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parallel fixes

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This commit is contained in:
Joachim Schoeberl 2012-06-13 09:07:11 +00:00
parent 368da4c996
commit 27f8e452fd
13 changed files with 223 additions and 281 deletions
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11
libsrc/general/array.hpp
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@ -170,8 +170,15 @@ namespace netgen
public:
/// Generate array of logical and physical size asize
explicit Array(int asize = 0)
: FlatArray<T, BASE> (asize, asize ? new T[asize] : 0)
explicit Array()
: FlatArray<T, BASE> (0, NULL)
{
allocsize = 0;
ownmem = 1;
}
explicit Array(int asize)
: FlatArray<T, BASE> (asize, new T[asize])
{
allocsize = asize;
ownmem = 1;

50
libsrc/include/nginterface.h
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@ -272,59 +272,15 @@ extern "C" {
double * p3d, double * jacobian);
#ifdef PARALLEL
// Is Element ei an element of this processor ??
bool Ng_IsGhostEl (int ei);
void Ng_SetGhostEl(const int ei, const bool aisghost );
bool Ng_IsGhostSEl (int ei);
void Ng_SetGhostSEl(const int ei, const bool aisghost );
bool Ng_IsGhostVert ( int pnum );
bool Ng_IsGhostEdge ( int ednum );
bool Ng_IsGhostFace ( int fanum );
bool Ng_IsExchangeEl ( int elnum );
bool Ng_IsExchangeSEl ( int selnr );
void Ng_UpdateOverlap ();
int Ng_Overlap();
/* void Ng_SetGhostVert ( const int pnum, const bool aisghost ); */
/* void Ng_SetGhostEdge ( const int ednum, const bool aisghost ); */
/* void Ng_SetGhostFace ( const int fanum, const bool aisghost ); */
// the folling functions are 0-base !!
int NgPar_GetLoc2Glob_VolEl ( int locnum );
// int NgPar_GetDistantNodeNums ( int nt, int locnum, int * procs, int * distnum);
// number on distant processor
// gibt anzahl an distant pnums zurueck
// * pnums entspricht ARRAY<int[2] >
// returns pairs (dist_proc, num_on_dist_proc)
int NgPar_GetDistantNodeNums ( int nodetype, int locnum, int * pnums );
int NgPar_GetNDistantNodeNums ( int nodetype, int locnum );
int NgPar_GetDistantPNum ( int proc, int locnum ) ;
int NgPar_GetDistantEdgeNum ( int proc, int locnum ) ;
int NgPar_GetDistantFaceNum ( int proc, int locnum ) ;
int NgPar_GetDistantElNum ( int proc, int locnum );
bool NgPar_IsExchangeFace ( int fnr ) ;
bool NgPar_IsExchangeVert ( int vnum );
bool NgPar_IsExchangeEdge ( int ednum );
bool NgPar_IsExchangeElement ( int elnum );
void NgPar_PrintParallelMeshTopology ();
bool NgPar_IsElementInPartition ( int elnum, int dest );
bool NgPar_IsGhostFace ( int facenum );
bool NgPar_IsGhostEdge ( int edgenum );
int NgPar_GetGlobalNodeNum (int nodetype, int locnum);
#endif

318
libsrc/interface/nginterface.cpp
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@ -24,42 +24,42 @@
// #include <pthread.h>
static pthread_t meshingthread;
void RunParallel ( void * (*fun)(void *), void * in)
{
if (netgen::mparam.parthread) // && (ntasks == 1) )
{
pthread_attr_t attr;
pthread_attr_init (&attr);
// the following call can be removed if not available:
pthread_attr_setstacksize(&attr, 1000000);
//pthread_create (&meshingthread, &attr, fun, NULL);
pthread_create (&meshingthread, &attr, fun, in);
}
else
fun (in);
}
static pthread_t meshingthread;
void RunParallel ( void * (*fun)(void *), void * in)
{
if (netgen::mparam.parthread) // && (ntasks == 1) )
{
pthread_attr_t attr;
pthread_attr_init (&attr);
// the following call can be removed if not available:
pthread_attr_setstacksize(&attr, 1000000);
//pthread_create (&meshingthread, &attr, fun, NULL);
pthread_create (&meshingthread, &attr, fun, in);
}
else
fun (in);
}
#else // Using MS VC++ Standard / Enterprise / Professional edition
// Afx - Threads need different return - value:
// Afx - Threads need different return - value:
static void* (*sfun)(void *);
unsigned int fun2 (void * val)
{
sfun (val);
return 0;
}
static void* (*sfun)(void *);
unsigned int fun2 (void * val)
{
sfun (val);
return 0;
}
void RunParallel ( void* (*fun)(void *), void * in)
{
sfun = fun;
if (netgen::mparam.parthread)
AfxBeginThread (fun2, in);
//AfxBeginThread (fun2, NULL);
else
fun (in);
}
void RunParallel ( void* (*fun)(void *), void * in)
{
sfun = fun;
if (netgen::mparam.parthread)
AfxBeginThread (fun2, in);
//AfxBeginThread (fun2, NULL);
else
fun (in);
}
#endif // #ifdef MSVC_EXPRESS
@ -67,31 +67,31 @@
// #include <pthread.h>
static pthread_t meshingthread;
void RunParallel ( void * (*fun)(void *), void * in)
{
bool parthread = netgen::mparam.parthread;
static pthread_t meshingthread;
void RunParallel ( void * (*fun)(void *), void * in)
{
bool parthread = netgen::mparam.parthread;
#ifdef PARALLEL
int provided;
MPI_Query_thread(&provided);
if (provided < 3)
if (netgen::ntasks > 1) parthread = false;
// cout << "runparallel = " << parthread << endl;
int provided;
MPI_Query_thread(&provided);
if (provided < 3)
if (netgen::ntasks > 1) parthread = false;
// cout << "runparallel = " << parthread << endl;
#endif
if (parthread)
{
pthread_attr_t attr;
pthread_attr_init (&attr);
// the following call can be removed if not available:
pthread_attr_setstacksize(&attr, 1000000);
//pthread_create (&meshingthread, &attr, fun, NULL);
pthread_create (&meshingthread, &attr, fun, in);
}
else
fun (in);
}
if (parthread)
{
pthread_attr_t attr;
pthread_attr_init (&attr);
// the following call can be removed if not available:
pthread_attr_setstacksize(&attr, 1000000);
//pthread_create (&meshingthread, &attr, fun, NULL);
pthread_create (&meshingthread, &attr, fun, in);
}
else
fun (in);
}
#endif // #ifdef _MSC_VER
@ -937,9 +937,9 @@ bool Ng_IsGhostEl (int ei)
{
return false;
/*
if ( mesh->GetDimension() == 3 )
if ( mesh->GetDimension() == 3 )
return mesh->VolumeElement(ei).IsGhost();
else
else
return false;
*/
}
@ -948,7 +948,7 @@ void Ng_SetGhostEl(const int ei, const bool aisghost )
{
;
/*
if ( mesh -> GetDimension () == 3 )
if ( mesh -> GetDimension () == 3 )
mesh -> VolumeElement(ei).SetGhost (aisghost);
*/
}
@ -957,9 +957,9 @@ bool Ng_IsGhostSEl (int ei)
{
return false;
/*
if ( mesh -> GetDimension () == 3 )
if ( mesh -> GetDimension () == 3 )
return mesh->SurfaceElement(ei).IsGhost();
else
else
return false;
*/
}
@ -968,7 +968,7 @@ void Ng_SetGhostSEl(const int ei, const bool aisghost )
{
;
/*
if ( mesh -> GetDimension () == 3 )
if ( mesh -> GetDimension () == 3 )
mesh -> SurfaceElement(ei).SetGhost (aisghost);
*/
}
@ -1015,106 +1015,120 @@ int Ng_Overlap ()
int NgPar_GetLoc2Glob_VolEl ( int locnum )
{
return mesh -> GetParallelTopology().GetLoc2Glob_VolEl ( locnum+1) -1;
}
int NgPar_GetLoc2Glob_VolEl ( int locnum )
{
return mesh -> GetParallelTopology().GetLoc2Glob_VolEl ( locnum+1) -1;
}
// gibt anzahl an distant pnums zurueck
// * pnums entspricht ARRAY<int[2] >
int NgPar_GetDistantNodeNums ( int nodetype, int locnum, int * distnums )
{
int size;
switch ( nodetype )
{
case 0:
size = mesh->GetParallelTopology().GetDistantPNums( locnum+1, distnums );
break;
case 1:
size = mesh->GetParallelTopology().GetDistantEdgeNums( locnum+1, distnums );
break;
case 2:
size = mesh->GetParallelTopology().GetDistantFaceNums( locnum+1, distnums );
break;
case 3:
size = mesh->GetParallelTopology().GetDistantElNums( locnum+1, distnums );
break;
default:
cerr << "NgPar_GetDistantNodeNums() Unknown nodetype " << nodetype << endl;
size = -1;
}
// 0 - based
for ( int i = 0; i < size; i++ )
distnums[2*i+1]--;
// gibt anzahl an distant pnums zurueck
// * pnums entspricht ARRAY<int[2] >
int NgPar_GetDistantNodeNums ( int nodetype, int locnum, int * distnums )
{
int size;
switch ( nodetype )
{
case 0:
size = mesh->GetParallelTopology().GetDistantPNums( locnum+1, distnums );
break;
case 1:
size = mesh->GetParallelTopology().GetDistantEdgeNums( locnum+1, distnums );
break;
case 2:
size = mesh->GetParallelTopology().GetDistantFaceNums( locnum+1, distnums );
break;
case 3:
size = mesh->GetParallelTopology().GetDistantElNums( locnum+1, distnums );
break;
default:
cerr << "NgPar_GetDistantNodeNums() Unknown nodetype " << nodetype << endl;
size = -1;
}
// 0 - based
for ( int i = 0; i < size; i++ )
distnums[2*i+1]--;
return size;
}
return size;
}
int NgPar_GetNDistantNodeNums ( int nodetype, int locnum )
{
switch ( nodetype )
{
case 0:
return mesh->GetParallelTopology().GetNDistantPNums( locnum+1 );
case 1:
return mesh->GetParallelTopology().GetNDistantEdgeNums( locnum+1 );
case 2:
return mesh->GetParallelTopology().GetNDistantFaceNums( locnum+1 );
case 3:
return mesh->GetParallelTopology().GetNDistantElNums( locnum+1 );
}
return -1;
}
int NgPar_GetNDistantNodeNums ( int nodetype, int locnum )
{
switch ( nodetype )
{
case 0:
return mesh->GetParallelTopology().GetNDistantPNums( locnum+1 );
case 1:
return mesh->GetParallelTopology().GetNDistantEdgeNums( locnum+1 );
case 2:
return mesh->GetParallelTopology().GetNDistantFaceNums( locnum+1 );
case 3:
return mesh->GetParallelTopology().GetNDistantElNums( locnum+1 );
}
return -1;
}
int NgPar_GetDistantPNum ( int proc, int locpnum )
{
return mesh->GetParallelTopology().GetDistantPNum( proc, locpnum+1) - 1;
}
int NgPar_GetDistantEdgeNum ( int proc, int locpnum )
{
return mesh->GetParallelTopology().GetDistantEdgeNum( proc, locpnum+1) - 1;
}
int NgPar_GetDistantFaceNum ( int proc, int locpnum )
{
return mesh->GetParallelTopology().GetDistantFaceNum (proc, locpnum+1 ) - 1;
}
int NgPar_GetDistantElNum ( int proc, int locelnum )
{
return mesh->GetParallelTopology().GetDistantElNum (proc, locelnum+1 ) - 1;
}
bool NgPar_IsExchangeFace ( int fnr )
{
return (mesh->GetParallelTopology().GetNDistantFaceNums( fnr+1 ) > 0);
// return mesh->GetParallelTopology().IsExchangeFace ( fnr+1 );
}
bool NgPar_IsExchangeVert ( int vnum )
{
return (mesh->GetParallelTopology().GetNDistantPNums( vnum+1 ) > 0);
// return mesh->GetParallelTopology().IsExchangeVert ( vnum+1 );
}
bool NgPar_IsExchangeEdge ( int ednum )
{
return (mesh->GetParallelTopology().GetNDistantEdgeNums( ednum+1 ) > 0);
// return mesh->GetParallelTopology().IsExchangeEdge ( ednum+1 );
}
bool NgPar_IsExchangeElement ( int elnum )
{
return (mesh->GetParallelTopology().GetNDistantElNums( elnum+1 ) > 0);
// return mesh->GetParallelTopology().IsExchangeElement ( elnum+1 );
}
int NgPar_GetGlobalNodeNum (int nodetype, int locnum)
{
switch (nodetype)
{
case 0: return mesh->GetParallelTopology().GetDistantPNum (0, locnum+1)-1;
case 1: return mesh->GetParallelTopology().GetDistantEdgeNum (0, locnum+1)-1;
case 2: return mesh->GetParallelTopology().GetDistantFaceNum (0, locnum+1)-1;
case 3: return mesh->GetParallelTopology().GetDistantElNum (0, locnum+1)-1;
}
return -1;
}
void NgPar_PrintParallelMeshTopology ()
{
mesh -> GetParallelTopology().Print ();
}
int NgPar_GetDistantPNum ( int proc, int locpnum )
{
return mesh->GetParallelTopology().GetDistantPNum( proc, locpnum+1) - 1;
}
int NgPar_GetDistantEdgeNum ( int proc, int locpnum )
{
return mesh->GetParallelTopology().GetDistantEdgeNum( proc, locpnum+1) - 1;
}
int NgPar_GetDistantFaceNum ( int proc, int locpnum )
{
return mesh->GetParallelTopology().GetDistantFaceNum (proc, locpnum+1 ) - 1;
}
int NgPar_GetDistantElNum ( int proc, int locelnum )
{
return mesh->GetParallelTopology().GetDistantElNum (proc, locelnum+1 ) - 1;
}
bool NgPar_IsExchangeFace ( int fnr )
{
return (mesh->GetParallelTopology().GetNDistantFaceNums( fnr+1 ) > 0);
// return mesh->GetParallelTopology().IsExchangeFace ( fnr+1 );
}
bool NgPar_IsExchangeVert ( int vnum )
{
return (mesh->GetParallelTopology().GetNDistantPNums( vnum+1 ) > 0);
// return mesh->GetParallelTopology().IsExchangeVert ( vnum+1 );
}
bool NgPar_IsExchangeEdge ( int ednum )
{
return (mesh->GetParallelTopology().GetNDistantEdgeNums( ednum+1 ) > 0);
// return mesh->GetParallelTopology().IsExchangeEdge ( ednum+1 );
}
bool NgPar_IsExchangeElement ( int elnum )
{
return (mesh->GetParallelTopology().GetNDistantElNums( elnum+1 ) > 0);
// return mesh->GetParallelTopology().IsExchangeElement ( elnum+1 );
}
void NgPar_PrintParallelMeshTopology ()
{
mesh -> GetParallelTopology().Print ();
}
#endif

4
libsrc/meshing/boundarylayer.cpp
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@ -343,8 +343,8 @@ namespace netgen
// boundary layer list
if(!surfid.Contains(mesh.LineSegment(j).si))
{
int pnt_commelem = 0;
int pnum_commelem = 0;
int pnt_commelem = 0;
int pnum_commelem = 0;
Array<int> pnt1_elems;
Array<int> pnt2_elems;

2
libsrc/meshing/hprefinement.cpp
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@ -1446,7 +1446,7 @@ namespace netgen
{
for(ElementIndex i=0;i<mesh.GetNE(); i++)
{
Element el = mesh[i] ;
// Element el = mesh[i] ;
HPRefElement & hpel = hpelements[mesh[i].hp_elnr];
const ELEMENT_EDGE * edges = MeshTopology::GetEdges1 (mesh[i].GetType());
double dist[3] = {0,0,0};

3
libsrc/meshing/meshclass.hpp
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@ -748,9 +748,6 @@ namespace netgen
/// loads a mesh sent from master processor
void ReceiveParallelMesh ();
void UpdateOverlap ();
#endif

27
libsrc/meshing/parallelmesh.cpp
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@ -249,7 +249,6 @@ namespace netgen
for (int dest = 1; dest < ntasks; dest++)
{
FlatArray<PointIndex> verts = verts_of_proc[dest];
sendrequests.Append (MyMPI_ISend (verts, dest, MPI_TAG_MESH+1));
MPI_Datatype mptype = MeshPoint::MyGetMPIType();
@ -257,7 +256,7 @@ namespace netgen
int numv = verts.Size();
MPI_Datatype newtype;
Array<int> blocklen (numv);
Array<int> blocklen (numv);
blocklen = 1;
MPI_Type_indexed (numv, &blocklen[0],
@ -270,7 +269,6 @@ namespace netgen
sendrequests.Append (request);
}
Array<int> num_distpnums(ntasks);
num_distpnums = 0;
@ -481,10 +479,10 @@ namespace netgen
// receive vertices
NgProfiler::StartTimer (timer_pts);
Array<int> verts;
MyMPI_Recv (verts, 0, MPI_TAG_MESH+1);
int numvert = verts.Size();
paralleltop -> SetNV (numvert);
@ -542,7 +540,8 @@ namespace netgen
MyMPI_Recv (fddata, 0, MPI_TAG_MESH+3);
for (int i = 0; i < fddata.Size(); i += 6)
{
int faceind = AddFaceDescriptor (FaceDescriptor(int(fddata[i]), int(fddata[i+1]), int(fddata[i+2]), 0));
int faceind = AddFaceDescriptor
(FaceDescriptor(int(fddata[i]), int(fddata[i+1]), int(fddata[i+2]), 0));
GetFaceDescriptor(faceind).SetBCProperty (int(fddata[i+3]));
GetFaceDescriptor(faceind).domin_singular = fddata[i+4];
GetFaceDescriptor(faceind).domout_singular = fddata[i+5];
@ -1150,22 +1149,6 @@ namespace netgen
void Mesh :: UpdateOverlap()
{
cout << "UpdateOverlap depreciated" << endl;
}
}

5
libsrc/meshing/paralleltop.cpp
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@ -11,8 +11,9 @@ namespace netgen
static MPI_Group MPI_HIGHORDER_WORLD;
static MPI_Comm MPI_HIGHORDER_COMM;
void MyMPI_ExchangeTable (TABLE<int> & send_verts,
TABLE<int> & recv_verts, int tag,
template <typename T>
void MyMPI_ExchangeTable (TABLE<T> & send_verts,
TABLE<T> & recv_verts, int tag,
MPI_Comm comm = MPI_COMM_WORLD)
{
int ntasks, rank;

15
libsrc/meshing/topology.cpp
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@ -76,8 +76,6 @@ namespace netgen
ParallelMeshTopology & paralleltop = mesh.GetParallelTopology();
#endif
bool isparallel = 0;
if (timestamp > mesh.GetTimeStamp()) return;
@ -1151,23 +1149,12 @@ namespace netgen
if (cnt_err && ntasks == 1)
cout << cnt_err << " elements are not matching !!!" << endl;
if (cnt_err && ntasks > 1)
isparallel = 1;
}
}
#ifdef PARALLEL
if (mesh.GetDimension() == 3)
if (isparallel != (id != 0))
{
cerr << " ****************************** " << endl;
cerr << " **** wrong isparallel ****** " << endl;
cerr << " ****************************** " << endl;
}
if (id != 0) // if (isparallel)
if (id != 0)
{
paralleltop.Update();
if ( paralleltop.DoCoarseUpdate() )

4
libsrc/visualization/mvdraw.cpp
View File

@ -746,14 +746,14 @@ namespace netgen
{
string displname;
Display * dpy = glXGetCurrentDisplay();
// Display * dpy = glXGetCurrentDisplay();
GLXDrawable drawable = glXGetCurrentDrawable();
GLXContext ctx = glXGetCurrentContext();
GLXContextID xid = glXGetContextIDEXT (ctx);
displname = XDisplayName (0);
/*
/*
cout << "Init Parallel GL" << endl;
cout << "DisplayName = " << displname << endl;
cout << "current display = " << dpy << endl;

31
libsrc/visualization/vssolution.cpp
View File

@ -2223,28 +2223,27 @@ namespace netgen
MyMPI_Bcast (comp);
#endif
const SolData * sol;
double val;
bool considerElem;
// bool considerElem;
bool hasit = false;
minv = 0; maxv = 1;
if (funcnr != -1)
if ((ntasks == 1) || (id > 0))
if (funcnr != -1)
{
sol = soldata[funcnr];
const SolData * sol = soldata[funcnr];
if (sol->draw_volume)
{
int ne = mesh->GetNE();
for (int i = 0; i < ne; i++)
{
considerElem = GetValue (sol, i, 0.333, 0.333, 0.333, comp, val);
bool considerElem = GetValue (sol, i, 0.333, 0.333, 0.333, comp, val);
if (considerElem)
{
if (val > maxv || !hasit)
maxv = val;
if (val < minv || !hasit)
minv = val;
if (val > maxv || !hasit) maxv = val;
if (val < minv || !hasit) minv = val;
hasit = true;
}
}
@ -2255,16 +2254,14 @@ namespace netgen
for (int i = 0; i < nse; i++)
{
ELEMENT_TYPE type = mesh->SurfaceElement(i+1).GetType();
if (type == QUAD)
considerElem = GetSurfValue (sol, i, -1, 0.5, 0.5, comp, val);
else
considerElem = GetSurfValue (sol, i, -1, 0.3333333, 0.3333333, comp, val);
bool considerElem = (type == QUAD)
? GetSurfValue (sol, i, -1, 0.5, 0.5, comp, val)
: GetSurfValue (sol, i, -1, 0.3333333, 0.3333333, comp, val);
if (considerElem)
{
if (val > maxv || !hasit)
maxv = val;
if (val < minv || !hasit)
minv = val;
if (val > maxv || !hasit) maxv = val;
if (val < minv || !hasit) minv = val;
hasit = true;
}
}

28
ng/ngappinit.cpp
View File

@ -68,18 +68,12 @@ int main(int argc, char ** argv)
{
#ifdef PARALLEL
// MPI_Init(&argc, &argv);
int required = MPI_THREAD_MULTIPLE;
// int required = 0;
int provided;
MPI_Init_thread(&argc, &argv, required, &provided);
int mpi_required = MPI_THREAD_MULTIPLE, mpi_provided;
MPI_Init_thread(&argc, &argv, mpi_required, &mpi_provided);
MPI_Comm_size(MPI_COMM_WORLD, &netgen::ntasks);
MPI_Comm_rank(MPI_COMM_WORLD, &netgen::id);
if (netgen::id == 0 && provided == MPI_THREAD_MULTIPLE)
cout << "multithreaded mpi is supported" << endl;
MPI_Comm_dup ( MPI_COMM_WORLD, &netgen::mesh_comm);
#endif
@ -114,9 +108,21 @@ int main(int argc, char ** argv)
#ifdef PARALLEL
cout << "Running MPI - parallel using "
<< netgen::ntasks << " processor"
<< ((netgen::ntasks > 1) ? "s " : " ") << endl;
if (netgen::ntasks == 1)
{
cout << "Run parallel Netgen with 'mpirun -np xy netgen'" << endl;
}
else
{
cout << "Running MPI - parallel using "
<< netgen::ntasks << " processor"
<< ((netgen::ntasks > 1) ? "s " : " ") << endl;
cout << "MPI-version = " << MPI_VERSION << '.' << MPI_SUBVERSION << endl;
if (mpi_provided == MPI_THREAD_MULTIPLE)
cout << "multithreaded MPI is supported" << endl;
}
#endif
}

6
ng/parallelfunc.cpp
View File

@ -148,12 +148,6 @@ void ParallelRun()
VT_USER_END ("Mesh::ReceiveParallelMesh");
}
else if ( message == "overlap++" )
{
PrintMessage (1, "overlap++++++");
mesh -> UpdateOverlap();
}
else if ( message == "visualize" )
{
cout << "parallel message visualize depreciated" << endl;