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Merge branch 'subcomm_mr' into 'master'

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Communicators for Meshes

See merge request jschoeberl/netgen!123
This commit is contained in:
Joachim Schöberl 2019-01-31 13:26:26 +00:00
commit 8671e2423f
13 changed files with 343 additions and 158 deletions
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165
libsrc/general/mpi_interface.hpp
View File

@ -17,97 +17,169 @@ namespace netgen
using ngcore::id; using ngcore::id;
using ngcore::ntasks; using ngcore::ntasks;
#ifndef PARALLEL
/** without MPI, we need a dummy typedef **/
typedef int MPI_Comm;
#endif
/** This is the "standard" communicator that will be used for netgen-objects. **/
extern MPI_Comm ng_comm;
#ifdef PARALLEL
inline int MyMPI_GetNTasks (MPI_Comm comm = ng_comm)
{
int ntasks;
MPI_Comm_size(comm, &ntasks);
return ntasks;
}
inline int MyMPI_GetId (MPI_Comm comm = ng_comm)
{
int id;
MPI_Comm_rank(comm, &id);
return id;
}
#else
enum { MPI_COMM_WORLD = 12345, MPI_COMM_NULL = 0};
inline int MyMPI_GetNTasks (MPI_Comm comm = ng_comm) { return 1; }
inline int MyMPI_GetId (MPI_Comm comm = ng_comm) { return 0; }
#endif
#ifdef PARALLEL
// For python wrapping of communicators
struct PyMPI_Comm {
MPI_Comm comm;
bool owns_comm;
PyMPI_Comm (MPI_Comm _comm, bool _owns_comm = false) : comm(_comm), owns_comm(_owns_comm) { }
PyMPI_Comm (const PyMPI_Comm & c) = delete;
~PyMPI_Comm () {
if (owns_comm)
MPI_Comm_free(&comm);
}
inline int Rank() const { return MyMPI_GetId(comm); }
inline int Size() const { return MyMPI_GetNTasks(comm); }
};
#else
// dummy without MPI
struct PyMPI_Comm {
MPI_Comm comm = 0;
PyMPI_Comm (MPI_Comm _comm, bool _owns_comm = false) { }
~PyMPI_Comm () { }
inline int Rank() const { return 0; }
inline int Size() const { return 1; }
};
#endif
#ifdef PARALLEL
template <class T>
inline MPI_Datatype MyGetMPIType ( )
{ cerr << "ERROR in GetMPIType() -- no type found" << endl;return 0; }
template <>
inline MPI_Datatype MyGetMPIType<int> ( )
{ return MPI_INT; }
template <>
inline MPI_Datatype MyGetMPIType<double> ( )
{ return MPI_DOUBLE; }
template <>
inline MPI_Datatype MyGetMPIType<char> ( )
{ return MPI_CHAR; }
template<>
inline MPI_Datatype MyGetMPIType<size_t> ( )
{ return MPI_UINT64_T; }
#else
typedef int MPI_Datatype;
template <class T> inline MPI_Datatype MyGetMPIType ( ) { return 0; }
#endif
#ifdef PARALLEL
inline MPI_Comm MyMPI_SubCommunicator(MPI_Comm comm, Array<int> & procs)
{
MPI_Comm subcomm;
MPI_Group gcomm, gsubcomm;
MPI_Comm_group(comm, &gcomm);
MPI_Group_incl(gcomm, procs.Size(), &(procs[0]), &gsubcomm);
MPI_Comm_create_group(comm, gsubcomm, 6969, &subcomm);
return subcomm;
}
#else
inline MPI_Comm MyMPI_SubCommunicator(MPI_Comm comm, Array<int> & procs)
{ return comm; }
#endif
#ifdef PARALLEL #ifdef PARALLEL
enum { MPI_TAG_CMD = 110 }; enum { MPI_TAG_CMD = 110 };
enum { MPI_TAG_MESH = 210 }; enum { MPI_TAG_MESH = 210 };
enum { MPI_TAG_VIS = 310 }; enum { MPI_TAG_VIS = 310 };
extern MPI_Comm mesh_comm; inline void MyMPI_Send (int i, int dest, int tag, MPI_Comm comm = ng_comm)
template <class T>
MPI_Datatype MyGetMPIType ( )
{ cerr << "ERROR in GetMPIType() -- no type found" << endl;return 0; }
template <>
inline MPI_Datatype MyGetMPIType<int> ( )
{ return MPI_INT; }
template <>
inline MPI_Datatype MyGetMPIType<double> ( )
{ return MPI_DOUBLE; }
inline void MyMPI_Send (int i, int dest, int tag)
{ {
int hi = i; int hi = i;
MPI_Send( &hi, 1, MPI_INT, dest, tag, MPI_COMM_WORLD); MPI_Send( &hi, 1, MPI_INT, dest, tag, comm);
} }
inline void MyMPI_Recv (int & i, int src, int tag) inline void MyMPI_Recv (int & i, int src, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Status status; MPI_Status status;
MPI_Recv( &i, 1, MPI_INT, src, tag, MPI_COMM_WORLD, &status); MPI_Recv( &i, 1, MPI_INT, src, tag, comm, &status);
} }
inline void MyMPI_Send (const string & s, int dest, int tag) inline void MyMPI_Send (const string & s, int dest, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Send( const_cast<char*> (s.c_str()), s.length(), MPI_CHAR, dest, tag, MPI_COMM_WORLD); MPI_Send( const_cast<char*> (s.c_str()), s.length(), MPI_CHAR, dest, tag, comm);
} }
inline void MyMPI_Recv (string & s, int src, int tag) inline void MyMPI_Recv (string & s, int src, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Status status; MPI_Status status;
int len; int len;
MPI_Probe (src, tag, MPI_COMM_WORLD, &status); MPI_Probe (src, tag, MPI_COMM_WORLD, &status);
MPI_Get_count (&status, MPI_CHAR, &len); MPI_Get_count (&status, MPI_CHAR, &len);
s.assign (len, ' '); s.assign (len, ' ');
MPI_Recv( &s[0], len, MPI_CHAR, src, tag, MPI_COMM_WORLD, &status); MPI_Recv( &s[0], len, MPI_CHAR, src, tag, comm, &status);
} }
template <class T, int BASE> template <class T, int BASE>
inline void MyMPI_Send (FlatArray<T, BASE> s, int dest, int tag) inline void MyMPI_Send (FlatArray<T, BASE> s, int dest, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Send( &s.First(), s.Size(), MyGetMPIType<T>(), dest, tag, MPI_COMM_WORLD); MPI_Send( &s.First(), s.Size(), MyGetMPIType<T>(), dest, tag, comm);
} }
template <class T, int BASE> template <class T, int BASE>
inline void MyMPI_Recv ( FlatArray<T, BASE> s, int src, int tag) inline void MyMPI_Recv ( FlatArray<T, BASE> s, int src, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Status status; MPI_Status status;
MPI_Recv( &s.First(), s.Size(), MyGetMPIType<T>(), src, tag, MPI_COMM_WORLD, &status); MPI_Recv( &s.First(), s.Size(), MyGetMPIType<T>(), src, tag, comm, &status);
} }
template <class T, int BASE> template <class T, int BASE>
inline void MyMPI_Recv ( Array <T, BASE> & s, int src, int tag) inline void MyMPI_Recv ( Array <T, BASE> & s, int src, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Status status; MPI_Status status;
int len; int len;
MPI_Probe (src, tag, MPI_COMM_WORLD, &status); MPI_Probe (src, tag, comm, &status);
MPI_Get_count (&status, MyGetMPIType<T>(), &len); MPI_Get_count (&status, MyGetMPIType<T>(), &len);
s.SetSize (len); s.SetSize (len);
MPI_Recv( &s.First(), len, MyGetMPIType<T>(), src, tag, MPI_COMM_WORLD, &status); MPI_Recv( &s.First(), len, MyGetMPIType<T>(), src, tag, comm, &status);
} }
template <class T, int BASE> template <class T, int BASE>
inline int MyMPI_Recv ( Array <T, BASE> & s, int tag) inline int MyMPI_Recv ( Array <T, BASE> & s, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Status status; MPI_Status status;
int len; int len;
MPI_Probe (MPI_ANY_SOURCE, tag, MPI_COMM_WORLD, &status); MPI_Probe (MPI_ANY_SOURCE, tag, comm, &status);
int src = status.MPI_SOURCE; int src = status.MPI_SOURCE;
MPI_Get_count (&status, MyGetMPIType<T>(), &len); MPI_Get_count (&status, MyGetMPIType<T>(), &len);
s.SetSize (len); s.SetSize (len);
MPI_Recv( &s.First(), len, MyGetMPIType<T>(), src, tag, MPI_COMM_WORLD, &status); MPI_Recv( &s.First(), len, MyGetMPIType<T>(), src, tag, comm, &status);
return src; return src;
} }
@ -129,7 +201,7 @@ namespace netgen
*/ */
template <class T, int BASE> template <class T, int BASE>
inline MPI_Request MyMPI_ISend (FlatArray<T, BASE> s, int dest, int tag, MPI_Comm comm = MPI_COMM_WORLD) inline MPI_Request MyMPI_ISend (FlatArray<T, BASE> s, int dest, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Request request; MPI_Request request;
MPI_Isend( &s.First(), s.Size(), MyGetMPIType<T>(), dest, tag, comm, &request); MPI_Isend( &s.First(), s.Size(), MyGetMPIType<T>(), dest, tag, comm, &request);
@ -138,7 +210,7 @@ namespace netgen
template <class T, int BASE> template <class T, int BASE>
inline MPI_Request MyMPI_IRecv (FlatArray<T, BASE> s, int dest, int tag, MPI_Comm comm = MPI_COMM_WORLD) inline MPI_Request MyMPI_IRecv (FlatArray<T, BASE> s, int dest, int tag, MPI_Comm comm = ng_comm)
{ {
MPI_Request request; MPI_Request request;
MPI_Irecv( &s.First(), s.Size(), MyGetMPIType<T>(), dest, tag, comm, &request); MPI_Irecv( &s.First(), s.Size(), MyGetMPIType<T>(), dest, tag, comm, &request);
@ -203,11 +275,10 @@ namespace netgen
template <typename T> template <typename T>
inline void MyMPI_ExchangeTable (TABLE<T> & send_data, inline void MyMPI_ExchangeTable (TABLE<T> & send_data,
TABLE<T> & recv_data, int tag, TABLE<T> & recv_data, int tag,
MPI_Comm comm = MPI_COMM_WORLD) MPI_Comm comm = ng_comm)
{ {
int ntasks, rank; int rank = MyMPI_GetId(comm);
MPI_Comm_size(comm, &ntasks); int ntasks = MyMPI_GetNTasks(comm);
MPI_Comm_rank(comm, &rank);
Array<int> send_sizes(ntasks); Array<int> send_sizes(ntasks);
Array<int> recv_sizes(ntasks); Array<int> recv_sizes(ntasks);
@ -251,22 +322,22 @@ namespace netgen
template <class T> template <class T>
inline void MyMPI_Bcast (T & s, MPI_Comm comm = MPI_COMM_WORLD) inline void MyMPI_Bcast (T & s, MPI_Comm comm = ng_comm)
{ {
MPI_Bcast (&s, 1, MyGetMPIType<T>(), 0, comm); MPI_Bcast (&s, 1, MyGetMPIType<T>(), 0, comm);
} }
template <class T> template <class T>
inline void MyMPI_Bcast (Array<T, 0> & s, MPI_Comm comm = MPI_COMM_WORLD) inline void MyMPI_Bcast (Array<T, 0> & s, MPI_Comm comm = ng_comm)
{ {
int size = s.Size(); int size = s.Size();
MyMPI_Bcast (size, comm); MyMPI_Bcast (size, comm);
if (id != 0) s.SetSize (size); if (MyMPI_GetId(comm) != 0) s.SetSize (size);
MPI_Bcast (&s[0], size, MyGetMPIType<T>(), 0, comm); MPI_Bcast (&s[0], size, MyGetMPIType<T>(), 0, comm);
} }
template <class T> template <class T>
inline void MyMPI_Bcast (Array<T, 0> & s, int root, MPI_Comm comm = MPI_COMM_WORLD) inline void MyMPI_Bcast (Array<T, 0> & s, int root, MPI_Comm comm = ng_comm)
{ {
int id; int id;
MPI_Comm_rank(comm, &id); MPI_Comm_rank(comm, &id);
@ -279,19 +350,19 @@ namespace netgen
} }
template <class T, class T2> template <class T, class T2>
inline void MyMPI_Allgather (const T & send, FlatArray<T2> recv, MPI_Comm comm) inline void MyMPI_Allgather (const T & send, FlatArray<T2> recv, MPI_Comm comm = ng_comm)
{ {
MPI_Allgather( const_cast<T*> (&send), 1, MyGetMPIType<T>(), &recv[0], 1, MyGetMPIType<T2>(), comm); MPI_Allgather( const_cast<T*> (&send), 1, MyGetMPIType<T>(), &recv[0], 1, MyGetMPIType<T2>(), comm);
} }
template <class T, class T2> template <class T, class T2>
inline void MyMPI_Alltoall (FlatArray<T> send, FlatArray<T2> recv, MPI_Comm comm) inline void MyMPI_Alltoall (FlatArray<T> send, FlatArray<T2> recv, MPI_Comm comm = ng_comm)
{ {
MPI_Alltoall( &send[0], 1, MyGetMPIType<T>(), &recv[0], 1, MyGetMPIType<T2>(), comm); MPI_Alltoall( &send[0], 1, MyGetMPIType<T>(), &recv[0], 1, MyGetMPIType<T2>(), comm);
} }
// template <class T, class T2> // template <class T, class T2>
// inline void MyMPI_Alltoall_Block (FlatArray<T> send, FlatArray<T2> recv, int blocklen, MPI_Comm comm) // inline void MyMPI_Alltoall_Block (FlatArray<T> send, FlatArray<T2> recv, int blocklen, MPI_Comm comm = ng_comm)
// { // {
// MPI_Alltoall( &send[0], blocklen, MyGetMPIType<T>(), &recv[0], blocklen, MyGetMPIType<T2>(), comm); // MPI_Alltoall( &send[0], blocklen, MyGetMPIType<T>(), &recv[0], blocklen, MyGetMPIType<T2>(), comm);
// } // }

8
libsrc/include/nginterface.h
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@ -37,6 +37,10 @@
// max number of nodes per surface element // max number of nodes per surface element
#define NG_SURFACE_ELEMENT_MAXPOINTS 8 #define NG_SURFACE_ELEMENT_MAXPOINTS 8
#ifndef PARALLEL
typedef int MPI_Comm;
#endif
namespace netgen { extern MPI_Comm ng_comm; }
// implemented element types: // implemented element types:
@ -60,9 +64,9 @@ extern "C" {
// load geometry from file // load geometry from file
DLL_HEADER void Ng_LoadGeometry (const char * filename); DLL_HEADER void Ng_LoadGeometry (const char * filename);
// load netgen mesh // load netgen mesh
DLL_HEADER void Ng_LoadMesh (const char * filename); DLL_HEADER void Ng_LoadMesh (const char * filename, MPI_Comm comm = netgen::ng_comm);
// load netgen mesh // load netgen mesh
DLL_HEADER void Ng_LoadMeshFromString (const char * mesh_as_string); DLL_HEADER void Ng_LoadMeshFromString (const char * mesh_as_string);

15
libsrc/include/nginterface_v2.hpp
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@ -253,17 +253,24 @@ namespace netgen
public: public:
// Ngx_Mesh () { ; } // Ngx_Mesh () { ; }
// Ngx_Mesh(class Mesh * amesh) : mesh(amesh) { ; } // Ngx_Mesh(class Mesh * amesh) : mesh(amesh) { ; }
Ngx_Mesh(shared_ptr<Mesh> amesh = NULL);
void LoadMesh (const string & filename);
void LoadMesh (istream & str); /** reuse a netgen-mesh **/
Ngx_Mesh (shared_ptr<Mesh> amesh);
/** load a new mesh **/
Ngx_Mesh (string filename, MPI_Comm acomm = netgen::ng_comm);
void LoadMesh (const string & filename, MPI_Comm comm = netgen::ng_comm);
void LoadMesh (istream & str, MPI_Comm comm = netgen::ng_comm);
void SaveMesh (ostream & str) const; void SaveMesh (ostream & str) const;
void UpdateTopology (); void UpdateTopology ();
void DoArchive (Archive & archive); void DoArchive (Archive & archive);
MPI_Comm GetCommunicator() const;
virtual ~Ngx_Mesh(); virtual ~Ngx_Mesh();
bool Valid () { return mesh != NULL; } bool Valid () const { return mesh != NULL; }
int GetDimension() const; int GetDimension() const;
int GetNLevels() const; int GetNLevels() const;

38
libsrc/interface/nginterface.cpp
View File

@ -117,14 +117,10 @@ void Ng_LoadMeshFromStream ( istream & input )
} }
void Ng_LoadMesh (const char * filename, MPI_Comm comm)
void Ng_LoadMesh (const char * filename)
{ {
#ifdef PARALLEL int id = MyMPI_GetId(comm);
MPI_Comm_size(MPI_COMM_WORLD, &ntasks); int ntasks = MyMPI_GetNTasks(comm);
MPI_Comm_rank(MPI_COMM_WORLD, &id);
#endif
{ {
ifstream infile(filename); ifstream infile(filename);
@ -134,11 +130,10 @@ void Ng_LoadMesh (const char * filename)
if ( string(filename).find(".vol") == string::npos ) if ( string(filename).find(".vol") == string::npos )
{ {
#ifdef PARALLEL
if(ntasks>1) if(ntasks>1)
throw NgException("Not sure what to do with this?? Does this work with MPI??"); throw NgException("Not sure what to do with this?? Does this work with MPI??");
#endif
mesh.reset (new Mesh()); mesh.reset (new Mesh());
mesh->SetCommunicator(comm);
ReadFile(*mesh,filename); ReadFile(*mesh,filename);
//mesh->SetGlobalH (mparam.maxh); //mesh->SetGlobalH (mparam.maxh);
//mesh->CalcLocalH(); //mesh->CalcLocalH();
@ -146,12 +141,10 @@ void Ng_LoadMesh (const char * filename)
} }
istream * infile; istream * infile;
char* buf; // for distributing geometry! Array<char> buf; // for distributing geometry!
int strs; int strs;
#ifdef PARALLEL
if( id == 0) { if( id == 0) {
#endif
string fn(filename); string fn(filename);
if (fn.substr (fn.length()-3, 3) == ".gz") if (fn.substr (fn.length()-3, 3) == ".gz")
@ -159,6 +152,7 @@ void Ng_LoadMesh (const char * filename)
else else
infile = new ifstream (filename); infile = new ifstream (filename);
mesh.reset (new Mesh()); mesh.reset (new Mesh());
mesh->SetCommunicator(comm);
mesh -> Load(*infile); mesh -> Load(*infile);
SetGlobalMesh (mesh); SetGlobalMesh (mesh);
@ -168,12 +162,12 @@ void Ng_LoadMesh (const char * filename)
geom_part << infile->rdbuf(); geom_part << infile->rdbuf();
string geom_part_string = geom_part.str(); string geom_part_string = geom_part.str();
strs = geom_part_string.size(); strs = geom_part_string.size();
buf = new char[strs]; // buf = new char[strs];
memcpy(buf, geom_part_string.c_str(), strs*sizeof(char)); buf.SetSize(strs);
memcpy(&buf[0], geom_part_string.c_str(), strs*sizeof(char));
} }
delete infile; delete infile;
#ifdef PARALLEL
if (ntasks > 1) if (ntasks > 1)
{ {
@ -239,21 +233,21 @@ void Ng_LoadMesh (const char * filename)
} // id==0 end } // id==0 end
else { else {
mesh.reset (new Mesh()); mesh.reset (new Mesh());
mesh->SetCommunicator(comm);
SetGlobalMesh (mesh); SetGlobalMesh (mesh);
mesh->SendRecvMesh(); mesh->SendRecvMesh();
} }
if(!ng_geometry && ntasks>1) { if(!ng_geometry && ntasks>1) {
/** Scatter the geometry-string **/ #ifdef PARALLEL
MPI_Bcast(&strs, 1, MPI_INT, 0, MPI_COMM_WORLD); /** Scatter the geometry-string (no dummy-implementation in mpi_interface) **/
if(id!=0) buf = new char[strs]; MyMPI_Bcast(buf, comm);
MPI_Bcast(buf, strs, MPI_CHAR, 0, MPI_COMM_WORLD);
}
#endif #endif
}
if(!ng_geometry) { if(!ng_geometry) {
infile = new istringstream(string((const char*)buf, (size_t)strs)); infile = new istringstream(string((const char*)&buf[0], (size_t)strs));
delete[] buf; // delete[] buf;
for (int i = 0; i < geometryregister.Size(); i++) for (int i = 0; i < geometryregister.Size(); i++)
{ {
NetgenGeometry * hgeom = geometryregister[i]->LoadFromMeshFile (*infile); NetgenGeometry * hgeom = geometryregister[i]->LoadFromMeshFile (*infile);

33
libsrc/interface/nginterface_v2.cpp
View File

@ -31,39 +31,39 @@ namespace netgen
return hmesh; return hmesh;
} }
Ngx_Mesh :: Ngx_Mesh (shared_ptr<Mesh> amesh)
Ngx_Mesh :: Ngx_Mesh (shared_ptr<Mesh> amesh) { mesh = amesh ? amesh : netgen::mesh; }
{ Ngx_Mesh :: Ngx_Mesh (string filename, MPI_Comm acomm)
if (amesh) { LoadMesh(filename, acomm); }
mesh = amesh;
else
mesh = netgen::mesh;
}
Ngx_Mesh * LoadMesh (const string & filename) Ngx_Mesh * LoadMesh (const string & filename, MPI_Comm comm = netgen::ng_comm)
{ {
netgen::mesh.reset(); netgen::mesh.reset();
Ng_LoadMesh (filename.c_str()); Ng_LoadMesh (filename.c_str(), comm);
return new Ngx_Mesh (netgen::mesh); return new Ngx_Mesh (netgen::mesh);
} }
void Ngx_Mesh :: LoadMesh (const string & filename) void Ngx_Mesh :: LoadMesh (const string & filename, MPI_Comm comm)
{ {
netgen::mesh.reset(); netgen::mesh.reset();
Ng_LoadMesh (filename.c_str()); Ng_LoadMesh (filename.c_str(), comm);
// mesh = move(netgen::mesh); // mesh = move(netgen::mesh);
mesh = netgen::mesh; mesh = netgen::mesh;
} }
void Ngx_Mesh :: LoadMesh (istream & ist) void Ngx_Mesh :: LoadMesh (istream & ist, MPI_Comm comm)
{ {
netgen::mesh = make_shared<Mesh>(); netgen::mesh = make_shared<Mesh>();
netgen::mesh->SetCommunicator(comm);
netgen::mesh -> Load (ist); netgen::mesh -> Load (ist);
// mesh = move(netgen::mesh); // mesh = move(netgen::mesh);
mesh = netgen::mesh; mesh = netgen::mesh;
SetGlobalMesh (mesh); SetGlobalMesh (mesh);
} }
MPI_Comm Ngx_Mesh :: GetCommunicator() const
{ return Valid() ? mesh->GetCommunicator() : MPI_COMM_NULL; }
void Ngx_Mesh :: SaveMesh (ostream & ost) const void Ngx_Mesh :: SaveMesh (ostream & ost) const
{ {
mesh -> Save (ost); mesh -> Save (ost);
@ -71,7 +71,12 @@ namespace netgen
void Ngx_Mesh :: DoArchive (Archive & archive) void Ngx_Mesh :: DoArchive (Archive & archive)
{ {
if (archive.Input()) mesh = make_shared<Mesh>(); #ifdef PARALLEL
if (archive.Input()) {
mesh = make_shared<Mesh>();
mesh->SetCommunicator(GetCommunicator());
}
#endif
mesh->DoArchive(archive); mesh->DoArchive(archive);
if (archive.Input()) if (archive.Input())
{ {

8
libsrc/meshing/curvedelems.cpp
View File

@ -553,14 +553,18 @@ namespace netgen
order = 1; order = 1;
MPI_Comm curve_comm;
#ifdef PARALLEL #ifdef PARALLEL
enum { MPI_TAG_CURVE = MPI_TAG_MESH+20 }; enum { MPI_TAG_CURVE = MPI_TAG_MESH+20 };
const ParallelMeshTopology & partop = mesh.GetParallelTopology (); const ParallelMeshTopology & partop = mesh.GetParallelTopology ();
MPI_Comm curve_comm; MPI_Comm_dup (mesh.GetCommunicator(), &curve_comm);
MPI_Comm_dup (MPI_COMM_WORLD, &curve_comm);
Array<int> procs; Array<int> procs;
#else
curve_comm = ng_comm; // dummy!
#endif #endif
int rank = MyMPI_GetId(curve_comm);
int ntasks = MyMPI_GetNTasks(curve_comm);
if (working) if (working)
order = aorder; order = aorder;

3
libsrc/meshing/global.cpp
View File

@ -31,6 +31,9 @@ namespace netgen
DLL_HEADER shared_ptr<NetgenGeometry> ng_geometry; DLL_HEADER shared_ptr<NetgenGeometry> ng_geometry;
// TraceGlobal glob2("global2"); // TraceGlobal glob2("global2");
// global communicator for netgen
MPI_Comm ng_comm = MPI_COMM_WORLD;
weak_ptr<Mesh> global_mesh; weak_ptr<Mesh> global_mesh;
void SetGlobalMesh (shared_ptr<Mesh> m) void SetGlobalMesh (shared_ptr<Mesh> m)
{ {

4
libsrc/meshing/global.hpp
View File

@ -59,6 +59,10 @@ namespace netgen
DLL_HEADER extern weak_ptr<Mesh> global_mesh; DLL_HEADER extern weak_ptr<Mesh> global_mesh;
DLL_HEADER void SetGlobalMesh (shared_ptr<Mesh> m); DLL_HEADER void SetGlobalMesh (shared_ptr<Mesh> m);
// global communicator for netgen (dummy if no MPI)
extern MPI_Comm ng_comm;
} }
#endif #endif

9
libsrc/meshing/meshclass.cpp
View File

@ -43,8 +43,8 @@ namespace netgen
bcnames.SetSize(0); bcnames.SetSize(0);
cd2names.SetSize(0); cd2names.SetSize(0);
this->comm = netgen :: ng_comm;
#ifdef PARALLEL #ifdef PARALLEL
this->comm = MPI_COMM_WORLD;
paralleltop = new ParallelMeshTopology (*this); paralleltop = new ParallelMeshTopology (*this);
#endif #endif
} }
@ -83,6 +83,10 @@ namespace netgen
#endif #endif
} }
void Mesh :: SetCommunicator(MPI_Comm acomm)
{
this->comm = acomm;
}
Mesh & Mesh :: operator= (const Mesh & mesh2) Mesh & Mesh :: operator= (const Mesh & mesh2)
{ {
@ -1321,6 +1325,9 @@ namespace netgen
if (archive.Input()) if (archive.Input())
{ {
int rank = MyMPI_GetId(GetCommunicator());
int ntasks = MyMPI_GetNTasks(GetCommunicator());
RebuildSurfaceElementLists(); RebuildSurfaceElementLists();
CalcSurfacesOfNode (); CalcSurfacesOfNode ();

13
libsrc/meshing/meshclass.hpp
View File

@ -32,10 +32,8 @@ namespace netgen
/// point coordinates /// point coordinates
T_POINTS points; T_POINTS points;
#ifdef PARALLEL // The communicator for this mesh. Just a dummy if compiled without MPI.
// The communicator for this mesh. (more or less dummy for now!)
MPI_Comm comm; MPI_Comm comm;
#endif
/// line-segments at edges /// line-segments at edges
Array<Segment, 0, size_t> segments; Array<Segment, 0, size_t> segments;
@ -606,6 +604,9 @@ namespace netgen
int AddEdgeDescriptor(const EdgeDescriptor & fd) int AddEdgeDescriptor(const EdgeDescriptor & fd)
{ edgedecoding.Append(fd); return edgedecoding.Size() - 1; } { edgedecoding.Append(fd); return edgedecoding.Size() - 1; }
MPI_Comm GetCommunicator() const { return this->comm; }
void SetCommunicator(MPI_Comm acomm);
/// ///
DLL_HEADER void SetMaterial (int domnr, const string & mat); DLL_HEADER void SetMaterial (int domnr, const string & mat);
/// ///
@ -858,7 +859,11 @@ namespace netgen
void SendMesh ( ) const; // Mesh * mastermesh, Array<int> & neloc) const; void SendMesh ( ) const; // Mesh * mastermesh, Array<int> & neloc) const;
/// loads a mesh sent from master processor /// loads a mesh sent from master processor
void ReceiveParallelMesh (); void ReceiveParallelMesh ();
#else
void Distribute () {}
void SendRecvMesh () {}
void Distribute (Array<int> & volume_weights, Array<int> & surface_weights,
Array<int> & segment_weights){ }
#endif #endif

100
libsrc/meshing/parallelmesh.cpp
View File

@ -35,9 +35,8 @@ namespace netgen
void Mesh :: SendRecvMesh () void Mesh :: SendRecvMesh ()
{ {
int id, np; int id = MyMPI_GetId(GetCommunicator());
MPI_Comm_rank(this->comm, &id); int np = MyMPI_GetNTasks(GetCommunicator());
MPI_Comm_size(this->comm, &np);
if (np == 1) { if (np == 1) {
throw NgException("SendRecvMesh called, but only one rank in communicator!!"); throw NgException("SendRecvMesh called, but only one rank in communicator!!");
@ -73,16 +72,18 @@ namespace netgen
{ {
Array<MPI_Request> sendrequests; Array<MPI_Request> sendrequests;
MPI_Comm comm = GetCommunicator();
int id = MyMPI_GetId(comm);
int ntasks = MyMPI_GetNTasks(comm);
int dim = GetDimension(); int dim = GetDimension();
MyMPI_Bcast(dim); MyMPI_Bcast(dim, comm);
const_cast<MeshTopology&>(GetTopology()).Update(); const_cast<MeshTopology&>(GetTopology()).Update();
PrintMessage ( 3, "Sending nr of elements"); PrintMessage ( 3, "Sending nr of elements");
MPI_Comm comm = this->comm;
Array<int> num_els_on_proc(ntasks); Array<int> num_els_on_proc(ntasks);
num_els_on_proc = 0; num_els_on_proc = 0;
for (ElementIndex ei = 0; ei < GetNE(); ei++) for (ElementIndex ei = 0; ei < GetNE(); ei++)
@ -285,7 +286,7 @@ namespace netgen
for (int dest = 1; dest < ntasks; dest++) for (int dest = 1; dest < ntasks; dest++)
{ {
FlatArray<PointIndex> verts = verts_of_proc[dest]; FlatArray<PointIndex> verts = verts_of_proc[dest];
sendrequests.Append (MyMPI_ISend (verts, dest, MPI_TAG_MESH+1)); sendrequests.Append (MyMPI_ISend (verts, dest, MPI_TAG_MESH+1, comm));
MPI_Datatype mptype = MeshPoint::MyGetMPIType(); MPI_Datatype mptype = MeshPoint::MyGetMPIType();
@ -301,7 +302,7 @@ namespace netgen
MPI_Type_commit (&newtype); MPI_Type_commit (&newtype);
MPI_Request request; MPI_Request request;
MPI_Isend( &points[0], 1, newtype, dest, MPI_TAG_MESH+1, MPI_COMM_WORLD, &request); MPI_Isend( &points[0], 1, newtype, dest, MPI_TAG_MESH+1, comm, &request);
sendrequests.Append (request); sendrequests.Append (request);
} }
@ -367,7 +368,7 @@ namespace netgen
} }
Array<MPI_Request> req_per; Array<MPI_Request> req_per;
for(int dest = 1; dest < ntasks; dest++) for(int dest = 1; dest < ntasks; dest++)
req_per.Append(MyMPI_ISend(pp_data[dest], dest, MPI_TAG_MESH+1)); req_per.Append(MyMPI_ISend(pp_data[dest], dest, MPI_TAG_MESH+1, comm));
MPI_Waitall(req_per.Size(), &req_per[0], MPI_STATUS_IGNORE); MPI_Waitall(req_per.Size(), &req_per[0], MPI_STATUS_IGNORE);
PrintMessage ( 3, "Sending Vertices - distprocs"); PrintMessage ( 3, "Sending Vertices - distprocs");
@ -395,7 +396,7 @@ namespace netgen
} }
for ( int dest = 1; dest < ntasks; dest ++ ) for ( int dest = 1; dest < ntasks; dest ++ )
sendrequests.Append (MyMPI_ISend (distpnums[dest], dest, MPI_TAG_MESH+1)); sendrequests.Append (MyMPI_ISend (distpnums[dest], dest, MPI_TAG_MESH+1, comm));
@ -425,7 +426,7 @@ namespace netgen
} }
for (int dest = 1; dest < ntasks; dest ++ ) for (int dest = 1; dest < ntasks; dest ++ )
sendrequests.Append (MyMPI_ISend (elementarrays[dest], dest, MPI_TAG_MESH+2)); sendrequests.Append (MyMPI_ISend (elementarrays[dest], dest, MPI_TAG_MESH+2, comm));
PrintMessage ( 3, "Sending Face Descriptors" ); PrintMessage ( 3, "Sending Face Descriptors" );
@ -442,7 +443,7 @@ namespace netgen
} }
for (int dest = 1; dest < ntasks; dest++) for (int dest = 1; dest < ntasks; dest++)
sendrequests.Append (MyMPI_ISend (fddata, dest, MPI_TAG_MESH+3)); sendrequests.Append (MyMPI_ISend (fddata, dest, MPI_TAG_MESH+3, comm));
/** Surface Elements **/ /** Surface Elements **/
@ -526,7 +527,7 @@ namespace netgen
}); });
// distribute sel data // distribute sel data
for (int dest = 1; dest < ntasks; dest++) for (int dest = 1; dest < ntasks; dest++)
sendrequests.Append (MyMPI_ISend(selbuf[dest], dest, MPI_TAG_MESH+4)); sendrequests.Append (MyMPI_ISend(selbuf[dest], dest, MPI_TAG_MESH+4, comm));
/** Segments **/ /** Segments **/
@ -676,7 +677,7 @@ namespace netgen
}); });
// distrubute segment data // distrubute segment data
for (int dest = 1; dest < ntasks; dest++) for (int dest = 1; dest < ntasks; dest++)
sendrequests.Append (MyMPI_ISend(segm_buf[dest], dest, MPI_TAG_MESH+5)); sendrequests.Append (MyMPI_ISend(segm_buf[dest], dest, MPI_TAG_MESH+5, comm));
PrintMessage ( 3, "now wait ..."); PrintMessage ( 3, "now wait ...");
@ -700,9 +701,9 @@ namespace netgen
compiled_bcnames[tot_bcsize++] = (*bcnames[k])[j]; compiled_bcnames[tot_bcsize++] = (*bcnames[k])[j];
for(int k=1;k<ntasks;k++) { for(int k=1;k<ntasks;k++) {
sendrequests[6*(k-1)] = MyMPI_ISend(FlatArray<int>(1, &nbcs), k, MPI_TAG_MESH+6); sendrequests[6*(k-1)] = MyMPI_ISend(FlatArray<int>(1, &nbcs), k, MPI_TAG_MESH+6, comm);
sendrequests[6*(k-1)+1] = MyMPI_ISend(bcname_sizes, k, MPI_TAG_MESH+6); sendrequests[6*(k-1)+1] = MyMPI_ISend(bcname_sizes, k, MPI_TAG_MESH+6, comm);
(void) MPI_Isend(compiled_bcnames, tot_bcsize, MPI_CHAR, k, MPI_TAG_MESH+6, MPI_COMM_WORLD, &sendrequests[6*(k-1)+2]); (void) MPI_Isend(compiled_bcnames, tot_bcsize, MPI_CHAR, k, MPI_TAG_MESH+6, comm, &sendrequests[6*(k-1)+2]);
} }
/** Send mat-names **/ /** Send mat-names **/
@ -719,9 +720,9 @@ namespace netgen
for(int j=0;j<mat_sizes[k];j++) for(int j=0;j<mat_sizes[k];j++)
compiled_mats[tot_matsize++] = (*materials[k])[j]; compiled_mats[tot_matsize++] = (*materials[k])[j];
for(int k=1;k<ntasks;k++) { for(int k=1;k<ntasks;k++) {
sendrequests[6*(k-1)+3] = MyMPI_ISend(FlatArray<int>(1, &nmats), k, MPI_TAG_MESH+6); sendrequests[6*(k-1)+3] = MyMPI_ISend(FlatArray<int>(1, &nmats), k, MPI_TAG_MESH+6, comm);
sendrequests[6*(k-1)+4] = MyMPI_ISend(mat_sizes, k, MPI_TAG_MESH+6); sendrequests[6*(k-1)+4] = MyMPI_ISend(mat_sizes, k, MPI_TAG_MESH+6, comm);
(void) MPI_Isend(compiled_mats, tot_matsize, MPI_CHAR, k, MPI_TAG_MESH+6, MPI_COMM_WORLD, &sendrequests[6*(k-1)+5]); (void) MPI_Isend(compiled_mats, tot_matsize, MPI_CHAR, k, MPI_TAG_MESH+6, comm, &sendrequests[6*(k-1)+5]);
} }
/* now wait ... **/ /* now wait ... **/
@ -731,7 +732,7 @@ namespace netgen
PrintMessage( 3, "send mesh complete"); PrintMessage( 3, "send mesh complete");
MPI_Barrier(MPI_COMM_WORLD); MPI_Barrier(comm);
} }
@ -750,14 +751,17 @@ namespace netgen
int timer_sels = NgProfiler::CreateTimer ("Receive surface elements"); int timer_sels = NgProfiler::CreateTimer ("Receive surface elements");
NgProfiler::RegionTimer reg(timer); NgProfiler::RegionTimer reg(timer);
int id = MyMPI_GetId(GetCommunicator());
int ntasks = MyMPI_GetNTasks(GetCommunicator());
int dim; int dim;
MyMPI_Bcast(dim); MyMPI_Bcast(dim, comm);
SetDimension(dim); SetDimension(dim);
// Receive number of local elements // Receive number of local elements
int nelloc; int nelloc;
MPI_Scatter (NULL, 0, MPI_INT, MPI_Scatter (NULL, 0, MPI_INT,
&nelloc, 1, MPI_INT, 0, MPI_COMM_WORLD); &nelloc, 1, MPI_INT, 0, comm);
paralleltop -> SetNE (nelloc); paralleltop -> SetNE (nelloc);
// string st; // string st;
@ -766,8 +770,7 @@ namespace netgen
NgProfiler::StartTimer (timer_pts); NgProfiler::StartTimer (timer_pts);
Array<int> verts; Array<int> verts;
MyMPI_Recv (verts, 0, MPI_TAG_MESH+1); MyMPI_Recv (verts, 0, MPI_TAG_MESH+1, comm);
int numvert = verts.Size(); int numvert = verts.Size();
paralleltop -> SetNV (numvert); paralleltop -> SetNV (numvert);
@ -787,11 +790,10 @@ namespace netgen
MPI_Datatype mptype = MeshPoint::MyGetMPIType(); MPI_Datatype mptype = MeshPoint::MyGetMPIType();
MPI_Status status; MPI_Status status;
MPI_Recv( &points[1], numvert, mptype, 0, MPI_TAG_MESH+1, MPI_COMM_WORLD, &status); MPI_Recv( &points[1], numvert, mptype, 0, MPI_TAG_MESH+1, comm, &status);
Array<int> pp_data; Array<int> pp_data;
MyMPI_Recv(pp_data, 0, MPI_TAG_MESH+1); MyMPI_Recv(pp_data, 0, MPI_TAG_MESH+1, comm);
int maxidentnr = pp_data[0]; int maxidentnr = pp_data[0];
auto & idents = GetIdentifications(); auto & idents = GetIdentifications();
@ -815,7 +817,7 @@ namespace netgen
} }
Array<int> dist_pnums; Array<int> dist_pnums;
MyMPI_Recv (dist_pnums, 0, MPI_TAG_MESH+1); MyMPI_Recv (dist_pnums, 0, MPI_TAG_MESH+1, comm);
for (int hi = 0; hi < dist_pnums.Size(); hi += 3) for (int hi = 0; hi < dist_pnums.Size(); hi += 3)
paralleltop -> paralleltop ->
@ -828,7 +830,7 @@ namespace netgen
Element el; Element el;
Array<int> elarray; Array<int> elarray;
MyMPI_Recv (elarray, 0, MPI_TAG_MESH+2); MyMPI_Recv (elarray, 0, MPI_TAG_MESH+2, comm);
NgProfiler::RegionTimer reg(timer_els); NgProfiler::RegionTimer reg(timer_els);
@ -848,7 +850,7 @@ namespace netgen
{ {
Array<double> fddata; Array<double> fddata;
MyMPI_Recv (fddata, 0, MPI_TAG_MESH+3); MyMPI_Recv (fddata, 0, MPI_TAG_MESH+3, comm);
for (int i = 0; i < fddata.Size(); i += 6) for (int i = 0; i < fddata.Size(); i += 6)
{ {
int faceind = AddFaceDescriptor int faceind = AddFaceDescriptor
@ -863,7 +865,7 @@ namespace netgen
NgProfiler::RegionTimer reg(timer_sels); NgProfiler::RegionTimer reg(timer_sels);
Array<int> selbuf; Array<int> selbuf;
MyMPI_Recv ( selbuf, 0, MPI_TAG_MESH+4); MyMPI_Recv ( selbuf, 0, MPI_TAG_MESH+4, comm);
int ii = 0; int ii = 0;
int sel = 0; int sel = 0;
@ -894,7 +896,7 @@ namespace netgen
{ {
Array<double> segmbuf; Array<double> segmbuf;
MyMPI_Recv ( segmbuf, 0, MPI_TAG_MESH+5); MyMPI_Recv ( segmbuf, 0, MPI_TAG_MESH+5, comm);
Segment seg; Segment seg;
int globsegi; int globsegi;
@ -939,14 +941,14 @@ namespace netgen
/** Recv bc-names **/ /** Recv bc-names **/
int nbcs; int nbcs;
MyMPI_Recv(nbcs, 0, MPI_TAG_MESH+6); MyMPI_Recv(nbcs, 0, MPI_TAG_MESH+6, comm);
Array<int> bcs(nbcs); Array<int> bcs(nbcs);
MyMPI_Recv(bcs, 0, MPI_TAG_MESH+6); MyMPI_Recv(bcs, 0, MPI_TAG_MESH+6, comm);
int size_bc = 0; int size_bc = 0;
for(int k=0;k<nbcs;k++) for(int k=0;k<nbcs;k++)
size_bc += bcs[k]; size_bc += bcs[k];
char compiled_bcnames[size_bc]; char compiled_bcnames[size_bc];
MPI_Recv(compiled_bcnames, size_bc, MPI_CHAR, 0, MPI_TAG_MESH+6, MPI_COMM_WORLD, MPI_STATUS_IGNORE); MPI_Recv(compiled_bcnames, size_bc, MPI_CHAR, 0, MPI_TAG_MESH+6, comm, MPI_STATUS_IGNORE);
SetNBCNames(nbcs); SetNBCNames(nbcs);
int cnt = 0; int cnt = 0;
@ -957,14 +959,14 @@ namespace netgen
/** Recv mat-names **/ /** Recv mat-names **/
int nmats; int nmats;
MyMPI_Recv(nmats, 0, MPI_TAG_MESH+6); MyMPI_Recv(nmats, 0, MPI_TAG_MESH+6, comm);
Array<int> matsz(nmats); Array<int> matsz(nmats);
MyMPI_Recv(matsz, 0, MPI_TAG_MESH+6); MyMPI_Recv(matsz, 0, MPI_TAG_MESH+6, comm);
int size_mats = 0; int size_mats = 0;
for(int k=0;k<nmats;k++) for(int k=0;k<nmats;k++)
size_mats += matsz[k]; size_mats += matsz[k];
char compiled_mats[size_mats]; char compiled_mats[size_mats];
MPI_Recv(compiled_mats, size_mats, MPI_CHAR, 0, MPI_TAG_MESH+6, MPI_COMM_WORLD, MPI_STATUS_IGNORE); MPI_Recv(compiled_mats, size_mats, MPI_CHAR, 0, MPI_TAG_MESH+6, comm, MPI_STATUS_IGNORE);
cnt = 0; cnt = 0;
materials.SetSize(nmats); materials.SetSize(nmats);
for(int k=0;k<nmats;k++) { for(int k=0;k<nmats;k++) {
@ -973,7 +975,7 @@ namespace netgen
cnt += matsz[k]; cnt += matsz[k];
} }
MPI_Barrier(MPI_COMM_WORLD); MPI_Barrier(comm);
int timerloc = NgProfiler::CreateTimer ("Update local mesh"); int timerloc = NgProfiler::CreateTimer ("Update local mesh");
int timerloc2 = NgProfiler::CreateTimer ("CalcSurfacesOfNode"); int timerloc2 = NgProfiler::CreateTimer ("CalcSurfacesOfNode");
@ -1008,8 +1010,9 @@ namespace netgen
// call it only for the master ! // call it only for the master !
void Mesh :: Distribute () void Mesh :: Distribute ()
{ {
MPI_Comm_size(MPI_COMM_WORLD, &ntasks); MPI_Comm comm = GetCommunicator();
MPI_Comm_rank(MPI_COMM_WORLD, &id); int id = MyMPI_GetId(comm);
int ntasks = MyMPI_GetNTasks(comm);
if (id != 0 || ntasks == 1 ) return; if (id != 0 || ntasks == 1 ) return;
@ -1068,7 +1071,7 @@ namespace netgen
eptr.Append (eind.Size()); eptr.Append (eind.Size());
Array<idx_t> epart(ne), npart(nn); Array<idx_t> epart(ne), npart(nn);
idxtype nparts = ntasks-1; idxtype nparts = MyMPI_GetNTasks(GetCommunicator())-1;
idxtype edgecut; idxtype edgecut;
idxtype ncommon = 3; idxtype ncommon = 3;
@ -1120,12 +1123,9 @@ namespace netgen
for (SurfaceElementIndex sei = 0; sei < GetNSE(); sei++) for (SurfaceElementIndex sei = 0; sei < GetNSE(); sei++)
{ {
const Element2d & el = (*this)[sei]; const Element2d & el = (*this)[sei];
cout << "surf-el " << sei << " verts: " << endl;
for (int j = 0; j < el.GetNP(); j++) { for (int j = 0; j < el.GetNP(); j++) {
cout << el[j] << " ";
f(el[j], sei); f(el[j], sei);
} }
cout << endl;
} }
}; };
auto loop_els_3d = [&](auto f) { auto loop_els_3d = [&](auto f) {
@ -1150,7 +1150,6 @@ namespace netgen
if(boundarypoints[vertex]) if(boundarypoints[vertex])
cnt[vertex]++; cnt[vertex]++;
}); });
cout << "count: " << endl << cnt << endl;
TABLE<int, PointIndex::BASE> pnt2el(cnt); TABLE<int, PointIndex::BASE> pnt2el(cnt);
loop_els([&](auto vertex, int index) loop_els([&](auto vertex, int index)
{ {
@ -1277,8 +1276,9 @@ namespace netgen
// call it only for the master ! // call it only for the master !
void Mesh :: Distribute (Array<int> & volume_weights , Array<int> & surface_weights, Array<int> & segment_weights) void Mesh :: Distribute (Array<int> & volume_weights , Array<int> & surface_weights, Array<int> & segment_weights)
{ {
MPI_Comm_size(MPI_COMM_WORLD, &ntasks); MPI_Comm comm = GetCommunicator();
MPI_Comm_rank(MPI_COMM_WORLD, &id); int id = MyMPI_GetId(comm);
int ntasks = MyMPI_GetNTasks(comm);
if (id != 0 || ntasks == 1 ) return; if (id != 0 || ntasks == 1 ) return;
@ -1368,7 +1368,7 @@ namespace netgen
eptr.Append (eind.Size()); eptr.Append (eind.Size());
Array<idx_t> epart(ne), npart(nn); Array<idx_t> epart(ne), npart(nn);
idxtype nparts = ntasks-1; idxtype nparts = MyMPI_GetNTasks(GetCommunicator())-1;
idxtype edgecut; idxtype edgecut;

15
libsrc/meshing/paralleltop.cpp
View File

@ -24,6 +24,9 @@ namespace netgen
void ParallelMeshTopology :: Reset () void ParallelMeshTopology :: Reset ()
{ {
*testout << "ParallelMeshTopology::Reset" << endl; *testout << "ParallelMeshTopology::Reset" << endl;
int id = MyMPI_GetId(mesh.GetCommunicator());
int ntasks = MyMPI_GetNTasks(mesh.GetCommunicator());
if ( ntasks == 1 ) return; if ( ntasks == 1 ) return;
@ -206,6 +209,10 @@ namespace netgen
// cout << "UpdateCoarseGrid" << endl; // cout << "UpdateCoarseGrid" << endl;
// if (is_updated) return; // if (is_updated) return;
MPI_Comm comm = mesh.GetCommunicator();
int id = MyMPI_GetId(comm);
int ntasks = MyMPI_GetNTasks(comm);
Reset(); Reset();
static int timer = NgProfiler::CreateTimer ("UpdateCoarseGrid"); static int timer = NgProfiler::CreateTimer ("UpdateCoarseGrid");
NgProfiler::RegionTimer reg(timer); NgProfiler::RegionTimer reg(timer);
@ -222,14 +229,14 @@ namespace netgen
// MPI_Barrier (MPI_COMM_WORLD); // MPI_Barrier (MPI_COMM_WORLD);
MPI_Group MPI_GROUP_WORLD; MPI_Group MPI_GROUP_comm;
MPI_Group MPI_LocalGroup; MPI_Group MPI_LocalGroup;
MPI_Comm MPI_LocalComm; MPI_Comm MPI_LocalComm;
int process_ranks[] = { 0 }; int process_ranks[] = { 0 };
MPI_Comm_group (MPI_COMM_WORLD, &MPI_GROUP_WORLD); MPI_Comm_group (comm, &MPI_GROUP_comm);
MPI_Group_excl (MPI_GROUP_WORLD, 1, process_ranks, &MPI_LocalGroup); MPI_Group_excl (MPI_GROUP_comm, 1, process_ranks, &MPI_LocalGroup);
MPI_Comm_create (MPI_COMM_WORLD, MPI_LocalGroup, &MPI_LocalComm); MPI_Comm_create (comm, MPI_LocalGroup, &MPI_LocalComm);
if (id == 0) return; if (id == 0) return;

90
libsrc/meshing/python_mesh.cpp
View File

@ -17,6 +17,22 @@ namespace netgen
{ {
extern bool netgen_executable_started; extern bool netgen_executable_started;
extern shared_ptr<NetgenGeometry> ng_geometry; extern shared_ptr<NetgenGeometry> ng_geometry;
#ifdef PARALLEL
/** we need allreduce in python-wrapped communicators **/
template <typename T>
inline T MyMPI_AllReduceNG (T d, const MPI_Op & op = MPI_SUM, MPI_Comm comm = ng_comm)
{
T global_d;
MPI_Allreduce ( &d, &global_d, 1, MyGetMPIType<T>(), op, comm);
return global_d;
}
#else
enum { MPI_SUM = 0, MPI_MIN = 1, MPI_MAX = 2 };
typedef int MPI_Op;
template <typename T>
inline T MyMPI_AllReduceNG (T d, const MPI_Op & op = MPI_SUM, MPI_Comm comm = ng_comm)
{ return d; }
#endif
} }
@ -503,18 +519,21 @@ DLL_HEADER void ExportNetgenMeshing(py::module &m)
py::class_<Mesh,shared_ptr<Mesh>>(m, "Mesh") py::class_<Mesh,shared_ptr<Mesh>>(m, "Mesh")
// .def(py::init<>("create empty mesh")) // .def(py::init<>("create empty mesh"))
.def(py::init( [] (int dim) .def(py::init( [] (int dim, shared_ptr<PyMPI_Comm> pycomm)
{ {
auto mesh = make_shared<Mesh>(); auto mesh = make_shared<Mesh>();
mesh->SetCommunicator(pycomm!=nullptr ? pycomm->comm : netgen::ng_comm);
mesh -> SetDimension(dim); mesh -> SetDimension(dim);
SetGlobalMesh(mesh); // for visualization SetGlobalMesh(mesh); // for visualization
mesh -> SetGeometry (nullptr); mesh -> SetGeometry (nullptr);
return mesh; return mesh;
} ), } ),
py::arg("dim")=3 py::arg("dim")=3, py::arg("comm")=nullptr
) )
.def(NGSPickle<Mesh>()) .def(NGSPickle<Mesh>())
.def_property_readonly("comm", [](const Mesh & amesh)
{ return make_shared<PyMPI_Comm>(amesh.GetCommunicator()); },
"MPI-communicator the Mesh lives in")
/* /*
.def("__init__", .def("__init__",
[](Mesh *instance, int dim) [](Mesh *instance, int dim)
@ -527,15 +546,25 @@ DLL_HEADER void ExportNetgenMeshing(py::module &m)
*/ */
.def_property_readonly("_timestamp", &Mesh::GetTimeStamp) .def_property_readonly("_timestamp", &Mesh::GetTimeStamp)
.def("Distribute", [](Mesh & self, shared_ptr<PyMPI_Comm> pycomm) {
MPI_Comm comm = pycomm!=nullptr ? pycomm->comm : self.GetCommunicator();
self.SetCommunicator(comm);
if(MyMPI_GetNTasks(comm)==1) return;
if(MyMPI_GetNTasks(comm)==2) throw NgException("Sorry, cannot handle communicators with NP=2!");
cout << " rank " << MyMPI_GetId(comm) << " of " << MyMPI_GetNTasks(comm) << " called Distribute " << endl;
if(MyMPI_GetId(comm)==0) self.Distribute();
else self.SendRecvMesh();
}, py::arg("comm")=nullptr)
.def("Load", FunctionPointer .def("Load", FunctionPointer
([](Mesh & self, const string & filename) ([](Mesh & self, const string & filename)
{ {
istream * infile; istream * infile;
MPI_Comm comm = self.GetCommunicator();
id = MyMPI_GetId(comm);
ntasks = MyMPI_GetNTasks(comm);
#ifdef PARALLEL #ifdef PARALLEL
MPI_Comm_rank(MPI_COMM_WORLD, &id);
MPI_Comm_size(MPI_COMM_WORLD, &ntasks);
char* buf = nullptr; char* buf = nullptr;
int strs = 0; int strs = 0;
if(id==0) { if(id==0) {
@ -563,10 +592,10 @@ DLL_HEADER void ExportNetgenMeshing(py::module &m)
} }
/** Scatter the geometry-string **/ /** Scatter the geometry-string **/
MPI_Bcast(&strs, 1, MPI_INT, 0, MPI_COMM_WORLD); MPI_Bcast(&strs, 1, MPI_INT, 0, comm);
if(id!=0) if(id!=0)
buf = new char[strs]; buf = new char[strs];
MPI_Bcast(buf, strs, MPI_CHAR, 0, MPI_COMM_WORLD); MPI_Bcast(buf, strs, MPI_CHAR, 0, comm);
if(id==0) if(id==0)
delete infile; delete infile;
infile = new istringstream(string((const char*)buf, (size_t)strs)); infile = new istringstream(string((const char*)buf, (size_t)strs));
@ -921,6 +950,51 @@ DLL_HEADER void ExportNetgenMeshing(py::module &m)
printmessage_importance = importance; printmessage_importance = importance;
return old; return old;
})); }));
py::class_<PyMPI_Comm, shared_ptr<PyMPI_Comm>> (m, "MPI_Comm")
.def_property_readonly ("rank", &PyMPI_Comm::Rank)
.def_property_readonly ("size", &PyMPI_Comm::Size)
// .def_property_readonly ("rank", [](PyMPI_Comm & c) { cout << "rank for " << c.comm << endl; return c.Rank(); })
// .def_property_readonly ("size", [](PyMPI_Comm & c) { cout << "size for " << c.comm << endl; return c.Size(); })
#ifdef PARALLEL
.def("Barrier", [](PyMPI_Comm & c) { MPI_Barrier(c.comm); })
.def("WTime", [](PyMPI_Comm & c) { return MPI_Wtime(); })
#else
.def("Barrier", [](PyMPI_Comm & c) { })
.def("WTime", [](PyMPI_Comm & c) { return -1.0; })
#endif
.def("Sum", [](PyMPI_Comm & c, double x) { return MyMPI_AllReduceNG(x, MPI_SUM, c.comm); })
.def("Min", [](PyMPI_Comm & c, double x) { return MyMPI_AllReduceNG(x, MPI_MIN, c.comm); })
.def("Max", [](PyMPI_Comm & c, double x) { return MyMPI_AllReduceNG(x, MPI_MAX, c.comm); })
.def("Sum", [](PyMPI_Comm & c, int x) { return MyMPI_AllReduceNG(x, MPI_SUM, c.comm); })
.def("Min", [](PyMPI_Comm & c, int x) { return MyMPI_AllReduceNG(x, MPI_MIN, c.comm); })
.def("Max", [](PyMPI_Comm & c, int x) { return MyMPI_AllReduceNG(x, MPI_MAX, c.comm); })
.def("Sum", [](PyMPI_Comm & c, size_t x) { return MyMPI_AllReduceNG(x, MPI_SUM, c.comm); })
.def("Min", [](PyMPI_Comm & c, size_t x) { return MyMPI_AllReduceNG(x, MPI_MIN, c.comm); })
.def("Max", [](PyMPI_Comm & c, size_t x) { return MyMPI_AllReduceNG(x, MPI_MAX, c.comm); })
.def("SubComm", [](PyMPI_Comm & c, py::list proc_list) -> shared_ptr<PyMPI_Comm> {
Array<int> procs;
if (py::extract<py::list> (proc_list).check()) {
py::list pylist = py::extract<py::list> (proc_list)();
procs.SetSize(py::len(pylist));
for (int i = 0; i < py::len(pylist); i++)
procs[i] = py::extract<int>(pylist[i])();
}
else {
throw Exception("SubComm needs a list!");
}
if(!procs.Size()) {
cout << "warning, tried to construct empty communicator, returning MPI_COMM_NULL" << endl;
return make_shared<PyMPI_Comm>(MPI_COMM_NULL);
}
else if(procs.Size()==2) {
throw Exception("Sorry, NGSolve cannot handle NP=2.");
}
MPI_Comm subcomm = MyMPI_SubCommunicator(c.comm, procs);
return make_shared<PyMPI_Comm>(subcomm, true);
}, py::arg("procs"));
;
} }
PYBIND11_MODULE(libmesh, m) { PYBIND11_MODULE(libmesh, m) {