1 // Copyright (C) 2007-2014 CEA/DEN, EDF R&D
3 // This library is free software; you can redistribute it and/or
4 // modify it under the terms of the GNU Lesser General Public
5 // License as published by the Free Software Foundation; either
6 // version 2.1 of the License, or (at your option) any later version.
8 // This library is distributed in the hope that it will be useful,
9 // but WITHOUT ANY WARRANTY; without even the implied warranty of
10 // MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
11 // Lesser General Public License for more details.
13 // You should have received a copy of the GNU Lesser General Public
14 // License along with this library; if not, write to the Free Software
15 // Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
17 // See http://www.salome-platform.org/ or email : webmaster.salome@opencascade.com
19 // Author : Anthony Geay (CEA/DEN)
21 #include "MEDFileMeshElt.hxx"
22 #include "MEDFileMeshReadSelector.hxx"
24 #include "MEDCouplingUMesh.hxx"
26 #include "InterpKernelException.hxx"
27 #include "InterpKernelAutoPtr.hxx"
28 #include "CellModel.hxx"
32 extern med_geometry_type typmai3[34];
34 using namespace ParaMEDMEM;
36 MEDFileUMeshPerType *MEDFileUMeshPerType::New(med_idt fid, const char *mName, int dt, int it, int mdim, med_geometry_type geoElt, INTERP_KERNEL::NormalizedCellType geoElt2, MEDFileMeshReadSelector *mrs)
38 med_entity_type whichEntity;
39 if(!isExisting(fid,mName,dt,it,geoElt,whichEntity))
41 return new MEDFileUMeshPerType(fid,mName,dt,it,mdim,geoElt,geoElt2,whichEntity,mrs);
44 MEDFileUMeshPerType *MEDFileUMeshPerType::NewPart(med_idt fid, const char *mName, int dt, int it, int mdim, INTERP_KERNEL::NormalizedCellType geoElt2, int strt, int stp, int step, MEDFileMeshReadSelector *mrs)
46 int geoElt2i((int)geoElt2);
47 if(geoElt2i<0 || geoElt2i>=34)
48 throw INTERP_KERNEL::Exception("MEDFileUMeshPerType::NewPart : Not recognized MEDCoupling/MEDLoader geometric type !");
49 med_geometry_type geoElt(typmai3[geoElt2]);
50 med_entity_type whichEntity;
51 if(!isExisting(fid,mName,dt,it,geoElt,whichEntity))
52 throw INTERP_KERNEL::Exception("MEDFileUMeshPerType::NewPart : The specified geo type is not present in the specified mesh !");
53 MEDCouplingAutoRefCountObjectPtr<MEDFileUMeshPerType> ret(new MEDFileUMeshPerType);
54 ret->loadPart(fid,mName,dt,it,mdim,geoElt,geoElt2,whichEntity,strt,stp,step,mrs);
58 std::size_t MEDFileUMeshPerType::getHeapMemorySizeWithoutChildren() const
63 std::vector<const BigMemoryObject *> MEDFileUMeshPerType::getDirectChildrenWithNull() const
65 std::vector<const BigMemoryObject *> ret;
66 ret.push_back((const MEDCoupling1GTUMesh *)_m);
67 ret.push_back((const DataArrayInt *)_num);
68 ret.push_back((const DataArrayInt *)_fam);
69 ret.push_back((const DataArrayAsciiChar *)_names);
73 bool MEDFileUMeshPerType::isExisting(med_idt fid, const char *mName, int dt, int it, med_geometry_type geoElt, med_entity_type& whichEntity)
75 static const med_entity_type entities[3]={MED_CELL,MED_DESCENDING_FACE,MED_DESCENDING_EDGE};
79 med_bool changement,transformation;
80 int tmp=MEDmeshnEntity(fid,mName,dt,it,entities[i],geoElt,MED_CONNECTIVITY,MED_NODAL,&changement,&transformation);
84 whichEntity=entities[i];
86 std::cerr << "WARNING : MEDFile has been detected to be no compilant with MED 3 : Please change entity in MEDFile for geotype " << geoElt << std::endl;
92 int MEDFileUMeshPerType::getDim() const
94 return _m->getMeshDimension();
97 MEDFileUMeshPerType::MEDFileUMeshPerType()
101 MEDFileUMeshPerType::MEDFileUMeshPerType(med_idt fid, const char *mName, int dt, int it, int mdim, med_geometry_type geoElt, INTERP_KERNEL::NormalizedCellType type,
102 med_entity_type entity, MEDFileMeshReadSelector *mrs):_entity(entity)
104 med_bool changement,transformation;
105 int curNbOfElem(MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_CONNECTIVITY,MED_NODAL,&changement,&transformation));
106 const INTERP_KERNEL::CellModel& cm(INTERP_KERNEL::CellModel::GetCellModel(type));
109 loadFromStaticType(fid,mName,dt,it,mdim,curNbOfElem,geoElt,type,entity,mrs);
112 if(type==INTERP_KERNEL::NORM_POLYGON || type==INTERP_KERNEL::NORM_QPOLYG)
114 loadPolyg(fid,mName,dt,it,mdim,curNbOfElem,geoElt,entity,mrs);
117 //if(type==INTERP_KERNEL::NORM_POLYHED)
118 loadPolyh(fid,mName,dt,it,mdim,curNbOfElem,geoElt,entity,mrs);
121 void MEDFileUMeshPerType::loadPart(med_idt fid, const char *mName, int dt, int it, int mdim, med_geometry_type geoElt, INTERP_KERNEL::NormalizedCellType type,
122 med_entity_type entity, int strt, int end, int step, MEDFileMeshReadSelector *mrs)
124 med_bool changement,transformation;
125 int curNbOfElem(MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_CONNECTIVITY,MED_NODAL,&changement,&transformation));
126 const INTERP_KERNEL::CellModel& cm(INTERP_KERNEL::CellModel::GetCellModel(type));
129 loadPartStaticType(fid,mName,dt,it,mdim,curNbOfElem,geoElt,type,entity,strt,end,step,mrs);
132 throw INTERP_KERNEL::Exception("MEDFileUMeshPerType::loadPart : not implemented yet for the dynamic type !");
135 void MEDFileUMeshPerType::loadFromStaticType(med_idt fid, const char *mName, int dt, int it, int mdim, int curNbOfElem, med_geometry_type geoElt, INTERP_KERNEL::NormalizedCellType type,
136 med_entity_type entity, MEDFileMeshReadSelector *mrs)
138 _m=MEDCoupling1SGTUMesh::New(mName,type);
139 MEDCoupling1SGTUMesh *mc(dynamic_cast<MEDCoupling1SGTUMesh *>((MEDCoupling1GTUMesh *)_m));
140 MEDCouplingAutoRefCountObjectPtr<DataArrayInt> conn(DataArrayInt::New());
141 int nbOfNodesPerCell(mc->getNumberOfNodesPerCell());
142 conn->alloc(nbOfNodesPerCell*curNbOfElem,1);
143 MEDmeshElementConnectivityRd(fid,mName,dt,it,entity,geoElt,MED_NODAL,MED_FULL_INTERLACE,conn->getPointer());
144 std::transform(conn->begin(),conn->end(),conn->getPointer(),std::bind2nd(std::plus<int>(),-1));
145 mc->setNodalConnectivity(conn);
146 loadCommonPart(fid,mName,dt,it,mdim,curNbOfElem,geoElt,entity,mrs);
149 void MEDFileUMeshPerType::loadPartStaticType(med_idt fid, const char *mName, int dt, int it, int mdim, int curNbOfElem, med_geometry_type geoElt, INTERP_KERNEL::NormalizedCellType type,
150 med_entity_type entity, int strt, int end, int step, MEDFileMeshReadSelector *mrs)
153 throw INTERP_KERNEL::Exception("MEDFileUMeshPerType::loadPartStaticType : start pos is negative !");
155 throw INTERP_KERNEL::Exception("MEDFileUMeshPerType::loadPartStaticType : end is after the authorized range !");
156 int nbOfEltsToLoad(DataArray::GetNumberOfItemGivenBES(strt,end,step,"MEDFileUMeshPerType::loadPartStaticType"));
157 _m=MEDCoupling1SGTUMesh::New(mName,type);
158 MEDCoupling1SGTUMesh *mc(dynamic_cast<MEDCoupling1SGTUMesh *>((MEDCoupling1GTUMesh *)_m));
159 MEDCouplingAutoRefCountObjectPtr<DataArrayInt> conn(DataArrayInt::New());
160 int nbOfNodesPerCell(mc->getNumberOfNodesPerCell());
161 conn->alloc(nbOfNodesPerCell*nbOfEltsToLoad,1);
162 med_filter filter=MED_FILTER_INIT;
163 MEDfilterBlockOfEntityCr(fid,/*nentity*/curNbOfElem,/*nvaluesperentity*/1,/*nconstituentpervalue*/nbOfNodesPerCell,
164 MED_ALL_CONSTITUENT,MED_FULL_INTERLACE,MED_COMPACT_STMODE,MED_NO_PROFILE,
165 /*start*/strt+1,/*stride*/step,/*count*/1,/*blocksize*/nbOfEltsToLoad,
166 /*lastblocksize=useless because count=1*/0,&filter);
167 MEDmeshElementConnectivityAdvancedRd(fid,mName,dt,it,entity,geoElt,MED_NODAL,&filter,conn->getPointer());
168 MEDfilterClose(&filter);
169 std::transform(conn->begin(),conn->end(),conn->getPointer(),std::bind2nd(std::plus<int>(),-1));
170 mc->setNodalConnectivity(conn);
171 loadPartOfCellCommonPart(fid,mName,strt,end,step,dt,it,mdim,curNbOfElem,geoElt,entity,mrs);
174 void MEDFileUMeshPerType::loadCommonPart(med_idt fid, const char *mName, int dt, int it, int mdim, int curNbOfElem, med_geometry_type geoElt,
175 med_entity_type entity, MEDFileMeshReadSelector *mrs)
177 med_bool changement,transformation;
179 if(MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_FAMILY_NUMBER,MED_NODAL,&changement,&transformation)>0)
181 if(!mrs || mrs->isCellFamilyFieldReading())
183 _fam=DataArrayInt::New();
184 _fam->alloc(curNbOfElem,1);
185 if(MEDmeshEntityFamilyNumberRd(fid,mName,dt,it,entity,geoElt,_fam->getPointer())!=0)
186 std::fill(_fam->getPointer(),_fam->getPointer()+curNbOfElem,0);
190 if(MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_NUMBER,MED_NODAL,&changement,&transformation)>0)
192 if(!mrs || mrs->isCellNumFieldReading())
194 _num=DataArrayInt::New();
195 _num->alloc(curNbOfElem,1);
196 if(MEDmeshEntityNumberRd(fid,mName,dt,it,entity,geoElt,_num->getPointer())!=0)
201 if(MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_NAME,MED_NODAL,&changement,&transformation)>0)
203 if(!mrs || mrs->isCellNameFieldReading())
205 _names=DataArrayAsciiChar::New();
206 _names->alloc(curNbOfElem+1,MED_SNAME_SIZE);//not a bug to avoid the memory corruption due to last \0 at the end
207 if(MEDmeshEntityNameRd(fid,mName,dt,it,entity,geoElt,_names->getPointer())!=0)
210 _names->reAlloc(curNbOfElem);//not a bug to avoid the memory corruption due to last \0 at the end
215 void MEDFileUMeshPerType::loadPartOfCellCommonPart(med_idt fid, const char *mName, int strt, int stp, int step, int dt, int it, int mdim, int curNbOfElem, med_geometry_type geoElt, med_entity_type entity, MEDFileMeshReadSelector *mrs)
217 med_bool changement,transformation;
219 int nbOfEltsToLoad(DataArray::GetNumberOfItemGivenBES(strt,stp,step,"MEDFileUMeshPerType::loadPartOfCellCommonPart"));
220 if(MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_FAMILY_NUMBER,MED_NODAL,&changement,&transformation)>0)
222 if(!mrs || mrs->isCellFamilyFieldReading())
224 _fam=DataArrayInt::New();
225 _fam->alloc(nbOfEltsToLoad,1);
226 med_filter filter=MED_FILTER_INIT;
227 MEDfilterBlockOfEntityCr(fid,/*nentity*/curNbOfElem,/*nvaluesperentity*/1,/*nconstituentpervalue*/1,
228 MED_ALL_CONSTITUENT,MED_FULL_INTERLACE,MED_COMPACT_STMODE,MED_NO_PROFILE,
229 /*start*/strt+1,/*stride*/step,/*count*/1,/*blocksize*/nbOfEltsToLoad,
230 /*lastblocksize=useless because count=1*/0,&filter);
231 if(MEDmeshEntityAttributeAdvancedRd(fid,mName,MED_FAMILY_NUMBER,dt,it,entity,geoElt,&filter,_fam->getPointer())!=0)
232 _fam->fillWithZero();
233 MEDfilterClose(&filter);
237 if(MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_NUMBER,MED_NODAL,&changement,&transformation)>0)
239 if(!mrs || mrs->isCellNumFieldReading())
241 _num=DataArrayInt::New();
242 _num->alloc(nbOfEltsToLoad,1);
243 med_filter filter=MED_FILTER_INIT;
244 MEDfilterBlockOfEntityCr(fid,/*nentity*/curNbOfElem,/*nvaluesperentity*/1,/*nconstituentpervalue*/1,
245 MED_ALL_CONSTITUENT,MED_FULL_INTERLACE,MED_COMPACT_STMODE,MED_NO_PROFILE,
246 /*start*/strt+1,/*stride*/step,/*count*/1,/*blocksize*/nbOfEltsToLoad,
247 /*lastblocksize=useless because count=1*/0,&filter);
248 if(MEDmeshEntityAttributeAdvancedRd(fid,mName,MED_NUMBER,dt,it,entity,geoElt,&filter,_num->getPointer())!=0)
249 _num->fillWithZero();
250 MEDfilterClose(&filter);
254 if(MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_NAME,MED_NODAL,&changement,&transformation)>0)
256 if(!mrs || mrs->isCellNameFieldReading())
258 _names=DataArrayAsciiChar::New();
259 _names->alloc(nbOfEltsToLoad+1,MED_SNAME_SIZE);//not a bug to avoid the memory corruption due to last \0 at the end
260 med_filter filter=MED_FILTER_INIT;
261 MEDfilterBlockOfEntityCr(fid,/*nentity*/curNbOfElem,/*nvaluesperentity*/1,/*nconstituentpervalue*/1,
262 MED_ALL_CONSTITUENT,MED_FULL_INTERLACE,MED_COMPACT_STMODE,MED_NO_PROFILE,
263 /*start*/strt+1,/*stride*/step,/*count*/1,/*blocksize*/nbOfEltsToLoad,
264 /*lastblocksize=useless because count=1*/0,&filter);
265 if(MEDmeshEntityAttributeAdvancedRd(fid,mName,MED_NAME,dt,it,entity,geoElt,&filter,_names->getPointer())!=0)
268 _names->reAlloc(nbOfEltsToLoad);//not a bug to avoid the memory corruption due to last \0 at the end
269 MEDfilterClose(&filter);
274 void MEDFileUMeshPerType::loadPolyg(med_idt fid, const char *mName, int dt, int it, int mdim, int arraySize, med_geometry_type geoElt,
275 med_entity_type entity, MEDFileMeshReadSelector *mrs)
277 med_bool changement,transformation;
278 med_int curNbOfElem=MEDmeshnEntity(fid,mName,dt,it,entity,geoElt,MED_INDEX_NODE,MED_NODAL,&changement,&transformation)-1;
279 _m=MEDCoupling1DGTUMesh::New(mName,geoElt==MED_POLYGON?INTERP_KERNEL::NORM_POLYGON:INTERP_KERNEL::NORM_QPOLYG);
280 MEDCouplingAutoRefCountObjectPtr<MEDCoupling1DGTUMesh> mc(DynamicCast<MEDCoupling1GTUMesh,MEDCoupling1DGTUMesh>(_m));
281 MEDCouplingAutoRefCountObjectPtr<DataArrayInt> conn(DataArrayInt::New()),connI(DataArrayInt::New());
282 conn->alloc(arraySize,1); connI->alloc(curNbOfElem+1,1);
283 MEDmeshPolygon2Rd(fid,mName,dt,it,MED_CELL,geoElt,MED_NODAL,connI->getPointer(),conn->getPointer());
284 std::transform(conn->begin(),conn->end(),conn->getPointer(),std::bind2nd(std::plus<int>(),-1));
285 std::transform(connI->begin(),connI->end(),connI->getPointer(),std::bind2nd(std::plus<int>(),-1));
286 mc->setNodalConnectivity(conn,connI);
287 loadCommonPart(fid,mName,dt,it,mdim,curNbOfElem,geoElt,entity,mrs);
290 void MEDFileUMeshPerType::loadPolyh(med_idt fid, const char *mName, int dt, int it, int mdim, int connFaceLgth, med_geometry_type geoElt,
291 med_entity_type entity, MEDFileMeshReadSelector *mrs)
293 med_bool changement,transformation;
294 med_int indexFaceLgth=MEDmeshnEntity(fid,mName,dt,it,MED_CELL,MED_POLYHEDRON,MED_INDEX_NODE,MED_NODAL,&changement,&transformation);
295 int curNbOfElem=MEDmeshnEntity(fid,mName,dt,it,MED_CELL,MED_POLYHEDRON,MED_INDEX_FACE,MED_NODAL,&changement,&transformation)-1;
296 _m=MEDCoupling1DGTUMesh::New(mName,INTERP_KERNEL::NORM_POLYHED);
297 MEDCouplingAutoRefCountObjectPtr<MEDCoupling1DGTUMesh> mc(DynamicCastSafe<MEDCoupling1GTUMesh,MEDCoupling1DGTUMesh>(_m));
298 INTERP_KERNEL::AutoPtr<int> index=new int[curNbOfElem+1];
299 INTERP_KERNEL::AutoPtr<int> indexFace=new int[indexFaceLgth];
300 INTERP_KERNEL::AutoPtr<int> locConn=new int[connFaceLgth];
301 MEDmeshPolyhedronRd(fid,mName,dt,it,MED_CELL,MED_NODAL,index,indexFace,locConn);
302 MEDCouplingAutoRefCountObjectPtr<DataArrayInt> conn(DataArrayInt::New()),connI(DataArrayInt::New());
303 int arraySize=connFaceLgth;
304 for(int i=0;i<curNbOfElem;i++)
305 arraySize+=index[i+1]-index[i]-1;
306 conn=DataArrayInt::New();
307 conn->alloc(arraySize,1);
308 int *wFinalConn=conn->getPointer();
309 connI->alloc(curNbOfElem+1,1);
310 int *finalIndex(connI->getPointer());
312 for(int i=0;i<curNbOfElem;i++)
314 finalIndex[i+1]=finalIndex[i]+index[i+1]-index[i]-1+indexFace[index[i+1]-1]-indexFace[index[i]-1];
315 wFinalConn=std::transform(locConn+indexFace[index[i]-1]-1,locConn+indexFace[index[i]]-1,wFinalConn,std::bind2nd(std::plus<int>(),-1));
316 for(int j=index[i];j<index[i+1]-1;j++)
319 wFinalConn=std::transform(locConn+indexFace[j]-1,locConn+indexFace[j+1]-1,wFinalConn,std::bind2nd(std::plus<int>(),-1));
322 mc->setNodalConnectivity(conn,connI);
323 loadCommonPart(fid,mName,dt,it,mdim,curNbOfElem,MED_POLYHEDRON,entity,mrs);
326 void MEDFileUMeshPerType::Write(med_idt fid, const std::string& mname, int mdim, const MEDCoupling1GTUMesh *m, const DataArrayInt *fam, const DataArrayInt *num, const DataArrayAsciiChar *names)
328 int nbOfCells=m->getNumberOfCells();
332 double timm=m->getTime(dt,it);
333 INTERP_KERNEL::NormalizedCellType ikt=m->getTypeOfCell(0);
334 const INTERP_KERNEL::CellModel& cm=INTERP_KERNEL::CellModel::GetCellModel(ikt);
335 med_geometry_type curMedType=typmai3[(int)ikt];
338 const MEDCoupling1SGTUMesh *m0(dynamic_cast<const MEDCoupling1SGTUMesh *>(m));
340 throw INTERP_KERNEL::Exception("MEDFileUMeshPerType::Write : internal error #1 !");
341 MEDCouplingAutoRefCountObjectPtr<DataArrayInt> arr(m0->getNodalConnectivity()->deepCpy());
342 std::transform(arr->begin(),arr->end(),arr->getPointer(),std::bind2nd(std::plus<int>(),1));
343 MEDmeshElementConnectivityWr(fid,mname.c_str(),dt,it,timm,MED_CELL,curMedType,MED_NODAL,MED_FULL_INTERLACE,nbOfCells,arr->begin());
347 const MEDCoupling1DGTUMesh *m0(dynamic_cast<const MEDCoupling1DGTUMesh *>(m));
349 throw INTERP_KERNEL::Exception("MEDFileUMeshPerType::Write : internal error #2 !");
350 if(ikt==INTERP_KERNEL::NORM_POLYGON || ikt==INTERP_KERNEL::NORM_QPOLYG)
352 MEDCouplingAutoRefCountObjectPtr<DataArrayInt> arr(m0->getNodalConnectivity()->deepCpy()),arrI(m0->getNodalConnectivityIndex()->deepCpy());
353 std::transform(arr->begin(),arr->end(),arr->getPointer(),std::bind2nd(std::plus<int>(),1));
354 std::transform(arrI->begin(),arrI->end(),arrI->getPointer(),std::bind2nd(std::plus<int>(),1));
355 MEDmeshPolygon2Wr(fid,mname.c_str(),dt,it,timm,MED_CELL,ikt==INTERP_KERNEL::NORM_POLYGON?MED_POLYGON:MED_POLYGON2,MED_NODAL,nbOfCells+1,arrI->begin(),arr->begin());
359 const int *conn(m0->getNodalConnectivity()->begin()),*connI(m0->getNodalConnectivityIndex()->begin());
360 int meshLgth=m0->getNodalConnectivityLength();
361 int nbOfFaces=std::count(conn,conn+meshLgth,-1)+nbOfCells;
362 INTERP_KERNEL::AutoPtr<int> tab1=new int[nbOfCells+1];
364 INTERP_KERNEL::AutoPtr<int> tab2=new int[nbOfFaces+1];
366 INTERP_KERNEL::AutoPtr<int> bigtab=new int[meshLgth];
368 for(int i=0;i<nbOfCells;i++,w1++)
371 for(const int *w=conn+connI[i];w!=conn+connI[i+1];w2++)
373 const int *wend=std::find(w,conn+connI[i+1],-1);
374 bt=std::transform(w,wend,bt,std::bind2nd(std::plus<int>(),1));
375 int nbOfNode=std::distance(w,wend);
376 w2[1]=w2[0]+nbOfNode;
377 if(wend!=conn+connI[i+1])
383 w1[1]=w1[0]+nbOfFaces2;
385 MEDmeshPolyhedronWr(fid,mname.c_str(),dt,it,timm,MED_CELL,MED_NODAL,nbOfCells+1,tab1,nbOfFaces+1,tab2,bigtab);
389 MEDmeshEntityFamilyNumberWr(fid,mname.c_str(),dt,it,MED_CELL,curMedType,nbOfCells,fam->getConstPointer());
391 MEDmeshEntityNumberWr(fid,mname.c_str(),dt,it,MED_CELL,curMedType,nbOfCells,num->getConstPointer());
394 if(names->getNumberOfComponents()!=MED_SNAME_SIZE)
396 std::ostringstream oss; oss << "MEDFileUMeshPerType::write : expected a name field on cells with number of components set to " << MED_SNAME_SIZE;
397 oss << " ! The array has " << names->getNumberOfComponents() << " components !";
398 throw INTERP_KERNEL::Exception(oss.str().c_str());
400 MEDmeshEntityNameWr(fid,mname.c_str(),dt,it,MED_CELL,curMedType,nbOfCells,names->getConstPointer());