLabelingPrefixD, testNumNodes * sizeof(unsigned int)));
gpuErrorcheck(cudaMalloc(&activeNodeListD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&activeOverloadNodePointersD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMalloc(&activeOverloadDegreeD, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMemcpy(degreeD, degree, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMemcpy(valueD, value, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMemcpy(isActiveD1, label, testNumNodes * sizeof(uint), cudaMemcpyHostToDevice));
gpuErrorcheck(cudaMemset(isActiveD2, 0, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMemset(isStaticActive, 0, testNumNodes * sizeof(uint)));
gpuErrorcheck(cudaMemset(isOverloadActive, 0, testNumNodes * sizeof(uint)));
//cacaulate the active node And make active node array
dim3 grid = dim3(56, 1, 1);
dim3 block = dim3(1024, 1, 1);
//setLabeling<<<grid, block>>>(testNumNodes, labelD, activeNodeLabelingD);
thrust::device_ptr<unsigned int> ptr_labeling(isActiveD1);
thrust::device_ptr<unsigned int> ptr_labeling_static(isStaticActive);