source: XIOS/dev/branch_openmp/src/filter/spatial_transform_filter.cpp @ 1545

Last change on this file since 1545 was 1545, checked in by yushan, 6 years ago

branch_openmp merged with trunk r1544
File size: 14.0 KB
Line 
1#include "mpi.hpp"
2#include "spatial_transform_filter.hpp"
3#include "grid_transformation.hpp"
4#include "context.hpp"
5#include "context_client.hpp"
6#include "timer.hpp"
7using namespace ep_lib;
8
9namespace xios
10{
11  CSpatialTransformFilter::CSpatialTransformFilter(CGarbageCollector& gc, CSpatialTransformFilterEngine* engine, double outputValue, size_t inputSlotsCount)
12    : CFilter(gc, inputSlotsCount, engine), outputDefaultValue(outputValue)
13  { /* Nothing to do */ }
14
15  std::pair<std::shared_ptr<CSpatialTransformFilter>, std::shared_ptr<CSpatialTransformFilter> >
16  CSpatialTransformFilter::buildFilterGraph(CGarbageCollector& gc, CGrid* srcGrid, CGrid* destGrid, bool hasMissingValue, double missingValue)
17  {
18    if (!srcGrid || !destGrid)
19      ERROR("std::pair<std::shared_ptr<CSpatialTransformFilter>, std::shared_ptr<CSpatialTransformFilter> >"
20            "buildFilterGraph(CGarbageCollector& gc, CGrid* srcGrid, CGrid* destGrid)",
21            "Impossible to build the filter graph if either the source or the destination grid are null.");
22
23    std::shared_ptr<CSpatialTransformFilter> firstFilter, lastFilter;
24    // Note that this loop goes from the last transformation to the first transformation
25    do
26    {
27      CGridTransformation* gridTransformation = destGrid->getTransformations();
28      CSpatialTransformFilterEngine* engine = CSpatialTransformFilterEngine::get(destGrid->getTransformations());
29      const std::vector<StdString>& auxInputs = gridTransformation->getAuxInputs();
30      size_t inputCount = 1 + (auxInputs.empty() ? 0 : auxInputs.size());
31      double defaultValue  = (hasMissingValue) ? std::numeric_limits<double>::quiet_NaN() : 0.0;
32
33
34      const CGridTransformationSelector::ListAlgoType& algoList = gridTransformation->getAlgoList() ;
35      CGridTransformationSelector::ListAlgoType::const_iterator it  ;
36
37      bool isSpatialTemporal=false ;
38      for (it=algoList.begin();it!=algoList.end();++it)  if (it->second.first == TRANS_TEMPORAL_SPLITTING) isSpatialTemporal=true ;
39
40      std::shared_ptr<CSpatialTransformFilter> filter ;
41      if( isSpatialTemporal) filter = std::shared_ptr<CSpatialTransformFilter>(new CSpatialTemporalFilter(gc, engine, gridTransformation, defaultValue, inputCount));
42      else filter = std::shared_ptr<CSpatialTransformFilter>(new CSpatialTransformFilter(gc, engine, defaultValue, inputCount));
43
44     
45      if (!lastFilter)
46        lastFilter = filter;
47      else
48        filter->connectOutput(firstFilter, 0);
49
50      firstFilter = filter;
51      for (size_t idx = 0; idx < auxInputs.size(); ++idx)
52      {
53        CField* fieldAuxInput = CField::get(auxInputs[idx]);
54        fieldAuxInput->buildFilterGraph(gc, false);
55        fieldAuxInput->getInstantDataFilter()->connectOutput(firstFilter,idx+1);
56      }
57
58      destGrid = gridTransformation->getGridSource();
59    }
60    while (destGrid != srcGrid);
61
62    return std::make_pair(firstFilter, lastFilter);
63  }
64
65  void CSpatialTransformFilter::onInputReady(std::vector<CDataPacketPtr> data)
66  {
67    CSpatialTransformFilterEngine* spaceFilter = static_cast<CSpatialTransformFilterEngine*>(engine);
68    CDataPacketPtr outputPacket = spaceFilter->applyFilter(data, outputDefaultValue);
69    if (outputPacket)
70      onOutputReady(outputPacket);
71  }
72
73
74
75
76
77  CSpatialTemporalFilter::CSpatialTemporalFilter(CGarbageCollector& gc, CSpatialTransformFilterEngine* engine, CGridTransformation* gridTransformation, double outputValue, size_t inputSlotsCount)
78    : CSpatialTransformFilter(gc, engine, outputValue, inputSlotsCount), record(0)
79  {
80      const CGridTransformationSelector::ListAlgoType& algoList = gridTransformation->getAlgoList() ;
81      CGridTransformationSelector::ListAlgoType::const_iterator it  ;
82
83      int pos ;
84      for (it=algoList.begin();it!=algoList.end();++it) 
85        if (it->second.first == TRANS_TEMPORAL_SPLITTING)
86        {
87          pos=it->first ;
88          if (pos < algoList.size()-1)
89            ERROR("SpatialTemporalFilter::CSpatialTemporalFilter(CGarbageCollector& gc, CSpatialTransformFilterEngine* engine, CGridTransformation* gridTransformation, double outputValue, size_t inputSlotsCount))",
90                  "temporal splitting operation must be the last of whole transformation on same grid") ;
91        }
92         
93      CGrid* grid=gridTransformation->getGridDestination() ;
94
95      CAxis* axis = grid->getAxis(gridTransformation->getElementPositionInGridDst2AxisPosition().find(pos)->second) ;
96
97      nrecords = axis->index.numElements() ;
98  }
99
100
101  void CSpatialTemporalFilter::onInputReady(std::vector<CDataPacketPtr> data)
102  {
103    CSpatialTransformFilterEngine* spaceFilter = static_cast<CSpatialTransformFilterEngine*>(engine);
104    CDataPacketPtr outputPacket = spaceFilter->applyFilter(data, outputDefaultValue);
105
106    if (outputPacket)
107    {
108      size_t nelements=outputPacket->data.numElements() ;
109      if (!tmpData.numElements())
110      {
111        tmpData.resize(nelements);
112        tmpData=outputDefaultValue ;
113      }
114
115      nelements/=nrecords ;
116      size_t offset=nelements*record ;
117      for(size_t i=0;i<nelements;++i)  tmpData(i+offset) = outputPacket->data(i) ;
118   
119      record ++ ;
120      if (record==nrecords)
121      {
122        record=0 ;
123        CDataPacketPtr packet = CDataPacketPtr(new CDataPacket);
124        packet->date = data[0]->date;
125        packet->timestamp = data[0]->timestamp;
126        packet->status = data[0]->status;
127        packet->data.resize(tmpData.numElements());
128        packet->data = tmpData;
129        onOutputReady(packet);
130        tmpData.resize(0) ;
131      }
132    }
133  }
134
135
136  CSpatialTransformFilterEngine::CSpatialTransformFilterEngine(CGridTransformation* gridTransformation)
137    : gridTransformation(gridTransformation)
138  {
139    if (!gridTransformation)
140      ERROR("CSpatialTransformFilterEngine::CSpatialTransformFilterEngine(CGridTransformation* gridTransformation)",
141            "Impossible to construct a spatial transform filter engine without a valid grid transformation.");
142  }
143
144  std::map<CGridTransformation*, std::shared_ptr<CSpatialTransformFilterEngine> > *CSpatialTransformFilterEngine::engines_ptr = 0;
145
146  CSpatialTransformFilterEngine* CSpatialTransformFilterEngine::get(CGridTransformation* gridTransformation)
147  {
148    if (!gridTransformation)
149      ERROR("CSpatialTransformFilterEngine& CSpatialTransformFilterEngine::get(CGridTransformation* gridTransformation)",
150            "Impossible to get the requested engine, the grid transformation is invalid.");
151   
152    if(engines_ptr == NULL) engines_ptr = new std::map<CGridTransformation*, std::shared_ptr<CSpatialTransformFilterEngine> >;
153
154
155    std::map<CGridTransformation*, std::shared_ptr<CSpatialTransformFilterEngine> >::iterator it = engines_ptr->find(gridTransformation);
156    if (it == engines_ptr->end())
157    {
158      std::shared_ptr<CSpatialTransformFilterEngine> engine(new CSpatialTransformFilterEngine(gridTransformation));
159      it = engines_ptr->insert(std::make_pair(gridTransformation, engine)).first;
160    }
161
162    return it->second.get();
163  }
164
165  CDataPacketPtr CSpatialTransformFilterEngine::apply(std::vector<CDataPacketPtr> data)
166  {
167    /* Nothing to do */
168  }
169
170  CDataPacketPtr CSpatialTransformFilterEngine::applyFilter(std::vector<CDataPacketPtr> data, double defaultValue)
171  {
172    CDataPacketPtr packet(new CDataPacket);
173    packet->date = data[0]->date;
174    packet->timestamp = data[0]->timestamp;
175    packet->status = data[0]->status;
176
177    if (packet->status == CDataPacket::NO_ERROR)
178    {
179      if (1 < data.size())  // Dynamical transformations
180      {
181        std::vector<CArray<double,1>* > dataAuxInputs(data.size()-1);
182        for (size_t idx = 0; idx < dataAuxInputs.size(); ++idx) dataAuxInputs[idx] = &(data[idx+1]->data);
183        gridTransformation->computeAll(dataAuxInputs, packet->timestamp);
184      }
185      packet->data.resize(gridTransformation->getGridDestination()->storeIndex_client.numElements());
186      if (0 != packet->data.numElements())
187        (packet->data)(0) = defaultValue;
188      apply(data[0]->data, packet->data);
189    }
190
191    return packet;
192  }
193
194  void CSpatialTransformFilterEngine::apply(const CArray<double, 1>& dataSrc, CArray<double,1>& dataDest)
195  {
196    CTimer::get("CSpatialTransformFilterEngine::apply").resume(); 
197   
198    CContextClient* client = CContext::getCurrent()->client;
199
200    // Get default value for output data
201    bool ignoreMissingValue = false; 
202    double defaultValue = std::numeric_limits<double>::quiet_NaN();
203    if (0 != dataDest.numElements()) ignoreMissingValue = NumTraits<double>::isNan(dataDest(0));
204
205    const std::list<CGridTransformation::SendingIndexGridSourceMap>& listLocalIndexSend = gridTransformation->getLocalIndexToSendFromGridSource();
206    const std::list<CGridTransformation::RecvIndexGridDestinationMap>& listLocalIndexToReceive = gridTransformation->getLocalIndexToReceiveOnGridDest();
207    const std::list<size_t>& listNbLocalIndexToReceive = gridTransformation->getNbLocalIndexToReceiveOnGridDest();
208    const std::list<std::vector<bool> >& listLocalIndexMaskOnDest = gridTransformation->getLocalMaskIndexOnGridDest();
209    const std::vector<CGenericAlgorithmTransformation*>& listAlgos = gridTransformation->getAlgos();
210
211    CArray<double,1> dataCurrentDest(dataSrc.copy());
212
213    std::list<CGridTransformation::SendingIndexGridSourceMap>::const_iterator itListSend  = listLocalIndexSend.begin(),
214                                                                              iteListSend = listLocalIndexSend.end();
215    std::list<CGridTransformation::RecvIndexGridDestinationMap>::const_iterator itListRecv = listLocalIndexToReceive.begin();
216    std::list<size_t>::const_iterator itNbListRecv = listNbLocalIndexToReceive.begin();
217    std::list<std::vector<bool> >::const_iterator itLocalMaskIndexOnDest = listLocalIndexMaskOnDest.begin();
218    std::vector<CGenericAlgorithmTransformation*>::const_iterator itAlgo = listAlgos.begin();
219
220    for (; itListSend != iteListSend; ++itListSend, ++itListRecv, ++itNbListRecv, ++itLocalMaskIndexOnDest, ++itAlgo)
221    {
222      CArray<double,1> dataCurrentSrc(dataCurrentDest);
223      const CGridTransformation::SendingIndexGridSourceMap& localIndexToSend = *itListSend;
224
225      // Sending data from field sources to do transformations
226      std::map<int, CArray<int,1> >::const_iterator itbSend = localIndexToSend.begin(), itSend,
227                                                    iteSend = localIndexToSend.end();
228      int idxSendBuff = 0;
229      std::vector<double*> sendBuff(localIndexToSend.size());
230      for (itSend = itbSend; itSend != iteSend; ++itSend, ++idxSendBuff)
231      {
232        if (0 != itSend->second.numElements())
233          sendBuff[idxSendBuff] = new double[itSend->second.numElements()];
234      }
235
236      idxSendBuff = 0;
237      std::vector<MPI_Request> sendRecvRequest(localIndexToSend.size() + itListRecv->size());
238      int position = 0;
239      for (itSend = itbSend; itSend != iteSend; ++itSend, ++idxSendBuff)
240      {
241        int destRank = itSend->first;
242        const CArray<int,1>& localIndex_p = itSend->second;
243        int countSize = localIndex_p.numElements();
244        for (int idx = 0; idx < countSize; ++idx)
245        {
246          sendBuff[idxSendBuff][idx] = dataCurrentSrc(localIndex_p(idx));
247        }
248        MPI_Isend(sendBuff[idxSendBuff], countSize, MPI_DOUBLE, destRank, 12, client->intraComm, &sendRecvRequest[position++]);
249      }
250
251      // Receiving data on destination fields
252      const CGridTransformation::RecvIndexGridDestinationMap& localIndexToReceive = *itListRecv;
253      CGridTransformation::RecvIndexGridDestinationMap::const_iterator itbRecv = localIndexToReceive.begin(), itRecv,
254                                                                       iteRecv = localIndexToReceive.end();
255      int recvBuffSize = 0;
256      for (itRecv = itbRecv; itRecv != iteRecv; ++itRecv) recvBuffSize += itRecv->second.size(); //(recvBuffSize < itRecv->second.size())
257                                                                       //? itRecv->second.size() : recvBuffSize;
258      double* recvBuff;
259      if (0 != recvBuffSize) recvBuff = new double[recvBuffSize];
260      int currentBuff = 0;
261      for (itRecv = itbRecv; itRecv != iteRecv; ++itRecv)
262      {
263        int srcRank = itRecv->first;
264        int countSize = itRecv->second.size();
265        MPI_Irecv(recvBuff + currentBuff, countSize, MPI_DOUBLE, srcRank, 12, client->intraComm, &sendRecvRequest[position++]);
266        currentBuff += countSize;
267      }
268      std::vector<MPI_Status> status(sendRecvRequest.size());
269      MPI_Waitall(sendRecvRequest.size(), &sendRecvRequest[0], &status[0]);
270
271      dataCurrentDest.resize(*itNbListRecv);
272      const std::vector<bool>& localMaskDest = *itLocalMaskIndexOnDest;
273      for (int i = 0; i < localMaskDest.size(); ++i)
274        if (localMaskDest[i]) dataCurrentDest(i) = 0.0;
275        else dataCurrentDest(i) = defaultValue;
276
277      std::vector<bool> localInitFlag(dataCurrentDest.numElements(), true);
278      currentBuff = 0;
279      bool firstPass=true; 
280      for (itRecv = itbRecv; itRecv != iteRecv; ++itRecv)
281      {
282        int countSize = itRecv->second.size();
283        const std::vector<std::pair<int,double> >& localIndex_p = itRecv->second;
284        (*itAlgo)->apply(localIndex_p,
285                         recvBuff+currentBuff,
286                         dataCurrentDest,
287                         localInitFlag,
288                         ignoreMissingValue,firstPass);
289
290        currentBuff += countSize;
291        firstPass=false ;
292      }
293
294      (*itAlgo)->updateData(dataCurrentDest);
295
296      idxSendBuff = 0;
297      for (itSend = itbSend; itSend != iteSend; ++itSend, ++idxSendBuff)
298      {
299        if (0 != itSend->second.numElements())
300          delete [] sendBuff[idxSendBuff];
301      }
302      if (0 != recvBuffSize) delete [] recvBuff;
303    }
304    if (dataCurrentDest.numElements() != dataDest.numElements())
305    ERROR("CSpatialTransformFilterEngine::apply(const CArray<double, 1>& dataSrc, CArray<double,1>& dataDest)",
306          "Incoherent between the received size and expected size. " << std::endl
307          << "Expected size: " << dataDest.numElements() << std::endl
308          << "Received size: " << dataCurrentDest.numElements());
309
310    dataDest = dataCurrentDest;
311
312    CTimer::get("CSpatialTransformFilterEngine::apply").suspend() ;
313  }
314} // namespace xios
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