- // Copyright (C) 2007-2010 CEA/DEN, EDF R&D
+// Copyright (C) 2007-2010 CEA/DEN, EDF R&D
//
// This library is free software; you can redistribute it and/or
// modify it under the terms of the GNU Lesser General Public
// See http://www.salome-platform.org/ or email : webmaster.salome@opencascade.com
//
-// few STL include files
-//
-#include <map>
-
// few Med Memory include files
-#include "MEDMEM_define.hxx"
#include "MEDCouplingUMesh.hxx"
#include "MEDPARTITIONER_SkyLineArray.hxx"
#include "MEDPARTITIONER_ConnectZone.hxx"
+// few STL include files
+#include <map>
+
using namespace MEDPARTITIONER;
CONNECTZONE::CONNECTZONE():
# define __MEDPARTITIONER_CONNECTZONE_HXX__
#include "MEDPARTITIONER.hxx"
+#include "MEDPARTITIONER_SkyLineArray.hxx"
// few STL include files
#include <map>
#include <string>
-// few Med Memory include files
-// #include "MEDMEM_STRING.hxx"
-// #include "MEDMEM_define.hxx"
-// #include "MEDMEM_Mesh.hxx"
-#include "MEDPARTITIONER_SkyLineArray.hxx"
-
namespace MEDPARTITIONER {
class MEDPARTITIONER_EXPORT CONNECTZONE
{
#include "MEDPARTITIONER_Topology.hxx"
#include "MEDPARTITIONER_ParaDomainSelector.hxx"
#include "MEDCouplingUMesh.hxx"
+#include "MEDPARTITIONER_utils.hxx"
#include "BBTree.txx"
{
}
+JointFinder::~JointFinder()
+{
+ //if (MyGlobals::_is0verbose>100) cout<<"TODO ~JointFinder"<<endl;
+}
+
void JointFinder::findCommonDistantNodes()
{
int nbdomain=_topology->nbDomain();
_distant_node_cell.resize(nbdomain);
_node_node.resize(nbdomain);
- for (int i=0; i<nbdomain;i++)
- {
- _distant_node_cell[i].resize(nbdomain);
- _node_node[i].resize(nbdomain);
- }
+ for (int i=0; i<nbdomain; i++)
+ {
+ _distant_node_cell[i].resize(nbdomain);
+ _node_node[i].resize(nbdomain);
+ }
int nbproc=_domain_selector->nbProcs();
- std::vector<BBTree<3>* > bbtree(nbdomain);
- std::vector<ParaMEDMEM::DataArrayInt*> rev(nbdomain);
- std::vector<ParaMEDMEM::DataArrayInt*>revIndx(nbdomain);
+ std::vector<BBTree<3>* > bbtree(nbdomain,(BBTree<3>*) 0);
+ std::vector<ParaMEDMEM::DataArrayInt*> rev(nbdomain,(DataArrayInt*) 0);
+ std::vector<ParaMEDMEM::DataArrayInt*> revIndx(nbdomain,(DataArrayInt*) 0);
int meshDim;
int spaceDim;
- for (int mydomain=0;mydomain<nbdomain;mydomain++)
+ //init rev and revIndx and bbtree for my domain (of me:proc n)
+ for (int mydomain=0; mydomain<nbdomain; mydomain++)
+ {
+ if(!_domain_selector->isMyDomain(mydomain)) continue;
+ const ParaMEDMEM::MEDCouplingUMesh* myMesh=_mesh_collection.getMesh(mydomain);
+ meshDim=myMesh->getMeshDimension();
+ spaceDim= myMesh->getSpaceDimension();
+ rev[mydomain] = ParaMEDMEM::DataArrayInt::New();
+ revIndx[mydomain] = ParaMEDMEM::DataArrayInt::New();
+ myMesh->getReverseNodalConnectivity(rev[mydomain],revIndx[mydomain]);
+ double* bbx=new double[2*spaceDim*myMesh->getNumberOfNodes()];
+ for (int i=0; i<myMesh->getNumberOfNodes()*spaceDim; i++)
+ {
+ const double* coords=myMesh->getCoords()->getConstPointer();
+ bbx[2*i]=(coords[i])-1e-12;
+ bbx[2*i+1]=bbx[2*i]+2e-12;
+ }
+ bbtree[mydomain]=new BBTree<3> (bbx,0,0,myMesh->getNumberOfNodes(),-1e-12);
+ delete[] bbx;
+ }
+
+ //send my domains to other proc an receive other domains from other proc
+ for (int isource=0; isource<nbdomain; isource++)
+ {
+ for (int itarget=0; itarget<nbdomain; itarget++)
{
- if(! _domain_selector->isMyDomain(mydomain)) continue;
- const ParaMEDMEM::MEDCouplingUMesh* myMesh=_mesh_collection.getMesh(mydomain);
+ const ParaMEDMEM::MEDCouplingUMesh* sourceMesh=_mesh_collection.getMesh(isource);
+ if (_domain_selector->isMyDomain(isource)&&_domain_selector->isMyDomain(itarget)) continue;
+ if (_domain_selector->isMyDomain(isource))
+ {
+ //preparing data for treatment on target proc
+ int targetProc = _domain_selector->getProcessorID(itarget);
+
+ std::vector<double> vec(spaceDim*sourceMesh->getNumberOfNodes());
+ //cvw cout<<"\nproc "<<_domain_selector->rank()<<" : numberOfNodes "<<sourceMesh->getNumberOfNodes()<<endl;
+ std::copy(sourceMesh->getCoords()->getConstPointer(),sourceMesh->getCoords()->getConstPointer()+sourceMesh->getNumberOfNodes()*spaceDim,&vec[0]);
+ sendDoubleVec(vec,targetProc);
+
+ //retrieving target data for storage in commonDistantNodes array
+ std::vector<int> localCorrespondency;
+ recvIntVec(localCorrespondency, targetProc);
+ //cvw cout<<"\nproc "<<_domain_selector->rank()<<" : nodeCellCorrespondency ";
+ for (int i=0; i<localCorrespondency.size()/2; i++)
+ {
+ _distant_node_cell[isource][itarget].insert(std::make_pair(localCorrespondency[2*i],localCorrespondency[2*i+1]));
+ //cvw cout<<" "<<localCorrespondency[2*i]<<"/"<<localCorrespondency[2*i+1];
+ }
+
+ }
+ if (_domain_selector->isMyDomain(itarget))
+ {
+ //receiving data from source proc
+ int sourceProc = isource%nbproc;
+ std::vector<double> recvVec;
+ recvDoubleVec(recvVec,sourceProc);
+ std::map<int,int> commonNodes; // (local nodes, distant nodes) list
+ //cvw cout<<"\nproc "<<_domain_selector->rank()<<" : commonNodes ";
+ for (int inode=0; inode<(recvVec.size()/meshDim); inode++)
+ {
+ double* bbox=new double[2*spaceDim];
+ for (int i=0; i<spaceDim; i++)
+ {
+ bbox[2*i]=recvVec[inode*spaceDim+i]-1e-12;
+ bbox[2*i+1]=bbox[2*i]+2e-12;
+ }
+ std::vector<int> inodes;
+ bbtree[itarget]->getIntersectingElems(bbox,inodes);
+ delete[] bbox;
- meshDim=myMesh->getMeshDimension();
- spaceDim= myMesh->getSpaceDimension();
- rev[mydomain] = ParaMEDMEM::DataArrayInt::New();
- revIndx[mydomain] = ParaMEDMEM::DataArrayInt::New();
- myMesh->getReverseNodalConnectivity(rev[mydomain],revIndx[mydomain]);
- double* bbx=new double[2*spaceDim*myMesh->getNumberOfNodes()];
- for (int i=0; i<myMesh->getNumberOfNodes()*spaceDim;i++)
+ if (inodes.size()>0)
+ {
+ commonNodes.insert(std::make_pair(inodes[0],inode));
+ //cvw cout<<" "<<inodes[0]<<"/"<<inode;
+ }
+
+ }
+ std::vector<int> nodeCellCorrespondency;
+ for (std::map<int,int>::iterator iter=commonNodes.begin(); iter!=commonNodes.end(); iter++)
{
- const double* coords=myMesh->getCoords()->getConstPointer();
- bbx[2*i]=(coords[i])-1e-12;
- bbx[2*i+1]=bbx[2*i]+2e-12;
+ _node_node[itarget][isource].push_back(std::make_pair(iter->first, iter->second));//storing node pairs in a vector
+ const int* revIndxPtr=revIndx[itarget]->getConstPointer();
+ const int* revPtr=rev[itarget]->getConstPointer();
+ for (int icell=revIndxPtr[iter->first]; icell<revIndxPtr[iter->first+1]; icell++)
+ {
+ nodeCellCorrespondency.push_back(iter->second); //
+ int globalCell=_topology->convertCellToGlobal(itarget,revPtr[icell]);
+ nodeCellCorrespondency.push_back(globalCell);
+ //nodeCellCorrespondency.push_back(revPtr[icell]); //need to set at global numerotation
+ //cout<<"processor "<<MyGlobals::_rank<<" : isource "<<isource<<" itarget "<<itarget<<
+ // " node "<<iter->second<<" cellLoc "<<revPtr[icell]<<" cellGlob "<<globalCell<<endl;
+ }
+ }
+ //std::cout<<"proc "<<_domain_selector->rank()<<" : JointFinder sendIntVec "<<_domain_selector->rank()<<std::endl; //cvwdebug
+ sendIntVec(nodeCellCorrespondency, sourceProc); //itarget proc send to other (otherLocalNode-itargetGlobalCell)
}
- bbtree[mydomain]=new BBTree<3> (bbx,0,0,myMesh->getNumberOfNodes(),-1e-12);
+ }
+ }
+ //free rev(nbdomain) revIndx(nbdomain) bbtree(nbdomain)
+ for (int i=0; i<nbdomain; i++)
+ {
+ if (rev[i]!=0) rev[i]->decrRef();
+ if (revIndx[i]!=0) revIndx[i]->decrRef();
+ if (bbtree[i]!=0) delete bbtree[i];
}
- for (int isource=0;isource<nbdomain;isource++)
- for (int itarget=0;itarget<nbdomain;itarget++)
- {
- const ParaMEDMEM::MEDCouplingUMesh* sourceMesh=_mesh_collection.getMesh(isource);
-
- if (_domain_selector->isMyDomain(isource)&&_domain_selector->isMyDomain(itarget)) continue;
- if (_domain_selector->isMyDomain(isource))
- {
- //preparing data for treatment on target proc
- int targetProc = _domain_selector->getProcessorID(itarget);
-
- std::vector<double> vec(spaceDim*sourceMesh->getNumberOfNodes());
- std::copy(sourceMesh->getCoords()->getConstPointer(),sourceMesh->getCoords()->getConstPointer()+sourceMesh->getNumberOfNodes()*spaceDim,&vec[0]);
- _domain_selector->sendDoubleVec (vec,targetProc);
-
- //retrieving target data for storage in commonDistantNodes array
- std::vector<int> localCorrespondency;
- _domain_selector->recvIntVec(localCorrespondency, targetProc);
- for (int i=0; i<localCorrespondency.size()/2;i++)
- _distant_node_cell[isource][itarget].insert(std::make_pair(localCorrespondency[2*i],localCorrespondency[2*i+1]));
-
- }
- if (_domain_selector->isMyDomain(itarget))
- {
- //receiving data from source proc
- int sourceProc = isource%nbproc;
- std::vector<double> recvVec;
- _domain_selector->recvDoubleVec(recvVec,sourceProc);
- std::map<int,int> commonNodes; // (local nodes, distant nodes) list
- for (int inode=0; inode<(recvVec.size()/meshDim);inode++)
- {
- double* bbox=new double[2*spaceDim];
- for (int i=0; i<spaceDim;i++)
- {
- bbox[2*i]=recvVec[inode*spaceDim+i]-1e-12;
- bbox[2*i+1]=bbox[2*i]+2e-12;
- }
- std::vector<int> inodes;
- bbtree[itarget]->getIntersectingElems(bbox,inodes);
- delete[] bbox;
-
- if (inodes.size()>0) commonNodes.insert(std::make_pair(inodes[0],inode));
- }
- std::vector<int> nodeCellCorrespondency;
- for (std::map<int,int>::iterator iter=commonNodes.begin();iter!=commonNodes.end();iter++)
- {
- _node_node[itarget][isource].push_back(std::make_pair(iter->first, iter->second));//storing node pairs in a vector
- const int*revIndxPtr=revIndx[itarget]->getConstPointer();
- const int*revPtr=rev[itarget]->getConstPointer();
- for (int icell=revIndxPtr[iter->first];icell<revIndxPtr[iter->first+1];icell++)
- {
- nodeCellCorrespondency.push_back(iter->second);
- nodeCellCorrespondency.push_back(revPtr[icell]);
- }
- }
- _domain_selector->sendIntVec(nodeCellCorrespondency, sourceProc);
- }
- }
-
+ if (MyGlobals::_verbose>100)
+ std::cout<<"proc "<<_domain_selector->rank()<<" : end JointFinder::findCommonDistantNodes"<<std::endl;
}
+
std::vector<std::vector<std::multimap<int,int> > > & JointFinder::getDistantNodeCell()
{
return _distant_node_cell;
{
return _node_node;
}
+
+void JointFinder::print()
+//it is for debug on small arrays under mpi 2,3 cpus
+{
+ int nbdomain=_topology->nbDomain();
+ //MPI_Barrier(MPI_COMM_WORLD);
+ if (MyGlobals::_is0verbose>0)
+ cout<<"\nJointFinder print node-node (nn)iproc|itarget|isource|i|inodefirst-inodesecond\n\n"<<
+ "JointFinder print distantNode=cell (nc)iproc|itarget|isource|inode=icell\n\n";
+ for (int isource=0; isource<nbdomain; isource++)
+ {
+ for (int itarget=0; itarget<nbdomain; itarget++)
+ {
+ for (int i=0; i<_node_node[itarget][isource].size(); i++)
+ cout<<" nn"<<_domain_selector->rank()<<itarget<<"|"<<isource<<"|"<<i<<"|"<<
+ _node_node[itarget][isource][i].first<<"-"<<
+ _node_node[itarget][isource][i].second;
+ }
+ }
+ cout<<endl;
+ //MPI_Barrier(MPI_COMM_WORLD);
+
+ //cout<<"proc "<<_domain_selector->rank()<<" : JointFinder _distant_node_cell itarget/isource/inode=icell"<<endl;
+ for (int isource=0; isource<nbdomain; isource++)
+ {
+ for (int itarget=0; itarget<nbdomain; itarget++)
+ {
+ std::multimap<int,int>::iterator it;
+ for (it=_distant_node_cell[isource][itarget].begin() ; it!=_distant_node_cell[isource][itarget].end(); it++)
+ {
+ cout<<" nc"<<_domain_selector->rank()<<"|"<<itarget<<"|"<<isource<<"|"<<(*it).first<<"="<<(*it).second;
+ }
+ }
+ }
+ cout<<endl;
+ //MPI_Barrier(MPI_COMM_WORLD);
+}
{
public:
JointFinder(const MESHCollection& mc);
+ ~JointFinder();
void findCommonDistantNodes();
+ void print();
std::vector<std::vector<std::multimap<int,int> > >& getDistantNodeCell();
std::vector<std::vector<std::vector<std::pair<int,int> > > >& getNodeNode();
+ std::vector<std::vector<std::multimap<int,int> > > _distant_node_cell;
private:
const MESHCollection& _mesh_collection;
const ParaDomainSelector* _domain_selector;
const Topology* _topology;
- std::vector<std::vector<std::multimap<int,int> > > _distant_node_cell;
+ //std::vector<std::vector<std::multimap<int,int> > > _distant_node_cell;
std::vector<std::vector<std::vector<std::pair<int,int> > > > _node_node;
};
};
// See http://www.salome-platform.org/ or email : webmaster.salome@opencascade.com
//
-#include "MEDMEM_Exception.hxx"
-
#include "MEDCouplingUMesh.hxx"
#include "MEDCouplingNormalizedUnstructuredMesh.hxx"
#include "MEDCouplingMemArray.hxx"
#include "MEDPARTITIONER_MESHCollectionMedAsciiDriver.hxx"
#include "MEDPARTITIONER_JointFinder.hxx"
#include "MEDPARTITIONER_UserGraph.hxx"
+#include "MEDLoader.hxx"
+#include "MEDCouplingFieldDouble.hxx"
+#ifdef HAVE_MPI2
+#include <mpi.h>
+#endif
#ifdef ENABLE_METIS
#include "MEDPARTITIONER_METISGraph.hxx"
_driver_type(MEDPARTITIONER::MedXML),
_subdomain_boundary_creates(false),
_family_splitting(false),
- _create_empty_groups(false)
+ _create_empty_groups(false),
+ _joint_finder(0)
{
}
* \param topology topology containing the cell mappings
*/
-MESHCollection::MESHCollection(MESHCollection& initialCollection, Topology* topology, bool family_splitting, bool create_empty_groups)
+MESHCollection::MESHCollection(
+ MESHCollection& initialCollection,
+ Topology* topology,
+ bool family_splitting,
+ bool create_empty_groups) //cvwat04
: _name(initialCollection._name),
_topology(topology),
_owns_topology(false),
_driver_type(MEDPARTITIONER::MedXML),
_subdomain_boundary_creates(false),
_family_splitting(family_splitting),
- _create_empty_groups(create_empty_groups)
+ _create_empty_groups(create_empty_groups),
+ _joint_finder(0)
{
-
std::vector<std::vector<std::vector<int> > > new2oldIds(initialCollection.getTopology()->nbDomain());
- castCellMeshes(initialCollection, new2oldIds);
+ if (MyGlobals::_verbose>10) std::cout<<"proc "<<MyGlobals::_rank<<" : castCellMeshes"<<std::endl;
+ castCellMeshes(initialCollection, new2oldIds);
//defining the name for the collection and the underlying meshes
setName(initialCollection.getName());
- /////////////////:
- // treating faces
+ /////////////////
+ //treating faces
/////////////////
+ if (MyGlobals::_is0verbose) std::cout<<"treating faces"<<std::endl;
NodeMapping nodeMapping;
+ //nodeMapping contains the mapping between old nodes and new nodes
+ // (iolddomain,ioldnode)->(inewdomain,inewnode)
createNodeMapping(initialCollection, nodeMapping);
+ //cvw std::cout<<"castMeshes"<<std::endl;
std::vector<std::vector<std::vector<int> > > new2oldFaceIds;
- castMeshes(initialCollection.getFaceMesh(), this->getFaceMesh(),initialCollection, nodeMapping, new2oldFaceIds);
+ castFaceMeshes(initialCollection, nodeMapping, new2oldFaceIds);
////////////////////
//treating families
////////////////////
- _faceFamilyIds.resize(topology->nbDomain());
- _cellFamilyIds.resize(topology->nbDomain());
- //allocating family ids arrays
- for (int inew=0; inew<topology->nbDomain();inew++)
- {
- if(isParallelMode() && !_domain_selector->isMyDomain(inew)) continue;
- _cellFamilyIds[inew]=ParaMEDMEM::DataArrayInt::New();
- int nbCells=_mesh[inew]->getNumberOfCells();
- int* ptrCellIds=new int[nbCells];
- for (int i=0; i< nbCells;i++) ptrCellIds[i]=0;
- _cellFamilyIds[inew]->useArray(ptrCellIds,true, ParaMEDMEM::CPP_DEALLOC,nbCells,1);
-
- int nbFaces=_faceMesh[inew]->getNumberOfCells();
- _faceFamilyIds[inew]=ParaMEDMEM::DataArrayInt::New();
- int* ptrFaceIds=new int[nbFaces];
- for (int i=0; i<nbFaces;i++) ptrFaceIds[i]=0;
- _faceFamilyIds[inew]->useArray(ptrFaceIds,true, ParaMEDMEM::CPP_DEALLOC,nbFaces,1);
- }
-
- //casting cell and face families on new meshes
- castIntField(initialCollection.getMesh(), this->getMesh(),initialCollection.getCellFamilyIds(),_cellFamilyIds);
- castIntField(initialCollection.getFaceMesh(), this->getFaceMesh(),initialCollection.getFaceFamilyIds(),_faceFamilyIds);
-
-
- ///////////////////////
- ////treating groups
- //////////////////////
+ if (MyGlobals::_is0verbose)
+ if (isParallelMode()) std::cout<<"ParallelMode on "<<topology->nbDomain()<<" Domains"<<std::endl;
+ else std::cout<<"NOT ParallelMode on "<<topology->nbDomain()<<" Domains"<<std::endl;
+
+ if (MyGlobals::_is0verbose>10) std::cout<<"treating cell and face families"<<std::endl;
+
+ castIntField2(initialCollection.getMesh(),
+ this->getMesh(),
+ initialCollection.getCellFamilyIds(),
+ "cellFamily");
+ castIntField2(initialCollection.getFaceMesh(),
+ this->getFaceMesh(),
+ initialCollection.getFaceFamilyIds(),
+ "faceFamily");
+
+ //////////////////
+ //treating groups
+ //////////////////
+ if (MyGlobals::_is0verbose) std::cout<<"treating groups"<<std::endl;
_familyInfo=initialCollection.getFamilyInfo();
_groupInfo=initialCollection.getGroupInfo();
-
+
+ //////////////////
+ //treating fields
+ //////////////////
+ if (MyGlobals::_is0verbose) std::cout<<"treating fields"<<std::endl;
+ //cvwat08
+ castAllFields(initialCollection,"cellFieldDouble");
+ //castAllFields(initialCollection,"faceFieldsIds");
}
/*!
-Creates the meshes using the topology underlying he mesh collection and the mesh data coming from the ancient collection
+Creates the meshes using the topology underlying he mesh collection and the mesh data
+coming from the ancient collection
\param initialCollection collection from which the data is extracted to create the new meshes
*/
-void MESHCollection::castCellMeshes(MESHCollection& initialCollection, std::vector<std::vector<std::vector<int> > >& new2oldIds)
+void MESHCollection::castCellMeshes(
+ MESHCollection& initialCollection,
+ std::vector<std::vector<std::vector<int> > >& new2oldIds)
{
- if (_topology==0) throw INTERP_KERNEL::Exception("Topology has not been defined on call to castCellMeshes");
- _mesh.resize(_topology->nbDomain());
+ if (_topology==0) throw INTERP_KERNEL::Exception(LOCALIZED("Topology has not been defined on call to castCellMeshes"));
- //splitting the initial domains into smaller bits
+ int nbNewDomain=_topology->nbDomain();
+ int nbOldDomain=initialCollection.getTopology()->nbDomain();
+ _mesh.resize(nbNewDomain);
+ int rank=MyGlobals::_rank;
+ //if (MyGlobals::_verbose>10) std::cout<<"proc "<<rank<<" : castCellMeshes splitting"<<std::endl;
+ //splitting the initial domains into smaller bits
std::vector<std::vector<ParaMEDMEM::MEDCouplingUMesh*> > splitMeshes;
- splitMeshes.resize(_topology->nbDomain());
- for (int inew=0; inew<_topology->nbDomain();inew++)
- {
- splitMeshes[inew].resize(initialCollection.getTopology()->nbDomain());
- std::fill(&(splitMeshes[inew][0]),&(splitMeshes[inew][0])+splitMeshes[inew].size(),(ParaMEDMEM::MEDCouplingUMesh*)0);
- }
+ splitMeshes.resize(nbNewDomain);
+ for (int inew=0; inew<nbNewDomain; inew++)
+ {
+ splitMeshes[inew].resize(nbOldDomain, (ParaMEDMEM::MEDCouplingUMesh*)0);
+ /*std::fill( &(splitMeshes[inew][0]),
+ &(splitMeshes[inew][0])+splitMeshes[inew].size(),
+ (ParaMEDMEM::MEDCouplingUMesh*)0 );*/
+ }
- for (int iold=0; iold<initialCollection.getTopology()->nbDomain();iold++)
+ for (int iold=0; iold<nbOldDomain; iold++)
+ {
+ if (!isParallelMode() || initialCollection._domain_selector->isMyDomain(iold))
{
- if (!isParallelMode() || initialCollection._domain_selector->isMyDomain(iold))
- {
- int size=(initialCollection._mesh)[iold]->getNumberOfCells();
- std::vector<int> globalids(size);
- initialCollection.getTopology()->getCellList(iold, &globalids[0]);
- std::vector<int> ilocalnew(size);
- std::vector<int> ipnew(size);
- _topology->convertGlobalCellList(&globalids[0],size,&ilocalnew[0],&ipnew[0]);
- new2oldIds[iold].resize(_topology->nbDomain());
- for (int i=0; i<ilocalnew.size();i++)
- {
- new2oldIds[iold][ipnew[i]].push_back(i);
- }
- for (int inew=0;inew<_topology->nbDomain();inew++)
- {
- splitMeshes[inew][iold]=(ParaMEDMEM::MEDCouplingUMesh*)(initialCollection.getMesh())[iold]->buildPartOfMySelf(&new2oldIds[iold][inew][0],&new2oldIds[iold][inew][0]+new2oldIds[iold][inew].size(),true);
- }
- }
+ int size=(initialCollection._mesh)[iold]->getNumberOfCells();
+ std::vector<int> globalids(size);
+ initialCollection.getTopology()->getCellList(iold, &globalids[0]);
+ std::vector<int> ilocalnew(size); //local
+ std::vector<int> ipnew(size); //idomain old
+ //cvw work locally
+ _topology->convertGlobalCellList(&globalids[0],size,&ilocalnew[0],&ipnew[0]);
+
+ new2oldIds[iold].resize(nbNewDomain);
+ for (int i=0; i<ilocalnew.size(); i++)
+ {
+ new2oldIds[iold][ipnew[i]].push_back(i);
+ }
+ for (int inew=0; inew<nbNewDomain; inew++)
+ {
+ splitMeshes[inew][iold]=(ParaMEDMEM::MEDCouplingUMesh*)
+ (initialCollection.getMesh())[iold]->buildPartOfMySelf(
+ &new2oldIds[iold][inew][0],
+ &new2oldIds[iold][inew][0]+new2oldIds[iold][inew].size(),
+ true);
+ if (MyGlobals::_verbose>400)
+ std::cout<<"proc "<<rank<<" : a splitMesh iold inew NbCells "<<iold<<" "<<inew<<" "
+ <<splitMeshes[inew][iold]->getNumberOfCells()<<std::endl;
+ }
}
+ }
if (isParallelMode())
- {
- for (int iold=0; iold<initialCollection.getTopology()->nbDomain();iold++)
- for(int inew=0;inew<_topology->nbDomain();inew++)
- {
- if (initialCollection._domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew)) continue;
-
- if(initialCollection._domain_selector->isMyDomain(iold))
- _domain_selector->sendMesh(*(splitMeshes[inew][iold]),_domain_selector->getProcessorID(inew));
-
- if (_domain_selector->isMyDomain(inew))
- _domain_selector->recvMesh(splitMeshes[inew][iold],_domain_selector->getProcessorID(iold));
-
- }
- }
+ {
+ //if (MyGlobals::_verbose>300) std::cout<<"proc "<<rank<<" : castCellMeshes send/receive"<<std::endl;
+ for (int iold=0; iold<nbOldDomain; iold++)
+ for(int inew=0; inew<nbNewDomain; inew++)
+ {
+ if (initialCollection._domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew)) continue;
+
+ if(initialCollection._domain_selector->isMyDomain(iold))
+ _domain_selector->sendMesh(*(splitMeshes[inew][iold]),_domain_selector->getProcessorID(inew));
+
+ if (_domain_selector->isMyDomain(inew))
+ _domain_selector->recvMesh(splitMeshes[inew][iold],_domain_selector->getProcessorID(iold));
+
+ }
+ }
//fusing the split meshes
- for (int inew=0; inew<_topology->nbDomain() ;inew++)
- {
- std::vector<const ParaMEDMEM::MEDCouplingUMesh*> meshes;
-
- for (int i=0; i< splitMeshes[inew].size();i++)
- if (splitMeshes[inew][i]!=0) meshes.push_back(splitMeshes[inew][i]);
+ if (MyGlobals::_verbose>200) std::cout<<"proc "<<rank<<" : castCellMeshes fusing"<<std::endl;
+ for (int inew=0; inew<nbNewDomain ;inew++)
+ {
+ std::vector<const ParaMEDMEM::MEDCouplingUMesh*> meshes;
+
+ for (int i=0; i< splitMeshes[inew].size();i++)
+ if (splitMeshes[inew][i]!=0)
+ if (splitMeshes[inew][i]->getNumberOfCells()>0)
+ meshes.push_back(splitMeshes[inew][i]);
- if (!isParallelMode()||_domain_selector->isMyDomain(inew))
- {
- _mesh[inew]=ParaMEDMEM::MEDCouplingUMesh::MergeUMeshes(meshes);
- bool areNodesMerged;
- int nbNodesMerged;
- ParaMEDMEM::DataArrayInt* array=_mesh[inew]->mergeNodes(1e-12,areNodesMerged,nbNodesMerged);
- array->decrRef(); // array is not used in this case
- _mesh[inew]->zipCoords();
- }
- for (int i=0; i< splitMeshes[inew].size();i++)
- if (splitMeshes[inew][i]!=0) splitMeshes[inew][i]->decrRef();
- }
-
+ if (!isParallelMode()||_domain_selector->isMyDomain(inew))
+ {
+ if (meshes.size()==0)
+ {
+ _mesh[inew]=createEmptyMEDCouplingUMesh();
+ //throw INTERP_KERNEL::Exception(LOCALIZED("castCellMeshes fusing : no meshes"));
+ cout<<"WARNING : castCellMeshes fusing : no meshes try another number of processors"<<endl;
+ }
+ else
+ {
+ _mesh[inew]=ParaMEDMEM::MEDCouplingUMesh::MergeUMeshes(meshes);
+ bool areNodesMerged;
+ int nbNodesMerged;
+ ParaMEDMEM::DataArrayInt* array=_mesh[inew]->mergeNodes(1e-12,areNodesMerged,nbNodesMerged);
+ array->decrRef(); // array is not used in this case
+ _mesh[inew]->zipCoords();
+ }
+ }
+ for (int i=0; i< splitMeshes[inew].size(); i++)
+ if (splitMeshes[inew][i]!=0) splitMeshes[inew][i]->decrRef();
+ }
+ if (MyGlobals::_verbose>300) std::cout<<"proc "<<rank<<" : castCellMeshes end fusing"<<std::endl;
}
/*!
*/
void MESHCollection::createNodeMapping( MESHCollection& initialCollection, NodeMapping& nodeMapping)
{
-
+ using std::vector;
+ using std::make_pair;
// NodeMapping reverseNodeMapping;
for (int iold=0; iold<initialCollection.getTopology()->nbDomain();iold++)
{
bbox=new double[nvertices*6];
ParaMEDMEM::DataArrayDouble* coords = initialCollection.getMesh(iold)->getCoords();
double* coordsPtr=coords->getPointer();
-
+
for (int i=0; i<nvertices*3;i++)
{
bbox[i*2]=coordsPtr[i]-1e-6;
}
tree=new BBTree<3>(bbox,0,0,nvertices,1e-9);
}
-
- for (int inew=0; inew<_topology->nbDomain(); inew++)
+
+ for (int inew=0; inew<_topology->nbDomain(); inew++) //cvwat12
{
//sending meshes for parallel computation
if (isParallelMode() && _domain_selector->isMyDomain(inew) && !_domain_selector->isMyDomain(iold))
for (int inode=0; inode<mesh->getNumberOfNodes();inode++)
{
double* coordsPtr=coords->getPointer()+inode*3;
- std::vector<int> elems;
+ vector<int> elems;
tree->getElementsAroundPoint(coordsPtr,elems);
- if (elems.size()==0) continue;
+ if (elems.size()==0) continue;
nodeMapping.insert(make_pair(make_pair(iold,elems[0]),make_pair(inew,inode)));
- }
+ }
+ mesh->decrRef();
}
else if (!isParallelMode() || (_domain_selector->isMyDomain(inew) && _domain_selector->isMyDomain(iold)))
{
- ParaMEDMEM::DataArrayDouble* coords = getMesh(inew)->getCoords();
-
+ ParaMEDMEM::DataArrayDouble* coords = getMesh(inew)->getCoords();
for (int inode=0; inode<_mesh[inew]->getNumberOfNodes();inode++)
{
-
double* coordsPtr=coords->getPointer()+inode*3;
-
- std::vector<int> elems;
+ vector<int> elems;
tree->getElementsAroundPoint(coordsPtr,elems);
- if (elems.size()==0) continue;
+ if (elems.size()==0) continue;
nodeMapping.insert(make_pair(make_pair(iold,elems[0]),make_pair(inew,inode)));
}
}
}
+//getNodeIds(meshCell, meshFace, nodeIds)
+//inodeCell=nodeIds[inodeFace]
+//(put the biggest mesh in One)
+//if no corresponding node then inodeCell==-1
+void getNodeIds(ParaMEDMEM::MEDCouplingUMesh& meshOne, ParaMEDMEM::MEDCouplingUMesh& meshTwo, vector<int>& nodeIds)
+{
+ using std::vector;
+ if (!&meshOne || !&meshTwo) return; //empty or not existing
+ double* bbox;
+ BBTree<3>* tree;
+ int nv1=meshOne.getNumberOfNodes();
+ bbox=new double[nv1*6];
+ ParaMEDMEM::DataArrayDouble* coords=meshOne.getCoords();
+ double* coordsPtr=coords->getPointer();
+ for (int i=0; i<nv1*3; i++)
+ {
+ bbox[i*2]=coordsPtr[i]-1e-6;
+ bbox[i*2+1]=coordsPtr[i]+1e-6;
+ }
+ tree=new BBTree<3>(bbox,0,0,nv1,1e-9);
+
+ int nv2=meshTwo.getNumberOfNodes();
+ nodeIds.resize(nv2,-1);
+ coords=meshTwo.getCoords();
+ for (int inode=0; inode<nv2; inode++)
+ {
+ double* coordsPtr=coords->getPointer()+inode*3;
+ vector<int> elems;
+ tree->getElementsAroundPoint(coordsPtr,elems);
+ if (elems.size()==0) continue;
+ nodeIds[inode]=elems[0];
+ }
+ delete tree;
+ delete[] bbox;
+}
+
/*!
creates the face meshes on the new domains from the faces on the old domain and the node mapping
faces at the interface are duplicated
*/
-
-void MESHCollection::castMeshes(std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastFrom,std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastTo, MESHCollection& initialCollection,const NodeMapping& nodeMapping, std::vector<std::vector<std::vector<int> > >& new2oldIds)
+void MESHCollection::castFaceMeshes(MESHCollection& initialCollection,
+ const std::multimap<std::pair<int,int>, std::pair<int,int> >& nodeMapping,
+ std::vector<std::vector<std::vector<int> > >& new2oldIds)
{
//splitMeshes structure will contain the partition of
//the old faces on the new ones
- // splitMeshes[4][2] contains the faces from old domain 2
- // that have to be added to domain 4
-
+ //splitMeshes[4][2] contains the faces from old domain 2
+ //that have to be added to domain 4
+
+ using std::vector;
+ using std::map;
+ using std::multimap;
+ using std::pair;
+ using std::make_pair;
+
+ vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastFrom=initialCollection.getFaceMesh();
+ vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastTo=this->getFaceMesh();
+
vector< vector<ParaMEDMEM::MEDCouplingUMesh*> > splitMeshes;
int newSize=_topology->nbDomain();
- splitMeshes.resize ( newSize );
+ int fromSize=meshesCastFrom.size();
+
+ splitMeshes.resize(newSize);
+ for (int inew=0;inew<newSize;inew++) splitMeshes[inew].resize(fromSize);
+ new2oldIds.resize(fromSize);
+ for (int iold=0;iold<fromSize;iold++) new2oldIds[iold].resize(newSize);
+
+ //init null pointer for empty meshes
for (int inew=0;inew<newSize;inew++)
+ {
+ for (int iold=0;iold<fromSize;iold++)
{
- splitMeshes[inew].resize(meshesCastFrom.size());
+ splitMeshes[inew][iold]=0; //null for empty meshes
+ new2oldIds[iold][inew].clear();
}
-
-
- new2oldIds.resize(meshesCastFrom.size());
+ }
//loop over the old domains to analyse the faces and decide
//on which new domain they belong
-
- for (int iold=0; iold<meshesCastFrom.size();iold++)
+
+ for (int iold=0; iold<fromSize;iold++)
+ {
+ if (isParallelMode() && !_domain_selector->isMyDomain(iold)) continue;
+ if (meshesCastFrom[iold] != 0)
{
- if (isParallelMode() && !_domain_selector->isMyDomain(iold)) continue;
- new2oldIds[iold].resize(newSize);
- for (int ielem=0;ielem<meshesCastFrom[iold]->getNumberOfCells();ielem++)
- {
- std::vector<int> nodes;
+ for (int ielem=0; ielem<meshesCastFrom[iold]->getNumberOfCells(); ielem++)
+ {
+ vector<int> nodes;
meshesCastFrom[iold]->getNodeIdsOfCell(ielem,nodes);
map <int,int> faces;
//are incremented for each target node
//the face is considered as going to target domains if the counter of the domain
//is equal to the number of nodes
- for (int inode=0;inode<nodes.size();inode++)
- {
+ for (int inode=0; inode<nodes.size(); inode++)
+ {
typedef multimap<pair<int,int>,pair<int,int> >::const_iterator MI;
int mynode=nodes[inode];
pair <MI,MI> myRange = nodeMapping.equal_range(make_pair(iold,mynode));
for (MI iter=myRange.first; iter!=myRange.second; iter++)
- {
+ {
int inew=iter->second.first;
if (faces.find(inew)==faces.end())
faces[inew]=1;
else
faces[inew]++;
- }
- }
+ }
+ }
- for (map<int,int>::iterator iter=faces.begin();
- iter!=faces.end();
- iter++)
- {
+ for (map<int,int>::iterator iter=faces.begin(); iter!=faces.end(); iter++)
+ {
if (iter->second==nodes.size())
+ //cvw eligible but may be have to be face of a cell of this->getMesh()[inew]?
+ //it is not sure here...
+ //done before writeMedfile on option?... see filterFaceOnCell()
new2oldIds[iold][iter->first].push_back(ielem);
- }
- }
+ }
+ }
//creating the splitMeshes from the face ids
for (int inew=0;inew<_topology->nbDomain();inew++)
- {
- splitMeshes[inew][iold]=(ParaMEDMEM::MEDCouplingUMesh*)(meshesCastFrom[iold]->buildPartOfMySelf(&new2oldIds[iold][inew][0],&new2oldIds[iold][inew][0]+new2oldIds[iold][inew].size(),true));
- splitMeshes[inew][iold]->zipCoords();
- }
+ {
+ if (meshesCastFrom[iold]->getNumberOfCells() > 0) //cvw
+ {
+ splitMeshes[inew][iold]=
+ (ParaMEDMEM::MEDCouplingUMesh*)
+ ( meshesCastFrom[iold]->buildPartOfMySelf(
+ &new2oldIds[iold][inew][0],
+ &new2oldIds[iold][inew][0]+new2oldIds[iold][inew].size(),
+ true)
+ );
+ splitMeshes[inew][iold]->zipCoords();
+ }
+ else
+ {
+ //std::cout<<"one empty mesh from "<<iold<<std::endl; //cvw
+ splitMeshes[inew][iold]=createEmptyMEDCouplingUMesh();
+ }
+ }
}
-
+ else
+ {
+ std::cout<<"proc "<<MyGlobals::_rank<<" : castFaceMeshes empty mesh from iodDomain "<<iold<<std::endl;
+ }
+ }
+
// send/receive stuff
if (isParallelMode())
- for (int iold=0; iold<meshesCastFrom.size();iold++)
+ {
+ ParaMEDMEM::MEDCouplingUMesh *empty=createEmptyMEDCouplingUMesh();
+ for (int iold=0; iold<fromSize; iold++)
for (int inew=0; inew<newSize; inew++)
{
+ /*std::cout<<"iold inew "<<iold<<" "<<inew<<" "<<
+ _domain_selector->isMyDomain(iold)<<" "<<
+ _domain_selector->isMyDomain(inew)<<std::endl;*/
if (_domain_selector->isMyDomain(iold) && !_domain_selector->isMyDomain(inew))
- _domain_selector->sendMesh(*(splitMeshes[inew][iold]), _domain_selector->getProcessorID(inew));
+ if (splitMeshes[inew][iold] != 0) {
+ //cvw std::cout<<"send NOT empty mesh "<<splitMeshes[inew][iold]->getName()<<" "<<inew<<"<-"<<iold<<std::endl;
+ _domain_selector->sendMesh(*(splitMeshes[inew][iold]), _domain_selector->getProcessorID(inew));
+ }
+ else {
+ //std::cout<<"send empty mesh "<<inew<<"<-"<<iold<<std::endl;
+ _domain_selector->sendMesh(*(empty), _domain_selector->getProcessorID(inew));
+ }
if (!_domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew))
- _domain_selector->recvMesh(splitMeshes[inew][iold], _domain_selector->getProcessorID(iold));
+ _domain_selector->recvMesh(splitMeshes[inew][iold], _domain_selector->getProcessorID(iold));
}
-
-
+ empty->decrRef();
+ }
+
//recollecting the bits of splitMeshes to fuse them into one
+ if (MyGlobals::_verbose>300) std::cout<<"proc "<<MyGlobals::_rank<<" : fuse splitMeshes"<<std::endl;
meshesCastTo.resize(newSize);
- for (int inew=0; inew < newSize;inew++)
+ for (int inew=0; inew < newSize; inew++)
{
vector<const ParaMEDMEM::MEDCouplingUMesh*> myMeshes;
- for (int iold=0; iold < meshesCastFrom.size();iold++)
+ for (int iold=0; iold<fromSize; iold++)
{
- if (splitMeshes[inew][iold] !=0)
- myMeshes.push_back(splitMeshes[inew][iold]);
+ ParaMEDMEM::MEDCouplingUMesh *umesh=splitMeshes[inew][iold];
+ if (umesh!=0)
+ if (umesh->getNumberOfCells()>0) {
+ myMeshes.push_back(umesh);
+ }
+ //else {
+ // std::cout<<"one empty mesh "<<inew<<" "<<iold<<std::endl;
+ //}
}
- meshesCastTo[inew]=ParaMEDMEM::MEDCouplingUMesh::MergeUMeshes(myMeshes);
+
+ if (myMeshes.size()>0)
+ {
+ meshesCastTo[inew]=ParaMEDMEM::MEDCouplingUMesh::MergeUMeshes(myMeshes);
+ }
+ else
+ {
+ //std::cout<<"one empty meshes to merge "<<inew<<std::endl;
+ //ParaMEDMEM::MEDCouplingUMesh *empty=ParaMEDMEM::MEDCouplingUMesh::New(); //empty one
+ //empty->setName("emptyMesh");
+ //empty->setMeshDimension(3);
+ //empty->allocateCells(0);
+ ParaMEDMEM::MEDCouplingUMesh *empty=createEmptyMEDCouplingUMesh();
+ meshesCastTo[inew]=empty;
+ }
// meshesCastTo[inew]->zipCoords();
- for (int iold=0; iold < meshesCastFrom.size();iold++)
+ for (int iold=0; iold<fromSize; iold++)
if (splitMeshes[inew][iold]!=0) splitMeshes[inew][iold]->decrRef();
}
+ //if (MyGlobals::_verbose>1) std::cout<<"proc "<<MyGlobals::_rank<<" : end fuse"<<std::endl;
}
-void MESHCollection::castIntField(std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastFrom,std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastTo, std::vector<ParaMEDMEM::DataArrayInt*>& arrayFrom, std::vector<ParaMEDMEM::DataArrayInt*>& arrayTo)
+void MESHCollection::remapIntField(
+ const ParaMEDMEM::MEDCouplingUMesh& sourceMesh,
+ const ParaMEDMEM::MEDCouplingUMesh& targetMesh,
+ const int* fromArray,
+ int* toArray)
{
- vector<vector<const ParaMEDMEM::DataArrayInt*> > splitIds;
- splitIds.resize(meshesCastTo.size());
-
- // send / recv operations
- for (int inew=0; inew < meshesCastTo.size();inew++)
- for (int iold=0; iold < meshesCastFrom.size();iold++)
+ using std::vector;
+ if (sourceMesh.getNumberOfCells()<=0) return; //empty mesh could exist
+ //cvw std::cout<<"remapIntField "<<sourceMesh.getNumberOfCells()<<" "<<targetMesh.getNumberOfCells()<<std::endl;
+ ParaMEDMEM::DataArrayDouble* sourceCoords=sourceMesh.getBarycenterAndOwner();
+ ParaMEDMEM::DataArrayDouble* targetCoords=targetMesh.getBarycenterAndOwner();
+
+ ParaMEDMEM::MEDCouplingUMesh* tmpMesh=ParaMEDMEM::MEDCouplingUMesh::New();
+ tmpMesh->setCoords(sourceCoords);
+ vector<int> c;
+ vector<int> cI;
+ tmpMesh->getNodeIdsNearPoints(targetCoords->getConstPointer(),targetMesh.getNumberOfCells(),1e-10,c,cI);
+ if (cI.size()!= targetMesh.getNumberOfCells()+1)
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error in source/target projection"));
+ for (int itargetnode=0; itargetnode<targetMesh.getNumberOfCells();itargetnode++)
+ {
+ if (cI[itargetnode]==cI[itargetnode+1]) continue;
+ int isourcenode=c[cI[itargetnode]];
+ toArray[itargetnode]=fromArray[isourcenode];
+ }
+ sourceCoords->decrRef();
+ targetCoords->decrRef();
+ tmpMesh->decrRef();
+}
+
+void MESHCollection::castIntField2( //cvwat08
+ std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastFrom,
+ std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastTo,
+ std::vector<ParaMEDMEM::DataArrayInt*>& arrayFrom,
+ std::string nameArrayTo)
+{
+ using std::vector;
+
+ int ioldMax=meshesCastFrom.size();
+ int inewMax=meshesCastTo.size();
+ // send-recv operations
+ for (int inew=0; inew<inewMax; inew++)
+ {
+ for (int iold=0; iold<ioldMax; iold++)
+ {
+ //sending arrays for distant domains
+ if (isParallelMode() && _domain_selector->isMyDomain(iold) && !_domain_selector->isMyDomain(inew))
+ {
+ //send mesh
+ _domain_selector->sendMesh(*meshesCastFrom[iold],_domain_selector->getProcessorID(inew));
+ //send vector
+ int size=arrayFrom[iold]->getNumberOfTuples(); //cvw may be -1!
+ vector<int>sendIds;
+ if (MyGlobals::_verbose>400) std::cout<<"proc "<<_domain_selector->rank()<<" : castIntField sendIntVec size "<<size<<std::endl;
+ if (size>0) //no empty
+ {
+ sendIds.resize(size);
+ std::copy(arrayFrom[iold]->getPointer(),arrayFrom[iold]->getPointer()+size,&sendIds[0]);
+ }
+ else //empty
+ {
+ size=0;
+ sendIds.resize(size);
+ }
+ //std::cout<<"proc "<<_domain_selector->rank()<<" : castIntField sendIntVec "<<size<<std::endl;
+ sendIntVec(sendIds, _domain_selector->getProcessorID(inew));
+ }
+ //receiving arrays from distant domains
+ if (isParallelMode() && !_domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew))
+ {
+ //receive mesh
+ vector<int> recvIds;
+ ParaMEDMEM::MEDCouplingUMesh* recvMesh;
+ _domain_selector->recvMesh(recvMesh,_domain_selector->getProcessorID(iold));
+ //receive vector
+ if (MyGlobals::_verbose>400) std::cout<<"proc "<<_domain_selector->rank()<<" : castIntField recIntVec "<<std::endl;
+ recvIntVec(recvIds, _domain_selector->getProcessorID(iold));
+ remapIntField2(inew,iold,*recvMesh,*meshesCastTo[inew],&recvIds[0],nameArrayTo);
+ recvMesh->decrRef(); //cww is it correct?
+ }
+ }
+ }
+
+ //local contributions and aggregation
+ for (int inew=0; inew<inewMax; inew++)
+ {
+ for (int iold=0; iold<ioldMax; iold++)
+ if (!isParallelMode() || ( _domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew)))
+ {
+ remapIntField2(inew,iold,*meshesCastFrom[iold],*meshesCastTo[inew],arrayFrom[iold]->getConstPointer(),nameArrayTo);
+ }
+ }
+}
+
+void MESHCollection::remapIntField2(int inew,int iold,
+ const ParaMEDMEM::MEDCouplingUMesh& sourceMesh,
+ const ParaMEDMEM::MEDCouplingUMesh& targetMesh,
+ const int* fromArray,
+ string nameArrayTo)
+//here we store ccI for next use in future call of castAllFields and remapDoubleField2
+{
+ using std::vector;
+ //cout<<"remapIntField2 "<<cle2ToStr(nameArrayTo,inew,iold)<<endl;
+ if (sourceMesh.getNumberOfCells()<=0) return; //empty mesh could exist
+ //cvw std::cout<<"remapIntField "<<sourceMesh.getNumberOfCells()<<" "<<targetMesh.getNumberOfCells()<<std::endl;
+ ParaMEDMEM::DataArrayDouble* sourceCoords=sourceMesh.getBarycenterAndOwner();
+ ParaMEDMEM::DataArrayDouble* targetCoords=targetMesh.getBarycenterAndOwner();
+
+ ParaMEDMEM::MEDCouplingUMesh* tmpMesh=ParaMEDMEM::MEDCouplingUMesh::New();
+ tmpMesh->setCoords(sourceCoords);
+ vector<int> c;
+ vector<int> cI;
+ vector<int> ccI; //memorize intersection target<-source(inew,iold)
+ string str,cle;
+ str=nameArrayTo+"_toArray";
+ cle=cle1ToStr(str,inew);
+ int* toArray;
+ int targetSize=targetMesh.getNumberOfCells();
+ //first time iold : create and initiate
+ if (_mapDataArrayInt.find(cle)==_mapDataArrayInt.end())
+ {
+ if (MyGlobals::_is0verbose>100) cout<<"create "<<cle<<" size "<<targetSize<<endl;
+ ParaMEDMEM::DataArrayInt* p=DataArrayInt::New();
+ p->alloc(targetSize,1);
+ p->fillWithZero();
+ toArray=p->getPointer();
+ _mapDataArrayInt[cle]=p;
+ }
+ else //other times iold: refind and complete
+ {
+ toArray=_mapDataArrayInt.find(cle)->second->getPointer();
+ }
+ tmpMesh->getNodeIdsNearPoints(targetCoords->getConstPointer(),targetSize,1e-10,c,cI);
+ if (cI.size()!=targetSize+1)
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error in source/target projection"));
+ for (int itargetnode=0; itargetnode<targetSize; itargetnode++)
+ {
+ if (cI[itargetnode]==cI[itargetnode+1]) continue;
+ int isourcenode=c[cI[itargetnode]];
+ toArray[itargetnode]=fromArray[isourcenode];
+ //memorize intersection
+ ccI.push_back(itargetnode); //next we'll do toArray[ccI[i]]=fromArray[ccI[i+1]]
+ ccI.push_back(isourcenode);
+ }
+ //ccI.push_back(sourceMesh.getNumberOfCells()); //additionnal information at end??
+
+ //memories intersection for future same job on fields (if no existing cle=no intersection)
+ str=cle2ToStr(nameArrayTo+"_ccI",inew,iold);
+ if (MyGlobals::_verbose>700) cout<<"proc "<<MyGlobals::_rank<<" : map memorize '"<<str<<"'\n";
+ _mapDataArrayInt[str]=createDataArrayIntFromVector(ccI, 2);
+ sourceCoords->decrRef();
+ targetCoords->decrRef();
+ tmpMesh->decrRef();
+}
+
+void MESHCollection::castAllFields(MESHCollection& initialCollection, string nameArrayTo) //cvwat08
+{
+ using std::vector;
+ if (nameArrayTo!="cellFieldDouble")
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error castAllField only on cellFieldDouble"));
+
+ string nameTo="typeData=6"; //resume the type of field casted
+ // send-recv operations
+ int ioldMax=initialCollection.getMesh().size();
+ int inewMax=this->getMesh().size();
+ int iFieldMax=initialCollection.getFieldDescriptions().size();
+ if (MyGlobals::_verbose>10) cout<<"castAllFields with:\n"<<reprVectorOfString(initialCollection.getFieldDescriptions())<<endl;
+ //std::vector<std::string> initialCollection.getFieldDescriptions()
+ //getFieldDescriptions() is a string description of field coherent and tested and set BEFORE.
+ //see collection.prepareFieldDescriptions()
+ for (int ifield=0; ifield<iFieldMax; ifield++)
+ {
+ string descriptionField=initialCollection.getFieldDescriptions()[ifield];
+ if (descriptionField.find(nameTo)==string::npos) continue; //only nameTo accepted in Fields name description
+ for (int inew=0; inew<inewMax; inew++)
+ {
+ for (int iold=0; iold<ioldMax; iold++)
{
- vector<int> recvIntVec;
//sending arrays for distant domains
if (isParallelMode() && _domain_selector->isMyDomain(iold) && !_domain_selector->isMyDomain(inew))
- {
- _domain_selector->sendMesh(*meshesCastFrom[iold],_domain_selector->getProcessorID(inew));
- int size=arrayFrom[iold]->getNumberOfTuples();
- vector<int>sendIds(size);
- std::copy(arrayFrom[iold]->getPointer(),arrayFrom[iold]->getPointer()+size,&sendIds[0]);
- _domain_selector->sendIntVec(sendIds, _domain_selector->getProcessorID(inew));
- }
+ {
+ int target=_domain_selector->getProcessorID(inew);
+ ParaMEDMEM::DataArrayDouble* field=initialCollection.getField(descriptionField,iold); //cvwat14
+ //getField look for and read it if not done, and assume decrRef() in ~MESHCollection;
+ if (MyGlobals::_verbose>10)
+ std::cout<<"proc "<<_domain_selector->rank()<<" : castAllFields sendDouble"<<std::endl;
+ sendDataArrayDouble(field, target);
+ }
//receiving arrays from distant domains
- if (isParallelMode()&&!_domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew))
- {
- vector<int> recvIds;
- ParaMEDMEM::MEDCouplingUMesh* recvMesh;
- _domain_selector->recvMesh(recvMesh,_domain_selector->getProcessorID(iold));
- _domain_selector->recvIntVec(recvIds, _domain_selector->getProcessorID(iold));
- remapIntField(*recvMesh,*meshesCastTo[inew],&recvIds[0],arrayTo[inew]->getPointer());
- }
+ if (isParallelMode() && !_domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew))
+ {
+ int source=_domain_selector->getProcessorID(iold);
+ //receive vector
+ if (MyGlobals::_verbose>10)
+ std::cout<<"proc "<<_domain_selector->rank()<<" : castAllFields recvDouble"<<std::endl;
+ ParaMEDMEM::DataArrayDouble* field=recvDataArrayDouble(source);
+ remapDoubleField3(inew,iold,field,nameArrayTo,descriptionField);
+ }
+ }
+ }
+
+ //local contributions and aggregation
+ for (int inew=0; inew<inewMax; inew++)
+ {
+ for (int iold=0; iold<ioldMax; iold++)
+ if (!isParallelMode() || ( _domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew)))
+ {
+ ParaMEDMEM::DataArrayDouble* field=initialCollection.getField(descriptionField,iold); //cvwat14
+ remapDoubleField3(inew,iold,field,nameArrayTo,descriptionField);
}
+ }
+ }
+}
- //local contributions and aggregation
- for (int inew=0; inew < meshesCastTo.size();inew++)
+void MESHCollection::remapDoubleField3(int inew, int iold,
+ ParaMEDMEM::DataArrayDouble* fromArray,
+ string nameArrayTo,
+ string descriptionField)
+//here we use 'cellFamily_ccI inew iold' set in remapIntField2
+{
+ using std::vector;
+ if (nameArrayTo!="cellFieldDouble")
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error remapDoubleField3 only on cellFieldDouble"));
+ string cle=cle2ToStr("cellFamily_ccI",inew,iold);
+
+ map<string,ParaMEDMEM::DataArrayInt*>::iterator it1;
+ it1=_mapDataArrayInt.find(cle);
+ if (it1==_mapDataArrayInt.end())
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : remapDoubleField3 cle '"<<cle<<"' not found"<<endl;
+ cerr<<" trying remap of field double on cells : "<<descriptionField<<endl;
+ return;
+ }
+ //create ccI in remapIntField2
+ ParaMEDMEM::DataArrayInt* ccI=it1->second;
+ if (MyGlobals::_verbose>300) cout<<"proc "<<MyGlobals::_rank<<" : remapDoubleField3 "<<cle<<" size "<<ccI->getNbOfElems()<<endl;
+ //cout<<descriptionField<<endl;
+
+ int nbcell=this->getMesh()[inew]->getNumberOfCells(); //number of cell of mesh
+ int nbcomp=fromArray->getNumberOfComponents();
+ int nbPtGauss=strToInt(extractFromDescription(descriptionField, "nbPtGauss="));
+
+ //int nbk=fromArray->getNumberOfTuples();
+
+ //cle=reprGenericDescription(descriptionField)+" "+intToStr(inew);
+ string tag="inewFieldDouble="+intToStr(inew);
+ cle=descriptionField+serializeFromString(tag);
+ //cout<<"descriptionField in remapDoubleField3 : "<<descriptionField<<endl;
+ int fromArrayNbOfElem=fromArray->getNbOfElems();
+ int fromArrayNbOfComp=fromArray->getNumberOfComponents();
+ int fromArrayNbOfCell=fromArrayNbOfElem/fromArrayNbOfComp/nbPtGauss;
+
+ if (MyGlobals::_verbose>1000)
+ {
+ cout<<"proc "<<MyGlobals::_rank<<" nbcell "<<nbcell<<" nbcomp "<<nbcomp<<" nbPtGauss "<<nbPtGauss<<
+ " fromArray nbOfElems "<<fromArrayNbOfElem<<
+ " nbTuples "<<fromArray->getNumberOfTuples()<<
+ " nbcells "<<fromArrayNbOfCell<<
+ " nbComponents "<<fromArray->getNumberOfComponents()<<endl;
+ }
+
+ ParaMEDMEM::DataArrayDouble* field=0;
+ map<string,ParaMEDMEM::DataArrayDouble*>::iterator it2;
+ it2=_mapDataArrayDouble.find(cle);
+ if (it2==_mapDataArrayDouble.end())
+ {
+ if (MyGlobals::_verbose>300) cout<<"proc "<<MyGlobals::_rank<<" : remapDoubleField3 cle '"<<cle<<"' not found and create it"<<endl;
+ field=DataArrayDouble::New();
+ _mapDataArrayDouble[cle]=field;
+ field->alloc(nbcell*nbPtGauss,nbcomp);
+ field->fillWithZero();
+ }
+ else
+ {
+ field=it2->second;
+ if (field->getNumberOfTuples()!=nbcell*nbPtGauss || field->getNumberOfComponents()!=nbcomp)
{
- for (int iold=0; iold < meshesCastFrom.size();iold++)
- if (!isParallelMode() || ( _domain_selector->isMyDomain(iold) && _domain_selector->isMyDomain(inew)))
- {
- remapIntField(*meshesCastFrom[iold],*meshesCastTo[inew],arrayFrom[iold]->getConstPointer(),arrayTo[inew]->getPointer());
- }
+ cerr<<"proc "<<MyGlobals::_rank<<" : remapDoubleField3 pb of size "<<
+ " trying remap of field double on cells : \n"<<descriptionField<<endl;
+ return;
+ }
+ }
+ //cout<<"proc "<<MyGlobals::_rank<<" : remapDoubleField3 "<<cle<<" size "<<ccI->getNbOfElems()<<endl;
+
+ if (nbPtGauss==1)
+ {
+ field->setPartOfValuesAdv(fromArray,ccI);
+ }
+ else
+ {
+ //replaced by setPartOfValuesAdv if nbPtGauss==1
+ int iMax=ccI->getNbOfElems();
+ int* pccI=ccI->getPointer();
+ double* pField=field->getPointer();
+ double* pFrom=fromArray->getPointer();
+ int itarget, isource, delta=nbPtGauss*nbcomp;
+ for (int i=0; i<iMax; i=i+2) //cell
+ {
+ itarget=pccI[i];
+ isource=pccI[i+1];
+ if ((itarget<0) || (itarget>=nbcell) || (isource<0) || (isource>=fromArrayNbOfCell))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error field override"));
+ int ita=itarget*delta;
+ int iso=isource*delta;
+ for (int k=0; k<delta; k++) pField[ita+k]=pFrom[iso+k]; //components and gausspoints
}
+ }
}
-void MESHCollection::remapIntField(const ParaMEDMEM::MEDCouplingUMesh& sourceMesh,
- const ParaMEDMEM::MEDCouplingUMesh& targetMesh,
- const int* fromArray,
- int* toArray)
+/*
+void MESHCollection::remapFields(
+ const ParaMEDMEM::MEDCouplingUMesh& sourceMesh,
+ const ParaMEDMEM::MEDCouplingUMesh& targetMesh,
+ mapOfFields* fromFields,
+ mapOfFields* toFields)
+ //const int* fromArray,int* toArray)
{
+ using std::vector;
+ if (sourceMesh.getNumberOfCells()<=0) return; //empty mesh could exist
+ //cvw std::cout<<"remapIntField "<<sourceMesh.getNumberOfCells()<<" "<<targetMesh.getNumberOfCells()<<std::endl;
ParaMEDMEM::DataArrayDouble* sourceCoords=sourceMesh.getBarycenterAndOwner();
ParaMEDMEM::DataArrayDouble* targetCoords=targetMesh.getBarycenterAndOwner();
ParaMEDMEM::MEDCouplingUMesh* tmpMesh=ParaMEDMEM::MEDCouplingUMesh::New();
tmpMesh->setCoords(sourceCoords);
- vector<int>c;
+ vector<int> c;
vector<int> cI;
tmpMesh->getNodeIdsNearPoints(targetCoords->getConstPointer(),targetMesh.getNumberOfCells(),1e-10,c,cI);
- if (cI.size()!= targetMesh.getNumberOfCells()+1) throw INTERP_KERNEL::Exception("Error in source/target projection");
+ if (cI.size()!= targetMesh.getNumberOfCells()+1)
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error in source/target projection"));
+
for (int itargetnode=0; itargetnode<targetMesh.getNumberOfCells();itargetnode++)
{
if (cI[itargetnode]==cI[itargetnode+1]) continue;
int isourcenode=c[cI[itargetnode]];
toArray[itargetnode]=fromArray[isourcenode];
- }
+ }
+
sourceCoords->decrRef();
targetCoords->decrRef();
tmpMesh->decrRef();
-
-
}
+*/
+
/*! constructing the MESH collection from a distributed file
*
* \param filename name of the master file containing the list of all the MED files
*/
-MESHCollection::MESHCollection(const string& filename)
+MESHCollection::MESHCollection(const std::string& filename)
: _topology(0),
_owns_topology(true),
_driver(0),
_driver_type(MEDPARTITIONER::Undefined),
_subdomain_boundary_creates(false),
_family_splitting(false),
- _create_empty_groups(false)
+ _create_empty_groups(false),
+ _joint_finder(0)
{
// char filenamechar[256];
// strcpy(filenamechar,filename.c_str());
_driver=new MESHCollectionMedXMLDriver(this);
_driver->read (filename.c_str());
_driver_type = MedXML;
-
}
- catch(MEDMEM::MEDEXCEPTION){
- delete _driver;
- try
- {
- _driver=new MESHCollectionMedAsciiDriver(this);
- _driver->read (filename.c_str());
- _driver_type=MedAscii;
- }
- catch(MEDMEM::MEDEXCEPTION&)
- {
- delete _driver;
- throw MEDMEM::MEDEXCEPTION("file does not comply with any recognized format");
- }
- }
+ catch(...)
+ { // Handle all exceptions
+ if ( _driver ) delete _driver; _driver=0;
+ try
+ {
+ _driver=new MESHCollectionMedAsciiDriver(this);
+ _driver->read (filename.c_str());
+ _driver_type=MedAscii;
+ }
+ catch(...)
+ {
+ if ( _driver ) delete _driver; _driver=0;
+ throw INTERP_KERNEL::Exception(LOCALIZED("file does not comply with any recognized format"));
+ }
+ }
for ( int idomain = 0; idomain < _mesh.size(); ++idomain )
if ( _mesh[idomain] && _mesh[idomain]->getNumberOfNodes() > 0 )
_i_non_empty_mesh = idomain;
* \param filename - name of the master file containing the list of all the MED files
* \param domainSelector - selector of domains to load
*/
-MESHCollection::MESHCollection(const string& filename, ParaDomainSelector& domainSelector)
+MESHCollection::MESHCollection(const std::string& filename, ParaDomainSelector& domainSelector) //cvwat01
: _topology(0),
_owns_topology(true),
_driver(0),
- _domain_selector( domainSelector.nbProcs() > 1 ? & domainSelector : 0 ),
+ //cvw _domain_selector( domainSelector.nbProcs() > 1 ? & domainSelector : 0 ),
+ _domain_selector( &domainSelector ),
_i_non_empty_mesh(-1),
_driver_type(MEDPARTITIONER::Undefined),
_subdomain_boundary_creates(false),
_family_splitting(false),
- _create_empty_groups(false)
+ _create_empty_groups(false),
+ _joint_finder(0)
{
- try
+ std::string myfile=filename;
+ std::size_t found=myfile.find(".xml");
+ if (found!=std::string::npos) //file .xml
+ {
+ try
{
- _driver=new MESHCollectionMedXMLDriver(this);
+ _driver=new MESHCollectionMedXMLDriver(this); //cvwat02
_driver->read ( (char*)filename.c_str(), _domain_selector );
_driver_type = MedXML;
}
- catch(MEDMEM::MEDEXCEPTION&)
+ catch(...)
+ { // Handle all exceptions
+ if ( _driver ) delete _driver; _driver=0;
+ throw INTERP_KERNEL::Exception(LOCALIZED("file .xml does not comply with any recognized format"));
+ }
+ }
+ else
+ {
+ found=myfile.find(".med");
+ if (found!=std::string::npos) //file .med single
+ {
+ //make a temporary file .xml and retry MedXMLDriver
+ std::string xml="\
+<?xml version=\"1.0\" encoding=\"UTF-8\"?>\n \
+<root>\n \
+ <version maj=\"2\" min=\"3\" ver=\"1\"/>\n \
+ <description what=\"\" when=\"\"/>\n \
+ <content>\n \
+ <mesh name=\"$meshName\"/>\n \
+ </content>\n \
+ <splitting>\n \
+ <subdomain number=\"1\"/>\n \
+ <global_numbering present=\"no\"/>\n \
+ </splitting>\n \
+ <files>\n \
+ <subfile id=\"1\">\n \
+ <name>$fileName</name>\n \
+ <machine>localhost</machine>\n \
+ </subfile>\n \
+ </files>\n \
+ <mapping>\n \
+ <mesh name=\"$meshName\">\n \
+ <chunk subdomain=\"1\">\n \
+ <name>$meshName</name>\n \
+ </chunk>\n \
+ </mesh>\n \
+ </mapping>\n \
+</root>\n";
+ std::vector<std::string> meshNames=MEDLoader::GetMeshNames(myfile.c_str());
+ xml.replace(xml.find("$fileName"),9,myfile);
+ xml.replace(xml.find("$meshName"),9,meshNames[0]);
+ xml.replace(xml.find("$meshName"),9,meshNames[0]);
+ xml.replace(xml.find("$meshName"),9,meshNames[0]);
+ //std::cout<<xml<<std::endl;
+ std::string nameFileXml=myfile;
+ nameFileXml.replace(nameFileXml.find(".med"),4,".xml");
+ nameFileXml="medpartitioner_"+nameFileXml;
+ if (_domain_selector->rank()==0) //only on to write it
+ {
+ std::ofstream f(nameFileXml.c_str());
+ f<<xml;
+ f.close();
+ }
+#ifdef HAVE_MPI2
+ MPI_Barrier(MPI_COMM_WORLD); //wait for creation of nameFileXml
+#endif
+ try
+ {
+ _driver=new MESHCollectionMedXMLDriver(this);
+ _driver->read ( (char*)nameFileXml.c_str(), _domain_selector );
+ _driver_type = MedXML;
+ }
+ catch(...)
+ { // Handle all exceptions
+ if ( _driver ) delete _driver; _driver=0;
+ throw INTERP_KERNEL::Exception(LOCALIZED("file medpartitioner_xxx.xml does not comply with any recognized format"));
+ }
+ }
+ else //no extension
{
- delete _driver;
try
{
_driver=new MESHCollectionMedAsciiDriver(this);
_driver->read ( (char*)filename.c_str(), _domain_selector );
_driver_type=MedAscii;
}
- catch(MEDMEM::MEDEXCEPTION&)
+ catch(...)
{
- delete _driver;
- throw MEDMEM::MEDEXCEPTION("file does not comply with any recognized format");
+ if ( _driver ) delete _driver; _driver=0;
+ throw INTERP_KERNEL::Exception(LOCALIZED("file name with no extension does not comply with any recognized format"));
}
}
+ }
+
+ /*done in MESHCollectionMedXMLDriver read
if ( isParallelMode() )
// to know nb of cells on each proc to compute global cell ids from locally global
- _domain_selector->gatherNbOf( getMesh() );
+ _domain_selector->gatherNbOf( getMesh() );*/
// find non-empty domain mesh
for ( int idomain = 0; idomain < _mesh.size(); ++idomain )
if ( _mesh[idomain] && _mesh[idomain]->getNumberOfNodes() > 0 )
_i_non_empty_mesh = idomain;
+
+ try
+ {
+ //check for all proc/file compatibility of _fieldDescriptions
+ //*MyGlobals::_fileNames=allgathervVectorOfString(*MyGlobals::_fileNames);
+ _fieldDescriptions=allgathervVectorOfString(MyGlobals::_fieldDescriptions); //cvwat07
+ }
+ catch(INTERP_KERNEL::Exception& e)
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : INTERP_KERNEL_Exception : "<<e.what()<<endl;
+ throw INTERP_KERNEL::Exception(LOCALIZED("Something wrong verifying coherency of files med ands fields"));
+ }
+
+ try
+ {
+ //check for all proc/file compatibility of _familyInfo //cvwat05
+ vector<string> v2=allgathervVectorOfString(vectorizeFromMapOfStringInt(_familyInfo));
+ _familyInfo=devectorizeToMapOfStringInt(v2);
+ }
+ catch(INTERP_KERNEL::Exception& e)
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : INTERP_KERNEL_Exception : "<<e.what()<<endl;
+ throw INTERP_KERNEL::Exception(LOCALIZED("Something wrong merging all familyInfo"));
+ }
+
+ try
+ {
+ //check for all proc/file compatibility of _groupInfo
+ vector<string> v2=allgathervVectorOfString(
+ vectorizeFromMapOfStringVectorOfString(_groupInfo));
+ _groupInfo=deleteDuplicatesInMapOfStringVectorOfString(
+ devectorizeToMapOfStringVectorOfString(v2));
+ }
+ catch(INTERP_KERNEL::Exception& e)
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : INTERP_KERNEL_Exception : "<<e.what()<<endl;
+ throw INTERP_KERNEL::Exception(LOCALIZED("Something wrong merging all groupInfo"));
+ }
+
+
+ //std::vector< std::string > _meshes=MEDLoader::GetMeshNames(filename);
+ //std::vector< std::string > _fields=MEDLoader::GetAllFieldNamesOnMesh(filename,meshname[0]);
+ //cout<<"number of fields "<<_fields.size()<<endl;
+
}
/*! constructing the MESH collection from a sequential MED-file
* \param filename MED file
* \param meshname name of the mesh that is to be read
*/
-MESHCollection::MESHCollection(const string& filename, const string& meshname)
+MESHCollection::MESHCollection(const std::string& filename, const std::string& meshname)
: _name(meshname),
_topology(0),
_owns_topology(true),
_driver_type(MEDPARTITIONER::MedXML),
_subdomain_boundary_creates(false),
_family_splitting(false),
- _create_empty_groups(false)
+ _create_empty_groups(false),
+ _joint_finder(0)
{
//char filenamechar[256];
//char meshnamechar[256];
- // strcpy(filenamechar,filename.c_str());
+ //strcpy(filenamechar,filename.c_str());
//strcpy(meshnamechar,meshname.c_str());
try // avoid memory leak in case of inexistent filename
{
retrieveDriver()->readSeq (filename.c_str(),meshname.c_str());
}
- catch ( MED_EXCEPTION& e )
+ catch (...)
{
if ( _driver ) delete _driver; _driver=0;
- throw e;
+ throw INTERP_KERNEL::Exception(LOCALIZED("problem reading .med files"));
}
if ( _mesh[0] && _mesh[0]->getNumberOfNodes() > 0 )
_i_non_empty_mesh = 0;
MESHCollection::~MESHCollection()
{
for (int i=0; i<_mesh.size();i++)
- {
- if (_mesh[i]!=0) _mesh[i]->decrRef();
- if (_cellFamilyIds[i]!=0) _cellFamilyIds[i]->decrRef();
- }
+ if (_mesh[i]!=0) _mesh[i]->decrRef();
+
+ for (int i=0; i<_cellFamilyIds.size();i++)
+ if (_cellFamilyIds[i]!=0) _cellFamilyIds[i]->decrRef();
for (int i=0; i<_faceMesh.size();i++)
- {
- if (_faceMesh[i]!=0) _faceMesh[i]->decrRef();
- if (_faceFamilyIds[i]!=0) _faceFamilyIds[i]->decrRef();
- }
+ if (_faceMesh[i]!=0) _faceMesh[i]->decrRef();
+
+ for (int i=0; i<_faceFamilyIds.size();i++)
+ if (_faceFamilyIds[i]!=0) _faceFamilyIds[i]->decrRef();
+
+ for (map<string, ParaMEDMEM::DataArrayInt*>::iterator it=_mapDataArrayInt.begin() ; it!=_mapDataArrayInt.end(); it++ )
+ if ((*it).second!=0) (*it).second->decrRef();
+
+ for (map<string, ParaMEDMEM::DataArrayDouble*>::iterator it=_mapDataArrayDouble.begin() ; it!=_mapDataArrayDouble.end(); it++ )
+ if ((*it).second!=0) (*it).second->decrRef();
if (_driver !=0) {delete _driver; _driver=0;}
if (_topology!=0 && _owns_topology) {delete _topology; _topology=0;}
+
+ if (_joint_finder!=0) {delete _joint_finder; _joint_finder=0;}
}
-
/*! constructing the MESH collection from a file
*
* The method creates as many MED-files as there are domains in the
* \param filename name of the master file that will contain the list of the MED files
*
*/
-void MESHCollection::write(const string& filename)
+void MESHCollection::write(const std::string& filename)
{
//building the connect zones necessary for writing joints
// if (_topology->nbDomain()>1)
// buildConnectZones();
//suppresses link with driver so that it can be changed for writing
- if (_driver!=0)delete _driver;
+ if (_driver!=0) delete _driver;
_driver=0;
//char filenamechar[256];
_driver=new MESHCollectionMedAsciiDriver(this);
break;
default:
- throw MEDMEM::MEDEXCEPTION("Unrecognized driver");
+ throw INTERP_KERNEL::Exception(LOCALIZED("Unrecognized driver"));
}
}
-
return _driver;
}
/*! gets an existing driver
*
*/
-MESHCollectionDriver* MESHCollection::getDriver() const
-{
+MESHCollectionDriver* MESHCollection::getDriver() const {
return _driver;
}
+
// /*! retrieves the mesh dimension*/
-int MESHCollection::getMeshDimension() const
-{
+int MESHCollection::getMeshDimension() const {
return _i_non_empty_mesh < 0 ? -1 : _mesh[_i_non_empty_mesh]->getMeshDimension();
}
-vector<ParaMEDMEM::MEDCouplingUMesh*>& MESHCollection::getMesh()
-{
+std::vector<ParaMEDMEM::MEDCouplingUMesh*>& MESHCollection::getMesh() {
return _mesh;
}
-vector<ParaMEDMEM::MEDCouplingUMesh*>& MESHCollection::getFaceMesh()
-{
+
+std::vector<ParaMEDMEM::MEDCouplingUMesh*>& MESHCollection::getFaceMesh() {
return _faceMesh;
}
-ParaMEDMEM::MEDCouplingUMesh* MESHCollection::getMesh(int idomain) const
-{
+
+ParaMEDMEM::MEDCouplingUMesh* MESHCollection::getMesh(int idomain) const {
return _mesh[idomain];
}
-ParaMEDMEM::MEDCouplingUMesh* MESHCollection::getFaceMesh(int idomain)
-{
+ParaMEDMEM::MEDCouplingUMesh* MESHCollection::getFaceMesh(int idomain) {
return _faceMesh[idomain];
}
-vector<MEDPARTITIONER::CONNECTZONE*>& MESHCollection::getCZ()
-{
+
+std::vector<MEDPARTITIONER::CONNECTZONE*>& MESHCollection::getCZ() {
return _connect_zones;
}
-Topology* MESHCollection::getTopology() const
-{
+Topology* MESHCollection::getTopology() const {
return _topology;
}
-void MESHCollection::setTopology(Topology* topo)
-{
+void MESHCollection::setTopology(Topology* topo) {
if (_topology!=0)
{
- throw MEDMEM::MEDEXCEPTION("Erreur : topology is already set");
+ throw INTERP_KERNEL::Exception(LOCALIZED("topology is already set"));
}
else
_topology = topo;
}
-
/*! Method creating the cell graph
*
* \param array returns the pointer to the structure that contains the graph
* \param edgeweight returns the pointer to the table that contains the edgeweights
* (only used if indivisible regions are required)
*/
-
-void MESHCollection::buildCellGraph(MEDPARTITIONER::MEDSKYLINEARRAY* & array,int *& edgeweights )
+void MESHCollection::buildCellGraph(MEDPARTITIONER::MEDSKYLINEARRAY* & array, int *& edgeweights ) //cvwat09
{
-
+ using std::multimap;
+ using std::vector;
+ using std::make_pair;
+ using std::pair;
+
multimap< int, int > node2cell;
multimap< int, int > cell2cell;
+ multimap< int, int > cell2node;
+
+ vector<vector<multimap<int,int> > > commonDistantNodes;
+ int nbdomain=_topology->nbDomain();
+ if (isParallelMode())
+ {
+ _joint_finder=new JointFinder(*this);
+ _joint_finder->findCommonDistantNodes();
+ commonDistantNodes=_joint_finder->getDistantNodeCell();
+ }
+
+ if (MyGlobals::_verbose>500) _joint_finder->print();
+
+ //looking for reverse nodal connectivity i global numbering
+ for (int idomain=0; idomain<nbdomain; idomain++)
+ {
+ if (isParallelMode() && !_domain_selector->isMyDomain(idomain)) continue;
+
+ /*obsolete
+ int offsetCell=0, offsetNode=0;
+ if (isParallelMode())
+ {
+ offsetCell=_domain_selector->getDomainCellShift(idomain);
+ offsetNode=_domain_selector->getDomainNodeShift(idomain);
+ }*/
+
+ ParaMEDMEM::DataArrayInt* index=ParaMEDMEM::DataArrayInt::New();
+ ParaMEDMEM::DataArrayInt* revConn=ParaMEDMEM::DataArrayInt::New();
+ int nbNodes=_mesh[idomain]->getNumberOfNodes();
+ //cout<<"proc "<<MyGlobals::_rank<<" idomain "<<idomain<<" nbNodes "<<nbNodes<<" offsetCell "<<offsetCell<<" offsetNode "<<offsetNode<<endl;
+ _mesh[idomain]->getReverseNodalConnectivity(revConn,index);
+ //problem saturation over 1 000 000 nodes for 1 proc
+ if (MyGlobals::_verbose>100) cout<<"proc "<<MyGlobals::_rank<<" getReverseNodalConnectivity done on "<<nbNodes<<" nodes"<<endl;
+ int* index_ptr=index->getPointer();
+ int* revConnPtr=revConn->getPointer();
+ //if (MyGlobals::_verbose>100) cout<<"proc "<<MyGlobals::_rank<<" create node2cell on local nodes with global numerotation idomain|inode|icell\n";
+ for (int i=0; i<nbNodes; i++)
+ {
+ for (int icell=index_ptr[i]; icell<index_ptr[i+1]; icell++)
+ {
+ /*cvw local
+ node2cell.insert(make_pair(i, revConnPtr[icell]));
+ cout<<" "<<idomain<<"|"<<i<<"|"<<revConnPtr[icell];
+ cell2node.insert(make_pair(revConnPtr[icell], i));
+ */
+ int globalNode=_topology->convertNodeToGlobal(idomain,i);
+ int globalCell=_topology->convertCellToGlobal(idomain,revConnPtr[icell]);
+ node2cell.insert(make_pair(globalNode, globalCell));
+ //cvw cout<<" "<<idomain<<"|"<<i<<"#"<< globalNode<<"|"<<revConnPtr[icell]<<"#"<<globalCell;
+ cell2node.insert(make_pair(globalCell, globalNode));
+ }
+ }
+ revConn->decrRef();
+ index->decrRef();
+ //vector<vector<multimap<int,int> > > dNC=getDistantNodeCell()
+ for (int iother=0; iother<nbdomain; iother++)
+ {
+ std::multimap<int,int>::iterator it;
+ int isource=idomain;
+ int itarget=iother;
+ for (it=_joint_finder->_distant_node_cell[isource][itarget].begin();
+ it!=_joint_finder->_distant_node_cell[isource][itarget].end(); it++)
+ {
+ int globalNode=_topology->convertNodeToGlobal(idomain,(*it).first);
+ int globalCell=(*it).second;
+ node2cell.insert(make_pair(globalNode, globalCell));
+ //cout<<"processor "<<MyGlobals::_rank<<" : isource "<<isource<<" itarget "<<itarget<<
+ // " "<<(*it).first<<"~"<<globalNode<<"~"<<globalCell<<endl;
+ cell2node.insert(make_pair(globalCell, globalNode));
+ }
+ }
+ } //endfor idomain
+
+ //creating graph arcs (cell to cell relations)
+ //arcs are stored in terms of (index,value) notation
+ // 0 3 5 6 6
+ // 1 2 3 2 3 3
+ // means 6 arcs (0,1), (0,2), (0,3), (1,2), (1,3), (2,3)
+ // in present version arcs are not doubled but reflexive (1,1) arcs are present for each cell
+
+ //warning here one node have less than or equal effective number of cell with it
+ //but cell could have more than effective nodes
+ //because other equals nodes in other domain (with other global inode)
+ if (MyGlobals::_verbose>100) cout<<"proc "<<MyGlobals::_rank<<" creating graph arcs on nbNodes "<<_topology->nbNodes()<<endl;
+ for (int inode=0; inode<_topology->nbNodes(); inode++) //on all nodes
+ {
+ typedef multimap<int,int>::const_iterator MI;
+ pair <MI,MI> myRange=node2cell.equal_range(inode);
+ for (MI cell1=myRange.first; cell1!=myRange.second; cell1++) //on cells with inode
+ {
+ pair <MI,MI> myNodes1=cell2node.equal_range(cell1->second); //nodes of one cell
+ for (MI cell2=myRange.first; cell2!=myRange.second; cell2++) //on one of these cell
+ {
+ if (cell1->second!=cell2->second) //in cells of my domain
+ {
+ pair <MI,MI> myNodes2=cell2node.equal_range(cell2->second); //on nodes of this cell
+ int nbcn=0; //number of common nodes between cells: at least 3 for cells
+ for (MI it1=myNodes1.first; it1!=myNodes1.second; ++it1)
+ {
+ for (MI it2=myNodes2.first; it2!=myNodes2.second; ++it2)
+ {
+ if ((*it1).second==(*it2).second)
+ {
+ nbcn=nbcn+1 ; break;
+ }
+ }
+ }
+ if (nbcn>=3) //cvw TODO if 2d cells set at 2
+ cell2cell.insert(make_pair(cell1->second,cell2->second));
+ //note here there is some global numerotation of cell which come from other domain (not mydomain)
+ //cout<<" "<<MyGlobals::_rank<<"!"<<cell1->second<<"!"<<cell2->second; //cvw
+ }
+ }
+ }
+ }
+
+ if (MyGlobals::_verbose>100) cout<<"proc "<<MyGlobals::_rank<<" create skylinearray"<<endl;
+ //filling up index and value to create skylinearray structure
+ vector <int> index,value;
+ index.push_back(0);
+ int idep=0;
+
+ for (int idomain=0; idomain<nbdomain; idomain++)
+ {
+ if (isParallelMode() && !_domain_selector->isMyDomain(idomain)) continue;
+ int nbCells=_mesh[idomain]->getNumberOfCells();
+ for (int icell=0; icell<nbCells; icell++)
+ {
+ int size=0;
+ int globalCell=_topology->convertCellToGlobal(idomain,icell);
+ multimap<int,int>::iterator it;
+ pair<multimap<int,int>::iterator,multimap<int,int>::iterator> ret;
+ ret=cell2cell.equal_range(globalCell);
+ //cout<<" "<<MyGlobals::_rank<<"$"<<icell<<"$"<<globalCell;
+ for (it=ret.first; it!=ret.second; ++it)
+ {
+ //cout<<" "<<MyGlobals::_rank<<"$"<<icell<<"$"<<globalCell<<"$"<<(*it).second<<endl;
+ int ival=(*it).second; //no adding one existing yet
+ for (int i=idep ; i<idep+size ; i++)
+ {
+ if (value[i]==ival)
+ {
+ ival=-1; break;
+ }
+ }
+ if (ival!=-1)
+ {
+ value.push_back(ival);
+ //cout<<"|"<<ival;
+ size++;
+ }
+ }
+ //cout<<" ";
+ idep=index[index.size()-1]+size;
+ index.push_back(idep);
+ }
+ }
+
+ array=new MEDPARTITIONER::MEDSKYLINEARRAY(index,value);
+
+ if (MyGlobals::_verbose>100)
+ {
+ std::cout<<"\nproc "<<_domain_selector->rank()<<" : end MESHCollection::buildCellGraph "<<
+ index.size()-1<<" "<<value.size()<<std::endl;
+ if (index.size()>1)
+ {
+ for (int i=0; i<10; ++i) cout<<index[i]<<" ";
+ cout<<"... "<<index[index.size()-1]<<endl;
+ for (int i=0; i<15; ++i) cout<<value[i]<<" ";
+ int ll=index[index.size()-1]-1;
+ cout<<"... ("<<ll<<") "<<value[ll-1]<<" "<<value[ll]<<endl;
+ }
+ }
+
+}
+/*
+void MESHCollection::buildCellGraph_old(MEDPARTITIONER::MEDSKYLINEARRAY* & array,int *& edgeweights ) //cvwat09
+{
+ using std::multimap;
+ using std::vector;
+ using std::make_pair;
+ using std::pair;
+
+ multimap< int, int > node2cell;
+ multimap< int, int > cell2cell;
+
vector<vector<multimap<int,int> > > commonDistantNodes;
int nbdomain=_topology->nbDomain();
if (isParallelMode())
}
//looking for reverse nodal connectivity i global numbering
- for (int idomain=0; idomain<nbdomain;idomain++)
+ for (int idomain=0; idomain<nbdomain; idomain++)
{
if (isParallelMode() && !_domain_selector->isMyDomain(idomain)) continue;
int offset=0, procOffset=0;
if (isParallelMode())
{
- offset=_domain_selector->getDomainShift(idomain);
- procOffset=_domain_selector->getProcShift()+1;
+ offset=_domain_selector->getDomainCellShift(idomain);
+ procOffset=_domain_selector->getProcShift();
}
ParaMEDMEM::DataArrayInt* index=ParaMEDMEM::DataArrayInt::New();
ParaMEDMEM::DataArrayInt* revConn=ParaMEDMEM::DataArrayInt::New();
int* globalRevConnPtr=globalRevConn->getPointer();
for (int i=0; i<_mesh[idomain]->getNumberOfNodes();i++)
{
- for (int icell=index_ptr[i]; icell<index_ptr[i+1];icell++)
- node2cell.insert(make_pair(globalNodeIds[i],globalRevConnPtr[icell]+procOffset));
+ for (int icell=index_ptr[i]; icell<index_ptr[i+1]; icell++)
+ {
+ node2cell.insert(make_pair(globalNodeIds[i], globalRevConnPtr[icell]+procOffset));
+ }
}
if (isParallelMode())
{
{
int ilocnode=iter->first;
int icell=iter->second;
-
- node2cell.insert(make_pair(globalNodeIds[ilocnode],icell+offset));
+ node2cell.insert(make_pair(globalNodeIds[ilocnode],icell+offset));
}
- // }
}
}
// means 6 arcs (0,1), (0,2), (0,3), (1,2), (1,3), (2,3)
// in present version arcs are not doubled but reflexive (1,1) arcs are present for each cell
+ //warning here one node have effective number of cell with it
+ //but cell could have more than effective nodes
+ //is it normal??? because other equals nodes in other domain (with other inode)???
+
int mincell,maxcell;
if (isParallelMode())
{
- mincell=_domain_selector->getProcShift()+1;
+ mincell=_domain_selector->getProcShift();
maxcell=mincell;
for (int i=0; i<nbdomain;i++)
if (_domain_selector->isMyDomain(i)) maxcell+=_mesh[i]->getNumberOfCells();
-
}
else
{
mincell=0;
maxcell=_topology->nbCells();
}
- for (int inode=0; inode<_topology->nbNodes();inode++)
+ for (int inode=0; inode<_topology->nbNodes(); inode++) //on all nodes
{
typedef multimap<int,int>::const_iterator MI;
pair <MI,MI> myRange = node2cell.equal_range(inode);
- for (MI cell1=myRange.first; cell1!=myRange.second; cell1++)
+
+
+ for (MI cell1=myRange.first; cell1!=myRange.second; cell1++) //on cells with inode
{
- for (MI cell2 = myRange.first; cell2!=myRange.second; cell2++)
+ for (MI cell2 = myRange.first; cell2!=myRange.second; cell2++) //on one of these cell
{
- if (cell1->second!=cell2->second&&cell1->second>=mincell&&cell1->second<maxcell) cell2cell.insert(make_pair(cell1->second,cell2->second));
+ if (cell1->second!=cell2->second && cell1->second>=mincell && cell1->second<maxcell) //in cells of my domain
+ {
+ cell2cell.insert(make_pair(cell1->second,cell2->second));
+ }
}
}
}
-
+ //cout<<"proc "<<MyGlobals::_rank<<" end create skylinearray"<<endl;
//filling up index and value to create skylinearray structure
multimap<int,int>::const_iterator iter;
iter=cell2cell.begin();
vector <int> index,value;
index.push_back(0);
+ int idep=0;
while (iter != cell2cell.end())
+ {
+ multimap<int,int>::const_iterator next_iter = cell2cell.upper_bound(iter->first);
+ int size=0;
+ for (multimap<int,int>::const_iterator current_iter=iter; current_iter!=next_iter; current_iter++)
{
- multimap<int,int>::const_iterator next_iter = cell2cell.upper_bound(iter->first);
- int size=0;
- for (multimap<int,int>::const_iterator current_iter=iter; current_iter!=next_iter; current_iter++)
+ int ival=current_iter->second; //no adding one existing yet
+ for (int i=idep ; i<idep+size ; i++)
+ {
+ if (value[i]==ival)
{
- value.push_back(current_iter->second);
- size++;
+ ival=-1;
+ break;
}
- index.push_back(index[index.size()-1]+size);
-
-
- iter=next_iter;
+ }
+ if (ival!=-1)
+ {
+ value.push_back(ival);
+ size++;
+ }
}
-
+ idep=index[index.size()-1]+size;
+ index.push_back(idep);
+ iter=next_iter;
+ }
array=new MEDPARTITIONER::MEDSKYLINEARRAY(index,value);
-
- cout<< "end of graph creation"<<endl;
-}
-
+}*/
/*! Creates the partition corresponding to the cell graph and the partition number
*
*
* returns a topology based on the new graph
*/
-Topology* MESHCollection::createPartition(int nbdomain,
+Topology* MESHCollection::createPartition(int nbdomain, //cvwat06
Graph::splitter_type split,
- const string& options_string,
+ const std::string& options_string,
int* user_edge_weights,
int* user_vertices_weights)
{
- if (nbdomain <1) throw MEDMEM::MEDEXCEPTION("Number of subdomains must be >0");
+ using std::cout;
+ using std::endl;
+
+ if (MyGlobals::_verbose>10) cout<<"proc "<<MyGlobals::_rank<<" : MESHCollection::createPartition : Building cell graph"<<endl;
+
+ if (nbdomain <1) throw INTERP_KERNEL::Exception(LOCALIZED("Number of subdomains must be > 0"));
MEDPARTITIONER::MEDSKYLINEARRAY* array=0;
int* edgeweights=0;
- cout<<"Building cell graph";
+ //cout<<"Building cell graph... ";
// if ( _domain_selector )
// buildCellGraphParallel(array,edgeweights);
// else
- buildCellGraph(array,edgeweights);
+ buildCellGraph(array,edgeweights); //cvwat09
+ //MPI_Barrier(MPI_COMM_WORLD);
+ //cout<<"proc "<<MyGlobals::_rank<<" :end barrier CellGraph done"<<endl;
Graph* cellGraph;
switch (split)
{
case Graph::METIS:
#ifdef ENABLE_METIS
+ if (MyGlobals::_verbose>10) cout<<"METISGraph"<<endl;
cellGraph=(Graph*)(new METISGraph(array,edgeweights));
#else
- throw MEDMEM::MEDEXCEPTION("METIS Graph is not available. Check your products, please.");
+ throw INTERP_KERNEL::Exception(LOCALIZED("METIS Graph is not available. Check your products, please."));
#endif
break;
case Graph::SCOTCH:
#ifdef ENABLE_SCOTCH
+ if (MyGlobals::_verbose>10) cout<<"SCOTCHGraph"<<endl;
cellGraph=(Graph*)(new SCOTCHGraph(array,edgeweights));
#else
- throw MEDMEM::MEDEXCEPTION("SCOTCH Graph is not available. Check your products, please.");
+ throw INTERP_KERNEL::Exception(LOCALIZED("SCOTCH Graph is not available. Check your products, please."));
#endif
break;
}
if (user_vertices_weights!=0)
cellGraph->setVerticesWeights(user_vertices_weights);
- cout<<"Partitioning graph";
- cellGraph->partGraph(nbdomain,options_string,_domain_selector);
-
-
+ if (MyGlobals::_is0verbose>10) cout<<"partitioning graph on "<<nbdomain<<" domains"<<endl;
+ cellGraph->partGraph(nbdomain, options_string, _domain_selector); //cvwat10
- cout<<"Building new topology";
+ if (MyGlobals::_is0verbose>10) cout<<"building new topology"<<endl;
//cellGraph is a shared pointer
- Topology* topology = new ParallelTopology (cellGraph, nbdomain, getMeshDimension());
+ Topology* topology=new ParallelTopology (cellGraph, getTopology(), nbdomain, getMeshDimension());
//cleaning
if (edgeweights!=0) delete[] edgeweights;
// if (array!=0) delete array;
- cout<<"End of partition creation";
delete cellGraph;
-
+ if (MyGlobals::_verbose>11) cout<<"proc "<<MyGlobals::_rank<<" : end MESHCollection::createPartition"<<endl;
return topology;
}
*/
Topology* MESHCollection::createPartition(const int* partition)
{
+ using std::set;
+
MEDPARTITIONER::MEDSKYLINEARRAY* array=0;
int* edgeweights=0;
cellGraph=(Graph*)(new UserGraph(array, partition, _topology->nbCells()));
//cellGraph is a shared pointer
- Topology* topology = new ParallelTopology (cellGraph, nbdomain, getMeshDimension());
+ Topology* topology = new ParallelTopology (cellGraph, getTopology(), nbdomain, getMeshDimension());
// if (array!=0) delete array;
delete cellGraph;
{
for (int i=0; i<_topology->nbDomain(); i++)
{
- ostringstream oss;
+ std::ostringstream oss;
oss<<name<<"_"<<i;
if (!isParallelMode() || _domain_selector->isMyDomain(i))
_mesh[i]->setName(oss.str().c_str());
}
}
+
+ParaMEDMEM::DataArrayDouble* MESHCollection::getField(std::string descriptionField, int iold)
+//getField look for and read it if not done, and assume decrRef() in ~MESHCollection;
+//something like MEDCouplingFieldDouble *f2=MEDLoader::ReadFieldCell(name.c_str(),f1->getMesh()->getName(),0,f1->getName(),0,1);
+ {
+ int rank=MyGlobals::_rank;
+ string tag="ioldFieldDouble="+intToStr(iold);
+ string descriptionIold=descriptionField+serializeFromString(tag);
+ if (_mapDataArrayDouble.find(descriptionIold)!=_mapDataArrayDouble.end())
+ {
+ if (MyGlobals::_verbose>300) cout<<"proc "<<rank<<" : YET READ getField : "<<descriptionIold<<endl;
+ DataArrayDouble* res=_mapDataArrayDouble[descriptionIold];
+ //cout<<res->reprZip()<<endl;
+ return res;
+ }
+ if (MyGlobals::_verbose>200) cout<<"proc "<<rank<<" : TO BE READ getField : "<<descriptionIold<<endl;
+ string description, fileName, meshName, fieldName;
+ int idomain, typeField, DT, IT, entity;
+ idomain=iold;
+ fileName=MyGlobals::_fileNames[iold];
+ if (MyGlobals::_verbose>10)
+ cout<<"proc "<<MyGlobals::_rank<<" : in "<<fileName<<" "<<iold<<" "<<descriptionIold<<endl;
+ //cout<<"\n\n"<<"ON_CELLS "<<ON_CELLS<<" ON_NODES "<<ON_NODES<<" ON_GAUSS_PT "<<ON_GAUSS_PT<<" ON_GAUSS_NE "<<ON_GAUSS_NE<<endl;;
+ //typeField ON_CELLS 0 ON_NODES 1 ON_GAUSS_PT 2 ON_GAUSS_NE 3;
+ //fieldDescriptionToData(descriptionField, &idomain, &fileName, &meshName, &fieldName, &typeField, &DT, &IT);
+ fieldShortDescriptionToData(descriptionIold, fieldName, typeField, entity, DT, IT);
+ meshName=MyGlobals::_meshNames[iold];
+
+ //MEDCouplingFieldDouble* f2=MEDLoader::ReadFieldCell(
+ // fileName.c_str(), meshName.c_str(), meshDimRelToMax, fieldName.c_str(), DT, IT);
+ MEDCouplingFieldDouble* f2=MEDLoader::ReadField((ParaMEDMEM::TypeOfField) typeField,
+ fileName.c_str(), meshName.c_str(), 0, fieldName.c_str(), DT, IT);
+
+ DataArrayDouble* res=f2->getArray();
+ //to know names of components
+ vector <string> browse=browseFieldDouble(f2);
+ //done yet
+ //double time=f2->getTime(IT,DT);
+ //browse.push_back("time="+doubleToStr(time));
+ string localFieldInformation=descriptionIold+serializeFromVectorOfString(browse);
+ if (MyGlobals::_verbose>10) cout<<"proc "<<MyGlobals::_rank<<" : localFieldInformation : "<<localFieldInformation<<endl;
+ MyGlobals::_generalInformations.push_back(localFieldInformation);
+ res->incrRef(); //free field, keep res
+ f2->decrRef();
+ _mapDataArrayDouble[descriptionIold]=res;
+
+ //duplicate it! because f2->decRef!!
+ //DataArrayDouble* res=f2->getArray()->deepCpy();
+ //f2->decrRef();
+ //cout<<res->reprZip()<<endl;
+ //have to put it in map for next needs.. decRef later...~MESHCollection
+ return res;
+}
+
+void MESHCollection::prepareFieldDescriptions()
+//to have unique valid fields names/pointers/descriptions for partitionning
+//filter _fieldDescriptions to be in all procs compliant and equal
+{
+ int nbfiles=MyGlobals::_fileNames.size(); //nb domains
+ vector<string> r2;
+ //from allgatherv then vector(procs) of serialised vector(fields) of vector(description) data
+ for (int i=0; i<_fieldDescriptions.size(); i++)
+ {
+ vector<string> r1=deserializeToVectorOfString(_fieldDescriptions[i]);
+ for (int i=0; i<r1.size(); i++) r2.push_back(r1[i]);
+ }
+ //here vector(procs*fields) of serialised vector(description) data
+ _fieldDescriptions=r2;
+ int nbfields=_fieldDescriptions.size(); //on all domains
+ if ((nbfields%nbfiles)!=0)
+ {
+ if (MyGlobals::_rank==0)
+ {
+ cerr<<"\nERROR : incoherent number of fields references in all files .med\n"<<endl
+ <<"fileMedNames :"<<endl
+ <<reprVectorOfString(MyGlobals::_fileNames)
+ <<"fieldDescriptions :"<<endl
+ <<reprVectorOfString(MyGlobals::_fieldDescriptions); //cvwat07
+ }
+ throw INTERP_KERNEL::Exception(LOCALIZED("incoherent number of fields references in all files .med\n"));
+ }
+ _fieldDescriptions.resize(nbfields/nbfiles);
+ for (int i=0; i<_fieldDescriptions.size(); i++)
+ {
+ string str=_fieldDescriptions[i];
+ str=eraseTagSerialized(str,"idomain=");
+ str=eraseTagSerialized(str,"fileName=");
+ _fieldDescriptions[i]=str;
+ }
+}
+
+//returns true if inodes of a face are in inodes of a cell
+bool isFaceOncell(vector< int >& inodesFace,vector< int >& inodesCell)
+{
+ int ires=0;
+ int nbok=inodesFace.size();
+ for (int i=0; i<nbok; i++)
+ {
+ int ii=inodesFace[i];
+ if (ii<0) cout<<"isFaceOncell problem inodeface<0"<<endl;
+ for (int j=0; j<inodesCell.size(); j++)
+ {
+ if (ii==inodesCell[j])
+ {
+ ires=ires+1; break; //inode of face found
+ }
+ }
+ if (ires<i+1) break; //inode of face not found do not continue...
+ }
+ return (ires==nbok);
+}
+
+void MESHCollection::filterFaceOnCell()
+{
+ //meshesCells=_mesh;
+ //meshesFaces=_faceMesh;
+ for (int inew=0; inew<_topology->nbDomain(); inew++)
+ {
+ if (isParallelMode() && _domain_selector->isMyDomain(inew))
+ {
+ if (MyGlobals::_verbose>200)
+ std::cout<<"proc "<<MyGlobals::_rank<<" : filterFaceOnCell on inewDomain "<<inew<<
+ " nbOfFaces "<<_faceMesh[inew]->getNumberOfCells()<<endl;
+ ParaMEDMEM::MEDCouplingUMesh* mcel=_mesh[inew];
+ ParaMEDMEM::MEDCouplingUMesh* mfac=_faceMesh[inew];
+
+ //to have cellnode=f(facenode)... inodeCell=nodeIds[inodeFace]
+ vector<int> nodeIds;
+ //cout<<"proc "<<MyGlobals::_rank<<" : nodeIds beg "<<inew<<" "<<mcel<<" "<<mfac<<endl;
+ getNodeIds(*mcel, *mfac, nodeIds);
+ if (nodeIds.size()==0) continue; //one empty mesh nothing to do
+
+ DataArrayInt *revNodalCel=DataArrayInt::New();
+ DataArrayInt *revNodalIndxCel=DataArrayInt::New();
+ mcel->getReverseNodalConnectivity(revNodalCel,revNodalIndxCel);
+ int *revC=revNodalCel->getPointer();
+ int *revIndxC=revNodalIndxCel->getPointer();
+
+ vector< int > faceOnCell;
+ vector< int > faceNotOnCell;
+ int nbface=mfac->getNumberOfCells();
+ for (int iface=0; iface<nbface; iface++)
+ {
+ bool ok;
+ vector< int > inodesFace;
+ mfac->getNodeIdsOfCell(iface, inodesFace);
+ int nbnodFace=inodesFace.size();
+ //set inodesFace in mcel
+ for (int i=0; i<nbnodFace; i++) inodesFace[i]=nodeIds[inodesFace[i]];
+ int inod=inodesFace[0];
+ if (inod<0) cout<<"filterFaceOnCell problem 1"<<endl;
+ int nbcell=revIndxC[inod+1]-revIndxC[inod];
+ for (int j=0; j<nbcell; j++) //look for each cell with inod
+ {
+ int icel=revC[revIndxC[inod]+j];
+ vector< int > inodesCell;
+ mcel->getNodeIdsOfCell(icel, inodesCell);
+ ok=isFaceOncell(inodesFace, inodesCell);
+ if (ok) break;
+ }
+ if (ok)
+ {
+ faceOnCell.push_back(iface);
+ //if (MyGlobals::_is0verbose) cout<<"face on cell "<<iface<<" "<<faceOnCell.size()-1<<endl;
+ }
+ else
+ {
+ faceNotOnCell.push_back(iface);
+ if (MyGlobals::_is0verbose) cout<<"face NOT on cell "<<iface<<" "<<faceOnCell.size()-1<<endl;
+ }
+ }
+
+ revNodalCel->decrRef();
+ revNodalIndxCel->decrRef();
+
+ string cle;
+ cle=cle1ToStr("filterFaceOnCell",inew);
+ _mapDataArrayInt[cle]=createDataArrayIntFromVector(faceOnCell);
+ cle=cle1ToStr("filterNotFaceOnCell",inew);
+ _mapDataArrayInt[cle]=createDataArrayIntFromVector(faceNotOnCell);
+
+ /*ParaMEDMEM::DataArrayInt* index=ParaMEDMEM::DataArrayInt::New();
+ ParaMEDMEM::DataArrayInt* revConn=ParaMEDMEM::DataArrayInt::New();
+ _mesh[idomain]->getReverseNodalConnectivity(revConn,index);
+ int* index_ptr=index->getPointer();*/
+
+ /*if (MyGlobals::_is0verbose)
+ {
+ cout<<"proc "<<MyGlobals::_rank<<" : nodeIds end "<<inew<<" "<<nodeIds.size()<<endl;
+ for (int i=0; i<nodeIds.size(); i++) cout<<" "<<nodeIds[i];
+ cout<<endl;
+ }*/
+
+ }
+ }
+}
+
+/*
+void MESHCollection::buildBoundaryOnCellMeshes()
+//no used... yet
+{
+ //cout<<"buildBoundaryOnCellMeshes"<<endl;
+ //meshesCells=_mesh;
+ //meshesFaces=_faceMesh;
+ for (int inew=0; inew<_topology->nbDomain(); inew++)
+ {
+ if (isParallelMode() && _domain_selector->isMyDomain(inew))
+ {
+ if (MyGlobals::_verbose>1) std::cout<<"proc "<<MyGlobals::_rank<<" : filterFaceOnCell on "<<inew<<" "<<_faceMesh[inew]->getNumberOfCells()<<endl;
+ ParaMEDMEM::MEDCouplingUMesh* mcel=_mesh[inew];
+ //ParaMEDMEM::MEDCouplingUMesh& mfac=_faceMesh[inew];
+
+ DataArrayInt *desc=DataArrayInt::New();
+ DataArrayInt *descIndx=DataArrayInt::New();
+ DataArrayInt *revDesc=DataArrayInt::New();
+ DataArrayInt *revDescIndx=DataArrayInt::New();
+ //
+ MEDCouplingUMesh *meshDM1=mcel->buildDescendingConnectivity(desc,descIndx,revDesc,revDescIndx);
+ revDesc->decrRef();
+ desc->decrRef();
+ descIndx->decrRef();
+ int nbOfCells=meshDM1->getNumberOfCells();
+ const int *revDescIndxC=revDescIndx->getConstPointer();
+ std::vector<int> boundaryCells;
+ for(int i=0; i<nbOfCells; i++)
+ if(revDescIndxC[i+1]-revDescIndxC[i]==1)
+ boundaryCells.push_back(i);
+ revDescIndx->decrRef();
+ bool keepCoords=true;
+ MEDCouplingUMesh *ret=(MEDCouplingUMesh *)meshDM1->buildPartOfMySelf(&boundaryCells[0],&boundaryCells[0]+boundaryCells.size(),keepCoords);
+ meshDM1->decrRef();
+ //don't know what to do with result yet..
+ //_faceMesh[inew]->decrRef();
+ //_faceMesh[inew]=ret;
+ }
+ }
+}
+*/
+
#include "MEDPARTITIONER.hxx"
#include "MEDPARTITIONER_Graph.hxx"
+#include "MEDCouplingUMesh.hxx"
+
//#include "MEDPARTITIONER_FaceModel.hxx"
//#include "boost/shared_ptr.hpp"
#include <vector>
//creation of a user specified partition
Topology* createPartition(const int* partition);
-
- // //retrieving list of types
-// void getTypeList(int* cell_list,int nb_cells,MED_EN::medEntityMesh entity,
-// MED_EN::medGeometryElement* type_list) const ;
-
-// //getting list of coordinates
-// void getCoordinates(int* node_list,int nb_nodes, double* coordinates) const ;
-
-// //getting connectivities
-// void getNodeConnectivity( const int* cell_list,int nb_cells,MED_EN::medEntityMesh,MED_EN::medGeometryElement type, int* type_connectivity) const ;
-// void getPolygonNodeConnectivity(const int* cell_list,int nb_cells,MED_EN::medEntityMesh entity,
-// vector<int>& type_connectivity, vector<int>& connectivity_index) const;
-// void getPolyhedraNodeConnectivity(const int* cell_list,int nb_cells,MED_EN::medEntityMesh entity,
-// vector<int>& type_connectivity, vector<int>& connectivity_index, vector<int>& face_connectivity_index) const;
-
-// void getFaceConnectivity( const int* cell_list,int nb_cells,MED_EN::medEntityMesh,MED_EN::medGeometryElement type, int* type_connectivity) const ;
-
-// //void getFaceConnectivity( const int* cell_list,int nb_cells,MED_EN::medGeometryElement type, int* type_connectivity) const ;
-
-// //getting mesh dimension
+
+ //getting mesh dimension
int getMeshDimension() const ;
-// //getting space dimension
-// int getSpaceDimension() const ;
-
-// //getting system of coordinates
-// std::string getSystem() const;
+ //getting a reference to mesh vector
+ std::vector<ParaMEDMEM::MEDCouplingUMesh*>& getMesh();
+ std::vector<ParaMEDMEM::MEDCouplingUMesh*>& getFaceMesh();
+ std::vector<std::vector<ParaMEDMEM::MEDCouplingUMesh*> >& getGroupMeshes();
-// //getting name of the mesh
-// std::string getMeshName() const;
-
-// //return constituent entity
-// MED_EN::medEntityMesh getSubEntity() const;
-
-// //getting a reference to mesh vector
- std::vector<ParaMEDMEM::MEDCouplingUMesh*>& getMesh() ;
- std::vector<ParaMEDMEM::MEDCouplingUMesh*>& getFaceMesh() ;
- std::vector<std::vector<ParaMEDMEM::MEDCouplingUMesh*> >&getGroupMeshes();
-
ParaMEDMEM::MEDCouplingUMesh* getMesh(int idomain) const;
ParaMEDMEM::MEDCouplingUMesh* getFaceMesh(int idomain);
std::vector<ParaMEDMEM::MEDCouplingUMesh*>& getGroupMeshes(int idomain);
std::vector<ParaMEDMEM::DataArrayInt*>& getCellFamilyIds() {return _cellFamilyIds;}
std::vector<ParaMEDMEM::DataArrayInt*>& getFaceFamilyIds() {return _faceFamilyIds;}
-
- std::map<std::string,int>& getFamilyInfo(){return _familyInfo;}
- std::map<std::string, std::vector<std::string> >& getGroupInfo(){return _groupInfo;}
-
-// //getting a reference to connect zones vector
+
+ std::map<std::string, ParaMEDMEM::DataArrayInt*>& getMapDataArrayInt() {return _mapDataArrayInt;}
+ std::map<std::string, ParaMEDMEM::DataArrayDouble*>& getMapDataArrayDouble() {return _mapDataArrayDouble;}
+
+ std::map<std::string,int>& getFamilyInfo() {return _familyInfo;}
+ std::map<std::string, std::vector<std::string> >& getGroupInfo() {return _groupInfo;}
+
+ ParaMEDMEM::DataArrayDouble* getField(std::string descriptionField, int iold);
+ std::vector<std::string>& getFieldDescriptions() {return _fieldDescriptions;}
+ void prepareFieldDescriptions();
+ void filterFaceOnCell();
+
+ //getting a reference to connect zones vector
std::vector<MEDPARTITIONER::CONNECTZONE*>& getCZ();
//getting a pointer to topology
Topology* getTopology() const ;
ParaDomainSelector* getParaDomainSelector() const{return _domain_selector;}
- //settig a new topology
+ //settig a new topology
void setTopology(Topology* topology);
//getting/setting the name of the global mesh (as opposed
void setDescription(const std::string& name) { _description=name;}
//creates the node mapping between an old collection and the present one
- void createNodeMapping( MESHCollection& initialCollection, std::multimap<std::pair<int,int>,std::pair<int,int> >& nodeMapping);
+ void createNodeMapping(MESHCollection& initialCollection,
+ std::multimap<std::pair<int,int>,std::pair<int,int> >& nodeMapping);
- void castCellMeshes(MESHCollection& initialCollection, std::vector<std::vector<std::vector<int> > >& new2oldIds);
+ void castCellMeshes(MESHCollection& initialCollection,
+ std::vector<std::vector<std::vector<int> > >& new2oldIds);
+
//creates faces on the new collection
- void castFaceMeshes( MESHCollection& initialCollection,const std::multimap<std::pair<int,int>,std::pair<int,int> >& nodeMapping);
+ void castFaceMeshes(MESHCollection& initialCollection,
+ const std::multimap<std::pair<int,int>, std::pair<int,int> >& nodeMapping,
+ std::vector<std::vector<std::vector<int> > >& new2oldIds);
- //creates faces on the new collection
- void castMeshes(std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshCastFrom,std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshCastTo, MESHCollection& initialCollection,const std::multimap<std::pair<int,int>,std::pair<int,int> >& nodeMapping, std::vector<std::vector<std::vector<int> > >& old2newIds);
-
private:
-
- void castIntField(std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastFrom,std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastTo, std::vector<ParaMEDMEM::DataArrayInt*>& arrayFrom, std::vector<ParaMEDMEM::DataArrayInt*>& arrayTo);
+ void castIntField2(std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastFrom,
+ std::vector<ParaMEDMEM::MEDCouplingUMesh*>& meshesCastTo,
+ std::vector<ParaMEDMEM::DataArrayInt*>& arrayFrom,
+ std::string nameArrayTo);
+
+ void castAllFields(MESHCollection& initialCollection,
+ std::string nameArrayTo);
void findCommonDistantNodes(std::vector<std::vector<std::multimap<int,int> > >& commonDistantNodes);
-void remapIntField(const ParaMEDMEM::MEDCouplingUMesh& sourceMesh,
- const ParaMEDMEM::MEDCouplingUMesh& targetMesh,
- const int* fromArray,
- int* toArray);
+ void remapIntField(const ParaMEDMEM::MEDCouplingUMesh& sourceMesh,
+ const ParaMEDMEM::MEDCouplingUMesh& targetMesh,
+ const int* fromArray,
+ int* toArray);
+
+ void remapIntField2(int inew, int iold,
+ const ParaMEDMEM::MEDCouplingUMesh& sourceMesh,
+ const ParaMEDMEM::MEDCouplingUMesh& targetMesh,
+ const int* fromArray,
+ std::string nameArrayTo);
+
+ void remapDoubleField3(int inew, int iold,
+ ParaMEDMEM::DataArrayDouble* fromArray,
+ std::string nameArrayTo,
+ std::string descriptionField);
//!link to mesh_collection topology
- Topology* _topology;
+ Topology* _topology;
//!control over topology
- bool _owns_topology;
+ bool _owns_topology;
//!link to graph
- // Graph* _cell_graph;
+ //Graph* _cell_graph;
//! Driver for read/write operations
- MESHCollectionDriver* _driver;
+ MESHCollectionDriver* _driver;
//! Parallelizer - mark of parallel execution mode
- ParaDomainSelector* _domain_selector;
+ ParaDomainSelector* _domain_selector;
//!links to meshes
- std::vector<ParaMEDMEM::MEDCouplingUMesh*> _mesh;
- std::vector<ParaMEDMEM::MEDCouplingUMesh*> _faceMesh;
+ std::vector<ParaMEDMEM::MEDCouplingUMesh*> _mesh;
+ std::vector<ParaMEDMEM::MEDCouplingUMesh*> _faceMesh;
- //!index of a non empty mesh within _mesh (in parallel mode all of meshes can be empty)
- int _i_non_empty_mesh;
+ //!index of a non empty mesh within _mesh (in parallel mode all of meshes can be empty)
+ int _i_non_empty_mesh;
//!links to connectzones
std::vector<MEDPARTITIONER::CONNECTZONE*> _connect_zones;
//!family ids storages
std::vector<ParaMEDMEM::DataArrayInt*> _cellFamilyIds;
std::vector<ParaMEDMEM::DataArrayInt*> _faceFamilyIds;
-
+
+ //!DataArrayInt* storages
+ std::map<std::string, ParaMEDMEM::DataArrayInt*> _mapDataArrayInt;
+ //!DataArrayDouble* storages
+ std::map<std::string, ParaMEDMEM::DataArrayDouble*> _mapDataArrayDouble;
+
+ std::vector<std::string> _fieldDescriptions; //fields to be partitioned
+
//!group family conversion
- std::map<std::string,int> _familyInfo;
+ std::map<std::string, int> _familyInfo;
std::map<std::string, std::vector<std::string> > _groupInfo;
//!list of groups that are not to be splitted
- std::vector<std::string> _indivisible_regions;
+ std::vector<std::string> _indivisible_regions;
//!name of global mesh
- std::string _name;
+ std::string _name;
//!description of global mesh
- std::string _description;
+ std::string _description;
//! specifies the driver associated to the collection
- DriverType _driver_type;
+ DriverType _driver_type;
/*! flag specifying that the splitter should create boundary constituent entity
so that they are written in joints*/
- bool _subdomain_boundary_creates;
+ bool _subdomain_boundary_creates;
/*! flag specifying that families must be preserved by the
splitting*/
- bool _family_splitting;
+ bool _family_splitting;
/*! flag specifying that groups must be created on all domains,
even if they are empty*/
- bool _create_empty_groups;
+ bool _create_empty_groups;
JointFinder* _joint_finder;
};
#include <sys/time.h>
#include "MEDCouplingUMesh.hxx"
+#include "MEDCouplingFieldDouble.hxx"
#include "MEDLoader.hxx"
#include "MEDFileMesh.hxx"
-#include "MEDMEM_Exception.hxx"
+
extern "C" {
#include "med.h"
}
#include "MEDPARTITIONER_MESHCollectionDriver.hxx"
#include "MEDPARTITIONER_MESHCollection.hxx"
#include "MEDPARTITIONER_ParaDomainSelector.hxx"
+#include "MEDPARTITIONER_utils.hxx"
using namespace MEDPARTITIONER;
+using namespace std;
//template inclusion
//#include "MEDPARTITIONER_MESHCollectionDriver.H"
* */
int MESHCollectionDriver::readSeq(const char* filename, const char* meshname)
{
- //const char* LOC = "MEDPARTITIONER::MESHCollectionDriver::readSeq()";
- // BEGIN_OF_MED(LOC);
-
- _filename.resize(1);
- _filename[0]=string(filename);
+ cout<<"readSeq"<<endl;
+ MyGlobals::_fileNames.resize(1);
+ MyGlobals::_fileNames[0]=string(filename);
ParaMEDMEM::MEDFileUMesh* mfm=ParaMEDMEM::MEDFileUMesh::New(filename,meshname);
//puts the only mesh in the mesh vector
(_collection->getCZ()).clear();
+ /*cvw
vector<int*> cellglobal,nodeglobal,faceglobal;
cellglobal.resize(1);
nodeglobal.resize(1);
//connectzone argument is 0
ParallelTopology* aPT = new ParallelTopology
((_collection->getMesh()), (_collection->getCZ()), cellglobal, nodeglobal, faceglobal);
+ */
+
+ ParallelTopology* aPT = new ParallelTopology((_collection->getMesh()));
_collection->setTopology(aPT);
_collection->setName(meshname);
_collection->setDomainNames(meshname);
-
- // END_OF_MED(LOC);
return 0;
}
*/
//================================================================================
-
-void MESHCollectionDriver::readSubdomain(vector<int*>& cellglobal,
+void MESHCollectionDriver::readSubdomain(vector<int*>& cellglobal, //cvwat03
vector<int*>& faceglobal,
vector<int*>& nodeglobal, int idomain)
{
- string meshname=_meshname[idomain];
- string file=_filename[idomain];
+ string meshname=MyGlobals::_meshNames[idomain];
+ string file=MyGlobals::_fileNames[idomain];
- cout << "Reading "<<_meshname[idomain]<<" in "<<_filename[idomain]<<endl;
+ //cout << "Reading "<<meshname<<" in "<<file<<endl; //cvw
ParaMEDMEM::MEDFileUMesh* mfm=ParaMEDMEM::MEDFileUMesh::New(file.c_str(),meshname.c_str());
- (_collection->getMesh())[idomain]=mfm->getLevel0Mesh(false);
- (_collection->getFaceMesh())[idomain]=mfm->getLevelM1Mesh(false);
+ vector<int> nonEmpty=mfm->getNonEmptyLevels();
+
+ try
+ {
+ (_collection->getMesh())[idomain]=mfm->getLevel0Mesh(false);
+ //reading families groups
+ ParaMEDMEM::DataArrayInt* cellIds(mfm->getFamilyFieldAtLevel(0)->deepCpy());
+ (_collection->getCellFamilyIds())[idomain]=cellIds;
+ }
+ catch(...)
+ {
+ (_collection->getMesh())[idomain]=createEmptyMEDCouplingUMesh(); // or 0 if you want tests;
+ ParaMEDMEM::DataArrayInt* empty=ParaMEDMEM::DataArrayInt::New();
+ empty->alloc(0,1);
+ (_collection->getCellFamilyIds())[idomain]=empty;
+ cout<<"\nNO Level0Mesh (Cells)\n";
+ }
+ try
+ {
+ if (nonEmpty.size()>1 && nonEmpty[1]==-1)
+ {
+ (_collection->getFaceMesh())[idomain]=mfm->getLevelM1Mesh(false);
+ //reading families groups
+ ParaMEDMEM::DataArrayInt* faceIds(mfm->getFamilyFieldAtLevel(-1)->deepCpy());
+ (_collection->getFaceFamilyIds())[idomain]=faceIds;
+ }
+ else
+ {
+ throw "no faces";
+ }
+ }
+ catch(...)
+ {
+ //ParaMEDMEM::MEDCouplingUMesh *umesh=ParaMEDMEM::MEDCouplingUMesh::New(); //empty one
+ //umesh->setMeshDimension(3);
+ //umesh->allocateCells(0);
+ //int nb=umesh->getNumberOfCells(); //no use if no allocateCells(0)! because thrown exception
+ //cout<<"\nempty mesh"<<nb<<endl;
+
+ (_collection->getFaceMesh())[idomain]=createEmptyMEDCouplingUMesh(); // or 0 if you want test;
+ ParaMEDMEM::DataArrayInt* empty=ParaMEDMEM::DataArrayInt::New();
+ (_collection->getFaceFamilyIds())[idomain]=empty;
+ if (MyGlobals::_verbose>10) cout<<"proc "<<MyGlobals::_rank<<" : NO LevelM1Mesh (Faces)\n";
+ }
+
+ //reading groups
+ _collection->getFamilyInfo()=mfm->getFamilyInfo();
+ _collection->getGroupInfo()=mfm->getGroupInfo();
+
+ mfm->decrRef();
+
+ vector<string> localInformation;
+ string str;
+ localInformation.push_back(str+"ioldDomain="+intToStr(idomain));
+ localInformation.push_back(str+"meshName="+meshname);
+ MyGlobals::_generalInformations.push_back(serializeFromVectorOfString(localInformation));
+ vector<string> localFields=browseAllFieldsOnMesh(file, meshname, idomain); //cvwat07
+ if (localFields.size()>0)
+ MyGlobals::_fieldDescriptions.push_back(serializeFromVectorOfString(localFields));
+ //cout<< "End Reading "<<meshname<<" in "<<file<<endl;
+}
- //reading families
-
- ParaMEDMEM::DataArrayInt* cellIds(mfm->getFamilyFieldAtLevel(0)->deepCpy());
- ParaMEDMEM::DataArrayInt* faceIds(mfm->getFamilyFieldAtLevel(-1)->deepCpy());
- (_collection->getCellFamilyIds())[idomain]=cellIds;
- (_collection->getFaceFamilyIds())[idomain]=faceIds;
+void MESHCollectionDriver::readSubdomain(int idomain)
+{
+ string meshname=MyGlobals::_meshNames[idomain];
+ string file=MyGlobals::_fileNames[idomain];
+ //cout << "Reading "<<meshname<<" in "<<file<<endl; //cvw
+
+ ParaMEDMEM::MEDFileUMesh* mfm=ParaMEDMEM::MEDFileUMesh::New(file.c_str(),meshname.c_str());
+ vector<int> nonEmpty=mfm->getNonEmptyLevels();
+
+ try
+ {
+ (_collection->getMesh())[idomain]=mfm->getLevel0Mesh(false);
+ //reading families groups
+ ParaMEDMEM::DataArrayInt* cellIds(mfm->getFamilyFieldAtLevel(0)->deepCpy());
+ (_collection->getCellFamilyIds())[idomain]=cellIds;
+ }
+ catch(...)
+ {
+ (_collection->getMesh())[idomain]=createEmptyMEDCouplingUMesh(); // or 0 if you want tests;
+ ParaMEDMEM::DataArrayInt* empty=ParaMEDMEM::DataArrayInt::New();
+ empty->alloc(0,1);
+ (_collection->getCellFamilyIds())[idomain]=empty;
+ cout<<"\nNO Level0Mesh (Cells)\n";
+ }
+ try
+ {
+ if (nonEmpty.size()>1 && nonEmpty[1]==-1)
+ {
+ (_collection->getFaceMesh())[idomain]=mfm->getLevelM1Mesh(false);
+ //reading families groups
+ ParaMEDMEM::DataArrayInt* faceIds(mfm->getFamilyFieldAtLevel(-1)->deepCpy());
+ (_collection->getFaceFamilyIds())[idomain]=faceIds;
+ }
+ else
+ {
+ throw "no faces";
+ }
+ }
+ catch(...)
+ {
+ (_collection->getFaceMesh())[idomain]=createEmptyMEDCouplingUMesh(); // or 0 if you want test;
+ ParaMEDMEM::DataArrayInt* empty=ParaMEDMEM::DataArrayInt::New();
+ (_collection->getFaceFamilyIds())[idomain]=empty;
+ if (MyGlobals::_verbose>10) cout<<"proc "<<MyGlobals::_rank<<" : NO LevelM1Mesh (Faces)\n";
+ }
+
//reading groups
_collection->getFamilyInfo()=mfm->getFamilyInfo();
_collection->getGroupInfo()=mfm->getGroupInfo();
- cout <<"End of Read"<<endl;
-
mfm->decrRef();
+
+ vector<string> localInformation;
+ string str;
+ localInformation.push_back(str+"ioldDomain="+intToStr(idomain));
+ localInformation.push_back(str+"meshName="+meshname);
+ MyGlobals::_generalInformations.push_back(serializeFromVectorOfString(localInformation));
+ vector<string> localFields=browseAllFieldsOnMesh(file, meshname, idomain); //cvwat07
+ if (localFields.size()>0)
+ MyGlobals::_fieldDescriptions.push_back(serializeFromVectorOfString(localFields));
+ //cout<< "End Reading "<<meshname<<" in "<<file<<endl;
}
{
vector<const ParaMEDMEM::MEDCouplingUMesh*> meshes;
ParaMEDMEM::MEDCouplingUMesh* cellMesh=_collection->getMesh(idomain);
- ParaMEDMEM::MEDCouplingUMesh*faceMesh =_collection->getFaceMesh(idomain);
+ ParaMEDMEM::MEDCouplingUMesh* faceMesh=_collection->getFaceMesh(idomain);
+ ParaMEDMEM::MEDCouplingUMesh* faceMeshFilter=0;
+ string finalMeshName=extractFromDescription(MyGlobals::_generalInformations[0], "finalMeshName=");
+ string cleFilter=cle1ToStr("filterFaceOnCell",idomain);
+ DataArrayInt* filter=0;
+ if (_collection->getMapDataArrayInt().find(cleFilter)!=_collection->getMapDataArrayInt().end())
+ {
+ filter=_collection->getMapDataArrayInt().find(cleFilter)->second;
+ int* index=filter->getPointer();
+ faceMeshFilter=(MEDCouplingUMesh *) faceMesh->buildPartOfMySelf(index,index+filter->getNbOfElems(),true);
+ faceMesh=faceMeshFilter;
+ }
+ cellMesh->setName(finalMeshName.c_str());
meshes.push_back(cellMesh);
- // faceMesh->zipCoords();
+
+ //cellMesh->zipCoords();
+ //faceMesh->zipCoords();
+
faceMesh->checkCoherency();
- faceMesh->tryToShareSameCoordsPermute(*cellMesh,1e-10);
- meshes.push_back(faceMesh);
- MEDLoader::WriteUMeshes(distfilename.c_str(), meshes,true);
- ParaMEDMEM::MEDFileUMesh* mfm=ParaMEDMEM::MEDFileUMesh::New(distfilename.c_str(),_collection->getMesh(idomain)->getName());
- mfm->setFamilyFieldArr(-1,(_collection->getFaceFamilyIds())[idomain]);
+ if (faceMesh->getNumberOfCells()>0)
+ {
+ faceMesh->tryToShareSameCoordsPermute(*cellMesh, 1e-10);
+ meshes.push_back(faceMesh);
+ }
+
+ /*do not work
+ ParaMEDMEM::MEDFileUMesh* mfm2=ParaMEDMEM::MEDFileUMesh::New();
+ MEDFileUMesh* mfm2 = static_cast<MEDFileUMesh*>(cellMesh->getMeshes()->getMeshAtPos(0));
+ MEDFileUMesh* mfm2 = ParaMEDMEM::MEDFileUMesh::New(cellMesh);
+ string fname="FUM_"+distfilename;
+ mfm2->setMeshAtLevel(0, cellMesh );
+ mfm2->setMeshAtLevel(-1, faceMesh );
+ mfm2->write(fname.c_str(),0);
+ mfm2->decrRef();
+ */
+
+ ParaMEDMEM::MEDCouplingUMesh* boundaryMesh=0;
+ //ParaMEDMEM::MEDCouplingUMesh* boundaryMesh1=0;
+ //ParaMEDMEM::MEDCouplingUMesh* finalboundaryMesh=0;
+ if (MyGlobals::_creates_boundary_faces>0)
+ {
+ //try to write Boundary meshes
+ bool keepCoords=false; //TODO or true
+ boundaryMesh=(MEDCouplingUMesh *) cellMesh->buildBoundaryMesh(keepCoords);
+ boundaryMesh->setName("boundaryMesh");
+ //cout<<"boundaryMesh "<<boundaryMesh->getNumberOfCells()<<endl;
+ //do not work if faceMesh present yet //The mesh dimension of meshes must be different each other!
+ //boundaryMesh->checkCoherency();
+ //boundaryMesh->tryToShareSameCoordsPermute(*cellMesh, 1e-10);
+ //meshes.push_back(boundaryMesh);
+ //string boundary="boundary_"+distfilename;
+
+ /*try to find joint do no work
+ int rang=MyGlobals::_rank;
+ if (rang==1) (_collection->getParaDomainSelector())->sendMesh(*(boundaryMesh),0);
+ if (rang==0)
+ {
+ (_collection->getParaDomainSelector())->recvMesh(boundaryMesh1,1);
+ //vector<const ParaMEDMEM::MEDCouplingUMesh*> meshes;
+ //vector<DataArrayInt* > corr;
+ //meshes.push_back(boundaryMesh);
+ //meshes.push_back(boundaryMesh1);
+ //need share the same coords
+ //boundaryMesh1->tryToShareSameCoordsPermute(*boundaryMesh, 1e-10);
+ //finalboundaryMesh=MEDCouplingUMesh::FuseUMeshesOnSameCoords(meshes,2, corr);
+ //boundaryMesh=finalboundaryMesh;
+
+ boundaryMesh->zipCoords();
+ boundaryMesh1->zipCoords();
+ finalboundaryMesh=MEDCouplingUMesh::MergeUMeshes(boundaryMesh,boundaryMesh1);
+ DataArrayInt* commonNodes=0;
+ commonNodes=finalboundaryMesh->zipCoordsTraducer();
+ boundaryMesh=finalboundaryMesh;
+ cout<<"zipcoords"<<commonNodes->repr()<<endl;
+ }
+ */
+ }
+
+ MEDLoader::WriteUMeshes(distfilename.c_str(), meshes, true);
+ if (faceMeshFilter!=0) faceMeshFilter->decrRef();
+
+
+ if (boundaryMesh!=0)
+ {
+ //doing that testMesh becomes second mesh sorted by alphabetical order of name
+ MEDLoader::WriteUMesh(distfilename.c_str(), boundaryMesh, false);
+ boundaryMesh->decrRef();
+ }
+
+ //cout<<"familyInfo :\n"<<reprMapOfStringInt(_collection->getFamilyInfo())<<endl;
+ //cout<<"groupInfo :\n"<<reprMapOfStringVectorOfString(_collection->getGroupInfo())<<endl;
+
+ ParaMEDMEM::MEDFileUMesh* mfm=ParaMEDMEM::MEDFileUMesh::New(distfilename.c_str(), _collection->getMesh(idomain)->getName());
+
+ /*example of adding new family
+ (_collection->getFamilyInfo())["FaceNotOnCell"]=-500;
+ vector<string> FaceNotOnCell;
+ FaceNotOnCell.push_back("FaceNotOnCell");
+ (_collection->getGroupInfo())["FaceNotOnCell"]=FaceNotOnCell;
+ */
+
mfm->setFamilyInfo(_collection->getFamilyInfo());
mfm->setGroupInfo(_collection->getGroupInfo());
+
+ //cvwat08
+ //without filter mfm->setFamilyFieldArr(-1,(_collection->getFaceFamilyIds())[idomain]);
+
+ string cle=cle1ToStr("faceFamily_toArray",idomain);
+ if (_collection->getMapDataArrayInt().find(cle)!=_collection->getMapDataArrayInt().end())
+ {
+ DataArrayInt* fam=_collection->getMapDataArrayInt().find(cle)->second;
+ DataArrayInt* famFilter=0;
+ if (filter!=0)
+ {
+ int* index=filter->getPointer();
+ int nbTuples=filter->getNbOfElems();
+ //not the good one...buildPartOfMySelf do not exist for DataArray
+ //Filter=fam->renumberAndReduce(index, filter->getNbOfElems());
+ famFilter=DataArrayInt::New();
+ famFilter->alloc(nbTuples,1);
+ int* pfamFilter=famFilter->getPointer();
+ int* pfam=fam->getPointer();
+ for (int i=0; i<nbTuples; i++) pfamFilter[i]=pfam[index[i]];
+ fam=famFilter;
+ mfm->setFamilyFieldArr(-1,fam);
+ famFilter->decrRef();
+ }
+ //cout<<"proc "<<MyGlobals::_rank<<"cvw111 "<<nbTuples<<endl;
+ //mfm->setFamilyFieldArr(-1,fam);
+ // if (famFilter!=0) famFilter->decrRef();
+ }
+
+ /*example visualisation of filter
+ if (_collection->getMapDataArrayInt().find(cle)!=_collection->getMapDataArrayInt().end())
+ {
+ DataArrayInt* fam=_collection->getMapDataArrayInt().find(cle)->second;
+ string cle2=cle1ToStr("filterNotFaceOnCell",idomain);
+ if (_collection->getMapDataArrayInt().find(cle2)!=_collection->getMapDataArrayInt().end())
+ {
+ DataArrayInt* filter=_collection->getMapDataArrayInt().find(cle2)->second;
+ int* index=filter->getPointer();
+ int* pfam=fam->getPointer();
+ for (int i=0; i<filter->getNbOfElems(); i++) pfam[index[i]]=-500;
+ }
+ mfm->setFamilyFieldArr(-1,fam);
+ //mfm->setFamilyFieldArr(-1,_collection->getMapDataArrayInt().find(cle)->second);
+ }
+ */
+
+ cle=cle1ToStr("cellFamily_toArray",idomain);
+ if (_collection->getMapDataArrayInt().find(cle)!=_collection->getMapDataArrayInt().end())
+ mfm->setFamilyFieldArr(0,_collection->getMapDataArrayInt().find(cle)->second);
+
mfm->write(distfilename.c_str(),0);
+ cle="/inewFieldDouble="+intToStr(idomain)+"/";
+
+ map<string,ParaMEDMEM::DataArrayDouble*>::iterator it;
+ int nbfFieldFound=0;
+ for (it=_collection->getMapDataArrayDouble().begin() ; it!=_collection->getMapDataArrayDouble().end(); it++)
+ {
+ string desc=(*it).first;
+ size_t found=desc.find(cle);
+ if (found==string::npos) continue;
+ if (MyGlobals::_verbose>20) cout<<"proc "<<MyGlobals::_rank<<" : write field "<<desc<<endl;
+ string meshName, fieldName;
+ int typeField, DT, IT, entity;
+ fieldShortDescriptionToData(desc, fieldName, typeField, entity, DT, IT);
+ double time=strToDouble(extractFromDescription(desc, "time="));
+ int typeData=strToInt(extractFromDescription(desc, "typeData="));
+ //int nbPtGauss=strToInt(extractFromDescription(desc, "nbPtGauss="));
+ string entityName=extractFromDescription(desc, "entityName=");
+ MEDCouplingFieldDouble* field=0;
+ if (typeData!=6)
+ {
+ cout<<"WARNING : writeMedFile : typeData "<<typeData<<" not implemented for fields\n";
+ continue;
+ }
+ if (entityName=="MED_CELL")
+ {
+ //there is a field of idomain to write
+ field=MEDCouplingFieldDouble::New(ON_CELLS,ONE_TIME);
+ }
+ if (entityName=="MED_NODE_ELEMENT")
+ {
+ //there is a field of idomain to write
+ field=MEDCouplingFieldDouble::New(ON_GAUSS_NE,ONE_TIME);
+ }
+ if (!field)
+ {
+ cout<<"WARNING : writeMedFile : entityName "<<entityName<<" not implemented for fields\n";
+ continue;
+ }
+ nbfFieldFound++;
+ field->setName(fieldName.c_str());
+ field->setMesh(mfm->getLevel0Mesh(false));
+ DataArrayDouble* da=(*it).second;
+
+ //get information for components etc..
+ vector<string> r1;
+ r1=selectTagsInVectorOfString(MyGlobals::_generalInformations,"fieldName="+fieldName);
+ r1=selectTagsInVectorOfString(r1,"typeField="+intToStr(typeField));
+ r1=selectTagsInVectorOfString(r1,"DT="+intToStr(DT));
+ r1=selectTagsInVectorOfString(r1,"IT="+intToStr(IT));
+ //not saved in file? field->setDescription(extractFromDescription(r1[0], "fieldDescription=").c_str());
+ int nbc=strToInt(extractFromDescription(r1[0], "nbComponents="));
+ //double time=strToDouble(extractFromDescription(r1[0], "time="));
+ if (nbc==da->getNumberOfComponents())
+ {
+ for (int i=0; i<nbc; i++)
+ da->setInfoOnComponent(i,extractFromDescription(r1[0], "componentInfo"+intToStr(i)+"=").c_str());
+ }
+ else
+ {
+ cerr<<"Problem On field "<<fieldName<<" : number of components unexpected "<<da->getNumberOfComponents()<<endl;
+ }
+
+ field->setArray(da);
+ field->setTime(time,DT,IT);
+ field->checkCoherency();
+ try
+ {
+ MEDLoader::WriteField(distfilename.c_str(),field,false);
+ //if entityName=="MED_NODE_ELEMENT"
+ //AN INTERP_KERNEL::EXCEPTION HAS BEEN THROWN : Not implemented other profile fitting from already written mesh for fields than on NODES and on CELLS.**********
+ //modification MEDLoader.cxx done
+ }
+ catch(INTERP_KERNEL::Exception& e)
+ {
+ //cout trying rewrite all data, only one field defined
+ string tmp,newName=distfilename;
+ tmp+="_"+fieldName+"_"+intToStr(nbfFieldFound)+".med";
+ newName.replace(newName.find(".med"),4,tmp);
+ cout<<"WARNING : writeMedFile : new file name with only one field :"<<newName<<endl;
+ MEDLoader::WriteField(newName.c_str(),field,true);
+ }
+ //cout<<"proc "<<MyGlobals::_rank<<" : write field "<<cle<<" done"<<endl;
+ }
+
mfm->decrRef();
- // writeSubdomain(idomain, nbdomains, distfilename.c_str(), domainSelector);
+
}
+
+/*
+void writeFieldNodeCellTryingToFitExistingMesh(const char *fileName, const ParaMEDMEM::MEDCouplingFieldDouble *f)
+{
+ med_int numdt,numo;
+ med_float dt;
+ int nbComp=f->getNumberOfComponents();
+ med_idt fid=appendFieldSimpleAtt(fileName,f,numdt,numo,dt);
+ std::list<MEDLoader::MEDFieldDoublePerCellType> split;
+ prepareCellFieldDoubleForWriting(f,thisMeshCellIdsPerType,split);
+ const double *pt=f->getArray()->getConstPointer();
+ int number=0;
+ for(std::list<MEDLoader::MEDFieldDoublePerCellType>::const_iterator iter=split.begin();iter!=split.end();iter++)
+ {
+ INTERP_KERNEL::AutoPtr<char> nommaa=MEDLoaderBase::buildEmptyString(MED_NAME_SIZE);
+ MEDLoaderBase::safeStrCpy(f->getMesh()->getName(),MED_NAME_SIZE,nommaa,MEDLoader::_TOO_LONG_STR);
+ INTERP_KERNEL::AutoPtr<char> profileName=MEDLoaderBase::buildEmptyString(MED_NAME_SIZE);
+ std::ostringstream oss; oss << "Pfl" << f->getName() << "_" << number++;
+ MEDLoaderBase::safeStrCpy(oss.str().c_str(),MED_NAME_SIZE,profileName,MEDLoader::_TOO_LONG_STR);
+ const std::vector<int>& ids=(*iter).getCellIdPerType();
+ int *profile=new int [ids.size()];
+ std::transform(ids.begin(),ids.end(),profile,std::bind2nd(std::plus<int>(),1));
+ MEDprofileWr(fid,profileName,ids.size(),profile);
+ delete [] profile;
+ MEDfieldValueWithProfileWr(fid,f->getName(),numdt,numo,dt,MED_NODE_CELL,typmai3[(int)(*iter).getType()],MED_COMPACT_PFLMODE,profileName,
+ MED_NO_LOCALIZATION,MED_FULL_INTERLACE,MED_ALL_CONSTITUENT,(*iter).getNbOfTuple(),(const unsigned char*)pt);
+ pt+=(*iter).getNbOfTuple()*nbComp;
+ }
+ MEDfileClose(fid);
+}*/
+
#define MEDPARTITIONER_MESHCOLLECTIONDRIVER_HXX_
#include "MEDPARTITIONER.hxx"
+
+#include <vector>
#include <string>
namespace MEDPARTITIONER
int readSeq(const char*,const char*);
virtual void write(const char*, ParaDomainSelector* sel=0)=0;
-// virtual void readFields (vector <MEDMEM::FIELD<int> *>& filenames, char* fieldname,
-// int itnumber, int ordernumber) =0;
-// virtual void readFields (vector <MEDMEM::FIELD<double> *>& filenames, char* fieldname,
-// int itnumber, int ordernumber) =0;
-// virtual void writeFields(vector <MEDMEM::FIELD<int> *>& filenames, char* fieldname)=0;
-// virtual void writeFields(vector <MEDMEM::FIELD<double> *>& filenames, char* fieldname)=0;
-
-// void readFileStruct(vector <string>& field_names,vector<int>& iternumber,vector <int>& ordernumber,vector <int> & types);
-
-// int getFieldType(const std::string& fieldname);
-// // void exportFamily(vector<int*>,MED_EN::medEntityMesh, const string& name);
-
-// void readLoc2GlobCellConnect(int idomain, const set<int>& loc_domains, ParaDomainSelector* ds,
-// vector<int> & loc2glob_corr);
-
-// int readMeshDimension() const;
protected:
- void readSubdomain(vector<int*>& cellglobal,
- vector<int*>& faceglobal,
- vector<int*>& nodeglobal, int idomain);
+ void readSubdomain(std::vector<int*>& cellglobal,
+ std::vector<int*>& faceglobal,
+ std::vector<int*>& nodeglobal, int idomain);
+ void readSubdomain(int idomain);
void writeMedFile(int idomain, const std::string& distfilename);
-// void writeElementJoint(medEntityMesh entity ,
-// int icz,
-// int idomain,
-// int idistant,
-// char* mesh_name,
-// char* joint_name,
-// med_2_3::med_idt fid );
-// void jointSort(int* elems, int nbelems, bool is_first);
-
-
MESHCollection* _collection;
- std::vector <std::string> _filename;
- std::vector <std::string> _meshname;
+ //to Globals
+ //std::vector <std::string> _filename;
+ //std::vector <std::string> _meshname;
};
#include <libxml/xpathInternals.h>
#include <sys/time.h>
-//Debug macros
-#include "MEDMEM_Exception.hxx"
#include "MEDCouplingUMesh.hxx"
#include "MEDLoader.hxx"
#include "MEDPARTITIONER_MESHCollection.hxx"
#include "MEDPARTITIONER_MESHCollectionMedAsciiDriver.hxx"
#include "MEDPARTITIONER_ParaDomainSelector.hxx"
+#include "MEDPARTITIONER_utils.hxx"
using namespace MEDPARTITIONER;
+using namespace std;
//template inclusion
//#include "MEDPARTITIONER_MESHCollectionMedAsciiDriver.H"
int MESHCollectionMedAsciiDriver::read(const char* filename, ParaDomainSelector* domainSelector)
{
-
- //ditributed meshes
+ //distributed meshes
vector<int*> cellglobal;
vector<int*> nodeglobal;
vector<int*> faceglobal;
-
int nbdomain;
// reading ascii master file
- try{
+ try
+ {
ifstream asciiinput(filename);
-
- if (!asciiinput)
- throw INTERP_KERNEL::Exception("MEDPARTITIONER read - Master File does not exist");
-
+ if (!asciiinput) throw INTERP_KERNEL::Exception(LOCALIZED("Master ASCII File does not exist"));
char charbuffer[512];
asciiinput.getline(charbuffer,512);
//reading number of domains
nbdomain=atoi(charbuffer);
- cout << "nb domain "<<nbdomain<<endl;
+ //cout << "nb domain "<<nbdomain<<endl;
// asciiinput>>nbdomain;
- _filename.resize(nbdomain);
- _meshname.resize(nbdomain);
+ MyGlobals::_fileNames.resize(nbdomain);
+ MyGlobals::_meshNames.resize(nbdomain);
(_collection->getMesh()).resize(nbdomain);
cellglobal.resize(nbdomain);
nodeglobal.resize(nbdomain);
faceglobal.resize(nbdomain);
- if (nbdomain == 0)
- throw INTERP_KERNEL::Exception("Empty ASCII master file");
+ if (nbdomain == 0) throw INTERP_KERNEL::Exception(LOCALIZED("Empty ASCII master file"));
for (int i=0; i<nbdomain;i++)
{
-
//reading information about the domain
string mesh;
int idomain;
cellglobal[i]=0;
faceglobal[i]=0;
nodeglobal[i]=0;
+
+ asciiinput >> mesh >> idomain >> MyGlobals::_meshNames[i] >> host >> MyGlobals::_fileNames[i];
- asciiinput >> mesh >> idomain >> _meshname[i] >> host >> _filename[i];
-
- //Setting the name of the global mesh (which is the same
- //for all the subdomains)
+ //Setting the name of the global mesh (which should be is the same for all the subdomains)
if (i==0)
_collection->setName(mesh);
if (idomain!=i+1)
{
- cerr<<"Error : domain must be written from 1 to N in asciifile descriptor"<<endl;
- return 1;
+ throw INTERP_KERNEL::Exception(LOCALIZED("domain must be written from 1 to N in ASCII file descriptor"));
}
if ( !domainSelector || domainSelector->isMyDomain(i))
readSubdomain(cellglobal,faceglobal,nodeglobal, i);
}//of try
catch(...)
{
- cerr << "I/O error reading parallel MED file"<<endl;
- throw;
+ throw INTERP_KERNEL::Exception(LOCALIZED("I/O error reading parallel MED file"));
}
//creation of topology from mesh and connect zones
if (nodeglobal[i]!=0) delete[] nodeglobal[i];
if (faceglobal[i]!=0) delete[] faceglobal[i];
}
-
return 0;
}
-/*! writes the collection of meshes in a
- * MED v2.3 file
+/*! writes the collection of meshes in a MED v2.3 file
* with the connect zones being written as joints
* \param filename name of the ascii file containing the meshes description
*/
void MESHCollectionMedAsciiDriver::write(const char* filename, ParaDomainSelector* domainSelector)
{
-
-
- int nbdomains= _collection->getMesh().size();
- _filename.resize(nbdomains);
+ int nbdomains=_collection->getMesh().size();
+ vector<string> filenames;
+ filenames.resize(nbdomains);
//loop on the domains
- for (int idomain=0; idomain<nbdomains;idomain++)
+ for (int idomain=0; idomain<nbdomains; idomain++)
{
string distfilename;
-
ostringstream suffix;
- suffix << filename<< idomain+1 <<".med";
-
+ suffix<<filename<<idomain+1<<".med";
distfilename=suffix.str();
-
- _filename[idomain]=distfilename;
+ filenames[idomain]=distfilename;
if ( !domainSelector || domainSelector->isMyDomain( idomain ) )
{
if ( !_collection->getMesh()[idomain]->getNumberOfCells()==0 ) continue;//empty domain
-
MEDLoader::WriteUMesh(distfilename.c_str(),(_collection->getMesh())[idomain],true);
-
// writeSubdomain(idomain, nbdomains, distfilename.c_str(), domainSelector);
}
}
if ( !domainSelector || domainSelector->rank() == 0 )
{
ofstream file(filename);
+ file << "#MED Fichier V 2.3"<<" "<<endl;
+ file << "#"<<" "<<endl;
+ file << _collection->getMesh().size()<<" "<<endl;
- file <<"#MED Fichier V 2.3"<<" "<<endl;
- file <<"#"<<" "<<endl;
- file<<_collection->getMesh().size()<<" "<<endl;
-
- for (int idomain=0; idomain<nbdomains;idomain++)
+ for (int idomain=0; idomain<nbdomains; idomain++)
file << _collection->getName() <<" "<< idomain+1 << " "
<< (_collection->getMesh())[idomain]->getName() << " localhost "
- << _filename[idomain] << " "<<endl;
+ << filenames[idomain] << " "<<endl;
}
}
#include <sys/time.h>
-#include "MEDMEM_Utilities.hxx"
-#include "MEDMEM_Exception.hxx"
//MEDSPLITTER includes
#include "MEDCouplingUMesh.hxx"
#include "MEDLoader.hxx"
#include "MEDPARTITIONER_MESHCollection.hxx"
#include "MEDPARTITIONER_MESHCollectionMedXMLDriver.hxx"
#include "MEDPARTITIONER_ParaDomainSelector.hxx"
+#include "MEDPARTITIONER_utils.hxx"
using namespace MEDPARTITIONER;
+using namespace std;
//template inclusion
//#include "MEDPARTITIONER_MESHCollectionMedXMLDriver.H"
int MESHCollectionMedXMLDriver::read(const char* filename, ParaDomainSelector* domainSelector)
{
- const char* LOC = "MEDPARTITIONER::MESHCollectionDriver::read()";
- BEGIN_OF_MED(LOC);
-
- //ditributed meshes
+ //distributed meshes //cvwat02
+ /*cvw
vector<int*> cellglobal;
vector<int*> nodeglobal;
- vector<int*> faceglobal;
+ vector<int*> faceglobal;*/
int nbdomain;
// reading ascii master file
try{
- MESSAGE_MED("Start reading");
-
// Setting up the XML tree corresponding to filename
xmlDocPtr master_doc=xmlParseFile(filename);
- if (!master_doc)
- throw MEDMEM::MEDEXCEPTION("MEDPARTITIONER XML read - Master File does not exist o r is not compliant with XML scheme");
+ if (!master_doc)
+ throw INTERP_KERNEL::Exception(LOCALIZED("XML Master File does not exist or is not compliant with XML scheme"));
////////////////////
//number of domains
xmlXPathContextPtr xpathCtx = xmlXPathNewContext(master_doc);
xmlXPathObjectPtr xpathObj = xmlXPathEvalExpression(BAD_CAST "//splitting/subdomain", xpathCtx);
if (xpathObj==0 || xpathObj->nodesetval->nodeNr ==0)
- throw MEDMEM::MEDEXCEPTION("MEDPARTITIONER read - XML Master File does not contain /MED/splitting/subdomain node");
+ throw INTERP_KERNEL::Exception(LOCALIZED("XML Master File does not contain /MED/splitting/subdomain node"));
/* as subdomain has only one property which is "number"
* it suffices to take the content of its first child */
//////////////////
//mesh name
//////////////////
+ xmlXPathFreeObject(xpathObj);
xpathObj = xmlXPathEvalExpression(BAD_CAST "//content/mesh", xpathCtx);
if (xpathObj==0 || xpathObj->nodesetval->nodeNr ==0)
- throw MEDMEM::MEDEXCEPTION("MEDPARTITIONER read - XML Master File does not contain /MED/content/mesh node");
+ throw INTERP_KERNEL::Exception(LOCALIZED("XML Master File does not contain /MED/content/mesh node"));
_collection->setName( (const char*)xpathObj->nodesetval->nodeTab[0]->properties->children->content);
- cout << "nb domain " << nbdomain << endl;
- _filename.resize(nbdomain);
- _meshname.resize(nbdomain);
+ //cout << "nb domain " << nbdomain << endl;
+ MyGlobals::_fileNames.resize(nbdomain);
+ MyGlobals::_meshNames.resize(nbdomain);
(_collection->getMesh()).resize(nbdomain);
(_collection->getFaceMesh()).resize(nbdomain);
(_collection->getCellFamilyIds()).resize(nbdomain);
(_collection->getFaceFamilyIds()).resize(nbdomain);
+ /*cvw
cellglobal.resize(nbdomain);
nodeglobal.resize(nbdomain);
faceglobal.resize(nbdomain);
-
+ */
// retrieving the node which contains the file names
const char filechar[]="//files/subfile";
+ xmlXPathFreeObject(xpathObj);
xpathObj = xmlXPathEvalExpression(BAD_CAST filechar, xpathCtx);
if (xpathObj==0 || xpathObj->nodesetval->nodeNr ==0)
- throw MEDMEM::MEDEXCEPTION("MEDPARTITIONER read - XML Master File does not contain /MED/files/subfile nodes");
+ throw INTERP_KERNEL::Exception(LOCALIZED("XML Master File does not contain /MED/files/subfile nodes"));
int nbfiles = xpathObj->nodesetval ->nodeNr;
for (int i=0; i<nbfiles;i++)
{
//reading information about the domain
-
string host;
-
+ /*cvw
cellglobal[i]=0;
faceglobal[i]=0;
nodeglobal[i]=0;
+ */
////////////////////////////
//reading file names
xmlXPathObjectPtr xpathObjfilename =
xmlXPathEvalExpression(BAD_CAST name_search_string.str().c_str(),xpathCtx);
if (xpathObjfilename->nodesetval ==0)
- throw MEDMEM::MEDEXCEPTION("MED XML reader : Error retrieving file name ");
- _filename[i]=(const char*)xpathObjfilename->nodesetval->nodeTab[0]->children->content;
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error retrieving a file name from subfile of XML Master File"));
+ MyGlobals::_fileNames[i]=(const char*)xpathObjfilename->nodesetval->nodeTab[0]->children->content;
////////////////////////////////
//reading the local mesh names
xmlXPathObjectPtr xpathMeshObj = xmlXPathEvalExpression(BAD_CAST mesh_search_string.str().c_str(),xpathCtx);
if (xpathMeshObj->nodesetval ==0)
- throw MEDMEM::MEDEXCEPTION("MED XML reader : Error retrieving mesh name ");
- _meshname[i]=(const char*)xpathMeshObj->nodesetval->nodeTab[0]->children->content;
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error retrieving mesh name from chunk of XML Master File"));
+ MyGlobals::_meshNames[i]=(const char*)xpathMeshObj->nodesetval->nodeTab[0]->children->content;
if ( !domainSelector || domainSelector->isMyDomain(i))
- readSubdomain(cellglobal, faceglobal, nodeglobal, i);
+ readSubdomain(i); //cvwat03
+ //cvw readSubdomain(cellglobal, faceglobal, nodeglobal, i); //cvwat03
xmlXPathFreeObject(xpathObjfilename);
-
xmlXPathFreeObject(xpathMeshObj);
}//loop on domains
xmlXPathFreeContext(xpathCtx);
xmlFreeDoc(master_doc);
- MESSAGE_MED("end of read");
}//of try
catch(...)
{
- throw MEDMEM::MEDEXCEPTION("I/O error reading parallel MED file");
+ throw INTERP_KERNEL::Exception(LOCALIZED("I/O error reading parallel MED file"));
}
+
+ ParallelTopology* aPT = new ParallelTopology(_collection->getMesh());
//creation of topology from mesh and connect zones
+ if ( _collection->isParallelMode() )
+ {
+ //to know nb of cells on each proc to compute global cell ids from locally global
+ domainSelector->gatherNbOf(_collection->getMesh());
+ }
+ /*cvw
ParallelTopology* aPT = new ParallelTopology
((_collection->getMesh()), (_collection->getCZ()), cellglobal, nodeglobal, faceglobal);
+ */
_collection->setTopology(aPT);
_collection->setDomainNames(_collection->getName());
+ /*cvw
for (int i=0; i<nbdomain; i++)
{
if (cellglobal[i]!=0) delete[] cellglobal[i];
if (nodeglobal[i]!=0) delete[] nodeglobal[i];
if (faceglobal[i]!=0) delete[] faceglobal[i];
- }
-
- END_OF_MED(LOC);
+ }*/
+
return 0;
}
*/
void MESHCollectionMedXMLDriver::write(const char* filename, ParaDomainSelector* domainSelector)
{
-
- const char* LOC = "MEDPARTITIONER::MESHCollectionDriver::writeXML()";
- BEGIN_OF_MED(LOC);
-
xmlDocPtr master_doc = 0;
xmlNodePtr root_node = 0, node, node2;
// xmlDTDPtr dtd = 0;
xmlNewProp(mesh_node, BAD_CAST "name", BAD_CAST _collection->getName().c_str());
int nbdomains= _collection->getMesh().size();
- _filename.resize(nbdomains);
+ //vector<string> filenames;
+ //filenames.resize(nbdomains);
//loop on the domains
+ string finalMeshName=extractFromDescription(MyGlobals::_generalInformations[0], "finalMeshName=");
for (int idomain=nbdomains-1; idomain>=0;idomain--)
{
string distfilename;
-
ostringstream suffix;
- suffix << filename<< idomain+1 <<".med";
-
+ suffix<<filename<<idomain+1<<".med";
distfilename=suffix.str();
+ //filenames[idomain]=distfilename;
- _filename[idomain]=distfilename;
-
- MESSAGE_MED("File name "<<distfilename);
if ( !domainSelector || domainSelector->isMyDomain( idomain ) )
- {
- if ( (_collection->getMesh())[idomain]->getNumberOfCells()==0 ) continue;//empty domain
- writeMedFile(idomain,distfilename);
+ {
+ if ( (_collection->getMesh())[idomain]->getNumberOfCells()==0 ) continue; //empty domain
+ if (MyGlobals::_verbose>1)
+ cout<<"proc "<<domainSelector->rank()<<" : writeMedFile "<<distfilename
+ << " "<<(_collection->getMesh())[idomain]->getNumberOfCells()<<" cells"
+ << " "<<(_collection->getFaceMesh())[idomain]->getNumberOfCells()<<" faces"
+ << " "<<(_collection->getMesh())[idomain]->getNumberOfNodes()<<" nodes"<<endl;
+ writeMedFile(idomain,distfilename);
+ }
- //updating the ascii description file
- node = xmlNewChild(file_node, 0, BAD_CAST "subfile",0);
- sprintf (buff,"%d",idomain+1);
- xmlNewProp(node, BAD_CAST "id", BAD_CAST buff);
- xmlNewChild(node,0,BAD_CAST "name",BAD_CAST distfilename.c_str());
- xmlNewChild(node,0,BAD_CAST "machine",BAD_CAST "localhost");
-
- node = xmlNewChild(mesh_node,0, BAD_CAST "chunk",0);
- xmlNewProp(node, BAD_CAST "subdomain", BAD_CAST buff);
- xmlNewChild(node,0,BAD_CAST "name", BAD_CAST (_collection->getMesh())[idomain]->getName());
- }
+ if (domainSelector->rank()==0)
+ {
+ //updating the ascii description file
+ node = xmlNewChild(file_node, 0, BAD_CAST "subfile",0);
+ sprintf (buff,"%d",idomain+1);
+ xmlNewProp(node, BAD_CAST "id", BAD_CAST buff);
+ xmlNewChild(node,0,BAD_CAST "name",BAD_CAST distfilename.c_str());
+ xmlNewChild(node,0,BAD_CAST "machine",BAD_CAST "localhost");
+
+ node = xmlNewChild(mesh_node,0, BAD_CAST "chunk",0);
+ xmlNewProp(node, BAD_CAST "subdomain", BAD_CAST buff);
+ xmlNewChild(node,0,BAD_CAST "name", BAD_CAST finalMeshName.c_str());
+ //xmlNewChild(node,0,BAD_CAST "name", BAD_CAST (_collection->getMesh())[idomain]->getName());
+ }
+ }
+
+ //create the ascii description file
+ if (domainSelector->rank()==0)
+ {
+ string myfile(filename);
+ myfile.append(".xml");
+ _master_filename=myfile;
+ if ( !domainSelector || domainSelector->rank() == 0 )
+ xmlSaveFormatFileEnc(myfile.c_str(), master_doc, "UTF-8", 1);
+ //xmlFreeDoc(master_doc);
+ //xmlCleanupParser();
}
- string myfile(filename);
- myfile.append(".xml");
- _master_filename=myfile;
- if ( !domainSelector || domainSelector->rank() == 0 )
- xmlSaveFormatFileEnc(myfile.c_str(), master_doc, "UTF-8", 1);
xmlFreeDoc(master_doc);
xmlCleanupParser();
-
- END_OF_MED(LOC);
-
}
}
#include "MEDPARTITIONER_METISGraph.hxx"
#include "MEDPARTITIONER_ParaDomainSelector.hxx"
-#include "MEDMEM_Exception.hxx"
+#include "MEDPARTITIONER_utils.hxx"
+#include "InterpKernelException.hxx"
+
+#include <iostream>
+
using namespace MEDPARTITIONER;
METISGraph::METISGraph():Graph()
{
}
-void METISGraph::partGraph(int ndomain,
- const std::string& options_string,
+void METISGraph::partGraph(int ndomain, //cvwat10
+ const std::string& options_string,
ParaDomainSelector* parallelizer)
{
+ using std::vector;
+ vector<int> ran,vx,va; //for randomize
+
+ if (MyGlobals::_verbose>10) cout<<"proc "<<MyGlobals::_rank<<" : METISGraph::partGraph"<<endl;
+
// number of graph vertices
- int n = _graph->getNumberOf();
-
+ int n=_graph->getNumberOf();
//graph
int * xadj=const_cast<int*>(_graph->getIndex());
- int * adjncy = const_cast<int*>(_graph->getValue());
+ int * adjncy=const_cast<int*>(_graph->getValue());
//constraints
int * vwgt=_cellweight;
int * adjwgt=_edgeweight;
int wgtflag=(_edgeweight!=0)?1:0+(_cellweight!=0)?2:0;
-
//base 0 or 1
int base=0;
-
//ndomain
- int nparts = ndomain;
-
+ int nparts=ndomain;
//options
- int options[5]={0,0,0,0,0};
-
+ /*
+ (0=default_option,option,random_seed) see defs.h
+ #define PMV3_OPTION_DBGLVL 1
+ #define PMV3_OPTION_SEED 2
+ #define PMV3_OPTION_IPART 3
+ #define PMV3_OPTION_PSR 3
+ seems no changes int options[4]={1,0,33,0}; //test for a random seed of 33
+ */
+ int options[4]={0,0,0,0};
// output parameters
int edgecut;
- int* partition = new int[n];
+ int* partition=new int[n];
- cout << "ParMETIS : n="<<n<<endl;
+ //if (MyGlobals::_verbose>10) cout<<"proc "<<MyGlobals::_rank<<" : METISGraph::partGraph n="<<n<<endl;
if (nparts >1)
{
if ( parallelizer )
{
#ifdef ENABLE_PARMETIS
// distribution of vertices of the graph among the processors
- int * vtxdist = parallelizer ? parallelizer->getNbVertOfProcs() : 0;
- MPI_Comm comm = MPI_COMM_WORLD;
- cout<<"vtxdist[1]"<<" "<<vtxdist[2]<<endl;
- ParMETIS_PartKway( vtxdist, xadj, adjncy, vwgt, adjwgt, &wgtflag,
- &base, &nparts, options, &edgecut, partition, &comm );
- if (n<8 && nparts==3)
- {
- for (int i=0; i<n; i++)
- partition[i]=i%3;
- }
-
-
-
+ if (MyGlobals::_verbose>100)
+ cout<<"proc "<<MyGlobals::_rank
+ <<" : METISGraph::partGraph ParMETIS_PartKway"<<endl;
+ int * vtxdist=parallelizer->getProcVtxdist();
+ MPI_Comm comm=MPI_COMM_WORLD;
+ try
+ {
+ if (MyGlobals::_verbose>200)
+ {
+ cout<<"proc "<<MyGlobals::_rank<<" : vtxdist :";
+ for (int i=0; i<MyGlobals::_world_size+1; ++i) cout<<vtxdist[i]<<" ";
+ cout<<endl;
+
+ int lgxadj=vtxdist[MyGlobals::_rank+1]-vtxdist[MyGlobals::_rank];
+ //cout<<"lgxadj "<<lgxadj<<" "<<n<<endl;
+
+ if (lgxadj>0)
+ {
+ cout<<"\nproc "<<MyGlobals::_rank<<" : lgxadj "<<lgxadj<<" lgadj "<<xadj[lgxadj+1]<<endl;
+ for (int i=0; i<10; ++i) cout<<xadj[i]<<" ";
+ cout<<"... "<<xadj[lgxadj]<<endl;
+ for (int i=0; i<15; ++i) cout<<adjncy[i]<<" ";
+ int ll=xadj[lgxadj]-1;
+ cout<<"... ["<<ll<<"] "<<adjncy[ll-1]<<" "<<adjncy[ll]<<endl;
+ /*for (int i=0; i<=ll; ++i) {
+ if (adjncy[i]<0) cout<<"***cvw00 error: adjncy[i]<0 "<<i<<endl;
+ }*/
+ int imaxx=0;
+ //for (int ilgxadj=0; ilgxadj<lgxadj; ilgxadj++)
+ for (int ilgxadj=0; ilgxadj<lgxadj; ilgxadj++)
+ {
+ int ilg=xadj[ilgxadj+1]-xadj[ilgxadj];
+ /*if (ilg<0) cout<<"***cvw01 error: ilg<0 in xadj "<<ilgxadj<<endl;
+ if (MyGlobals::_is0verbose>1000)
+ {
+ cout<<"\n -cell "<<ilgxadj<<" "<<ilg<<" :";
+ for (int i=0; i<ilg; i++) cout<<" "<<adjncy[xadj[ilgxadj]+i];
+ }*/
+ if (ilg>imaxx) imaxx=ilg;
+ }
+ cout<<"\nproc "<<MyGlobals::_rank
+ <<" : on "<<lgxadj<<" cells, max neighbourg number (...for one cell) is "<<imaxx<<endl;
+ }
+
+ }
+ if ((MyGlobals::_randomize!=0 || MyGlobals::_atomize!=0) && MyGlobals::_world_size==1)
+ {
+ //randomize initially was for test on ParMETIS error (sometimes)
+ //due to : seems no changes int options[4]={1,0,33,0}; //test for a random seed of 33
+ //it was keeped
+ ran=createRandomSize(n);
+ randomizeAdj(&xadj[0],&adjncy[0],ran,vx,va);
+ ParMETIS_PartKway( //cvwat11
+ vtxdist, &vx[0], &va[0], vwgt,
+ adjwgt, &wgtflag, &base, &nparts, options,
+ &edgecut, partition, &comm );
+ }
+ else
+ {
+ //MPI_Barrier(MPI_COMM_WORLD);
+ //cout<<"proc "<<MyGlobals::_rank<<" : barrier ParMETIS_PartKway done"<<endl;
+ ParMETIS_PartKway( //cvwat11
+ vtxdist, xadj, adjncy, vwgt,
+ adjwgt, &wgtflag, &base, &nparts, options,
+ &edgecut, partition, &comm );
+ }
+
+/*doc from parmetis.h
+ void __cdecl ParMETIS_PartKway(
+ idxtype *vtxdist, idxtype *xadj, idxtype *adjncy, idxtype *vwgt,
+ idxtype *adjwgt, int *wgtflag, int *numflag, int *nparts, int *options,
+ int *edgecut, idxtype *part, MPI_Comm *comm);
+
+ void __cdecl ParMETIS_V3_PartKway(
+ idxtype *vtxdist, idxtype *xadj, idxtype *adjncy, idxtype *vwgt,
+ idxtype *adjwgt, int *wgtflag, int *numflag, int *ncon, int *nparts,
+ float *tpwgts, float *ubvec, int *options, int *edgecut, idxtype *part,
+ MPI_Comm *comm);
+*/
+
+ }
+ catch(...)
+ {
+ //helas ParMETIS "Error! Key -2 not found!" not catched...
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in ParMETIS_PartKway"));
+ }
+ if (n<8 && nparts==3)
+ {
+ for (int i=0; i<n; i++) partition[i]=i%3;
+ }
#else
- throw MEDMEM::MEDEXCEPTION("ParMETIS is not available. Check your products, please.");
+ throw INTERP_KERNEL::Exception(LOCALIZED("ParMETIS is not available. Check your products, please."));
#endif
+ //throw INTERP_KERNEL::Exception(LOCALIZED("ParMETIS is not available. Check your products, please."));
}
else
{
-
+ if (MyGlobals::_verbose>10)
+ cout<<"proc "<<MyGlobals::_rank
+ <<" : METISGraph::partGraph METIS_PartGraph Recursive or Kway"<<endl;
if (options_string != "k")
METIS_PartGraphRecursive(&n, xadj, adjncy, vwgt, adjwgt, &wgtflag,
&base, &nparts, options, &edgecut, partition);
}
else
{
- for (int i=0; i<n; i++)
- partition[i]=0;
+ for (int i=0; i<n; i++) partition[i]=0;
}
- std::vector<int> index(n+1);
- std::vector<int> value(n);
+
+ vector<int> index(n+1);
+ vector<int> value(n);
index[0]=0;
- for (int i=0; i<n; i++)
+ if (ran.size()>0 && MyGlobals::_atomize==0) //there is randomize
{
- index[i+1]=index[i]+1;
- value[i]=partition[i];
+ if (MyGlobals::_is0verbose>100) cout<<"randomize"<<endl;
+ for (int i=0; i<n; i++)
+ {
+ index[i+1]=index[i]+1;
+ value[ran[i]]=partition[i];
+ }
+ }
+ else
+ {
+ for (int i=0; i<n; i++)
+ {
+ index[i+1]=index[i]+1;
+ value[i]=partition[i];
+ }
}
-
delete[]partition;
//creating a skylinearray with no copy of the index and partition array
#include "MEDPARTITIONER_Graph.hxx"
#include <string>
+
namespace MEDPARTITIONER {
class MEDSKYLINEARRAY;
class MEDPARTITIONER_EXPORT METISGraph:public Graph
// Author : Edward AGAPOV (eap)
#include "MEDCouplingUMesh.hxx"
-
#include "MEDPARTITIONER_ParaDomainSelector.hxx"
-
#include "MEDPARTITIONER_UserGraph.hxx"
+#include "MEDPARTITIONER_utils.hxx"
+#include <iostream>
#include <numeric>
#ifdef HAVE_MPI2
#include <sys/sysinfo.h>
#endif
-using namespace MEDPARTITIONER;
-using namespace MED_EN;
+//using namespace MED_EN;
using namespace std;
+using namespace MEDPARTITIONER;
//================================================================================
/*!
bool ParaDomainSelector::isOnDifferentHosts() const
{
evaluateMemory();
- if ( _world_size < 2 )
- return false;
+ if ( _world_size < 2 ) return false;
#ifdef HAVE_MPI2
char name_here[ MPI_MAX_PROCESSOR_NAME+1 ], name_there[ MPI_MAX_PROCESSOR_NAME+1 ];
MPI_Sendrecv((void*)&name_here[0], MPI_MAX_PROCESSOR_NAME, MPI_CHAR, next_proc, tag,
(void*)&name_there[0], MPI_MAX_PROCESSOR_NAME, MPI_CHAR, prev_proc, tag,
MPI_COMM_WORLD, &status);
- return string(name_here) != string(name_there);
+
+ //cout<<"proc "<<rank()<<" : names "<<name_here<<" "<<name_there<<endl;
+ //bug: (isOnDifferentHosts here and there) is not (isOnDifferentHosts somewhere)
+ //return string(name_here) != string(name_there);
+
+ int sum_same=-1;
+ int same=1;
+ if (string(name_here) != string(name_there)) same=0;
+ MPI_Allreduce( &same, &sum_same, 1, MPI_INT, MPI_SUM, MPI_COMM_WORLD );
+ //cout<<"proc "<<rank()<<" : sum_same "<<sum_same<<endl;
+
+ return (sum_same != nbProcs());
#endif
}
//================================================================================
/*!
- * \brief Gather info on nb of entities on each processor and return total nb.
+ * \brief Gather info on nb of cell entities on each processor and return total nb.
*
* Is called
* 1) for MED_CELL to know global id shift for domains at graph construction;
*/
//================================================================================
-int ParaDomainSelector::gatherNbOf(
- const vector<ParaMEDMEM::MEDCouplingUMesh*>& domain_meshes)
+void ParaDomainSelector::gatherNbOf(const vector<ParaMEDMEM::MEDCouplingUMesh*>& domain_meshes)
{
evaluateMemory();
-
// get nb of elems of each domain mesh
- int nb_domains = domain_meshes.size();
- vector<int> nb_elems( nb_domains, 0 );
- for ( int i = 0; i < nb_domains; ++i )
+ int nb_domains=domain_meshes.size();
+ //cout<<"proc "<<MyGlobals::_rank<<" : gatherNbOf "<<nb_domains<<endl;
+ vector<int> nb_elems(nb_domains*2, 0); //NumberOfCells & NumberOfNodes
+ for (int i=0; i<nb_domains; ++i)
if ( domain_meshes[i] )
- nb_elems[i] = domain_meshes[i]->getNumberOfCells();
-
+ {
+ nb_elems[i*2] = domain_meshes[i]->getNumberOfCells();
+ nb_elems[i*2+1] = domain_meshes[i]->getNumberOfNodes();
+ }
// receive nb of elems from other procs
- vector<int> all_nb_elems( nb_domains );
+ vector<int> all_nb_elems( nb_domains*2 );
#ifdef HAVE_MPI2
- MPI_Allreduce((void*)&nb_elems[0], (void*)&all_nb_elems[0], nb_domains,
+ MPI_Allreduce((void*)&nb_elems[0], (void*)&all_nb_elems[0], nb_domains*2,
MPI_INT, MPI_SUM, MPI_COMM_WORLD);
#endif
- int total_nb = std::accumulate( all_nb_elems.begin(), all_nb_elems.end(), 0 );
-
- vector<int>& elem_shift_by_domain = _cell_shift_by_domain;
-
- // fill elem_shift_by_domain
-
- vector< int > ordered_nbs, domain_order( nb_domains );
- ordered_nbs.push_back(0);
- for ( int iproc = 0; iproc < nbProcs(); ++iproc )
- for ( int idomain = 0; idomain < nb_domains; ++idomain )
- if ( getProcessorID( idomain ) == iproc )
+ int total_nb_cells=0, total_nb_nodes=0;
+ for (int i=0; i<nb_domains; ++i)
+ {
+ total_nb_cells+=all_nb_elems[i*2];
+ total_nb_nodes+=all_nb_elems[i*2+1];
+ }
+
+ if (MyGlobals::_is0verbose>10)
+ cout<<"totalNbCells "<<total_nb_cells<<" totalNbNodes "<<total_nb_nodes<<endl;
+
+ vector<int>& cell_shift_by_domain=_cell_shift_by_domain;
+ vector<int>& node_shift_by_domain=_node_shift_by_domain;
+ vector<int>& face_shift_by_domain=_face_shift_by_domain;
+
+ vector< int > ordered_nbs_cell, ordered_nbs_node, domain_order(nb_domains);
+ ordered_nbs_cell.push_back(0);
+ ordered_nbs_node.push_back(0);
+ for (int iproc=0; iproc<nbProcs(); ++iproc)
+ for (int idomain=0; idomain<nb_domains; ++idomain)
+ if (getProcessorID( idomain )==iproc)
{
- domain_order[ idomain ] = ordered_nbs.size() - 1;
- ordered_nbs.push_back( ordered_nbs.back() + all_nb_elems[idomain] );
+ domain_order[idomain] = ordered_nbs_cell.size() - 1;
+ ordered_nbs_cell.push_back( ordered_nbs_cell.back() + all_nb_elems[idomain*2] );
+ ordered_nbs_node.push_back( ordered_nbs_node.back() + all_nb_elems[idomain*2+1] );
}
- elem_shift_by_domain.resize( nb_domains+1, 0 );
- for ( int idomain = 0; idomain < nb_domains; ++idomain )
- elem_shift_by_domain[ idomain ] = ordered_nbs[ domain_order[ idomain ]];
-
- elem_shift_by_domain.back() = ordered_nbs.back(); // to know total nb of elements
+ cell_shift_by_domain.resize( nb_domains+1, 0 );
+ node_shift_by_domain.resize( nb_domains+1, 0 );
+ face_shift_by_domain.resize( nb_domains+1, 0 );
+ for (int idomain=0; idomain<nb_domains; ++idomain)
+ {
+ cell_shift_by_domain[ idomain ] = ordered_nbs_cell[ domain_order[ idomain ]];
+ node_shift_by_domain[ idomain ] = ordered_nbs_node[ domain_order[ idomain ]];
+ }
+ cell_shift_by_domain.back() = ordered_nbs_cell.back(); // to know total nb of elements
+ node_shift_by_domain.back() = ordered_nbs_node.back(); // to know total nb of elements
- // fill _nb_vert_of_procs
- _nb_vert_of_procs.resize( _world_size+1, 0 );
- for ( int i = 0; i < nb_domains; ++i )
- {
- int rank = getProcessorID( i );
- _nb_vert_of_procs[ rank+1 ] += all_nb_elems[ i ];
- }
+ if (MyGlobals::_is0verbose>300)
+ {
+ cout<<"proc "<<MyGlobals::_rank<<" : cellShiftByDomain ";
+ for (int i=0; i<=nb_domains; ++i) cout<<cell_shift_by_domain[i]<<"|";
+ cout<<endl;
+ cout<<"proc "<<MyGlobals::_rank<<" : nodeShiftBy_domain ";
+ for (int i=0; i<=nb_domains; ++i) cout<<node_shift_by_domain[i]<<"|";
+ cout<<endl;
+ }
+ // fill _nb_vert_of_procs (is Vtxdist)
+ _nb_vert_of_procs.resize(_world_size+1);
_nb_vert_of_procs[0] = 0; // base = 0
- for ( int i = 1; i < _nb_vert_of_procs.size(); ++i )
- _nb_vert_of_procs[ i ] += _nb_vert_of_procs[ i-1 ]; // to CSR format
+ for (int i=0; i<nb_domains; ++i)
+ {
+ int rank = getProcessorID(i);
+ _nb_vert_of_procs[rank+1] += all_nb_elems[i*2];
+ }
+ for (int i=1; i<_nb_vert_of_procs.size(); ++i)
+ _nb_vert_of_procs[i] += _nb_vert_of_procs[i-1]; // to CSR format : cumulated
- evaluateMemory();
+ if (MyGlobals::_is0verbose>200)
+ {
+ cout<<"proc "<<MyGlobals::_rank<<" : gatherNbOf : vtxdist is ";
+ for (int i = 0; i <= _world_size; ++i) cout<<_nb_vert_of_procs[i]<<" ";
+ cout<<endl;
+ }
- return total_nb;
+ evaluateMemory();
+ return;
}
//================================================================================
/*!
* \brief Return distribution of the graph vertices among the processors
- * \retval int* - array conatining nb of vertices on all processors
+ * \retval int* - array containing nb of vertices (=cells) on all processors
*
- * gatherNbOf( MED_CELL ) must be called before.
+ * gatherNbOf() must be called before.
* The result array is to be used as the first arg of ParMETIS_V3_PartKway() and
* is freed by ParaDomainSelector.
*/
//================================================================================
-#define gatherNbOf_NOT_CALLED(meth) throw INTERP_KERNEL::Exception \
-("ParaDomainSelector::" #meth "(): gatherNbOf( MED_CELL ) must be called before")
-
-int* ParaDomainSelector::getNbVertOfProcs() const
+int* ParaDomainSelector::getProcVtxdist() const
{
evaluateMemory();
- if ( _nb_vert_of_procs.empty() )
- gatherNbOf_NOT_CALLED(getNbVertOfProcs);
-
+ if (_nb_vert_of_procs.empty()) throw INTERP_KERNEL::Exception(LOCALIZED("_nb_vert_of_procs not set"));
return (int*) & _nb_vert_of_procs[0];
}
//================================================================================
/*!
* \brief Return nb of cells in domains with lower index.
*
- * gatherNbOf( MED_CELL ) must be called before.
+ * gatherNbOf() must be called before.
* Result added to local id on given domain gives id in the whole distributed mesh
*/
//================================================================================
-int ParaDomainSelector::getDomainShift(int domainIndex) const
+int ParaDomainSelector::getDomainCellShift(int domainIndex) const
{
evaluateMemory();
- if ( _cell_shift_by_domain.empty() )
- gatherNbOf_NOT_CALLED(getDomainShift);
+ if (_cell_shift_by_domain.empty()) throw INTERP_KERNEL::Exception(LOCALIZED("_cell_shift_by_domain not set"));
+ return _cell_shift_by_domain[domainIndex];
+}
- return _cell_shift_by_domain[ domainIndex ];
+int ParaDomainSelector::getDomainNodeShift(int domainIndex) const
+{
+ evaluateMemory();
+ if (_node_shift_by_domain.empty()) throw INTERP_KERNEL::Exception(LOCALIZED("_node_shift_by_domain not set"));
+ return _node_shift_by_domain[domainIndex];
}
//================================================================================
/*!
- * \brief Return nb of cells on processors with lower rank.
+ * \brief Return nb of nodes on processors with lower rank.
*
- * gatherNbOf( MED_CELL ) must be called before.
+ * gatherNbOf() must be called before.
* Result added to global id on this processor gives id in the whole distributed mesh
*/
//================================================================================
-int ParaDomainSelector::getProcShift() const
+int ParaDomainSelector::getProcNodeShift() const
{
evaluateMemory();
- if ( _nb_vert_of_procs.empty() )
- gatherNbOf_NOT_CALLED(getProcShift);
-
- return _nb_vert_of_procs[_rank]-1;
+ if (_nb_vert_of_procs.empty()) throw INTERP_KERNEL::Exception(LOCALIZED("_nb_vert_of_procs not set"));
+ //cout<<"_nb_vert_of_procs "<<_nb_vert_of_procs[0]<<" "<<_nb_vert_of_procs[1]<<endl;
+ return _nb_vert_of_procs[_rank];
}
//================================================================================
void ParaDomainSelector::gatherNbCellPairs()
{
- const char* LOC = "MEDPARTITIONER::ParaDomainSelector::gatherNbCellPairs(): ";
if ( _nb_cell_pairs_by_joint.empty() )
_nb_cell_pairs_by_joint.resize( _nb_result_domains*(_nb_result_domains+1), 0);
evaluateMemory();
// namely that each joint is treated on one proc only
for ( int j = 0; j < _nb_cell_pairs_by_joint.size(); ++j )
if ( _nb_cell_pairs_by_joint[j] != send_buf[j] && send_buf[j]>0 )
- throw INTERP_KERNEL::Exception("invalid nb of cell pairs");
+ throw INTERP_KERNEL::Exception(LOCALIZED("invalid nb of cell pairs"));
}
//================================================================================
int id = total_nb_faces + 1;
if ( _nb_cell_pairs_by_joint.empty() )
- throw INTERP_KERNEL::Exception("MEDPARTITIONER::ParaDomainSelector::getFisrtGlobalIdOfSubentity(), "
- "gatherNbCellPairs() must be called before");
+ throw INTERP_KERNEL::Exception(LOCALIZED("gatherNbCellPairs() must be called before"));
int joint_id = jointId( loc_domain, dist_domain );
for ( int j = 0; j < joint_id; ++j )
id += _nb_cell_pairs_by_joint[ j ];
{
evaluateMemory();
if (_nb_result_domains < 0)
- throw INTERP_KERNEL::Exception("ParaDomainSelector::jointId(): setNbDomains() must be called before()");
+ throw INTERP_KERNEL::Exception(LOCALIZED("setNbDomains() must be called before"));
if ( local_domain < distant_domain )
swap( local_domain, distant_domain );
void ParaDomainSelector::sendMesh(const ParaMEDMEM::MEDCouplingUMesh& mesh, int target) const
{
-
-
+ if (MyGlobals::_verbose>600) cout<<"proc "<<_rank<<" : sendMesh '"<<mesh.getName()<<"' size "<<mesh.getNumberOfCells()<<" to "<<target<<endl;
// First stage : sending sizes
// ------------------------------
vector<int> tinyInfoLocal;
//Getting tiny info of local mesh to allow the distant proc to initialize and allocate
//the transmitted mesh.
mesh.getTinySerializationInformation(tinyInfoLocalD,tinyInfoLocal,tinyInfoLocalS);
+ //cout<<"sendMesh getTinySerializationInformation "<<mesh.getName()<<endl;
tinyInfoLocal.push_back(mesh.getNumberOfCells());
#ifdef HAVE_MPI2
int tinySize=tinyInfoLocal.size();
+ //cout<<"MPI_Send cvw11 "<<tinySize<<endl;
MPI_Send(&tinySize, 1, MPI_INT, target, 1113, MPI_COMM_WORLD);
- MPI_Send(&tinyInfoLocal[0], tinyInfoLocal.size(), MPI_INT, target, 1112,
- MPI_COMM_WORLD);
+ //cout<<"MPI_Send cvw22 "<<tinyInfoLocal.size()<<endl;
+ MPI_Send(&tinyInfoLocal[0], tinyInfoLocal.size(), MPI_INT, target, 1112, MPI_COMM_WORLD);
#endif
- ParaMEDMEM::DataArrayInt *v1Local=0;
- ParaMEDMEM::DataArrayDouble *v2Local=0;
- //serialization of local mesh to send data to distant proc.
- mesh.serialize(v1Local,v2Local);
- int nbLocalElems;
- int* ptLocal=0;
- if(v1Local)
+
+ if (mesh.getNumberOfCells()>0) //no sends if empty
+ {
+ ParaMEDMEM::DataArrayInt *v1Local=0;
+ ParaMEDMEM::DataArrayDouble *v2Local=0;
+ //serialization of local mesh to send data to distant proc.
+ mesh.serialize(v1Local,v2Local);
+ int nbLocalElems=0;
+ int* ptLocal=0;
+ if(v1Local) //cvw if empty getNbOfElems() is 1!
{
- nbLocalElems=v1Local->getNbOfElems();
+ nbLocalElems=v1Local->getNbOfElems(); //cvw if empty be 1!
ptLocal=v1Local->getPointer();
}
- #ifdef HAVE_MPI2
- MPI_Send(ptLocal, nbLocalElems, MPI_INT,
- target, 1111, MPI_COMM_WORLD);
- #endif
- double *ptLocal2=0;
- if(v2Local)
+#ifdef HAVE_MPI2
+ MPI_Send(ptLocal, nbLocalElems, MPI_INT, target, 1111, MPI_COMM_WORLD);
+#endif
+ int nbLocalElems2=0;
+ double *ptLocal2=0;
+ if(v2Local) //cvw if empty be 0!
{
- nbLocalElems=v2Local->getNbOfElems();
+ nbLocalElems2=v2Local->getNbOfElems();
ptLocal2=v2Local->getPointer();
}
#ifdef HAVE_MPI2
- MPI_Send(ptLocal2, nbLocalElems, MPI_DOUBLE,
- target, 1110, MPI_COMM_WORLD);
+ MPI_Send(ptLocal2, nbLocalElems2, MPI_DOUBLE, target, 1110, MPI_COMM_WORLD);
#endif
- if(v1Local)
- v1Local->decrRef();
- if(v2Local)
- v2Local->decrRef();
-
+ if(v1Local) v1Local->decrRef();
+ if(v2Local) v2Local->decrRef();
+ }
+ else
+ {
+ //cout<<"sendMesh empty Mesh cvw3344 "<<endl;
+ }
+ //cout<<"end sendMesh "<<mesh.getName()<<endl;
}
/*! Receives messages from proc \a source to fill mesh \a mesh.
To be used with \a sendMesh method.
-
\param mesh pointer to mesh that is filled
\param source processor id of the incoming messages
*/
void ParaDomainSelector::recvMesh(ParaMEDMEM::MEDCouplingUMesh*& mesh, int source)const
{
-
// First stage : exchanging sizes
// ------------------------------
vector<int> tinyInfoDistant;
#ifdef HAVE_MPI2
MPI_Status status;
int tinyVecSize;
- MPI_Recv(&tinyVecSize, 1, MPI_INT,source,1113,MPI_COMM_WORLD, &status);
+ MPI_Recv(&tinyVecSize, 1, MPI_INT, source, 1113, MPI_COMM_WORLD, &status);
tinyInfoDistant.resize(tinyVecSize);
#endif
std::fill(tinyInfoDistant.begin(),tinyInfoDistant.end(),0);
#ifdef HAVE_MPI2
MPI_Recv(&tinyInfoDistant[0], tinyVecSize, MPI_INT,source,1112,MPI_COMM_WORLD, &status);
#endif
- ParaMEDMEM::DataArrayInt *v1Distant=ParaMEDMEM::DataArrayInt::New();
- ParaMEDMEM::DataArrayDouble *v2Distant=ParaMEDMEM::DataArrayDouble::New();
- //Building the right instance of copy of distant mesh.
- ParaMEDMEM::MEDCouplingPointSet *distant_mesh_tmp=ParaMEDMEM::MEDCouplingPointSet::BuildInstanceFromMeshType((ParaMEDMEM::MEDCouplingMeshType)tinyInfoDistant[0]);
- std::vector<std::string> unusedTinyDistantSts;
- mesh=dynamic_cast<ParaMEDMEM::MEDCouplingUMesh*> (distant_mesh_tmp);
+ //there was tinyInfoLocal.push_back(mesh.getNumberOfCells());
+ int NumberOfCells=tinyInfoDistant[tinyVecSize-1];
+ //cout<<"recvMesh NumberOfCells "<<NumberOfCells<<endl;
+ if (NumberOfCells>0)
+ {
+ ParaMEDMEM::DataArrayInt *v1Distant=ParaMEDMEM::DataArrayInt::New();
+ ParaMEDMEM::DataArrayDouble *v2Distant=ParaMEDMEM::DataArrayDouble::New();
+ //Building the right instance of copy of distant mesh.
+ ParaMEDMEM::MEDCouplingPointSet *distant_mesh_tmp=
+ ParaMEDMEM::MEDCouplingPointSet::BuildInstanceFromMeshType(
+ (ParaMEDMEM::MEDCouplingMeshType) tinyInfoDistant[0]);
+ std::vector<std::string> unusedTinyDistantSts;
+ mesh=dynamic_cast<ParaMEDMEM::MEDCouplingUMesh*> (distant_mesh_tmp);
- mesh->resizeForUnserialization(tinyInfoDistant,v1Distant,v2Distant,unusedTinyDistantSts);
- int nbDistElem=0;
- int *ptDist=0;
- if(v1Distant)
+ mesh->resizeForUnserialization(tinyInfoDistant,v1Distant,v2Distant,unusedTinyDistantSts);
+ int nbDistElem=0;
+ int *ptDist=0;
+ if(v1Distant)
{
nbDistElem=v1Distant->getNbOfElems();
ptDist=v1Distant->getPointer();
}
#ifdef HAVE_MPI2
- MPI_Recv(ptDist, nbDistElem, MPI_INT,
- source,1111,
- MPI_COMM_WORLD, &status);
+ MPI_Recv(ptDist, nbDistElem, MPI_INT, source,1111, MPI_COMM_WORLD, &status);
#endif
- int nbLocalElems=0;
- double *ptDist2=0;
- nbDistElem=0;
- if(v2Distant)
+ double *ptDist2=0;
+ nbDistElem=0;
+ if(v2Distant)
{
nbDistElem=v2Distant->getNbOfElems();
ptDist2=v2Distant->getPointer();
}
#ifdef HAVE_MPI2
- MPI_Recv(ptDist2, nbDistElem, MPI_DOUBLE,source, 1110, MPI_COMM_WORLD, &status);
-#endif
- //
- //finish unserialization
- mesh->unserialization(tinyInfoDistantD,tinyInfoDistant,v1Distant,v2Distant,unusedTinyDistantSts);
-
- if(v1Distant)
- v1Distant->decrRef();
- if(v2Distant)
- v2Distant->decrRef();
-
-}
-/*!
-Sends content of \a vec to processor \a target. To be used with \a recvDoubleVec method.
-\param vec vector to be sent
-\param target processor id of the target
-*/
-void ParaDomainSelector::sendDoubleVec(const std::vector<double>& vec, int target)const
-{
- int size=vec.size();
-#ifdef HAVE_MPI2
- MPI_Send(&size,1,MPI_INT,target,1211, MPI_COMM_WORLD);
- MPI_Send(const_cast<double*>(&vec[0]), size,MPI_DOUBLE, target, 1212, MPI_COMM_WORLD);
-#endif
-}
-/*! Receives messages from proc \a source to fill vector<int> vec.
-To be used with \a sendDoubleVec method.
-
-\param vec vector that is filled
-\param source processor id of the incoming messages
- */
-void ParaDomainSelector::recvDoubleVec(std::vector<double>& vec, int source)const
-{
- int size;
-#ifdef HAVE_MPI2
- MPI_Status status;
- MPI_Recv(&size,1,MPI_INT,source,1211, MPI_COMM_WORLD, &status);
- vec.resize(size);
- MPI_Recv(&vec[0],size,MPI_DOUBLE,source, 1212, MPI_COMM_WORLD,&status);
-#endif
-}
-/*!
-Sends content of \a vec to processor \a target. To be used with \a recvIntVec method.
-\param vec vector to be sent
-\param target processor id of the target
-*/
-void ParaDomainSelector::sendIntVec(const std::vector<int>& vec, int target)const
-{
- int size=vec.size();
-#ifdef HAVE_MPI2
- MPI_Send(&size,1,MPI_INT,target,1211, MPI_COMM_WORLD);
- MPI_Send(const_cast<int*>(&vec[0]), size,MPI_INT, target, 1212, MPI_COMM_WORLD);
-#endif
-}
-/*! Receives messages from proc \a source to fill vector<int> vec.
-To be used with \a sendIntVec method.
-
-\param vec vector that is filled
-\param source processor id of the incoming messages
- */
-void ParaDomainSelector::recvIntVec(std::vector<int>& vec, int source)const
-{
- int size;
-#ifdef HAVE_MPI2
- MPI_Status status;
- MPI_Recv(&size,1,MPI_INT,source,1211, MPI_COMM_WORLD, &status);
- vec.resize(size);
- MPI_Recv(&vec[0],size,MPI_INT,source, 1212, MPI_COMM_WORLD,&status);
+ MPI_Recv(ptDist2, nbDistElem, MPI_DOUBLE,source, 1110, MPI_COMM_WORLD, &status);
#endif
+ //finish unserialization
+ mesh->unserialization(tinyInfoDistantD,tinyInfoDistant,v1Distant,v2Distant,unusedTinyDistantSts);
+ if(v1Distant) v1Distant->decrRef();
+ if(v2Distant) v2Distant->decrRef();
+ }
+ else
+ {
+ mesh=createEmptyMEDCouplingUMesh();
+ }
+ if (MyGlobals::_verbose>600) cout<<"proc "<<_rank<<" : recvMesh '"<<mesh->getName()<<"' size "<<mesh->getNumberOfCells()<<" from "<<source<<endl;
}
#include "MEDPARTITIONER.hxx"
-#include <MEDMEM_define.hxx>
-
#include <memory>
#include <vector>
*/
class MEDPARTITIONER_EXPORT ParaDomainSelector
{
+
public:
ParaDomainSelector(bool mesure_memory=false);
~ParaDomainSelector();
- //!< return processor rank
+ // return processor rank
int rank() const { return _rank; }
-
- //!< return number of processors
+ // return number of processors
int nbProcs() const { return _world_size; }
-
// Return true if is running on different hosts
bool isOnDifferentHosts() const;
-
// Return true if the domain with domainIndex is to be loaded on this proc
bool isMyDomain(int domainIndex) const;
-
// Return processor id where the domain with domainIndex resides
int getProcessorID(int domainIndex) const;
-
-
- //!< Set nb of required domains. (Used to sort joints via jointId())
+ //Set nb of required domains. (Used to sort joints via jointId())
void setNbDomains(int nb) { _nb_result_domains = nb; }
-
// Return identifier for a joint
int jointId( int local_domain, int distant_domain ) const;
+
+ int getNbTotalCells() { return _cell_shift_by_domain.back(); }
+ int getNbTotalNodes() { return _node_shift_by_domain.back(); };
+ int getNbTotalFaces() { return _face_shift_by_domain.back(); };
// Return domain order
- //int getDomianOrder(int domainIndex, int nb_domains) const;
-
-
- // Collect nb of entities on procs and return total nb
- int gatherNbOf(
- //MED_EN::medEntityMesh entity,
-const std::vector<ParaMEDMEM::MEDCouplingUMesh*>& domain_meshes);
+ //int getDomainOrder(int domainIndex, int nb_domains) const;
+ // Collect nb of entities on procs
+ void gatherNbOf(const std::vector<ParaMEDMEM::MEDCouplingUMesh*>& domain_meshes);
+
// Return distribution of the graph vertices among the processors
- int* getNbVertOfProcs() const;
-
- // Return nb of cells on processors with lower rank
- int getProcShift() const;
+ int* getProcVtxdist() const;
+ // Return nb of nodes on processors with lower rank
+ int getProcNodeShift() const;
// Return nb of cells in domains with lower index
- int getDomainShift(int domainIndex) const;
-
+ int getDomainCellShift(int domainIndex) const;
+ // Return nb of nodes in domains with lower index
+ int getDomainNodeShift(int domainIndex) const;
// Gather graphs from all processors into one
std::auto_ptr<Graph> gatherGraph(const Graph* graph) const;
-
// Set nb of cell/cell pairs in a joint between domains
void setNbCellPairs( int nb_cell_pairs, int dist_domain, int loc_domain );
-
// Gather size of each proc/proc joint
void gatherNbCellPairs();
-
// Return nb of cell/cell pairs in a joint between domains on different procs
int getNbCellPairs( int dist_domain, int loc_domain ) const;
// Return the first global id of sub-entity for the joint
int getFisrtGlobalIdOfSubentity( int loc_domain, int dist_domain ) const;
-
// Send-receive local ids of joint faces
int* exchangeSubentityIds( int loc_domain, int dist_domain,
const std::vector<int>& loc_ids_here ) const;
-
// Return time passed from construction in seconds
double getPassedTime() const;
int evaluateMemory() const;
void sendMesh(const ParaMEDMEM::MEDCouplingUMesh& mesh, int target) const;
-
void recvMesh(ParaMEDMEM::MEDCouplingUMesh*& mesh, int source) const;
-
- void sendDoubleVec(const std::vector<double>& vec, int target) const;
-
- void recvDoubleVec(std::vector<double>& vec, int source) const;
-
- void sendIntVec(const std::vector<int>& vec, int target) const;
- void recvIntVec(std::vector<int>& vec, int source) const;
-
+
private:
int _rank, _world_size; // my rank and nb of processors
-
int _nb_result_domains; // required nb of domains
//int _total_nb_faces; // nb of faces in the whole mesh without proc/proc joint faces
std::vector< int > _nb_cell_pairs_by_joint;
-
std::vector< int > _nb_vert_of_procs; // graph vertices
std::vector< int > _cell_shift_by_domain;
+ std::vector< int > _node_shift_by_domain;
std::vector< int > _face_shift_by_domain;
double _init_time;
bool _mesure_memory;
int _init_memory, _max_memory;
};
-
}
#endif
#include <set>
#include <map>
#include <vector>
+#include <iostream>
#include "InterpKernelHashMap.hxx"
#include "MEDPARTITIONER_MESHCollection.hxx"
#include "MEDPARTITIONER_ConnectZone.hxx"
#include "MEDCouplingUMesh.hxx"
-#include "MEDMEM_Exception.hxx"
-#include "MEDMEM_Utilities.hxx"
+#include "MEDPARTITIONER_utils.hxx"
-#ifndef WNT
-using namespace __gnu_cxx;
-#else
-using namespace std;
+#ifdef HAVE_MPI2
+#include <mpi.h>
#endif
using namespace MEDPARTITIONER;
+using namespace std;
//empty constructor
ParallelTopology::ParallelTopology():_nb_domain(0),_mesh_dimension(0)
{}
+//!constructing topology according to mesh collection without global numerotation (use setGlobalNumerotation later)
+ParallelTopology::ParallelTopology(const vector<ParaMEDMEM::MEDCouplingUMesh*>& meshes)
+{
+ _nb_domain=meshes.size();
+ _nb_cells.resize(_nb_domain);
+ _nb_nodes.resize(_nb_domain);
+ // _nb_faces.resize(_nb_domain);
+
+ if (MyGlobals::_is0verbose>100) cout<<"new ParallelTopology\n";
+ _loc_to_glob.resize(0); //precaution, need gatherNbOf() setGlobalNumerotation()
+ _node_loc_to_glob.resize(0); //precaution, need gatherNbOf() setGlobalNumerotation()
+ //_face_loc_to_glob.resize(_nb_domain);
+ _mesh_dimension = -1;
+ bool parallel_mode = false;
+ for (int idomain=0; !parallel_mode && idomain<_nb_domain; idomain++)
+ parallel_mode = (!meshes[idomain]);
+
+ if (MyGlobals::_is0verbose>20 && !parallel_mode) cout<<"WARNING : ParallelTopology contructor without parallel_mode"<<endl;
+ for (int idomain=0; idomain<_nb_domain; idomain++)
+ {
+ if ( !meshes[idomain] ) continue;
+ if (_mesh_dimension==-1)
+ {
+ _mesh_dimension = meshes[idomain]->getMeshDimension();
+ }
+ else
+ {
+ if (_mesh_dimension!=meshes[idomain]->getMeshDimension())
+ throw INTERP_KERNEL::Exception(LOCALIZED("meshes dimensions incompatible"));
+ }
+ _nb_cells[idomain]=meshes[idomain]->getNumberOfCells();
+ _nb_nodes[idomain]=meshes[idomain]->getNumberOfNodes();
+ //note: in parallel mode _nb_cells and _nb_nodes are not complete now, needs gatherNbOf()
+ }
+}
+
+//!constructing _loc_to_glob etc by default, needs gatherNbOf() done
+void ParallelTopology::setGlobalNumerotationDefault(ParaDomainSelector* domainSelector)
+{
+ if (MyGlobals::_is0verbose>100) cout<<"setGlobalNumerotationDefault on "<<_nb_domain<<" domains\n";
+ if (_loc_to_glob.size()!=0) throw INTERP_KERNEL::Exception(LOCALIZED("a global numerotation is done yet"));
+ _loc_to_glob.resize(_nb_domain);
+ _node_loc_to_glob.resize(_nb_domain);
+
+ //warning because _nb_cells[idomain] is 0 if not my domain(s)
+ //we set loc_to_glob etc.. only for my domain(s)
+ if (MyGlobals::_is0verbose>500) cout<<"(c)idomain|ilocalCell|iglobalCell"<<endl;
+ for (int idomain=0; idomain<_nb_domain; idomain++)
+ {
+ _loc_to_glob[idomain].resize(_nb_cells[idomain]);
+ int domainCellShift=domainSelector->getDomainCellShift(idomain);
+ for (int i=0; i<_nb_cells[idomain]; i++)
+ {
+ int global=domainCellShift+i ;
+ _glob_to_loc.insert(make_pair(global,make_pair(idomain,i)));
+ _loc_to_glob[idomain][i]=global;
+ if (MyGlobals::_verbose>500) cout<<"c"<<idomain<<"|"<<i<<"|"<<global<<" ";
+ }
+ }
+ if (MyGlobals::_verbose>500) MPI_Barrier(MPI_COMM_WORLD);
+ if (MyGlobals::_is0verbose>500) cout<<endl;
+
+ if (MyGlobals::_is0verbose>500) cout<<"(n)idomain|ilocalNode|iglobalNode"<<endl;
+ for (int idomain=0; idomain<_nb_domain; idomain++)
+ {
+ _node_loc_to_glob[idomain].resize(_nb_nodes[idomain]);
+ int domainNodeShift=domainSelector->getDomainNodeShift(idomain);
+ for (int i=0; i<_nb_nodes[idomain]; i++)
+ {
+ int global=domainNodeShift+i ;
+ _node_glob_to_loc.insert(make_pair(global,make_pair(idomain,i)));
+ _node_loc_to_glob[idomain][i]=global;
+ if (MyGlobals::_verbose>500) cout<<"n"<<idomain<<"|"<<i<<"|"<<global<<" ";
+ }
+ }
+ if (MyGlobals::_verbose>500) MPI_Barrier(MPI_COMM_WORLD);
+ if (MyGlobals::_is0verbose>500) cout<<endl;
+
+ _nb_total_cells=domainSelector->getNbTotalCells();
+ _nb_total_nodes=domainSelector->getNbTotalNodes();
+ _nb_total_faces=domainSelector->getNbTotalFaces();
+ if (MyGlobals::_is0verbose>200) cout<<"globalNumerotation default done meshDimension "<<_mesh_dimension<<" nbTotalCells "<<_nb_total_cells<<" nbTotalNodes "<<_nb_total_nodes<<endl;
+}
+
//!constructing topology according to mesh collection
ParallelTopology::ParallelTopology(const vector<ParaMEDMEM::MEDCouplingUMesh*>& meshes,
const vector<MEDPARTITIONER::CONNECTZONE*>& cz,
vector<int*>& cellglobal,
vector<int*>& nodeglobal,
- vector<int*>& faceglobal):_nb_domain(meshes.size())/*,_mesh_dimension(meshes[0]->getMeshDimension())*/
+ vector<int*>& faceglobal)
{
-
+ _nb_domain=meshes.size();
int index_global=0;
int index_node_global=0;
int index_face_global=0;
_nb_cells.resize(_nb_domain);
_nb_nodes.resize(_nb_domain);
// _nb_faces.resize(_nb_domain);
-
+
_loc_to_glob.resize(_nb_domain);
_node_loc_to_glob.resize(_nb_domain);
// _face_loc_to_glob.resize(_nb_domain);
- //MED_EN::medEntityMesh constituent_entity;
-
bool parallel_mode = false;
for (int idomain=0; !parallel_mode && idomain<_nb_domain; idomain++)
parallel_mode = (!meshes[idomain]);
for (int idomain=0; idomain<_nb_domain; idomain++)
{
- if ( !meshes[idomain] )
- continue;
+ if ( !meshes[idomain] ) continue;
_mesh_dimension = meshes[idomain]->getMeshDimension();
- //constituent_entity = (_mesh_dimension == 3 ? MED_EN::MED_FACE : MED_EN::MED_EDGE );
-
+
//creating cell maps
_nb_cells[idomain]=meshes[idomain]->getNumberOfCells();
// cout << "Nb cells (domain "<<idomain<<") = "<<_nb_cells[idomain];
if (cellglobal[idomain]==0 || parallel_mode)
{
- MESSAGE_MED("Creating global numbering");
+ //int cellDomainShift=_cell_shift_by_domain[idomain];
//creating global numbering from scratch
for (int i=0; i<_nb_cells[idomain]; i++)
{
-
- _glob_to_loc.insert(make_pair(index_global,make_pair(idomain,i+1)));
- _loc_to_glob[idomain][i]=index_global;
- // cout<<"glob:"<<index_global<<" --> ("<<idomain<<","<<i+1<<")"<<endl;
+ int global=i ;//cellDomainShift+i;
+ _glob_to_loc.insert(make_pair(global,make_pair(idomain,i)));
+ _loc_to_glob[idomain][i]=global;
+ //cvw cout<<idomain<<"|"<<i<<"|"<<global<<" ";
index_global++;
}
}
//using global numbering coming from a previous numbering
else
{
- MESSAGE_MED("Using former global numbering");
for (int i=0; i<_nb_cells[idomain]; i++)
{
int global=cellglobal[idomain][i];
}
_nb_total_nodes=meshes[idomain]->getNumberOfNodes();
_nb_nodes[0]=_nb_total_nodes;
-
- MESSAGE_MED ("nb total cells "<< _nb_total_cells);
- MESSAGE_MED("nb total nodes "<< _nb_total_nodes);
return;
}
_nb_total_cells=index_global;
_nb_total_nodes=index_node_global;
_nb_total_faces=index_face_global;
- SCRUTE_MED(_nb_total_cells);
- SCRUTE_MED(_nb_total_faces);
- SCRUTE_MED(_nb_total_nodes);
-
}
//!constructing ParallelTopology from an old topology and a graph
-ParallelTopology::ParallelTopology(Graph* graph, int nb_domain, int mesh_dimension):
- _nb_domain(nb_domain),
- _nb_cells(graph->nbVertices()),
- _mesh_dimension(mesh_dimension)
+ParallelTopology::ParallelTopology(Graph* graph, Topology* oldTopology, int nb_domain, int mesh_dimension)
{
+
+ _nb_domain=nb_domain;
+ //cvw !!whatisit! _nb_cells=graph->nbVertices();
+ _mesh_dimension=mesh_dimension;
+
+ if (MyGlobals::_verbose>200)
+ cout<<"proc "<<MyGlobals::_rank<<" : new topology oldNbDomain "<<
+ oldTopology->nbDomain()<<" newNbDomain "<<_nb_domain<<endl;
+ _nb_cells.resize(_nb_domain,0);
+ _nb_nodes.resize(_nb_domain,0);
+ _nb_faces.resize(_nb_domain,0);
+
+ _loc_to_glob.resize(_nb_domain);
+ _node_loc_to_glob.resize(_nb_domain);
+ _face_loc_to_glob.resize(_nb_domain);
+
+ const int* part=graph->getPart(); //all cells for this proc (may be more domains)
+ _nb_total_cells=graph->nbVertices(); //all cells for this proc (may be more domains)
+ if (MyGlobals::_verbose>300)
+ cout<<"proc "<<MyGlobals::_rank<<" : topology from partition, nbTotalCells "<<_nb_total_cells<<endl;
+
+ int icellProc=0; //all cells of my domains are concatenated in part
+ for (int iold=0; iold<oldTopology->nbDomain(); iold++)
+ {
+ int ioldNbCell=oldTopology->getCellNumber(iold);
+ //cout<<"proc "<<MyGlobals::_rank<<" : cell number old domain "<<iold<<" : "<<ioldNbCell<<endl;
+ //if not my old domains getCellNumber is 0
+ std::vector<int> globalids(ioldNbCell);
+ oldTopology->getCellList(iold, &globalids[0]); //unique global numerotation
+ for (int icell=0; icell<ioldNbCell; icell++)
+ {
+ int idomain=part[icellProc];
+ _nb_cells[idomain]++;
+ icellProc++;
+ int iGlobalCell=globalids[icell];
+ _loc_to_glob[idomain].push_back(iGlobalCell);
+ _glob_to_loc.insert(make_pair(iGlobalCell, make_pair(idomain, _nb_cells[idomain])));
+ }
+ }
+
+ if (MyGlobals::_verbose>300)
+ for (int idomain=0; idomain<_nb_domain; idomain++)
+ cout<<"proc "<<MyGlobals::_rank<<" : nbCells in new domain "<<idomain<<" : "<<_nb_cells[idomain]<<endl;
+}
+
+//!constructing ParallelTopology from an old topology and a graph
+/*
+ParallelTopology::ParallelTopology(Graph* graph, Topology* oldTopology, int nb_domain, int mesh_dimension)
+{
+
+ _nb_domain=nb_domain;
+ //cvw !!whatisit! _nb_cells=graph->nbVertices();
+ _mesh_dimension=mesh_dimension;
+
+ cout<<"proc "<<MyGlobals::_rank<<" : new topology from partition old nbDomain "<<
+ oldTopology->nbDomain()<<" new nbDomain "<<_nb_domain<<endl;
_nb_cells.resize(_nb_domain);
_nb_nodes.resize(_nb_domain);
_nb_faces.resize(_nb_domain);
_cell_loc_to_glob_fuse.resize(_nb_domain);
_face_loc_to_glob_fuse.resize(_nb_domain);
- for (int i=0; i<_nb_domain; i++)
- _nb_cells[i]=0;
+ for (int i=0; i<_nb_domain; i++) _nb_cells[i]=0;
+
+ const int* part=graph->getPart();
+ _nb_total_cells=graph->nbVertices();
- const int* part = graph-> getPart();
- _nb_total_cells= graph->nbVertices();
+ cout<<"proc "<<MyGlobals::_rank<<" : topology from partition, _nb_total_cells "<<_nb_total_cells<<endl;
for (int icell=0; icell<_nb_total_cells; icell++)
{
int idomain = part[icell];
_nb_cells[idomain]++;
- //_loc_to_glob[make_pair(idomain,_nb_cells[idomain])]=icell+1;
+ //cvw problem _nb_cells[idomain] is not only on this proc...
+ //cout<<"proc "<<MyGlobals::_rank<<" : topology from partition, houston! there is a bug in _loc_to_glob and _glob_to_loc"<<endl;
_loc_to_glob[idomain].push_back(icell);
- _glob_to_loc.insert(make_pair(icell,make_pair(idomain,_nb_cells[idomain])));
-
+ _glob_to_loc.insert(make_pair(icell, make_pair(idomain, _nb_cells[idomain])));
+ cout<<"proc "<<MyGlobals::_rank<<" : glob_to_loc.insert : "<<icell<<" "<<idomain<<" "<<_nb_cells[idomain]<<endl;
}
for (int idomain=0; idomain<_nb_domain; idomain++)
- MESSAGE_MED("Nombre de cellules dans le domaine "<< idomain <<" : "<<_nb_cells[idomain]);
-
- SCRUTE_MED(_nb_total_cells);
-
+ cout<<"proc "<<MyGlobals::_rank<<" : Nb cells in new domain "<<idomain<<" : "<<_nb_cells[idomain]<<endl;
}
+*/
ParallelTopology::~ParallelTopology()
{
void ParallelTopology::convertGlobalNodeList(const int* node_list, int nbnode, int* local, int* ip)
{
if (_node_glob_to_loc.empty())
- throw MEDMEM::MEDEXCEPTION("convertGlobalNodeList - Node mapping has not yet been built");
+ throw INTERP_KERNEL::Exception(LOCALIZED("Node mapping has not yet been built"));
for (int i=0; i< nbnode; i++)
{
pair<int,int> local_node = _node_glob_to_loc.find(node_list[i])->second;
void ParallelTopology::convertGlobalNodeList(const int* node_list, int nbnode, int* local, int ip)
{
if (_node_glob_to_loc.empty())
- throw MEDMEM::MEDEXCEPTION("convertGlobalNodeList - Node mapping has not yet been built");
+ throw INTERP_KERNEL::Exception(LOCALIZED("Node mapping has not yet been built"));
for (int i=0; i< nbnode; i++)
{
void ParallelTopology::convertGlobalNodeListWithTwins(const int* node_list, int nbnode, int*& local, int*& ip,int*& full_array, int& size)
{
if (_node_glob_to_loc.empty())
- throw MEDMEM::MEDEXCEPTION("convertGlobalNodeList - Node mapping has not yet been built");
+ throw INTERP_KERNEL::Exception(LOCALIZED("Node mapping has not yet been built"));
size=0;
for (int i=0; i< nbnode; i++)
//!to a distributed array with local cell numbers
void ParallelTopology::convertGlobalCellList(const int* cell_list, int nbcell, int* local, int* ip)
{
- for (int i=0; i< nbcell; i++)
+ for (int i=0; i<nbcell; i++)
{
+ //cvw INTERP_KERNEL::HashMap<int, pair<int,int> >::const_iterator iter = _glob_to_loc.find(cell_list[i]);
INTERP_KERNEL::HashMap<int, pair<int,int> >::const_iterator iter = _glob_to_loc.find(cell_list[i]);
- ip[i]=(iter->second).first;
- local[i]=(iter->second).second;
+ if (iter == _glob_to_loc.end())
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : KO cell_list["<<i<<"] : "<<cell_list[i]<<endl;
+ throw INTERP_KERNEL::Exception(LOCALIZED("ParallelTopology::convertGlobalCellList : Cell not found"));
+ }
+ else
+ {
+ ip[i]=(iter->second).first; //no domain
+ local[i]=(iter->second).second; //no local cell
+ //cout<<"proc "<<MyGlobals::_rank<<" : OK cell_list["<<i<<"] : "<<cell_list[i]<<" "<<ip[i]<<" "<<local[i]<<endl;
+ }
}
}
INTERP_KERNEL::HashMap<int, pair<int,int> >::const_iterator iter = _face_glob_to_loc.find(face_list[i]);
if (iter == _face_glob_to_loc.end())
{
- throw MED_EXCEPTION("convertGlobalFaceList - Face not found");
+ throw INTERP_KERNEL::Exception(LOCALIZED("ParallelTopology::convertGlobalFaceList : Face not found"));
}
ip[i]=(iter->second).first;
local[i]=(iter->second).second;
}
}
-
-
//replacing a table of global numbering with a table with local numberings
// type_connectivity contains global connectivity for each type in input
// type_connectivity contains local connectivity for each type in output
{
if ((it->second).first==idomain)
nodes[inode]=(it->second).second;
- }
+ }
}
}
-
//================================================================================
/*!
* \brief Return max global face number
*/
//================================================================================
-
int ParallelTopology::getMaxGlobalFace() const
{
int max = 0;
#include "InterpKernelHashMap.hxx"
#include "MEDPARTITIONER_Topology.hxx"
+#include "MEDPARTITIONER_ParaDomainSelector.hxx"
+/*
namespace INTERP_KERNEL
{
template<> struct hash< std::pair<int,int> >
return hash< int >()( x.first*1000000+x.second );
}
};
-}
+}*/
namespace MEDPARTITIONER {
ParallelTopology();
+ ParallelTopology(const std::vector<ParaMEDMEM::MEDCouplingUMesh*>&);
ParallelTopology(const std::vector<ParaMEDMEM::MEDCouplingUMesh*>&,
const std::vector<MEDPARTITIONER::CONNECTZONE*>&,
std::vector<int*>&,
std::vector<int*>&,
std::vector<int*>&);
- ParallelTopology(Graph* graph, int nbdomain, int mesh_dimension);
+ ParallelTopology(Graph* graph, Topology* oldTopology, int nbdomain, int mesh_dimension);
~ParallelTopology();
+
+ void setGlobalNumerotationDefault(ParaDomainSelector* domainSelector);
+
//!converts a list of global cell numbers
//!to a distributed array with local cell numbers
void convertGlobalNodeList(const int*, int,int*,int*);
{
return _nb_total_cells;
}
+
int nbNodes() const
- {return _nb_total_nodes;}
+ {
+ return _nb_total_nodes;
+ }
inline int nbCells( int idomain) const
{
return _nb_cells[idomain];
}
-
-
-
//!retrieving number of nodes
inline int getNodeNumber(int idomain) const
{
//!retrieving list of nodes in global numbers
inline void getNodeList(int idomain, int* list) const
{
- for (int i=0; i<_nb_nodes[idomain];i++)
+ for (int i=0; i<_nb_nodes[idomain]; i++)
list[i]=_node_loc_to_glob[idomain][i];
}
{
return _cell_loc_to_glob_fuse[idomain];
}
+
const std::vector<int> & getFusedCellNumbers(int idomain) const
{
return _cell_loc_to_glob_fuse[idomain];
{
for (int i=0; i<_nb_cells[idomain];i++)
list[i]=_loc_to_glob[idomain][i];
-
-
}
inline int getFaceNumber(int idomain) const
}
return -1;
}
+
//!adding a face to the topology
inline void appendFace(int idomain, int ilocal, int iglobal)
{
//return max global face number
int getMaxGlobalFace() const;
-
private:
-
bool hasCellWithNodes( const MESHCollection&, int dom, const std::set<int>& nodes );
-
private:
//!mapping global -> local
typedef INTERP_KERNEL::HashMultiMap<int,std::pair<int,int> > TGlob2DomainLoc;
std::vector<std::vector <int> > _cell_loc_to_glob_fuse; // glob nums after fusing
std::vector<std::vector <int> > _face_loc_to_glob_fuse; // glob nums after fusing
-
//!mapping global -> local
typedef INTERP_KERNEL::HashMultiMap<int,std::pair<int,int> > TGlob2LocsMap;
TGlob2LocsMap _face_glob_to_loc;
//!mapping local -> global
std::vector<std::vector <int> > _face_loc_to_glob;
-
std::vector<int> _nb_cells;
-
std::vector<int> _nb_nodes;
-
std::vector<int> _nb_faces;
-
int _nb_total_cells;
-
int _nb_total_nodes;
-
int _nb_total_faces;
-
int _nb_domain;
-
int _mesh_dimension;
-
};
//
#include "MEDPARTITIONER_SkyLineArray.hxx"
-#include "MEDMEM_Utilities.hxx"
#include <vector>
MEDSKYLINEARRAY::MEDSKYLINEARRAY()
{
- MESSAGE_MED("Constructeur MEDSKYLINEARRAY sans parametre");
+ //MESSAGE_MED("Constructeur MEDSKYLINEARRAY sans parametre");
}
MEDSKYLINEARRAY::MEDSKYLINEARRAY(const MEDSKYLINEARRAY &myArray)
MEDSKYLINEARRAY::~MEDSKYLINEARRAY()
{
- MESSAGE_MED("Destructeur ~MEDSKYLINEARRAY");
+ //MESSAGE_MED("Destructeur ~MEDSKYLINEARRAY");
//if (_index != NULL) delete [] _index;
//if (_value != NULL) delete [] _value;
// Constructeur par recopie
MEDSKYLINEARRAY( const MEDSKYLINEARRAY &myArray );
- // Avec ce constructeur la mémoire pour le tableau de valeur et le
- // tableau d'index est réservée. Il suffit d'effectuer les séquences
+ // Avec ce constructeur la m�moire pour le tableau de valeur et le
+ // tableau d'index est r�serv�e. Il suffit d'effectuer les s�quences
// d'appels suivantes pour initialiser le MEDSKYLINEARRAY
- // 1) setIndex(index) puis <count> fois setI(i,&listValeurN°I) avec i dans 1..count
- // rem : listValeurN°I est dupliquée
+ // 1) setIndex(index) puis <count> fois setI(i,&listValeurN�I) avec i dans 1..count
+ // rem : listValeurN�I est dupliqu�e
// 2) appeler <length> fois setIJ(i,j,valeur) avec i dans 1..count et avec j dans 1..count
MEDSKYLINEARRAY( const std::vector<int>& index, const std::vector<int>& value );
-
-
~MEDSKYLINEARRAY();
//void setMEDSKYLINEARRAY( const int count, const int length, int* index , int* value ) ;
- inline int getNumberOf() const;
- inline int getLength() const;
- inline const int* getIndex() const;
- inline const int* getValue() const;
+ inline int getNumberOf() const;
+ inline int getLength() const;
+ inline const int* getIndex() const;
+ inline const int* getValue() const;
};
// ---------------------------------------
#ifndef MEDPARTITIONER_TOPOLOGY_HXX_
#define MEDPARTITIONER_TOPOLOGY_HXX_
-//#include "MEDMEM_define.hxx"
-
//#include "boost/shared_ptr.hpp"
#include <map>
--- /dev/null
+// Copyright (C) 2007-2010 CEA/DEN, EDF R&D
+//
+// This library is free software; you can redistribute it and/or
+// modify it under the terms of the GNU Lesser General Public
+// License as published by the Free Software Foundation; either
+// version 2.1 of the License.
+//
+// This library is distributed in the hope that it will be useful,
+// but WITHOUT ANY WARRANTY; without even the implied warranty of
+// MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU
+// Lesser General Public License for more details.
+//
+// You should have received a copy of the GNU Lesser General Public
+// License along with this library; if not, write to the Free Software
+// Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
+//
+// See http://www.salome-platform.org/ or email : webmaster.salome@opencascade.com
+//
+
+#include "MEDLoader.hxx"
+#include "MEDLoaderBase.hxx"
+#include "MEDFileUtilities.hxx"
+#include "CellModel.hxx"
+#include "MEDCouplingUMesh.hxx"
+#include "MEDCouplingFieldDouble.hxx"
+#include "MEDPARTITIONER_utils.hxx"
+#include "InterpKernelException.hxx"
+#include "MEDCouplingAutoRefCountObjectPtr.hxx"
+#include "InterpKernelAutoPtr.hxx"
+
+#ifdef HAVE_MPI2
+#include <mpi.h>
+#endif
+
+#include <fstream>
+#include <iostream>
+#include <iomanip>
+#include <sstream>
+#include <string>
+
+using namespace std;
+using namespace MEDPARTITIONER;
+
+int MEDPARTITIONER::MyGlobals::_verbose=0;
+int MEDPARTITIONER::MyGlobals::_is0verbose=0;
+int MEDPARTITIONER::MyGlobals::_rank=-1;
+int MEDPARTITIONER::MyGlobals::_world_size=-1;
+int MEDPARTITIONER::MyGlobals::_randomize=0;
+int MEDPARTITIONER::MyGlobals::_atomize=0;
+int MEDPARTITIONER::MyGlobals::_creates_boundary_faces=0;
+vector<string> MEDPARTITIONER::MyGlobals::_fileNames;
+vector<string> MEDPARTITIONER::MyGlobals::_meshNames;
+vector<string> MEDPARTITIONER::MyGlobals::_fieldDescriptions;
+vector<string> MEDPARTITIONER::MyGlobals::_generalInformations;
+
+string MEDPARTITIONER::trim(string& s, const string& drop)
+{
+ string r=s.erase(s.find_last_not_of(drop)+1);
+ return r.erase(0,r.find_first_not_of(drop));
+}
+
+string MEDPARTITIONER::intToStr(int i)
+{
+ ostringstream oss;
+ oss<<i;
+ return oss.str();
+}
+
+int MEDPARTITIONER::strToInt(string s)
+{
+ int res;
+ istringstream iss(s);
+ iss>>res;
+ return res;
+}
+
+string MEDPARTITIONER::doubleToStr(double i)
+{
+ ostringstream oss;
+ oss<<i;
+ return oss.str();
+}
+
+double MEDPARTITIONER::strToDouble(string s)
+{
+ double res;
+ istringstream iss(s);
+ iss>>res;
+ return res;
+}
+
+bool MEDPARTITIONER::testArg(const char *arg, const char *argExpected, string& argValue)
+{
+ argValue="";
+ int i;
+ for (i=0; i<strlen(arg); i++)
+ {
+ if (arg[i]=='=') break;
+ if (arg[i]!=argExpected[i]) return false;
+ }
+ for (int j=i+1; j<strlen(arg); j++) argValue+=arg[j];
+ //cout<<"found at "<<i<<" "<<argValue<<endl;
+ return true;
+}
+
+vector<int> MEDPARTITIONER::createRandomSize(int size)
+{
+ vector<int> res(size);
+ for (int i=0; i<size; i++) res[i]=i;
+ //cvw TODO srand( (unsigned)time( NULL ) );
+ srand( MyGlobals::_randomize );
+ for (int i=0; i<size; i++)
+ {
+ int ii=rand()%size;
+ int tmp=res[ii];
+ res[ii]=res[i];
+ res[i]=tmp;
+ }
+ //cout<<"createRandomSize "<<size<<endl;
+ if (size<50) { for (int i=0; i<size; i++) cout<<res[i]<<" "; cout<<endl; }
+ return res;
+}
+
+void MEDPARTITIONER::randomizeAdj(int* xadj, int* adjncy, vector<int>& ran, vector<int>& vx, vector<int>& va)
+//randomize a xadj and adjncy, renumbering vertices belong rand.
+//work only on one processor!!!!
+{
+ if (MyGlobals::_world_size>1)
+ {
+ cerr<<"randomizeAdj only on one proc!"<<endl;
+ return;
+ }
+ int size=ran.size();
+ vector<int> invran(size);
+ for (int i=0; i<size; i++) invran[ran[i]]=i;
+ vx.resize(size+1);
+ int lga=xadj[size];
+ va.resize(lga);
+ int jj=0;
+ vx[0]=0;
+ for (int i=0; i<size; i++)
+ {
+ int ir=ran[i];
+ int ii=xadj[ir];
+ int lgj=xadj[ir+1]-ii;
+ for (int j=0; j<lgj; j++)
+ {
+ //va[jj]=adjncy[ii]; //for first debug only
+ va[jj]=invran[adjncy[ii]];
+ jj=jj+1;
+ ii=ii+1;
+ }
+ vx[i+1]=jj;
+ }
+}
+
+void MEDPARTITIONER::testRandomize()
+{
+ //int xadj[6]={0,2,5,9,12,13}; //for first debug only
+ //int adjncy[13]={1,4,0,2,4,1,3,4,2,4,4,3,4};
+ int xadj[6]={0,2,5,9,12,13};
+ int adjncy[13]={0,0,1,1,1,2,2,2,2,3,3,3,4};
+ cout<<"testRandomize"<<endl;
+ for (int i=0; i<6; i++) cout<<xadj[i]<<" "; cout<<endl;
+ for (int i=0; i<13; i++) cout<<adjncy[i]<<" "; cout<<endl;
+ int size=5;
+ vector<int> r=createRandomSize(size);
+ vector<int> vx,va;
+ randomizeAdj(&xadj[0],&adjncy[0],r,vx,va);
+ for (int i=0; i<vx.size(); i++) cout<<vx[i]<<" "; cout<<endl;
+ for (int i=0; i<va.size(); i++) cout<<va[i]<<" "; cout<<endl;
+}
+
+string MEDPARTITIONER::reprVectorOfString(const vector<string>& vec)
+{
+ if (vec.size()==0) return string(" NONE\n");
+ ostringstream oss;
+ for (vector<string>::const_iterator i=vec.begin(); i!=vec.end(); ++i)
+ oss<<" -> '"<<*i<<"'"<<endl;
+ return oss.str();
+}
+
+string MEDPARTITIONER::reprVectorOfString(const vector<string>& vec, string sep)
+{
+ if (vec.size()==0) return string(" NONE\n");
+ ostringstream oss;
+ for (vector<string>::const_iterator i=vec.begin(); i!=vec.end(); ++i)
+ oss<<sep<<*i;
+ return oss.str();
+}
+
+string MEDPARTITIONER::reprMapOfStringInt(const map<string,int>& mymap)
+{
+ if (mymap.size()==0) return string(" NONE\n");
+ ostringstream oss;
+ for (map<string,int>::const_iterator i=mymap.begin(); i!=mymap.end(); ++i)
+ oss<<" -> ["<<(*i).first<<"]="<<(*i).second<<endl;
+ return oss.str();
+}
+
+string MEDPARTITIONER::reprMapOfStringVectorOfString(const map< string,vector<string> >& mymap)
+{
+ if (mymap.size()==0) return string(" NONE\n");
+ ostringstream oss;
+ for (map< string,vector<string> >::const_iterator i=mymap.begin(); i!=mymap.end(); ++i)
+ oss<<" -> ["<<(*i).first<<"]="<<endl<<reprVectorOfString((*i).second)<<endl;
+ return oss.str();
+}
+
+string MEDPARTITIONER::reprFieldDescriptions(const vector<string>& vec, string sep)
+{
+ if (vec.size()==0) return string(" NONE\n");
+ ostringstream oss;
+ for (vector<string>::const_iterator i=vec.begin(); i!=vec.end(); ++i)
+ {
+ oss<<" ->";
+ oss<<reprVectorOfString(deserializeToVectorOfString(*i), sep)<<endl;
+ /*vector<string> vec2=deserializeToVectorOfString(*i);
+ for (vector<string>::const_iterator j=vec2.begin(); j!=vec2.end(); ++j)
+ oss<<reprVectorOfString(deserializeToVectorOfString(*j), sep)<<endl;*/
+ }
+ return oss.str();
+}
+
+string MEDPARTITIONER::serializeFromString(const string& s)
+//a string "hello" gives a string " 5/hello/"
+//serialized_FromVectorOfString_string+serializeFromString("toto") is
+//equivalent to vector<string>.push_back("toto") on serialized_FromVectorOfString_string
+{
+ ostringstream oss;
+ oss<<setw(5)<<s.size()<<"/"<<s<<"/";
+ return oss.str();
+}
+
+string MEDPARTITIONER::serializeFromVectorOfString(const vector<string>& vec)
+//a vector of string gives a string
+{
+ ostringstream oss;
+ for (vector<string>::const_iterator i=vec.begin(); i!=vec.end(); ++i)
+ oss<<setw(5)<<(*i).size()<<"/"<<*i<<"/";
+ //string res(oss.str());
+ return oss.str();
+}
+
+vector<string> MEDPARTITIONER::deserializeToVectorOfString(const string& str)
+//a string gives a vector of string
+{
+ //vector<string> res=new vector<string>;
+ vector<string> res;
+ size_t pos=0;
+ size_t posmax=str.size();
+ if (posmax==0) return res; //empty vector
+ size_t length;
+ while (pos < posmax-6) //setw(5)+" "
+ {
+ istringstream iss(str.substr(pos,5));
+ iss>>length;
+ //cout<<"length "<<length<<endl;
+ if ((str[pos+5]!='/') || (str[pos+6+length]!='/'))
+ {
+ cerr<<"Error on string '"<<str<<"'"<<endl;;
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error on string"));
+ }
+ res.push_back(str.substr(pos+6,length));
+ pos=pos+6+length+1;
+ }
+ return res;
+}
+
+string MEDPARTITIONER::eraseTagSerialized(string fromStr, string tag)
+{
+ vector<string> vec=deserializeToVectorOfString(fromStr);
+ vector<string> res;
+ for (int i=0; i<vec.size(); i++)
+ {
+ if (vec[i].find(tag)==string::npos) res.push_back(vec[i]);
+ }
+ return MEDPARTITIONER::serializeFromVectorOfString(res);
+}
+
+vector<string> MEDPARTITIONER::vectorizeFromMapOfStringInt(const map<string,int>& mymap)
+//elements first and second of map give one elements in result vector of string
+//converting formatted the int second as firsts characters ending at first slash
+{
+ vector<string> res;
+ for (map<string,int>::const_iterator i=mymap.begin(); i!=mymap.end(); ++i)
+ {
+ ostringstream oss;
+ oss<<(*i).second<<"/"<<(*i).first;
+ res.push_back(oss.str());
+ }
+ return res;
+}
+
+map<string,int> MEDPARTITIONER::devectorizeToMapOfStringInt(const vector<string>& vec)
+//if existing identicals (first,second) in vector no problem, else Exception
+{
+ map<string,int> res;
+ for (vector<string>::const_iterator i=vec.begin(); i!=vec.end(); ++i)
+ {
+ size_t pos=0;
+ size_t posmax=(*i).size();
+ size_t found=(*i).find('/'); //first slash
+ if ((found==string::npos) || (found<1))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error aIntNumber/anyString is expected"));
+ int second;
+ istringstream iss((*i).substr(pos,found));
+ iss>>second;
+ string first=(*i).substr(pos+found+1,posmax-found);
+ map<string,int>::iterator it=res.find(first);
+ if (it!=res.end())
+ if ((*it).second!=second)
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error not the same map value"));
+ res[first]=second;
+ }
+ return res;
+}
+
+vector<string> MEDPARTITIONER::vectorizeFromMapOfStringVectorOfString(const map< string,vector<string> >& mymap)
+//elements first and second of map give one elements in result vector of string
+//adding key map and length of second vector as first string in each serialized vector
+//one serialized vector per key map
+{
+ vector<string> res;
+ for (map< string,vector<string> >::const_iterator i=mymap.begin(); i!=mymap.end(); ++i)
+ {
+ vector<string> vs=(*i).second; //a vector of string;
+ ostringstream oss;
+ oss<<"Keymap/"<<(*i).first<<"/"<<(*i).second.size();
+ vs.insert(vs.begin(), oss.str());
+ res.push_back(serializeFromVectorOfString(vs));
+ }
+ return res;
+}
+
+map< string,vector<string> > MEDPARTITIONER::devectorizeToMapOfStringVectorOfString(const vector<string>& vec)
+//if existing identicals keymap in vector no problem
+//duplicates in second vector
+{
+ map< string,vector<string> > res;
+ for (vector<string>::const_iterator i=vec.begin(); i!=vec.end(); ++i)
+ {
+ vector<string> vs=deserializeToVectorOfString(*i);
+
+ string enTete=vs[0];
+ size_t posmax=enTete.size();
+ size_t foundKey=enTete.find("Keymap/");
+ size_t foundSizeVector=enTete.find_last_of('/');
+ if ((foundKey==string::npos) || (foundKey!=0) || ((foundKey+7)>=foundSizeVector))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error Keymap/anyString/aIntNumber is expected"));
+ int sizeVector;
+ istringstream iss(enTete.substr(foundSizeVector+1,posmax-foundSizeVector));
+ iss>>sizeVector;
+ string keymap=enTete.substr(foundKey+7,foundSizeVector-foundKey-7);
+ //cout<<keymap<<" : sizeVector="<<enTete.substr(foundSizeVector+1,posmax-foundSizeVector)<<endl;
+ for (int i=1; i<=sizeVector; i++)
+ res[keymap].push_back(vs[i]); //add unconditionnaly,so merge duplicates in second vector
+ }
+ return res;
+}
+
+vector<string> MEDPARTITIONER::selectTagsInVectorOfString(const vector<string>& vec, string tag)
+{
+ vector<string> res;
+ if (vec.size()==0) return res;
+ //shit for unique and unique_copy for the duplicate CONSECUTIVE elements
+ //I do not want to sort
+ for (vector<string>::const_iterator i=vec.begin(); i!=vec.end(); ++i)
+ {
+ if ((*i).find(tag)!=string::npos) res.push_back(*i);
+ }
+ return res;
+}
+
+vector<string> MEDPARTITIONER::deleteDuplicatesInVectorOfString(const vector<string>& vec)
+{
+ vector<string> res;
+ if (vec.size()==0) return res;
+ //shit for unique and unique_copy for the duplicate CONSECUTIVE elements
+ //I do not want to sort
+ for (vector<string>::const_iterator i=vec.begin(); i!=vec.end(); ++i)
+ {
+ bool found=false;
+ for (vector<string>::const_iterator j=res.begin(); j!=res.end(); ++j)
+ {
+ if ((*i).compare(*j)==0)
+ {
+ found=true;
+ break;
+ }
+ }
+ if (!found) res.push_back(*i);
+ }
+ return res;
+}
+
+map< string,vector<string> > MEDPARTITIONER::deleteDuplicatesInMapOfStringVectorOfString(const map< string,vector<string> >& mymap)
+{
+ map< string,vector<string> > res;
+ for (map< string,vector<string> >::const_iterator i=mymap.begin(); i!=mymap.end(); ++i)
+ res[(*i).first]=deleteDuplicatesInVectorOfString((*i).second);
+ return res;
+}
+
+void MEDPARTITIONER::sendVectorOfString(const vector<string>& vec, const int target)
+//non conseille, interblocages, utiliser sendAndReceive
+{
+ throw INTERP_KERNEL::Exception(LOCALIZED("use sendAndReceiveVectorOfString please."));
+ string str=serializeFromVectorOfString(vec);
+ int tag=111000;
+ int size=str.length();
+ MPI_Send( &size, 1, MPI_INT, target, tag, MPI_COMM_WORLD );
+ MPI_Send( (void*)str.data(), str.length(), MPI_CHAR, target, tag+100, MPI_COMM_WORLD );
+ cout<<"proc "<<MyGlobals::_rank<<" : send to "<<target<<" '"<<str<<"'"<<endl;
+}
+
+vector<string> MEDPARTITIONER::recvVectorOfString(const int source)
+//non conseille, interblocages, utiliser sendAndReceive
+{
+ throw INTERP_KERNEL::Exception(LOCALIZED("use sendAndReceiveVectorOfString please."));
+ int recSize=0;
+ int tag=111000;
+ MPI_Status status;
+ MPI_Recv(&recSize, 1, MPI_INT, source, tag, MPI_COMM_WORLD, &status);
+ string recData(recSize,'x');
+ MPI_Recv((void*)recData.data(), recSize, MPI_CHAR, 1, tag+100, MPI_COMM_WORLD, &status);
+ //cout<<"proc "<<MyGlobals::_rank<<" : receive from "<<source<<" '"<<recData<<"'"<<endl;
+ return deserializeToVectorOfString(recData);
+}
+
+vector<string> MEDPARTITIONER::sendAndReceiveVectorOfString(const vector<string>& vec, const int source, const int target)
+//not optimized but suffisant
+//return empty vector if i am not target
+{
+ int rank=MyGlobals::_rank;
+
+ /*for test
+ ostringstream oss;
+ oss<<"sendAndReceive from "<<setw(3)<<source<<" to "<<setw(3)<<target<<"-";
+ string str(oss.str());*/
+
+ MPI_Status status;
+ int tag = 111001;
+ if (rank == source)
+ {
+ string str=serializeFromVectorOfString(vec);
+ int size=str.length();
+ MPI_Send( &size, 1, MPI_INT, target, tag, MPI_COMM_WORLD );
+ //cout<<"proc "<<source<<" : send "<<size<<endl;
+ MPI_Send( (void*)str.data(), str.length(), MPI_CHAR, target, tag+100, MPI_COMM_WORLD );
+ //cout<<"proc "<<source<<" : send '"<<str<<"'"<<endl;
+ }
+
+ int recSize=0;
+ if (rank == target)
+ {
+ MPI_Recv(&recSize, 1, MPI_INT, source, tag, MPI_COMM_WORLD, &status);
+ //cout<<"proc "<<target<<" : receive "<<recSize<<endl;
+ string recData(recSize,'x');
+ MPI_Recv((void*)recData.data(), recSize, MPI_CHAR, source, tag+100, MPI_COMM_WORLD, &status);
+ //cout<<"proc "<<target<<" : receive '"<<recData<<"'"<<endl;
+ return deserializeToVectorOfString(recData); //not empty one for target proc
+ }
+ vector<string> res;
+ return res; //empty one for other proc
+}
+
+vector<string> MEDPARTITIONER::allgathervVectorOfString(const vector<std::string>& vec)
+//strings NO need all same size!!!!
+{
+ int world_size=MyGlobals::_world_size;
+ string str=serializeFromVectorOfString(vec);
+
+ /*for test
+ int rank=MyGlobals::_rank;
+ ostringstream oss;
+ oss<<"allgatherv from "<<setw(3)<<rank<<" to all"<<"-";
+ string str(oss.str());*/
+
+ vector<int> indexes(world_size);
+ int size=str.length();
+ MPI_Allgather(&size, 1, MPI_INT,
+ &indexes[0], 1, MPI_INT, MPI_COMM_WORLD);
+
+ /*{
+ ostringstream oss;
+ for (int i=0; i<world_size; i++) oss<<" "<<indexes[i];
+ cout<<"proc "<<rank<<" : receive '"<<oss.str()<<"'"<<endl;
+ }*/
+
+ //calcul of displacement
+ vector< int > disp(1,0);
+ for (int i=0; i<world_size; i++) disp.push_back( disp.back() + indexes[i] );
+
+ string recData(disp.back(),'x');
+ MPI_Allgatherv((void*)str.data(), str.length(), MPI_CHAR,
+ (void*)recData.data(), &indexes[0], &disp[0], MPI_CHAR,
+ MPI_COMM_WORLD);
+
+ //really extraordinary verbose for debug
+ vector<string> deserial=deserializeToVectorOfString(recData);
+ if (MyGlobals::_verbose>1000)
+ {
+ cout<<"proc "<<MyGlobals::_rank<<" : receive '"<<recData<<"'"<<endl;
+ cout<<"deserialize is : a vector of size "<<deserial.size()<<endl;
+ cout<<reprVectorOfString(deserial)<<endl;
+ }
+ return deserial;
+}
+
+//void MEDPARTITIONER::sendrecvVectorOfString(const vector<string>& vec, const int source, const int target)
+//TODO
+
+string MEDPARTITIONER::cle1ToStr(string s, int inew)
+{
+ ostringstream oss;
+ oss<<s<<" "<<inew;
+ return oss.str();
+}
+
+void MEDPARTITIONER::cle1ToData(string cle, string& s, int& inew)
+{
+ size_t posmax=cle.size();
+ size_t found=cle.find(' ');
+ if ((found==string::npos) || (found<1))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error 'aStringWithoutWhitespace aInt' is expected"));
+ s=cle.substr(0,found);
+ istringstream iss(cle.substr(found,posmax-found));
+ iss>>inew;
+}
+
+string MEDPARTITIONER::cle2ToStr(string s, int inew, int iold)
+{
+ ostringstream oss;
+ oss<<s<<" "<<inew<<" "<<iold;
+ return oss.str();
+}
+
+void MEDPARTITIONER::cle2ToData(string cle, string& s, int& inew, int& iold)
+{
+ size_t posmax=cle.size();
+ size_t found=cle.find(' ');
+ if ((found==string::npos) || (found<1))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error 'aStringWithoutWhitespace aInt aInt' is expected"));
+ s=cle.substr(0,found);
+ istringstream iss(cle.substr(found,posmax-found));
+ iss>>inew>>iold;
+}
+
+string MEDPARTITIONER::extractFromDescription(string description,string tag)
+{
+ size_t found=description.find(tag);
+ if ((found==string::npos) || (found<1))
+ {
+ cerr<<"ERROR : not found '"<<tag<<"' in '"<<description<<"'\n";
+ throw INTERP_KERNEL::Exception(LOCALIZED("Error"));
+ }
+ size_t beg=found;
+ size_t end=beg;
+ if (description[found-1]!='/')
+ {
+ //find without '/'... and pray looking for first whitespace
+ //something like 'idomain=0 fileName=tmp.med meshName=...'
+ end=description.size();
+ beg+=tag.length();
+ string res=description.substr(beg,end-beg);
+ found=res.find(' ');
+ if (found==string::npos) found=res.length();
+ res=res.substr(0,found);
+ //cout<<"find without '/' !"<<tag<<"!"<<res<<"!"<<endl;
+ return res;
+ }
+ size_t lg=strToInt(description.substr(found-6,found));
+ beg+=tag.length();
+ //cout<<"find with '/' !"<<tag<<"!"<<description.substr(beg,lg-tag.length())<<"!"<<lg<<endl;
+ return description.substr(beg,lg-tag.length());
+}
+
+void MEDPARTITIONER::fieldDescriptionToData(string description,
+ int& idomain, string& fileName, string& meshName, string& fieldName, int& typeField, int& DT, int& IT)
+{
+ idomain=strToInt(extractFromDescription(description,"idomain="));
+ fileName=extractFromDescription(description,"fileName=");
+ meshName=extractFromDescription(description,"meshName=");
+ fieldName=extractFromDescription(description,"fieldName=");
+ typeField=strToInt(extractFromDescription(description,"typeField="));
+ DT=strToInt(extractFromDescription(description,"DT="));
+ IT=strToInt(extractFromDescription(description,"IT="));
+ cout<<"idomain="<<idomain<<" fileName="<<fileName<<" meshName="<<meshName<<" fieldName="<<fieldName<<endl;
+}
+
+void MEDPARTITIONER::fieldShortDescriptionToData(string description,
+ string& fieldName, int& typeField, int& entity, int& DT, int& IT)
+{
+ //*meshName=extractFromDescription(description,"meshName=");
+ fieldName=extractFromDescription(description,"fieldName=");
+ typeField=strToInt(extractFromDescription(description,"typeField="));
+ entity=strToInt(extractFromDescription(description,"entity="));
+ DT=strToInt(extractFromDescription(description,"DT="));
+ IT=strToInt(extractFromDescription(description,"IT="));
+ //cout<<" meshName="<<*meshName<<" fieldName="<<*fieldName<<endl;
+}
+
+ParaMEDMEM::DataArrayInt* MEDPARTITIONER::createDataArrayIntFromVector(vector<int>& v)
+{
+ ParaMEDMEM::DataArrayInt* p=DataArrayInt::New();
+ p->alloc(v.size(),1);
+ std::copy(v.begin(),v.end(),p->getPointer());
+ return p;
+}
+
+ParaMEDMEM::DataArrayInt* MEDPARTITIONER::createDataArrayIntFromVector(vector<int>& v, int nbComponents)
+{
+ ParaMEDMEM::DataArrayInt* p=DataArrayInt::New();
+ if (v.size()%nbComponents!=0)
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem size modulo nbComponents != 0"));
+ p->alloc(v.size()/nbComponents,nbComponents);
+ std::copy(v.begin(),v.end(),p->getPointer());
+ return p;
+}
+
+ParaMEDMEM::DataArrayDouble* MEDPARTITIONER::createDataArrayDoubleFromVector(vector<double>& v)
+{
+ ParaMEDMEM::DataArrayDouble* p=DataArrayDouble::New();
+ p->alloc(v.size(),1);
+ std::copy(v.begin(),v.end(),p->getPointer());
+ return p;
+}
+
+vector<string> MEDPARTITIONER::browseFieldDouble(const MEDCouplingFieldDouble* fd)
+//quick almost human readable information on a field double
+/* example done by fd->simpleRepr() :
+FieldDouble with name : "VectorFieldOnCells"
+Description of field is : ""
+FieldDouble space discretization is : P0
+FieldDouble time discretization is : One time label. Time is defined by iteration=0 order=1 and time=2.
+Time unit is : ""
+FieldDouble nature of field is : NoNature
+FieldDouble default array has 3 components and 30000 tuples.
+FieldDouble default array has following info on components : "vx" "vy" "vz"
+Mesh support information :
+__________________________
+Unstructured mesh with name : "testMesh"
+Description of mesh : ""
+Time attached to the mesh [unit] : 0 []
+Iteration : -1 Order : -1
+Mesh dimension : 3
+Space dimension : 3
+Info attached on space dimension : "" "" ""
+Number of nodes : 33201
+Number of cells : 30000
+Cell types present : NORM_HEXA8
+*/
+{
+ vector<string> res;
+ //res.push_back("fieldName="); res.back()+=fd->getName();
+ //not saved in file? res.push_back("fieldDescription="); res.back()+=fd->getDescription();
+ //ret << "FieldDouble space discretization is : " << _type->getStringRepr() << "\n";
+ //ret << "FieldDouble time discretization is : " << _time_discr->getStringRepr() << "\n";
+ //ret << "FieldDouble nature of field is : " << MEDCouplingNatureOfField::getRepr(_nature) << "\n";
+ if (fd->getArray())
+ {
+ int nb=fd->getArray()->getNumberOfComponents();
+ res.push_back("nbComponents="); res.back()+=intToStr(nb);
+ //ret << "FieldDouble default array has " << nbOfCompo << " components and " << getArray()->getNumberOfTuples() << " tuples.\n";
+ //ret << "FieldDouble default array has following info on components : ";
+ for (int i=0; i<nb; i++)
+ {
+ //ret << "\"" << getArray()->getInfoOnComponent(i) << "\" ";
+ res.push_back("componentInfo");
+ res.back()+=intToStr(i)+"="+fd->getArray()->getInfoOnComponent(i);
+ }
+ }
+ else
+ {
+ res.push_back("nbComponents=0"); //unknown
+ }
+ return res;
+}
+
+vector<string> MEDPARTITIONER::browseAllFields(const string& myfile)
+//quick almost human readable information on all fields in a .med file
+{
+ vector<string> res;
+ vector<string> meshNames=MEDLoader::GetMeshNames(myfile.c_str());
+
+ for (int i=0; i<meshNames.size(); i++)
+ {
+ vector<string> fieldNames=
+ MEDLoader::GetAllFieldNamesOnMesh(myfile.c_str(),meshNames[i].c_str());
+ for (int j = 0; j < fieldNames.size(); j++)
+ {
+ vector< ParaMEDMEM::TypeOfField > typeFields=
+ MEDLoader::GetTypesOfField(myfile.c_str(), meshNames[i].c_str(), fieldNames[j].c_str());
+ for (int k = 0; k < typeFields.size(); k++)
+ {
+ vector< pair< int, int > > its=
+ MEDLoader::GetFieldIterations(typeFields[k], myfile.c_str(), meshNames[i].c_str(), fieldNames[j].c_str());
+ if (MyGlobals::_is0verbose>100) cout<<"fieldName "<<fieldNames[j].c_str()<<" typeField "<<typeFields[k]<<" its.size() "<<its.size()<<endl;
+ for (int m = 0; m < its.size(); m++)
+ {
+ vector<string> resi;
+ resi.push_back("fileName="); resi.back()+=myfile;
+ resi.push_back("meshName="); resi.back()+=meshNames[i];
+ resi.push_back("fieldName="); resi.back()+=fieldNames[j];
+ resi.push_back("typeField="); resi.back()+=intToStr((int)typeFields[k]);
+ resi.push_back("DT="); resi.back()+=intToStr((int)its[m].first);
+ resi.push_back("IT="); resi.back()+=intToStr((int)its[m].second);
+ res.push_back(serializeFromVectorOfString(resi));
+ }
+ }
+ }
+ }
+ return res;
+}
+
+/*
+vector<string> MEDPARTITIONER::browseAllFieldsOnMesh(const string& myfile, const string& mymesh, int idomain)
+//quick almost human readable information on all fields on a mesh in a .med file using MEDFILEBROWSER
+{
+ vector<string> res;
+ vector<string> meshNames;
+ meshNames.push_back(mymesh);
+ MEDMEM::MEDFILEBROWSER myMed(myfile);
+ for (int i=0; i<meshNames.size(); i++)
+ {
+
+ }
+ return res;
+}*/
+
+vector<string> MEDPARTITIONER::GetInfosOfField(const char *fileName, const char *meshName, int idomain)
+{
+const int lggeom=10;
+const med_geometry_type GEOMTYPE[lggeom]={ //MED_N_CELL_FIXED_GEO] = {
+ //MED_POINT1,
+ //MED_SEG2,
+ //MED_SEG3,
+ //MED_SEG4,
+ //MED_TRIA3,
+ //MED_QUAD4,
+ //MED_TRIA6,
+ //MED_TRIA7,
+ //MED_QUAD8,
+ //MED_QUAD9,
+ MED_TETRA4,
+ MED_PYRA5,
+ MED_PENTA6,
+ MED_HEXA8,
+ MED_OCTA12,
+ MED_TETRA10,
+ MED_PYRA13,
+ MED_PENTA15,
+ MED_HEXA20,
+ MED_HEXA27,
+ //MED_POLYGON,
+ //MED_POLYHEDRON
+};
+
+const char * const GEOMTYPENAME[lggeom]={
+ //"MED_POINT1",
+ //"MED_SEG2",
+ //"MED_SEG3",
+ //"MED_SEG4",
+ //"MED_TRIA3",
+ //"MED_QUAD4",
+ //"MED_TRIA6",
+ //"MED_TRIA7",
+ //"MED_QUAD8",
+ //"MED_QUAD9",
+ "MED_TETRA4",
+ "MED_PYRA5",
+ "MED_PENTA6",
+ "MED_HEXA8",
+ "MED_OCTA12",
+ "MED_TETRA10",
+ "MED_PYRA13",
+ "MED_PENTA15",
+ "MED_HEXA20",
+ "MED_HEXA27",
+ //"MED_POLYGONE",
+ //"MED_POLYEDRE",
+};
+
+
+const int lgentity=3;
+const med_entity_type ENTITYTYPE[lgentity]={ //MED_N_ENTITY_TYPES+2]={
+ //MED_UNDEF_ENTITY_TYPE,
+ MED_CELL,
+ //MED_DESCENDING_FACE,
+ //MED_DESCENDING_EDGE,
+ MED_NODE,
+ MED_NODE_ELEMENT,
+ //MED_STRUCT_ELEMENT,
+ //MED_UNDEF_ENTITY_TYPE
+};
+
+const char * const ENTITYTYPENAME[lgentity]={ //MED_N_ENTITY_TYPES+2]={
+ //"MED_UNDEF_ENTITY_TYPE",
+ "MED_CELL",
+ //"MED_FACE",
+ //"MED_ARETE",
+ "MED_NODE",
+ "MED_NODE_ELEMENT",
+ //"MED_STRUCT_ELEMENT",
+ //"MED_UNDEF_ENTITY_TYPE"
+};
+
+ vector<string> res;
+ med_idt fid=MEDfileOpen(fileName,MED_ACC_RDONLY);
+ med_int nbFields=MEDnField(fid);
+ if (MyGlobals::_verbose>20) cout<<"on filename "<<fileName<<" nbOfField "<<nbFields<<endl;
+ //
+ med_field_type typcha;
+ med_int numdt=0,numo=0;
+ med_float dt=0.0;
+ char *maa_ass=MEDLoaderBase::buildEmptyString(MED_NAME_SIZE);
+ char *nomcha=MEDLoaderBase::buildEmptyString(MED_NAME_SIZE);
+ med_bool localmesh;
+ //
+ for(int i=1; i<=nbFields; i++)
+ {
+ med_int ncomp=MEDfieldnComponent(fid,i);
+ INTERP_KERNEL::AutoPtr<char> comp=new char[ncomp*MED_SNAME_SIZE+1];
+ INTERP_KERNEL::AutoPtr<char> unit=new char[ncomp*MED_SNAME_SIZE+1];
+ INTERP_KERNEL::AutoPtr<char> dt_unit=new char[MED_LNAME_SIZE+1];
+ med_int nbPdt;
+ MEDfieldInfo(fid,i,nomcha,maa_ass,&localmesh,&typcha,comp,unit,dt_unit,&nbPdt);
+ std::string curFieldName=MEDLoaderBase::buildStringFromFortran(nomcha,MED_NAME_SIZE+1);
+ std::string curMeshName=MEDLoaderBase::buildStringFromFortran(maa_ass,MED_NAME_SIZE+1);
+ for (int k=1; k<=nbPdt; k++)
+ {
+ MEDfieldComputingStepInfo(fid,nomcha,k,&numdt,&numo,&dt);
+ if (MyGlobals::_verbose>20)
+ cout<<"on filename "<<fileName<<" field "<<i<<" fieldName "<<curFieldName<<" meshName "<<curMeshName<<
+ " typ "<<typcha<<" nbComponent "<<ncomp<<" nbPdt "<<nbPdt<<" noPdt "<<k<<
+ " ndt "<<numdt<<" nor "<<numo<<" dt "<<dt<<endl;
+ for (int ie=0; ie<lgentity; ie++)
+ {
+ for (int j=0; j<lggeom; j++)
+ {
+ int profilesize=0,nbi=0;
+ med_entity_type enttype=ENTITYTYPE[ie];
+ //enttype=MED_NODE;enttype=MED_CELL;enttype=MED_NODE_ELEMENT;
+ char pflname[MED_NAME_SIZE+1]="";
+ char locname[MED_NAME_SIZE+1]="";
+ med_int nbofprofile=MEDfieldnProfile(fid,nomcha,numdt,numo,enttype,GEOMTYPE[j],pflname,locname);
+
+/*
+med_proto.h firefox file:///export/home/.../med-3.0.3/doc/html.dox/index.html
+MEDfieldnValueWithProfileByName(const med_idt fid, const char * const fieldname,const med_int numdt,const med_int numit,
+ const med_entity_type entitype, const med_geometry_type geotype, const char * const profilename,
+ const med_storage_mode storagemode,med_int * const profilesize,
+ char * const localizationname, med_int * const nbofintegrationpoint);
+
+MEDfieldnValueWithProfile(const med_idt fid, const char * const fieldname,const med_int numdt,const med_int numit,
+ const med_entity_type entitype, const med_geometry_type geotype,
+ const int profileit,
+ const med_storage_mode storagemode,char * const profilename ,med_int * const profilesize,
+ char * const localizationname, med_int * const nbofintegrationpoint);
+*/
+ int profileit=1;
+ if (enttype==MED_NODE)
+ {
+ med_geometry_type mygeomtype=MED_UNDEF_ENTITY_TYPE;
+ med_int nbOfVal=MEDfieldnValueWithProfile(fid,nomcha,numdt,numo,enttype,mygeomtype,profileit,
+ MED_COMPACT_PFLMODE,pflname,&profilesize,locname,&nbi);
+ if (nbOfVal>0)
+ {
+ if (MyGlobals::_verbose>20)
+ cout<<"on filename "<<fileName<<" entity "<<enttype<<" nbOfVal with "<<
+ nbofprofile<<" profile(s) for geomType (AUCUN) nbOfVal "<<
+ nbOfVal<<" profilName '"<<pflname<<"' profileSize "<<profilesize<<" nbPtGauss "<<nbi<<endl;
+ vector<string> resi;
+ resi.push_back("idomain="); resi.back()+=intToStr(idomain);
+ resi.push_back("fileName="); resi.back()+=fileName;
+ resi.push_back("meshName="); resi.back()+=curMeshName;
+ resi.push_back("fieldName="); resi.back()+=curFieldName;
+ resi.push_back("typeField="); resi.back()+=intToStr((int)ON_NODES);
+ resi.push_back("typeData="); resi.back()+=intToStr((int)typcha); //6 for double?
+ resi.push_back("nbComponent="); resi.back()+=intToStr((int)ncomp);
+ resi.push_back("DT="); resi.back()+=intToStr((int)numdt);
+ resi.push_back("IT="); resi.back()+=intToStr((int)numo);
+ resi.push_back("time="); resi.back()+=doubleToStr(dt);
+ resi.push_back("entity="); resi.back()+=intToStr((int)enttype);
+ resi.push_back("entityName="); resi.back()+=ENTITYTYPENAME[ie];
+ resi.push_back("nbOfVal="); resi.back()+=intToStr((int)nbOfVal);
+ resi.push_back("profilName="); resi.back()+=pflname;
+ resi.push_back("profileSize="); resi.back()+=intToStr((int)profilesize);
+ resi.push_back("nbPtGauss="); resi.back()+=intToStr((int)nbi);
+ res.push_back(serializeFromVectorOfString(resi));
+ }
+ break; //on nodes no need to scute all geomtype
+ }
+ else
+ {
+ med_geometry_type mygeomtype=GEOMTYPE[j];
+ med_int nbOfVal=MEDfieldnValueWithProfile(fid,nomcha,numdt,numo,enttype,mygeomtype,profileit,
+ MED_COMPACT_PFLMODE,pflname,&profilesize,locname,&nbi);
+ if (nbOfVal>0)
+ {
+ if (MyGlobals::_verbose>20)
+ cout<<"on filename "<<fileName<<" entity "<<enttype<<" nbOfVal with "<<
+ nbofprofile<<" profile(s) for geomType "<<
+ GEOMTYPE[j]<<" "<<GEOMTYPENAME[j]<<" nbOfVal "<<
+ nbOfVal<<" profilName '"<<pflname<<"' profileSize "<<profilesize<<" nbPtGauss "<<nbi<<endl;
+ int typeField=-1; //unknown
+ if (enttype==MED_CELL) typeField=ON_CELLS;
+ if (enttype==MED_NODE_ELEMENT) typeField=ON_GAUSS_NE;
+ //if (enttype==??) typeField=ON_GAUSS_PT;
+ vector<string> resi;
+ resi.push_back("idomain="); resi.back()+=intToStr(idomain);
+ resi.push_back("fileName="); resi.back()+=fileName;
+ resi.push_back("meshName="); resi.back()+=curMeshName;
+ resi.push_back("fieldName="); resi.back()+=curFieldName;
+ resi.push_back("typeField="); resi.back()+=intToStr((int)typeField);
+ resi.push_back("typeData="); resi.back()+=intToStr((int)typcha); //6 for double?
+ resi.push_back("nbComponent="); resi.back()+=intToStr((int)ncomp);
+ resi.push_back("DT="); resi.back()+=intToStr((int)numdt);
+ resi.push_back("IT="); resi.back()+=intToStr((int)numo);
+ resi.push_back("time="); resi.back()+=doubleToStr(dt);
+ resi.push_back("entity="); resi.back()+=intToStr((int)enttype);
+ resi.push_back("entityName="); resi.back()+=ENTITYTYPENAME[ie];
+ resi.push_back("geomType="); resi.back()+=intToStr((int)GEOMTYPE[j]);
+ resi.push_back("geomTypeName="); resi.back()+=GEOMTYPENAME[j];
+ resi.push_back("nbOfVal="); resi.back()+=intToStr((int)nbOfVal);
+ resi.push_back("profilName="); resi.back()+=pflname;
+ resi.push_back("profileSize="); resi.back()+=intToStr((int)profilesize);
+ resi.push_back("nbPtGauss="); resi.back()+=intToStr((int)nbi);
+ if (typeField==-1)
+ {
+ cout<<"WARNING : unknown typeField for entity type "<<enttype<<endl<<
+ serializeFromVectorOfString(resi)<<endl;
+ continue; //do not register push_back
+ }
+ res.push_back(serializeFromVectorOfString(resi));
+ }
+ }
+ }
+ }
+ }
+ }
+ delete [] maa_ass;
+ delete [] nomcha;
+ MEDfileClose(fid);
+ if (MyGlobals::_verbose>10) cout<<"detected fields:\n"<<reprVectorOfString(res)<<endl;
+ return res;
+}
+
+vector<string> MEDPARTITIONER::browseAllFieldsOnMesh(const string& myfile, const string& mymesh, int idomain)
+//quick almost human readable information on all fields on a mesh in a .med file
+{
+ vector<string> res=GetInfosOfField(myfile.c_str(),mymesh.c_str(),idomain);
+ return res;
+
+ /*obsolete do no work on GetTypesOfField ON_GAUSS_NE
+ vector<string> res;
+ vector<string> meshNames;
+ meshNames.push_back(mymesh);
+
+ for (int i=0; i<meshNames.size(); i++)
+ {
+ vector<string> fieldNames=
+ MEDLoader::GetAllFieldNamesOnMesh(myfile.c_str(),meshNames[i].c_str());
+ for (int j=0; j<fieldNames.size(); j++)
+ {
+ vector< ParaMEDMEM::TypeOfField > typeFields=
+ MEDLoader::GetTypesOfField(myfile.c_str(), meshNames[i].c_str(), fieldNames[j].c_str());
+ //if (MyGlobals::_is0verbose>100) cout<<"fieldName "<<fieldNames[j].c_str()<<"typeField.size "<<typeFields.size()<<endl;
+ if (typeFields.size()==0) {
+ cerr<<"problem : fieldNames "<<fieldNames[j]<<" without GetTypesOfField ! Type of field specified not managed"<<endl;
+ //typeFields.push_back(ON_GAUSS_NE);
+ }
+ for (int k=0; k<typeFields.size(); k++)
+ {
+ vector< pair< int, int > > its;
+ its=MEDLoader::GetFieldIterations(typeFields[k], myfile.c_str(), meshNames[i].c_str(), fieldNames[j].c_str());
+ //if (typeFields[k]==ON_GAUSS_NE) its.push_back(make_pair(5,6));
+ if (MyGlobals::_is0verbose>100) cout<<"fieldName "<<fieldNames[j].c_str()<<" typeField "<<typeFields[k]<<" its.size() "<<its.size()<<endl;
+ for (int m = 0; m < its.size(); m++)
+ {
+ vector<string> resi;
+ resi.push_back("idomain="); resi.back()+=intToStr(idomain);
+ resi.push_back("fileName="); resi.back()+=myfile;
+ resi.push_back("meshName="); resi.back()+=meshNames[i];
+ resi.push_back("fieldName="); resi.back()+=fieldNames[j];
+ resi.push_back("typeField="); resi.back()+=intToStr((int)typeFields[k]);
+ resi.push_back("DT="); resi.back()+=intToStr((int)its[m].first);
+ resi.push_back("IT="); resi.back()+=intToStr((int)its[m].second);
+ //cout<<"browseAllFieldsOnMesh add "<<resi.size()<<endl;
+ res.push_back(serializeFromVectorOfString(resi));
+ }
+ }
+ }
+ }
+ return res;
+ */
+}
+
+/*!
+Sends content of \a vec to processor \a target. To be used with \a recvDoubleVec method.
+\param vec vector to be sent
+\param target processor id of the target
+*/
+void MEDPARTITIONER::sendDoubleVec(const std::vector<double>& vec, int target)
+{
+ int tag = 111002;
+ int size=vec.size();
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : --> sendDoubleVec "<<size<<endl;
+#ifdef HAVE_MPI2
+ MPI_Send(&size, 1, MPI_INT, target, tag, MPI_COMM_WORLD);
+ MPI_Send(const_cast<double*>(&vec[0]), size, MPI_DOUBLE, target, tag+100, MPI_COMM_WORLD);
+#endif
+}
+
+/*! Receives messages from proc \a source to fill vector<int> vec.
+To be used with \a sendDoubleVec method.
+
+\param vec vector that is filled
+\param source processor id of the incoming messages
+ */
+std::vector<double>* MEDPARTITIONER::recvDoubleVec(int source)
+{
+ int tag = 111002;
+ int size;
+#ifdef HAVE_MPI2
+ MPI_Status status;
+ MPI_Recv(&size, 1, MPI_INT, source, tag, MPI_COMM_WORLD, &status);
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : <-- recvDoubleVec "<<size<<endl;;
+ std::vector<double>* vec=new std::vector<double>;
+ vec->resize(size);
+ MPI_Recv(&vec[0], size, MPI_DOUBLE, source, tag+100, MPI_COMM_WORLD, &status);
+#endif
+ return vec;
+}
+
+void MEDPARTITIONER::recvDoubleVec(std::vector<double>& vec, int source)
+{
+ int tag = 111002;
+ int size;
+#ifdef HAVE_MPI2
+ MPI_Status status;
+ MPI_Recv(&size, 1, MPI_INT, source, tag, MPI_COMM_WORLD, &status);
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : <-- recvDoubleVec "<<size<<endl;;
+ vec.resize(size);
+ MPI_Recv(&vec[0], size, MPI_DOUBLE, source, tag+100, MPI_COMM_WORLD, &status);
+#endif
+}
+/*!
+Sends content of \a vec to processor \a target. To be used with \a recvIntVec method.
+\param vec vector to be sent
+\param target processor id of the target
+*/
+void MEDPARTITIONER::sendIntVec(const std::vector<int>& vec, int target)
+{
+ int tag = 111003;
+ int size=vec.size();
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : --> sendIntVec "<<size<<endl; //cvw
+#ifdef HAVE_MPI2
+ MPI_Send(&size, 1, MPI_INT, target, tag, MPI_COMM_WORLD);
+ MPI_Send(const_cast<int*>(&vec[0]), size,MPI_INT, target, tag+100, MPI_COMM_WORLD);
+#endif
+}
+
+/*! Receives messages from proc \a source to fill vector<int> vec.
+To be used with \a sendIntVec method.
+\param vec vector that is filled
+\param source processor id of the incoming messages
+ */
+std::vector<int>* MEDPARTITIONER::recvIntVec(int source)
+{
+ int tag = 111003;
+ int size;
+#ifdef HAVE_MPI2
+ MPI_Status status;
+ MPI_Recv(&size, 1, MPI_INT, source, tag, MPI_COMM_WORLD, &status);
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : <-- recvIntVec "<<size<<endl; //cvw
+ std::vector<int>* vec=new std::vector<int>;
+ vec->resize(size);
+ MPI_Recv(&vec[0], size, MPI_INT, source, tag+100, MPI_COMM_WORLD, &status);
+#endif
+ return vec;
+}
+
+void MEDPARTITIONER::recvIntVec(std::vector<int>& vec, int source)
+{
+ int tag = 111003;
+ int size;
+#ifdef HAVE_MPI2
+ MPI_Status status;
+ MPI_Recv(&size, 1, MPI_INT, source, tag, MPI_COMM_WORLD, &status);
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : <-- recvIntVec "<<size<<endl; //cvw
+ vec.resize(size);
+ MPI_Recv(&vec[0], size, MPI_INT, source, tag+100, MPI_COMM_WORLD,&status);
+#endif
+}
+
+/*!
+Sends content of \a dataArrayInt to processor \a target.
+To be used with \a recvDataArrayInt method.
+\param da dataArray to be sent
+\param target processor id of the target
+*/
+void MEDPARTITIONER::sendDataArrayInt(ParaMEDMEM::DataArrayInt* da, int target)
+{
+ if (da==0) throw INTERP_KERNEL::Exception(LOCALIZED("Problem send DataArrayInt* NULL"));
+ int tag = 111004;
+ int size[3];
+ size[0]=da->getNbOfElems();
+ size[1]=da->getNumberOfTuples();
+ size[2]=da->getNumberOfComponents();
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : --> sendDataArrayInt "<<size[0]<<endl; //cvw
+#ifdef HAVE_MPI2
+ MPI_Send(&size, 3, MPI_INT, target, tag, MPI_COMM_WORLD);
+ const int * p=da->getPointer();
+ MPI_Send(const_cast<int*>(&p[0]), size[0] ,MPI_INT, target, tag+100, MPI_COMM_WORLD);
+#endif
+}
+
+/*! Receives messages from proc \a source to fill dataArrayInt da.
+To be used with \a sendIntVec method.
+\param da dataArrayInt that is filled
+\param source processor id of the incoming messages
+ */
+ParaMEDMEM::DataArrayInt* MEDPARTITIONER::recvDataArrayInt(int source)
+//std::vector<int>& vec, int source)const
+{
+ int tag = 111004;
+ int size[3];
+#ifdef HAVE_MPI2
+ MPI_Status status;
+ MPI_Recv(size, 3, MPI_INT, source, tag, MPI_COMM_WORLD, &status);
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : <-- recvDataArrayInt "<<size[0]<<endl; //cvw
+ if (size[0]!=(size[1]*size[2]))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in recvDataArrayInt incoherent sizes"));
+ ParaMEDMEM::DataArrayInt* da=ParaMEDMEM::DataArrayInt::New();
+ da->alloc(size[1],size[2]);
+ int * p=da->getPointer();
+ MPI_Recv(const_cast<int*>(&p[0]), size[0], MPI_INT, source, tag+100, MPI_COMM_WORLD, &status);
+#endif
+ return da;
+}
+
+/*!
+Sends content of \a dataArrayInt to processor \a target.
+To be used with \a recvDataArrayDouble method.
+\param da dataArray to be sent
+\param target processor id of the target
+*/
+void MEDPARTITIONER::sendDataArrayDouble(ParaMEDMEM::DataArrayDouble* da, int target)
+{
+ if (da==0) throw INTERP_KERNEL::Exception(LOCALIZED("Problem send DataArrayDouble* NULL"));
+ int tag = 111005;
+ int size[3];
+ size[0]=da->getNbOfElems();
+ size[1]=da->getNumberOfTuples();
+ size[2]=da->getNumberOfComponents();
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : --> sendDataArrayDouble "<<size[0]<<endl; //cvw
+#ifdef HAVE_MPI2
+ MPI_Send(&size, 3, MPI_INT, target, tag, MPI_COMM_WORLD);
+ double * p=da->getPointer();
+ MPI_Send(const_cast<double*>(&p[0]), size[0] ,MPI_DOUBLE, target, tag+100, MPI_COMM_WORLD);
+#endif
+}
+
+/*! Receives messages from proc \a source to fill dataArrayDouble da.
+To be used with \a sendDoubleVec method.
+\param da dataArrayDouble that is filled
+\param source processor id of the incoming messages
+ */
+ParaMEDMEM::DataArrayDouble* MEDPARTITIONER::recvDataArrayDouble(int source)
+//std::vector<int>& vec, int source)const
+{
+ int tag = 111005;
+ int size[3];
+#ifdef HAVE_MPI2
+ MPI_Status status;
+ MPI_Recv(size, 3, MPI_INT, source, tag, MPI_COMM_WORLD, &status);
+ if (MyGlobals::_verbose>1000)
+ cout<<"proc "<<MyGlobals::_rank<<" : <-- recvDataArrayDouble "<<size[0]<<endl; //cvw
+ if (size[0]!=(size[1]*size[2]))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in recvDataArrayDouble incoherent sizes"));
+ ParaMEDMEM::DataArrayDouble* da=ParaMEDMEM::DataArrayDouble::New();
+ da->alloc(size[1],size[2]);
+ double * p=da->getPointer();
+ MPI_Recv(const_cast<double*>(&p[0]), size[0], MPI_DOUBLE, source, tag+100, MPI_COMM_WORLD, &status);
+#endif
+ return da;
+}
+
+ParaMEDMEM::MEDCouplingUMesh* MEDPARTITIONER::createEmptyMEDCouplingUMesh()
+ //create empty MEDCouplingUMesh* dim 3
+{
+ ParaMEDMEM::MEDCouplingUMesh* umesh=ParaMEDMEM::MEDCouplingUMesh::New();
+ umesh->setMeshDimension(3);
+ umesh->allocateCells(0);
+ umesh->finishInsertingCells();
+ ParaMEDMEM::DataArrayDouble *myCoords=ParaMEDMEM::DataArrayDouble::New();
+ myCoords->alloc(0,3);
+ umesh->setCoords(myCoords);
+ umesh->setName("EMPTY");
+ myCoords->decrRef();
+ umesh->checkCoherency();
+ return umesh;
+}
+
+void MEDPARTITIONER::testVectorOfStringMPI()
+{
+ int rank=MyGlobals::_rank;
+ int world_size=MyGlobals::_world_size;
+ vector<string> myVector;
+ ostringstream oss;
+ oss<<"hello from "<<setw(5)<<rank<<" "<<string(rank+1,'n')<<
+ " next is an empty one";
+ myVector.push_back(oss.str());
+ myVector.push_back("");
+ myVector.push_back("next is an singleton");
+ myVector.push_back("1");
+
+ if (rank==0)
+ {
+ /*
+ string s0=serializeFromVectorOfString(myVector);
+ cout<<"s0 is : a string '"<<s0<<"'"<<endl;
+ vector<string> v0=deserializeToVectorOfString(s0);
+ cout<<"v0 is : a vector of size "<<v0.size()<<endl;
+ cout<<reprVectorOfString(v0)<<endl;
+ */
+ string s0=serializeFromVectorOfString(myVector);
+ vector<string> res=deserializeToVectorOfString(s0);
+ if (res.size()!=myVector.size())
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in (de)serialise VectorOfString incoherent sizes"));
+ for (int i=0; i<myVector.size(); i++)
+ if (res[i]!=myVector[i])
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in (de)serialise VectorOfString incoherent elements"));
+ }
+
+ for (int i=0; i<world_size; i++)
+ {
+ for (int j=0; j<world_size; j++)
+ {
+ vector<string> res=sendAndReceiveVectorOfString(myVector, i, j);
+ if ((rank==j) && MyGlobals::_verbose>20)
+ cout<<"proc "<<rank<<" : receive \n"<<reprVectorOfString(res)<<endl;
+ if (rank==j)
+ {
+ if (res.size()!=myVector.size())
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in sendAndReceiveVectorOfString incoherent sizes"));
+ for (int i=1; i<myVector.size(); i++) //first is different
+ if (res[i]!=myVector[i])
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in sendAndReceiveVectorOfString incoherent elements"));
+ }
+ else
+ {
+ if (res.size()!=0)
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in sendAndReceiveVectorOfString size have to be 0"));
+ }
+ }
+ }
+ vector<string> res=allgathervVectorOfString(myVector);
+ //sometimes for test
+ res=allgathervVectorOfString(myVector);
+ res=allgathervVectorOfString(myVector);
+ if (rank==0 && MyGlobals::_verbose>20)
+ cout<<"proc "<<rank<<" : receive \n"<<reprVectorOfString(res)<<endl;
+ if (res.size()!=myVector.size()*world_size)
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in allgathervVectorOfString incoherent sizes"));
+ int jj=-1;
+ for (int j=0; j<world_size; j++)
+ {
+ for (int i=0; i<myVector.size(); i++)
+ {
+ jj=jj+1;
+ if (i==0) continue; //first is different
+ if (res[jj]!=myVector[i])
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in allgathervVectorOfString incoherent elements"));
+ }
+ }
+ if (MyGlobals::_verbose) cout<<"proc "<<rank<<" : OK testVectorOfStringMPI END"<< endl;
+}
+
+void MEDPARTITIONER::testMapOfStringIntMPI()
+{
+ int rank=MyGlobals::_rank;
+ //int world_size=MyGlobals::_world_size;
+ map<string,int> myMap;
+ myMap["one"]=1;
+ myMap["two"]=22; //a bug
+ myMap["three"]=3;
+ myMap["two"]=2; //last speaking override
+
+ if (rank==0)
+ {
+ vector<string> v2=vectorizeFromMapOfStringInt(myMap);
+ /*
+ cout<<"v2 is : a vector of size "<<v2.size()<<endl;
+ cout<<reprVectorOfString(v2)<<endl;
+ */
+ map<string,int> m3=devectorizeToMapOfStringInt(v2);
+ if (reprMapOfStringInt(m3)!=reprMapOfStringInt(myMap))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in (de)vectorize MapOfStringInt"));
+ }
+
+ vector<string> v2=allgathervVectorOfString(vectorizeFromMapOfStringInt(myMap));
+ if (rank==0 && MyGlobals::_verbose>20)
+ {
+ cout<<"v2 is : a vector of size "<<v2.size()<<endl;
+ cout<<reprVectorOfString(v2)<<endl;
+ map<string,int> m2=devectorizeToMapOfStringInt(v2);
+ cout<<"m2 is : a map of size "<<m2.size()<<endl;
+ cout<<reprMapOfStringInt(m2)<<endl;
+ }
+ if (MyGlobals::_verbose) cout<<"proc "<<rank<<" : OK testMapOfStringIntMPI END"<< endl;
+}
+
+void MEDPARTITIONER::testMapOfStringVectorOfStringMPI()
+{
+ int rank=MyGlobals::_rank;
+ //int world_size=MyGlobals::_world_size;
+ vector<string> myVector;
+ ostringstream oss;
+ oss<<"hello from "<<setw(5)<<MyGlobals::_rank<<" "<<string(rank+1,'n')<<
+ " next is an empty one";
+ myVector.push_back(oss.str());
+ myVector.push_back("");
+ myVector.push_back("next is an singleton");
+ myVector.push_back("1");
+
+ if (rank==0)
+ {
+ map< string,vector<string> > m2;
+ m2["first key"]=myVector;
+ m2["second key"]=myVector;
+ vector<string> v2=vectorizeFromMapOfStringVectorOfString(m2);
+ map< string,vector<string> > m3=devectorizeToMapOfStringVectorOfString(v2);
+ if (rank==0 && MyGlobals::_verbose>20)
+ cout<<"m2 is : a MapOfStringVectorOfString of size "<<m2.size()<<endl;
+ cout<<reprMapOfStringVectorOfString(m2)<<endl;
+ cout<<"v2 is : a vector of size "<<v2.size()<<endl;
+ cout<<reprVectorOfString(v2)<<endl;
+ cout<<"m3 is : a map of size "<<m3.size()<<endl;
+ cout<<reprMapOfStringVectorOfString(m3)<<endl;
+ if (reprMapOfStringVectorOfString(m3)!=reprMapOfStringVectorOfString(m2))
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in (de)vectorize MapOfStringVectorOfString"));
+ }
+
+ map< string,vector<string> > m4;
+ m4["1rst key"]=myVector;
+ m4["2snd key"]=myVector;
+ vector<string> v4=allgathervVectorOfString(vectorizeFromMapOfStringVectorOfString(m4));
+ if (rank==0 && MyGlobals::_verbose>20)
+ {
+ map< string,vector<string> > m5=devectorizeToMapOfStringVectorOfString(v4);
+ map< string,vector<string> > m6=deleteDuplicatesInMapOfStringVectorOfString(m5);
+ cout<<"m5 is : a map of size "<<m5.size()<<endl;
+ cout<<reprMapOfStringVectorOfString(m5)<<endl;
+ cout<<"m6 is : a map from m5 with deleteDuplicates of size "<<m6.size()<<endl;
+ cout<<reprMapOfStringVectorOfString(m6)<<endl;
+ }
+ if (MyGlobals::_verbose) cout<<"proc "<<rank<<" : OK testMapOfStringVectorOfStringMPI END"<< endl;
+}
+
+void MEDPARTITIONER::testDataArrayMPI()
+{
+ int rank=MyGlobals::_rank;
+ //int
+ {
+ ParaMEDMEM::DataArrayInt* send=ParaMEDMEM::DataArrayInt::New();
+ ParaMEDMEM::DataArrayInt* recv=0;
+ int nbOfTuples=5;
+ int numberOfComponents=3;
+ send->alloc(nbOfTuples,numberOfComponents);
+ vector<int> vals;
+ for (int j=0; j<nbOfTuples; j++)
+ for (int i=0; i<numberOfComponents; i++) vals.push_back((j+1)*10+i+1);
+ std::copy(vals.begin(),vals.end(),send->getPointer());
+ if (rank==0) sendDataArrayInt(send, 1);
+ if (rank==1) recv=recvDataArrayInt(0);
+ if (rank==1 && MyGlobals::_verbose>20)
+ {
+ cout<<send->repr()<<endl;
+ cout<<recv->repr()<<endl;
+ }
+ if (rank==1)
+ {
+ if (send->repr()!=recv->repr())
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in send&recv DataArrayInt"));
+ }
+ send->decrRef();
+ if (rank==1) recv->decrRef();
+ }
+ //double
+ {
+ ParaMEDMEM::DataArrayDouble* send=ParaMEDMEM::DataArrayDouble::New();
+ ParaMEDMEM::DataArrayDouble* recv=0;
+ int nbOfTuples=5;
+ int numberOfComponents=3;
+ send->alloc(nbOfTuples,numberOfComponents);
+ vector<double> vals;
+ for (int j=0; j<nbOfTuples; j++)
+ for (int i=0; i<numberOfComponents; i++) vals.push_back(double(j+1)+double(i+1)/10);
+ std::copy(vals.begin(),vals.end(),send->getPointer());
+ if (rank==0) sendDataArrayDouble(send, 1);
+ if (rank==1) recv=recvDataArrayDouble(0);
+ if (rank==1 && MyGlobals::_verbose>20)
+ {
+ cout<<send->repr()<<endl;
+ cout<<recv->repr()<<endl;
+ }
+ if (rank==1)
+ {
+ if (send->repr()!=recv->repr())
+ throw INTERP_KERNEL::Exception(LOCALIZED("Problem in send&recv DataArrayDouble"));
+ }
+ send->decrRef();
+ if (rank==1) recv->decrRef();
+ }
+
+ if (MyGlobals::_verbose) cout<<"proc "<<rank<<" : OK testDataArrayMPI END"<< endl;
+ }
+
+void MEDPARTITIONER::testPersistantMpi0To1(int taille, int nb)
+{
+ double temps_debut=MPI_Wtime();
+ int rang=MyGlobals::_rank;
+ vector<int> x, y;
+ int tag=111111;
+ MPI_Request requete0, requete1;
+ MPI_Status statut;
+ int ok=0;
+ string res;
+ if (rang==0)
+ {
+ x.resize(taille);
+ MPI_Ssend_init(&x[0], taille, MPI_INT, 1, tag, MPI_COMM_WORLD , &requete0);
+ for(int k=0; k<nb; k++)
+ {
+ for (int i=0; i<taille; ++i) x[i]=k;
+ //Envoi d’un gros message --> cela peut prendre du temps
+ MPI_Start(&requete0);
+ //Traitement sequentiel independant de "x"
+ //...
+ MPI_Wait(&requete0, &statut);
+ //Traitement sequentiel impliquant une modification de "x" en memoire
+ //x=...
+ }
+ MPI_Request_free(&requete0);
+ }
+ else if (rang == 1)
+ {
+ y.resize(taille);
+ MPI_Recv_init(&y[0], taille, MPI_INT, 0, tag, MPI_COMM_WORLD , &requete1);
+ for(int k=0; k<nb; k++)
+ {
+ //Pre-traitement sequentiel
+ //...
+ for (int i=0; i<taille; ++i) y[i]=-1;
+ //Reception du gros message --> cela peut prendre du temps
+ MPI_Start(&requete1);
+ //Traitement sequentiel independant de "y"
+ //...
+ MPI_Wait(&requete1, &statut);
+ //Traitement sequentiel dependant de "y"
+ //...=f(y)
+ int nb=0;
+ for (int i=0; i<taille; ++i)
+ if (y[i]==k) nb++;
+ if (nb==taille) ok++;
+ if (MyGlobals::_verbose>9)
+ {
+ res="0K"; if (nb!=taille) res="KO";
+ cout<<res<<k<<" ";
+ }
+ }
+ res="0K"; if (ok!=nb) res="MAUVAIS";
+ if (MyGlobals::_verbose>1)
+ cout<<"resultat "<<res<<" time(sec) "<<MPI_Wtime()-temps_debut<<endl;
+ MPI_Request_free(&requete1);
+ }
+ //temps_fin=(MPI_WTIME()-temps_debut);
+}
+
+void MEDPARTITIONER::testPersistantMpiRing(int taille, int nb)
+{
+ double temps_debut=MPI_Wtime();
+ int befo, next, rang, wsize, tagbefo, tagnext;
+ rang=MyGlobals::_rank;
+ wsize=MyGlobals::_world_size;
+ befo=rang-1; if (befo<0) befo=wsize-1;
+ next=rang+1; if (next>=wsize) next=0;
+ vector<int> x, y;
+ tagbefo=111111+befo;
+ tagnext=111111+rang;
+ MPI_Request requete0, requete1;
+ MPI_Status statut1, statut2;
+ int ok=0;
+ string res;
+ //cout<<"ini|"<<rang<<'|'<<befo<<'|'<<next<<' ';
+ {
+ x.resize(taille);
+ y.resize(taille);
+ MPI_Ssend_init(&x[0], taille, MPI_INT, next, tagnext, MPI_COMM_WORLD , &requete0);
+ MPI_Recv_init(&y[0], taille, MPI_INT, befo, tagbefo, MPI_COMM_WORLD , &requete1);
+ //cout<<"isr|"<<rang<<'|'<<requete0<<'|'<<requete1<<' ';
+ for(int k=0; k<nb; k++)
+ {
+ for (int i=0; i<taille; ++i) x[i]=k+rang;
+ //Envoi d’un gros message --> cela peut prendre du temps
+ MPI_Start(&requete0);
+ //Reception du gros message --> cela peut prendre du temps
+ for (int i=0; i<taille; ++i) y[i]=-1;
+ MPI_Start(&requete1);
+ //Traitement sequentiel independant de "x"
+ //...
+ //Traitement sequentiel independant de "y"
+ //...
+ //cout<<"dsr|"<<rang<<' ';
+ MPI_Wait(&requete1, &statut1);
+ //Traitement sequentiel dependant de "y"
+ //...=f(y)
+ int nb=0;
+ for (int i=0; i<taille; ++i)
+ if (y[i]==k+befo) nb++;
+ if (nb==taille) ok++;
+ if (MyGlobals::_verbose>9)
+ {
+ res="0K"+intToStr(rang); if (nb!=taille) res="KO"+intToStr(rang);
+ cout<<res<<k<<" ";
+ }
+ MPI_Wait(&requete0, &statut2);
+ //Traitement sequentiel impliquant une modification de "x" en memoire
+ //x=...
+ }
+ res="0K"; if (ok!=nb) res="MAUVAIS";
+ temps_debut=MPI_Wtime()-temps_debut;
+ MPI_Request_free(&requete1);
+ MPI_Request_free(&requete0);
+ }
+ //temps_fin=(MPI_WTIME()-temps_debut);
+ if (MyGlobals::_verbose>1)
+ cout<<"resultat proc "<<rang<<" "<<res<<" time(sec) "<<temps_debut<<endl;
+}
+void MEDPARTITIONER::testPersistantMpiRingOnCommSplit(int taille, int nb)
+{
+ double temps_debut=MPI_Wtime();
+ int rang=MyGlobals::_rank;
+ MPI_Comm newcomm;
+ int couleur=1;
+ int rangMax=4;
+ if (rang>=rangMax) couleur=MPI_UNDEFINED;
+ cout<<"coul|"<<rang<<'|'<<couleur<<' ';
+ //MPI_Comm_dup (MPI_COMM_WORLD, &newcomm) ;
+ MPI_Comm_split(MPI_COMM_WORLD, couleur, rang, &newcomm);
+
+ int befo, next, wsize, tagbefo, tagnext;
+ wsize=rangMax;
+ if (wsize>MyGlobals::_world_size) wsize=MyGlobals::_world_size;
+ befo=rang-1; if (befo<0) befo=wsize-1;
+ next=rang+1; if (next>=wsize) next=0;
+ vector<int> x, y;
+ tagbefo=111111+befo;
+ tagnext=111111+rang;
+ MPI_Request requete0, requete1;
+ MPI_Status statut1, statut2;
+ int ok=0;
+ string res;
+
+ //cout<<"ini|"<<rang<<'|'<<befo<<'|'<<next<<' ';
+ if (couleur==1)
+ {
+ x.resize(taille);
+ y.resize(taille);
+ MPI_Ssend_init(&x[0], taille, MPI_INT, next, tagnext, newcomm , &requete0);
+ MPI_Recv_init(&y[0], taille, MPI_INT, befo, tagbefo, newcomm , &requete1);
+ //cout<<"isr|"<<rang<<'|'<<requete0<<'|'<<requete1<<' ';
+ for(int k=0; k<nb; k++)
+ {
+ for (int i=0; i<taille; ++i) x[i]=k+rang;
+ //Envoi d’un gros message --> cela peut prendre du temps
+ MPI_Start(&requete0);
+ //Reception du gros message --> cela peut prendre du temps
+ for (int i=0; i<taille; ++i) y[i]=-1;
+ MPI_Start(&requete1);
+ //Traitement sequentiel independant de "x"
+ //...
+ //Traitement sequentiel independant de "y"
+ //...
+ //cout<<"dsr|"<<rang<<' ';
+ MPI_Wait(&requete1, &statut1);
+ //Traitement sequentiel dependant de "y"
+ //...=f(y)
+ int nb=0;
+ for (int i=0; i<taille; ++i)
+ if (y[i]==k+befo) nb++;
+ if (nb==taille) ok++;
+ if (MyGlobals::_verbose>9)
+ {
+ res="0K"+intToStr(rang); if (nb!=taille) res="KO"+intToStr(rang);
+ cout<<res<<k<<" ";
+ }
+ MPI_Wait(&requete0, &statut2);
+ //Traitement sequentiel impliquant une modification de "x" en memoire
+ //x=...
+ }
+ res="0K"; if (ok!=nb) res="MAUVAIS";
+ temps_debut=MPI_Wtime()-temps_debut;
+ MPI_Request_free(&requete1);
+ MPI_Request_free(&requete0);
+ }
+ //MPI_Barrier(MPI_COMM_WORLD);
+ cout<<"barrier|"<<rang<<"|"<<newcomm<<" ";
+ if (couleur==1) MPI_Comm_free(&newcomm);
+ //temps_fin=(MPI_WTIME()-temps_debut);
+ if (MyGlobals::_verbose>1)
+ cout<<"resultat proc "<<rang<<" "<<res<<" time(sec) "<<temps_debut<<endl;
+}
+
+
//
#ifndef MEDPARTITIONER_UTILS_HXX_
#define MEDPARTITIONER_UTILS_HXX_
+#include "MEDCouplingUMesh.hxx"
#include <string>
+#include <vector>
+#include <map>
-namespace MEDPARTITIONER {
- std::string trim(std::string& s,const std::string& drop = " ")
- {
- std::string r=s.erase(s.find_last_not_of(drop)+1);
- return r.erase(0,r.find_first_not_of(drop));
- }
+#ifdef LOCALIZED
+#undef LOCALIZED
+#endif
+
+#if defined(_DEBUG_) || defined(_DEBUG)
+//# define LOCALIZED(message) #message , __FILE__ , __FUNCTION__ , __LINE__
+# define LOCALIZED(message) #message , __FUNCTION__ , __LINE__
+#else
+# define LOCALIZED(message) #message
+#endif
+
+namespace MEDPARTITIONER
+{
+ using namespace std;
+ using namespace ParaMEDMEM;
+
+ string trim(string& s,const string& drop);
+ string intToStr(int i);
+ string doubleToStr(double i);
+ int strToInt(string s);
+ double strToDouble(string s);
+ bool testArg(const char *arg, const char *argExpected, string& argValue);
+ vector<int> createRandomSize(int size);
+ void randomizeAdj(int* xadj, int* adjncy, vector<int>& ran, vector<int>& vx, vector<int>& va);
+ void testRandomize();
+
+ string reprVectorOfString(const vector<string>& vec);
+ string reprVectorOfString(const vector<string>& vec, string sep);
+ string reprMapOfStringInt(const map<string,int>& mymap);
+ string reprMapOfStringVectorOfString(const map< string,vector<string> >& mymap);
+ string reprFieldDescriptions(const vector<string>& vec, string sep);
+
+ string serializeFromString(const string& s);
+ string serializeFromVectorOfString(const vector<string>& vec);
+ vector<string> deserializeToVectorOfString(const string& str);
+ string eraseTagSerialized(string fromStr, string tag);
+
+ vector<string> vectorizeFromMapOfStringInt(const map<string,int>& mymap);
+ map<string,int> devectorizeToMapOfStringInt(const vector<string>& vec);
+
+ vector<string> vectorizeFromMapOfStringVectorOfString(const map< string,vector<string> >& mymap);
+ map< string,vector<string> > devectorizeToMapOfStringVectorOfString(const vector<string>& vec);
+
+ vector<string> selectTagsInVectorOfString(const vector<string>& vec, string tag);
+ vector<string> deleteDuplicatesInVectorOfString(const vector<string>& vec);
+ map< string,vector<string> > deleteDuplicatesInMapOfStringVectorOfString(const map< string,vector<string> >& mymap);
+
+ string cle1ToStr(string s, int inew);
+ void cle1ToData(string cle, string& s, int& inew);
+
+ string cle2ToStr(string s, int inew, int iold);
+ void cle2ToData(string cle, string& s, int& inew, int& iold);
+
+ string extractFromDescription(string description, string tag);
+ void fieldDescriptionToData(string description,
+ int& idomain, string& fileName, string& meshName, string& fieldName,
+ int& typeField, int& DT, int& IT);
+ void fieldShortDescriptionToData(string description,
+ string& fieldName, int& typeField, int& entity, int& DT, int& IT);
+
+ ParaMEDMEM::DataArrayInt* createDataArrayIntFromVector(vector<int>& v);
+ ParaMEDMEM::DataArrayInt* createDataArrayIntFromVector(vector<int>& v, int nbComponents);
+ ParaMEDMEM::DataArrayDouble* createDataArrayDoubleFromVector(vector<double>& v);
+ void sendVectorOfString(const vector<string>& vec, const int target);
+ vector<string> recvVectorOfString(const int source);
+ //TODO void sendrecvVectorOfString(const vector<string>& vec, const int source, const int target);
+ vector<string> sendAndReceiveVectorOfString(const vector<string>& vec, const int source, const int target);
+ vector<string> allgathervVectorOfString(const vector<std::string>& vec);
+
+ vector<string> browseFieldDouble(const MEDCouplingFieldDouble* fd);
+ vector<string> browseAllFields(const string& myfile);
+ vector<string> browseAllFieldsOnMesh(const string& myfile, const string& mymesh, int idomain);
+ vector<string> GetInfosOfField(const char *fileName, const char *meshName, int idomain );
+
+ void sendDoubleVec(const std::vector<double>& vec, int target);
+ std::vector<double>* recvDoubleVec(int source);
+ void recvDoubleVec(std::vector<double>& vec, int source);
+
+ void sendIntVec(const std::vector<int>& vec, int target);
+ std::vector<int>* recvIntVec(int source);
+ void recvIntVec(std::vector<int>& vec, int source);
+
+ void sendDataArrayInt(ParaMEDMEM::DataArrayInt* da, int target);
+ ParaMEDMEM::DataArrayInt* recvDataArrayInt(int source);
+ void sendDataArrayDouble(ParaMEDMEM::DataArrayDouble* da, int target);
+ ParaMEDMEM::DataArrayDouble* recvDataArrayDouble(int source);
+
+ ParaMEDMEM::MEDCouplingUMesh* createEmptyMEDCouplingUMesh();
+
+ void testVectorOfStringMPI();
+ void testMapOfStringIntMPI();
+ void testMapOfStringVectorOfStringMPI();
+ void testDataArrayMPI();
+ void testPersistantMpi0To1(int taille, int nb);
+ void testPersistantMpiRing(int taille, int nb);
+ void testPersistantMpiRingOnCommSplit(int taille, int nb);
+
+ class MyGlobals
+ {
+ public : static int _verbose; //0 to 1000 over 200 is debug
+ public : static int _rank;
+ public : static int _world_size;
+ public : static int _randomize;
+ public : static int _atomize;
+ public : static int _creates_boundary_faces;
+ public : static int _is0verbose; //cout if rank 0 and verbose
+ public : static vector<string> _fileNames; //on [iold]
+ public : static vector<string> _meshNames; //on [iold]
+ public : static vector<string> _fieldDescriptions;
+ //used for descriptions of components of fields for example...
+ public : static vector<string> _generalInformations;
+
+ };
+
+ /*int MyGlobals::_verbose=0;
+ int MyGlobals::_is0verbose=0;
+ int MyGlobals::_rank=-1;
+ int MyGlobals::_world_size=-1;*/
}
#endif /*MEDPARTITIONER_UTILS_HXX_*/
#
# See http://www.salome-platform.org/ or email : webmaster.salome@opencascade.com
#
-# MED MEDMEM : MED files in memory
+# MED : MED files in memory
#
include $(top_srcdir)/adm_local/unix/make_common_starter.am
# this directory must be recompiled before Test folder
if CPPUNIT_IS_OK
- SUBDIRS=.
+ SUBDIRS=. Test
endif
lib_LTLIBRARIES= libmedpartitioner.la
endif
dist_libmedpartitioner_la_SOURCES= \
+MEDPARTITIONER_utils.cxx \
MEDPARTITIONER_MESHCollection.cxx \
MEDPARTITIONER_MESHCollectionDriver.cxx \
MEDPARTITIONER_MESHCollectionMedXMLDriver.cxx \
libmedpartitioner_la_CPPFLAGS= $(MPI_INCLUDES) $(MED2_INCLUDES) $(HDF5_INCLUDES) @CXXTMPDPTHFLAGS@ \
$(BOOST_CPPFLAGS) $(LIBXML_INCLUDES) \
- -I$(srcdir)/../MEDMEM -I$(srcdir)/../MEDWrapper/V2_1/Core \
-I$(srcdir)/../INTERP_KERNEL/Bases -I$(srcdir)/../MEDCoupling \
-I$(srcdir)/../MEDLoader -I$(srcdir)/../INTERP_KERNEL
libmedpartitioner_la_LDFLAGS+= ${KERNEL_LDFLAGS} -lSALOMELocalTrace
endif
+#libmedpartitioner_la_LDFLAGS+= $(MED2_LIBS) $(HDF5_LIBS) $(STDLIB) $(LIBXML_LIBS) $(MPI_LIBS) \
+# ../MEDMEM/libmedmem.la ../INTERP_KERNEL/libinterpkernel.la ../MEDCoupling/libmedcoupling.la ../MEDLoader/libmedloader.la
libmedpartitioner_la_LDFLAGS+= $(MED2_LIBS) $(HDF5_LIBS) $(STDLIB) $(LIBXML_LIBS) $(MPI_LIBS) \
- ../MEDMEM/libmedmem.la ../INTERP_KERNEL/libinterpkernel.la ../MEDCoupling/libmedcoupling.la ../MEDLoader/libmedloader.la
+ ../INTERP_KERNEL/libinterpkernel.la ../MEDCoupling/libmedcoupling.la ../MEDLoader/libmedloader.la
# Executables targets
bin_PROGRAMS= medpartitioner
using namespace std;
-
-
int main(int argc, char** argv)
{
#ifndef ENABLE_METIS
int ndomains;
#ifdef BOOST_PROGRAM_OPTIONS_LIB
-
// Use boost::program_options for command-line options parsing
-
- po::options_description desc("Available options");
+ po::options_description desc("Available options of medpartitioner V1.0");
desc.add_options()
("help","produces this help message")
("mesh-only","prevents the splitter from creating the fields contained in the original file(s)")
if (!vm.count("distributed") && !vm.count("meshname") )
{
- cout << "MEDPARTITIONER : for a serial MED file, mesh name must be selected with --meshname=..."<<endl;
+ cout << "for a serial MED file, mesh name must be selected with --meshname=..."<<endl;
return 1;
}
// Primitive parsing of command-line options
- string desc ("Available options:\n"
+ string desc ("Available options of medpartitioner V1.0:\n"
"\t--help : produces this help message\n"
"\t--mesh-only : do not create the fields contained in the original file(s)\n"
"\t--distributed : specifies that the input file is distributed\n"
// Loading the mesh collection
MEDPARTITIONER::MESHCollection* collection;
- cout << "MEDPARTITIONER - reading input files "<<endl;
+ cout << "MEDPARTITIONER : reading input files "<<endl;
if (is_sequential)
collection = new MEDPARTITIONER::MESHCollection(input,meshname);
else
collection = new MEDPARTITIONER::MESHCollection(input);
- cout << "MEDPARTITIONER - computing partition "<<endl;
+ cout << "MEDPARTITIONER : computing partition "<<endl;
// Creating the graph and partitioning it
#ifdef ENABLE_METIS
else
new_topo = collection->createPartition(ndomains,MEDPARTITIONER::Graph::SCOTCH);
- cout << "MEDPARTITIONER - creating new meshes"<<endl;
+ cout << "MEDPARTITIONER : creating new meshes"<<endl;
// Creating a new mesh collection from the partitioning
MEDPARTITIONER::MESHCollection new_collection(*collection, new_topo, split_families, empty_groups);
// new_collection.setSubdomainBoundaryCreates(creates_boundary_faces);
- cout << "MEDPARTITIONER - writing output files "<<endl;
+ cout << "MEDPARTITIONER : writing output files "<<endl;
new_collection.write(output);
// Casting the fields on the new collection
// Module : MED
//
+
+/*
+examples of launch
+rm ttmp* tttmp*
+export verb=11
+mpirun -np 2 medpartitioner_para --input-file=blade.med --output-file=ttmp1_ --ndomains=2 --dump-cpu-memory --verbose=$verb
+mpirun -np 5 medpartitioner_para --input-file=blade.med --output-file=ttmp1_ --ndomains=2 --dump-cpu-memory --verbose=$verb
+mpirun -np 4 medpartitioner_para --input-file=ttmp1_.xml --output-file=tttmp1_ --ndomains=4 --verbose=$verb
+
+mpirun -np 2 medpartitioner_para --ndomains=2 --input-file=tmp_testMesh_20x30x50.med --output-file=ttmp2_ --verbose=$verb
+mpirun -np 2 medpartitioner_para --ndomains=2 --input-file=ttmp2_.xml --output-file=ttmp3_ --verbose=$verb
+
+mpirun -np 2 medpartitioner_para --ndomains=2 --input-file=tmp_testMeshWithFaces_20x30x50.med --output-file=ttmp2_ --verbose=$verb
+mpirun -np 2 medpartitioner_para --ndomains=2 --input-file=ttmp2_.xml --output-file=ttmp3_ --verbose=$verb
+
+mpirun -np 2 medpartitioner_para --ndomains=2 --input-file=tmp_testMesh_20x30x50_WithVecFieldOnCells.med --output-file=ttmp2_ --verbose=$verb
+mpirun -np 2 medpartitioner_para --ndomains=2 --input-file=tmp_testMesh_20x30x50_WithVecFieldOnNodes.med --output-file=ttmp2_ --verbose=$verb
+mpirun -np 2 medpartitioner_para --ndomains=2 --input-file=ttmp2_.xml --output-file=ttmp3_ --verbose=$verb
+
+mpirun -np 4 medpartitioner_para --ndomains=4 --input-file=tmp_testMeshHuge_20x30x50_6.xml --output-file=ttmp3_ --verbose=1
+*/
+
+
#include "MEDPARTITIONER_MESHCollection.hxx"
-#include "MEDPARTITIONER_Topology.hxx"
+//#include "MEDPARTITIONER_Topology.hxx"
+#include "MEDPARTITIONER_ParallelTopology.hxx"
#include "MEDPARTITIONER_ParaDomainSelector.hxx"
+#include "MEDLoader.hxx"
+#include "MEDPARTITIONER_utils.hxx"
-#include "MEDMEM_STRING.hxx"
-#include <cstdlib>
+#include <fstream>
+#include <iostream>
+#include <iomanip>
+#include <sstream>
+#include <string>
#ifdef HAVE_MPI2
#include <mpi.h>
#endif
-#include <fstream>
-
#ifdef BOOST_PROGRAM_OPTIONS_LIB
#include <boost/program_options.hpp>
namespace po=boost::program_options;
#endif
using namespace std;
-
-
+using namespace MEDPARTITIONER;
int main(int argc, char** argv)
{
// Defining options
// by parsing the command line
- //bool mesh_only = false;
- //bool is_sequential = true;
- bool xml_output_master=true;
- bool creates_boundary_faces=false;
+ //bool xml_output_master=true;
bool split_family=false;
bool empty_groups=false;
bool mesure_memory=false;
+ bool filter_face=true;
string input;
string output;
string meshname;
string library;
int ndomains;
-
-#ifdef BOOST_PROGRAM_OPTIONS_LIB
-
- // Use boost::program_options for command-line options parsing
-
- po::options_description desc("Available options");
- desc.add_options()
- ("help","produces this help message")
- //("mesh-only","prevents the splitter from creating the fields contained in the original file(s)")
- //("distributed","specifies that the input file is distributed")
- ("input-file",po::value<string>(),"name of the input MED file")
- ("output-file",po::value<string>(),"name of the resulting file")
- //("meshname",po::value<string>(),"name of the input mesh")
+ int help=0;
+ int test=0;
+ MPI_Init(&argc,&argv);
+ MPI_Comm_size(MPI_COMM_WORLD, &MyGlobals::_world_size);
+ MPI_Comm_rank(MPI_COMM_WORLD, &MyGlobals::_rank);
+ //cout<<"proc "<<MyGlobals::_rank<<" of "<<MyGlobals::_world_size<<endl; //cvw for debug
+ //testVectorOfStringMPI(); //cvw
+ //testRandomize();
+
+ // Primitive parsing of command-line options
+ string desc ("Available options of medpartitioner_para V1.0:\n"
+ "\t--help : produces this help message\n"
+ "\t--verbose : echoes arguments\n"
+ "\t--input-file=<string> : name of the input .med file or .xml master file\n"
+ "\t--output-file=<string> : name of the resulting file (without exension)\n"
+ "\t--ndomains=<number> : number of subdomains in the output file, default is 1\n"
#ifdef ENABLE_PARMETIS
#ifdef ENABLE_PTSCOTCH
- ("split-method",po::value<string>(&library)->default_value("metis"),"name of the splitting library (metis,scotch)")
+ "\t--split-method=<string> : name of the splitting library (metis/scotch), default is metis\n"
#endif
#endif
- ("ndomains",po::value<int>(&ndomains)->default_value(1),"number of subdomains in the output file")
- ("plain-master","creates a plain masterfile instead of an XML file")
- ("creates-boundary-faces","creates the necessary faces so that faces joints are created in the output files")
- ("family-splitting","preserves the family names instead of focusing on the groups")
- ("empty-groups","creates empty groups in zones that do not contain a group from the original domain")
- ("dump-cpu-memory","dumps passed CPU time and maximal increase of used memory");
-
- po::variables_map vm;
- po::store(po::parse_command_line(argc,argv,desc),vm);
- po::notify(vm);
+ "\t--creates-boundary-faces : creates boundary faces mesh in the output files\n"
+ //"\t--family-splitting : preserves the family names instead of focusing on the groups\n"
+ "\t--dump-cpu-memory : dumps passed CPU time and maximal increase of used memory\n"
+ //"\t--randomize=<number> : random seed for other partitionning (only on one proc)\n"
+ //"\t--atomize : do the opposite of a good partitionner (only on one proc)\n"
+ );
- if (vm.count("help"))
+ if (argc<=1) help=1;
+ string value;
+ for (int i = 1; i < argc; i++)
{
- cout<<desc<<"\n";
- return 1;
+ if (strlen(argv[i]) < 3)
+ {
+ if (MyGlobals::_rank==0) cerr << "bad argument : "<< argv[i] << endl;
+ MPI_Finalize(); return 1;
+ }
+
+ if (testArg(argv[i],"--verbose",value))
+ {
+ MyGlobals::_verbose=1;
+ if (value!="") MyGlobals::_verbose = atoi(value.c_str());
+ }
+ else if (testArg(argv[i],"--help",value)) help=1;
+ else if (testArg(argv[i],"--test",value)) test=1;
+ else if (testArg(argv[i],"--input-file",value)) input=value;
+ else if (testArg(argv[i],"--output-file",value)) output=value;
+ else if (testArg(argv[i],"--split-method",value)) library=value;
+ //else if (testArg(argv[i],"--family-splitting",value)) split_family=true;
+ else if (testArg(argv[i],"--ndomains",value)) ndomains=atoi(value.c_str());
+ else if (testArg(argv[i],"--randomize",value)) MyGlobals::_randomize=atoi(value.c_str());
+ else if (testArg(argv[i],"--atomize",value)) MyGlobals::_atomize=atoi(value.c_str());
+ else if (testArg(argv[i],"--creates-boundary-faces",value)) MyGlobals::_creates_boundary_faces=1;
+ //else if (testArg(argv[i],"--empty-groups",value)) empty_groups=true;
+ else if (testArg(argv[i],"--dump-cpu-memory",value)) mesure_memory=true;
+ else
+ {
+ if (MyGlobals::_rank==0) cerr << "unknown argument : "<< argv[i] << endl;
+ MPI_Finalize(); return 1;
+ }
}
- if (!vm.count("ndomains"))
- {
- cout << "ndomains must be specified !"<<endl;
- return 1;
- }
- ndomains = vm["ndomains"].as<int>();
- if (!vm.count("input-file") || !vm.count("output-file"))
+ if (MyGlobals::_randomize!=0 && MyGlobals::_world_size!=1)
{
- cout << "input-file and output-file names must be specified"<<endl;
- return 1;
+ if (MyGlobals::_rank==0) cerr << "randomize only available on 1 proc (mpirun -np 1)" << endl;
+ MyGlobals::_randomize=0;
}
-
-// if (!vm.count("distributed") && !vm.count("meshname") )
-// {
-// cout << "MEDPARTITIONER : for a serial MED file, mesh name must be selected with --meshname=..."<<endl;
-// return 1;
-// }
-
- input = vm["input-file"].as<string>();
- output = vm["output-file"].as<string>();
-
-// if (vm.count("mesh-only"))
-// mesh_only=true;
-
-// if (vm.count("distributed"))
-// is_sequential=false;
-
-// if (is_sequential)
-// meshname = vm["meshname"].as<string>();
-
- if (vm.count("plain-master"))
- xml_output_master=false;
-
- if (vm.count("creates-boundary-faces"))
- creates_boundary_faces=true;
-
- if (vm.count("split-families"))
- split_family=true;
-
- if (vm.count("empty-groups"))
- empty_groups=true;
-
- if (vm.count("dump-cpu-memory"))
- mesure_memory=true;
-
-#else // BOOST_PROGRAM_OPTIONS_LIB
-
- // Primitive parsing of command-line options
-
- string desc ("Available options:\n"
- "\t--help : produces this help message\n"
- //"\t--mesh-only : do not create the fields contained in the original file(s)\n"
- //"\t--distributed : specifies that the input file is distributed\n"
- "\t--input-file=<string> : name of the input MED file\n"
- "\t--output-file=<string> : name of the resulting file\n"
- //"\t--meshname=<string> : name of the input mesh (not used with --distributed option)\n"
- "\t--ndomains=<number> : number of subdomains in the output file, default is 1\n"
+
#ifdef ENABLE_PARMETIS
-#ifdef ENABLE_PTSCOTCH
- "\t--split-method=<string> : name of the splitting library (metis/scotch), default is metis\n"
+#ifndef ENABLE_PTSCOTCH
+ library = "metis";
#endif
+#else
+ library = "scotch";
#endif
- "\t--plain-master : creates a plain masterfile instead of an XML file\n"
- "\t--creates-boundary-faces: creates the necessary faces so that faces joints are created in the output files\n"
- "\t--family-splitting : preserves the family names instead of focusing on the groups\n"
- "\t--dump-cpu-memory : dumps passed CPU time and maximal increase of used memory\n"
- );
-
- if (argc < 4) {
- cout << desc.c_str() << endl;
+
+ if (help==1)
+ {
+ if (MyGlobals::_rank==0) cout<<desc<<"\n";
+ MPI_Finalize(); return 0;
+ }
+
+ MyGlobals::_is0verbose=0;
+ if (MyGlobals::_rank==0) MyGlobals::_is0verbose=MyGlobals::_verbose;
+ //MyGlobals::_is0verbose=((MyGlobals::_rank==0) && MyGlobals::_verbose);
+ if (test==1) //only for debugger
+ {
+ if (MyGlobals::_is0verbose>0) cout<<"tests on "<<MyGlobals::_atomize<<" "<<ndomains<<endl;
+ //testPersistantMpi0To1(MyGlobals::_atomize, ndomains);
+ //testPersistantMpiRing(MyGlobals::_atomize, ndomains);
+ testPersistantMpiRingOnCommSplit(MyGlobals::_atomize, ndomains);
+ //MPI_Barrier(MPI_COMM_WORLD);
+ MPI_Finalize();
+ return 0;
+ testVectorOfStringMPI();
+ testMapOfStringIntMPI();
+ testMapOfStringVectorOfStringMPI();
+ testDataArrayMPI();
+ MPI_Finalize();
return 1;
}
-
- for (int i = 1; i < argc; i++) {
- if (strlen(argv[i]) < 3) {
- cout << desc.c_str() << endl;
- return 1;
+
+ if (MyGlobals::_is0verbose)
+ {
+ cout << "medpartitioner_para V1.0 :" << endl;
+ cout << " input-file = " << input << endl;
+ cout << " output-file = " << output << endl;
+ cout << " split-method = " << library << endl;
+ //cout << " family-splitting = " << split_family << endl;
+ cout << " ndomains = " << ndomains << endl;
+ //cout << " xml_output_master = " << xml_output_master << endl;
+ cout << " creates_boundary_faces = " << MyGlobals::_creates_boundary_faces << endl;
+ //cout << " empty_groups = " << empty_groups<< endl;
+ cout << " dump-cpu-memory = " << mesure_memory<< endl;
+ cout << " verbose = " << MyGlobals::_verbose << endl;
+ //cout << " randomize = " << MyGlobals::_randomize << endl;
+ cout << " verbose = " << MyGlobals::_verbose << endl;
+ }
+ //testing whether it is possible to write a file at the specified location
+ if (MyGlobals::_rank==0)
+ {
+ string outputtest = output + ".testioms.";
+ ofstream testfile (outputtest.c_str());
+ if (testfile.fail())
+ {
+ cerr << "output-file directory does not exist or is in read-only access" << endl;
+ MPI_Finalize(); return 1;
}
+ //deletes test file
+ remove(outputtest.c_str());
+ }
+
+ // Beginning of the computation
-/* if (strncmp(argv[i],"--m",3) == 0) {
- if (strcmp(argv[i],"--mesh-only") == 0) {
- mesh_only = true;
- cout << "\tmesh-only = " << mesh_only << endl; // tmp
- }
- else if (strlen(argv[i]) > 11) { // "--meshname="
- meshname = (argv[i] + 11);
- cout << "\tmeshname = " << meshname << endl; // tmp
- }
- }
- else if (strncmp(argv[i],"--d",3) == 0) {
- is_sequential = false;
- cout << "\tis_sequential = " << is_sequential << endl; // tmp
- }
- else */if (strncmp(argv[i],"--i",3) == 0) {
- if (strlen(argv[i]) > 13) { // "--input-file="
- input = (argv[i] + 13);
- cout << "\tinput-file = " << input << endl; // tmp
- }
- }
- else if (strncmp(argv[i],"--o",3) == 0) {
- if (strlen(argv[i]) > 14) { // "--output-file="
- output = (argv[i] + 14);
- cout << "\toutput-file = " << output << endl; // tmp
- }
+ // Loading the mesh collection
+ if (MyGlobals::_is0verbose) cout << "Reading input files "<<endl;
+
+ try
+ {
+ MEDPARTITIONER::ParaDomainSelector parallelizer(mesure_memory);
+ MEDPARTITIONER::MESHCollection collection(input,parallelizer); //cvwat01
+ MEDPARTITIONER::ParallelTopology* aPT = (MEDPARTITIONER::ParallelTopology*) collection.getTopology();
+ aPT->setGlobalNumerotationDefault(collection.getParaDomainSelector());
+ //int nbfiles=MyGlobals::_fileMedNames->size(); //nb domains
+ //to have unique valid fields names/pointers/descriptions for partitionning
+ collection.prepareFieldDescriptions();
+ //int nbfields=collection.getFieldDescriptions().size(); //on all domains
+ //cout<<reprVectorOfString(collection.getFieldDescriptions());
+
+ if (MyGlobals::_is0verbose)
+ {
+ cout<<"fileNames :"<<endl
+ <<reprVectorOfString(MyGlobals::_fileNames);
+ cout<<"fieldDescriptions :"<<endl
+ <<reprFieldDescriptions(collection.getFieldDescriptions()," "); //cvwat07
+ cout<<"familyInfo :\n"
+ <<reprMapOfStringInt(collection.getFamilyInfo())<<endl;
+ cout<<"groupInfo :\n"
+ <<reprMapOfStringVectorOfString(collection.getGroupInfo())<<endl;
}
- else if (strncmp(argv[i],"--s",3) == 0) {
- if (strlen(argv[i]) > 15) { // "--split-method="
- library = (argv[i] + 15);
- cout << "\tsplit-method = " << library << endl; // tmp
+
+ // Creating the graph and partitioning it
+ if (MyGlobals::_is0verbose) cout << "Computing partition "<<endl; //cvw
+
+ auto_ptr< MEDPARTITIONER::Topology > new_topo;
+ if (library == "metis") //cvwat06
+ new_topo.reset( collection.createPartition(ndomains,MEDPARTITIONER::Graph::METIS));
+ else
+ new_topo.reset( collection.createPartition(ndomains,MEDPARTITIONER::Graph::SCOTCH));
+ parallelizer.evaluateMemory();
+
+ // Creating a new mesh collection from the partitioning
+ if (MyGlobals::_is0verbose) cout << "Creating new meshes"<<endl; //cvwat04
+ MEDPARTITIONER::MESHCollection new_collection(collection,new_topo.get(),split_family,empty_groups);
+ //cout<<"proc "<<MyGlobals::_rank<<" : new_collection done"<<endl;
+ parallelizer.evaluateMemory();
+
+ //if (!xml_output_master) new_collection.setDriverType(MEDPARTITIONER::MedAscii);
+ if (filter_face) new_collection.filterFaceOnCell();
+
+ //to get infos on all procs
+
+ //see meshName
+ vector<string> finalInformations;
+ vector<string> r1,r2;
+ r1=allgathervVectorOfString(MyGlobals::_generalInformations);
+ //if (MyGlobals::_is0verbose>1000) cout << "generalInformations : \n"<<reprVectorOfString(r1);
+ r2=selectTagsInVectorOfString(r1,"ioldDomain=");
+ r2=selectTagsInVectorOfString(r2,"meshName=");
+ if (r2.size()==(collection.getMesh()).size())
+ {
+ for (int i=0; i<r2.size(); i++) r2[i]=eraseTagSerialized(r2[i],"ioldDomain=");
+ r2=deleteDuplicatesInVectorOfString(r2);
+ if (r2.size()==1)
+ {
+ string finalMesh="finalMeshName="+extractFromDescription(r2[0], "meshName=");
+ finalInformations.push_back(serializeFromString(finalMesh));
}
}
- else if (strncmp(argv[i],"--f",3) == 0) { //"--family-splitting"
- split_family=true;
- cout << "\tfamily-splitting true" << endl; // tmp
+ if (finalInformations.size()==0)
+ {
+ if (MyGlobals::_rank==0)
+ cerr<<"Problem on final meshName : set at 'Merge'"<<endl;
+ finalInformations.push_back("finalMeshName=Merge");
}
- else if (strncmp(argv[i],"--n",3) == 0) {
- if (strlen(argv[i]) > 11) { // "--ndomains="
- ndomains = atoi(argv[i] + 11);
- cout << "\tndomains = " << ndomains << endl; // tmp
+
+ //see field info nbComponents & componentInfo (if fields present)
+ r2=selectTagsInVectorOfString(r1,"fieldName=");
+ r2=selectTagsInVectorOfString(r2,"nbComponents=");
+ //may be yes? or not?
+ for (int i=0; i<r2.size(); i++) r2[i]=eraseTagSerialized(r2[i],"ioldFieldDouble=");
+ r2=deleteDuplicatesInVectorOfString(r2);
+ for (int i=0; i<r2.size(); i++) finalInformations.push_back(r2[i]);
+
+ MyGlobals::_generalInformations=finalInformations;
+ if (MyGlobals::_is0verbose)
+ cout << "generalInformations : \n"<<reprVectorOfString(finalInformations);
+
+ //new_collection.setSubdomainBoundaryCreates(creates_boundary_faces);
+ if (MyGlobals::_is0verbose) cout << "Writing "<<ndomains<<" output files "<<output<<"xx.med"<<" and "<<output<<".xml"<<endl;
+ new_collection.write(output);
+
+ if ( mesure_memory )
+ if ( parallelizer.isOnDifferentHosts() || MyGlobals::_rank==0 )
+ {
+ cout << "Elapsed time = " << parallelizer.getPassedTime()
+ << ", max memory usage = " << parallelizer.evaluateMemory() << " KB"
+ << endl;
}
- }
- else if (strncmp(argv[i],"--p",3) == 0) { // "--plain-master"
- xml_output_master = false;
- cout << "\txml_output_master = " << xml_output_master << endl; // tmp
- }
- else if (strncmp(argv[i],"--c",3) == 0) { // "--creates-boundary-faces"
- creates_boundary_faces = true;
- cout << "\tcreates_boundary_faces = " << creates_boundary_faces << endl; // tmp
- }
- else if (strncmp(argv[i],"--e",3) == 0) { // "--empty-groups"
- empty_groups = true;
- cout << "\tempty_groups = true" << endl; // tmp
- }
- else if (strncmp(argv[i],"--d",3) == 0) { // "--dump-cpu-memory"
- mesure_memory = true;
- cout << "\tdump-cpu-memory = true" << endl; // tmp
- }
- else {
- cout << desc.c_str() << endl;
- return 1;
- }
+ // Casting the fields on the new collection
+ // if (!mesh_only)
+ // new_collection.castAllFields(*collection);
+ MPI_Barrier(MPI_COMM_WORLD);
+ if (MyGlobals::_is0verbose>0) cout<<"OK END"<< endl;
+ MPI_Finalize();
+ return 0;
}
-
-// if (is_sequential && meshname.empty()) {
-// cout << "Mesh name must be given for sequential(not distributed) input file." << endl;
-// cout << desc << endl;
-// return 1;
-// }
-
-#endif // BOOST_PROGRAM_OPTIONS_LIB
-
-
- //testing whether it is possible to write a file at the specified location
- string outputtest = output + ".testioms.";
- ofstream testfile (outputtest.c_str());
- if (testfile.fail())
- {
- cout << "MEDPARTITIONER : output-file directory does not exist or is in read-only access" << endl;
+ catch(const char *mess)
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : "<<mess<<endl;
+ fflush(stderr);
+ MPI_Finalize();
+ return 1;
+ }
+ catch(INTERP_KERNEL::Exception& e)
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : INTERP_KERNEL_Exception : "<<e.what()<<endl;
+ fflush(stderr);
+ MPI_Finalize();
+ return 1;
+ }
+ catch(std::exception& e)
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : std_Exception : "<<e.what()<<endl;
+ fflush(stderr);
+ MPI_Finalize();
+ return 1;
+ }
+ catch(...)
+ {
+ cerr<<"proc "<<MyGlobals::_rank<<" : an unknown type exception error was occured"<<endl;
+ fflush(stderr);
+ MPI_Finalize();
return 1;
}
- //deletes test file
- remove(outputtest.c_str());
-
- // Beginning of the computation
-
- MPI_Init(&argc,&argv);
-
-
- // Loading the mesh collection
- cout << "MEDPARTITIONER - reading input files "<<endl;
- MEDPARTITIONER::ParaDomainSelector parallelizer(mesure_memory);
- MEDPARTITIONER::MESHCollection collection(input,parallelizer);
-
- // Creating the graph and partitioning it
- cout << "MEDPARTITIONER - computing partition "<<endl;
-#ifdef ENABLE_PARMETIS
-#ifndef ENABLE_PTSCOTCH
- library = "metis";
-#endif
-#else
- library = "scotch";
-#endif
- cout << "\tsplit-method = " << library << endl; // tmp
-
- auto_ptr< MEDPARTITIONER::Topology > new_topo;
- if (library == "metis")
- new_topo.reset( collection.createPartition(ndomains,MEDPARTITIONER::Graph::METIS));
- else
- new_topo.reset( collection.createPartition(ndomains,MEDPARTITIONER::Graph::SCOTCH));
- parallelizer.evaluateMemory();
-
- // Creating a new mesh collection from the partitioning
- cout << "MEDPARTITIONER - creating new meshes"<<endl;
- MEDPARTITIONER::MESHCollection new_collection(collection,new_topo.get(),split_family,empty_groups);
- parallelizer.evaluateMemory();
-
- if (!xml_output_master)
- new_collection.setDriverType(MEDPARTITIONER::MedAscii);
-
- // new_collection.setSubdomainBoundaryCreates(creates_boundary_faces);
-
- cout << "MEDPARTITIONER - writing output files "<<endl;
- new_collection.write(output);
-
- if ( mesure_memory )
- if ( parallelizer.isOnDifferentHosts() || parallelizer.rank()==0 )
- {
- MEDMEM::STRING text("proc ");
- text << parallelizer.rank() << ": elapsed time = " << parallelizer.getPassedTime()
- << ", max memory usage = " << parallelizer.evaluateMemory() << " KB";
- cout << text << endl;
- }
- // Casting the fields on the new collection
-// if (!mesh_only)
-// new_collection.castAllFields(*collection);
-
- MPI_Finalize();
-
- return 0;
}
