NcDataReader Class Reference

#include <NcDataReader.h>

Public Types
typedef shared_ptr< Array< int > >	ArrayIntPtr

Public Member Functions
	NcDataReader (const string &fname)
MeshList	getMeshList ()
	~NcDataReader ()
void	createMappers (const MeshList &)

Static Public Member Functions
static void	destroyMeshList (MeshList meshList)

Private Member Functions
void	init ()
void	setNcFile ()
void	getDims ()
void	getVars ()
void	get_var_values ()
void	allocate_vars ()
void	get_bndry_vals ()
void	get_interface_vals ()
void	get_coord_vals ()
void	get_connectivity_vals ()
void	get_mapper_vals ()
MeshList	meshList ()
void	storage_sites (int id, const MeshList &meshList)
void	boundary_faces (int id, const MeshList &meshList)
void	interfaces (int id, const MeshList &meshList)
void	coords (int id, const MeshList &meshList)
void	face_cells (int id, const MeshList &meshList)
void	face_nodes (int id, const MeshList &meshList)

Private Attributes
string	_fname
NcFile *	_ncFile
int	_nmesh
int	_nBoun
int	_charSize
int	_nNeighMesh
int	_nnodes
int	_nfaceRow
int	_nfaceCellsCol
int	_nfaceNodesCol
int	_nInterface
NcVar *	_dimension
NcVar *	_meshID
NcVar *	_facesCount
NcVar *	_cellsCount
NcVar *	_ghostCellsCount
NcVar *	_nodesCount
NcVar *	_mapCount
NcVar *	_interiorFacesGroup
NcVar *	_boundaryGroup
NcVar *	_boundarySize
NcVar *	_boundaryOffset
NcVar *	_boundaryID
NcVar *	_boundaryType
NcVar *	_interfaceGroup
NcVar *	_interfaceSize
NcVar *	_interfaceOffset
NcVar *	_interfaceID
NcVar *	_x
NcVar *	_y
NcVar *	_z
NcVar *	_faceCellsRowCount
NcVar *	_faceCellsColCount
NcVar *	_faceNodesRowCount
NcVar *	_faceNodesColCount
NcVar *	_faceCellsRow
NcVar *	_faceCellsCol
NcVar *	_faceNodesRow
NcVar *	_faceNodesCol
NcVar *	_gatherIndices
NcVar *	_scatterIndices
int *	_dimensionVals
int *	_meshIDVals
int *	_facesCountVals
int *	_cellsCountVals
int *	_ghostCellsCountVals
int *	_nodesCountVals
int *	_mapCountVals
int *	_interiorFacesGroupVals
int *	_boundaryGroupVals
int *	_boundarySizeVals
int *	_boundaryOffsetVals
int *	_boundaryIDVals
vector< char * >	_boundaryTypeVals
int *	_interfaceGroupVals
int *	_interfaceSizeVals
int *	_interfaceOffsetVals
int *	_interfaceIDVals
double *	_xVals
double *	_yVals
double *	_zVals
int *	_faceCellsRowCountVals
int *	_faceCellsColCountVals
int *	_faceNodesRowCountVals
int *	_faceNodesColCountVals
int *	_faceCellsRowVals
int *	_faceCellsColVals
int *	_faceNodesRowVals
int *	_faceNodesColVals
int *	_gatherIndicesVals
int *	_scatterIndicesVals

Detailed Description

Definition at line 25 of file NcDataReader.h.

Member Typedef Documentation

typedef shared_ptr< Array<int> > NcDataReader::ArrayIntPtr

Definition at line 28 of file NcDataReader.h.

Constructor & Destructor Documentation

NcDataReader::NcDataReader

(

const string &

fname

)

Definition at line 17 of file NcDataReader.cpp.

References init().

:_fname( fname )
{
    init();
}

NcDataReader::~NcDataReader

(

)

Definition at line 24 of file NcDataReader.cpp.

References _boundaryGroupVals, _boundaryIDVals, _boundaryOffsetVals, _boundarySizeVals, _boundaryTypeVals, _cellsCountVals, _dimensionVals, _faceCellsColVals, _faceCellsRowVals, _faceNodesColVals, _faceNodesRowVals, _facesCountVals, _gatherIndicesVals, _ghostCellsCountVals, _interfaceGroupVals, _interfaceIDVals, _interfaceOffsetVals, _interfaceSizeVals, _interiorFacesGroupVals, _mapCountVals, _meshIDVals, _ncFile, _nodesCountVals, _scatterIndicesVals, _xVals, _yVals, and _zVals.

{

    if ( _dimensionVals ) delete [] _dimensionVals;
    if ( _meshIDVals    ) delete [] _meshIDVals;

    if ( _facesCountVals ) delete []  _facesCountVals;
    if ( _cellsCountVals ) delete [] _cellsCountVals;
    if ( _ghostCellsCountVals ) delete [] _ghostCellsCountVals;
    if (_nodesCountVals ) delete [] _nodesCountVals;
    if ( _mapCountVals  ) delete [] _mapCountVals;
    if ( _interiorFacesGroupVals ) delete [] _interiorFacesGroupVals;

    if ( _boundaryGroupVals )  delete [] _boundaryGroupVals;
    if ( _boundarySizeVals )   delete [] _boundarySizeVals;
    if ( _boundaryOffsetVals ) delete [] _boundaryOffsetVals;
    if ( _boundaryIDVals )     delete [] _boundaryIDVals;

    vector< char* >::iterator it_char;
    for ( it_char = _boundaryTypeVals.begin(); it_char != _boundaryTypeVals.end(); it_char++ )
         delete [] *it_char;


    if ( _interfaceGroupVals )  delete [] _interfaceGroupVals;
    if ( _interfaceSizeVals )   delete [] _interfaceSizeVals;
    if ( _interfaceOffsetVals ) delete [] _interfaceOffsetVals;
    if ( _interfaceIDVals )     delete [] _interfaceIDVals;
  
    if ( _xVals )   delete [] _xVals;
    if ( _yVals )   delete [] _yVals;
    if ( _zVals )   delete [] _zVals;

    if ( _faceCellsRowVals ) delete [] _faceCellsRowVals;
    if ( _faceNodesRowVals ) delete [] _faceNodesRowVals;
    if ( _faceCellsColVals ) delete [] _faceCellsColVals;
    if ( _faceNodesColVals ) delete [] _faceNodesColVals;


    if ( _gatherIndicesVals  ) delete [] _gatherIndicesVals;
    if ( _scatterIndicesVals    ) delete [] _scatterIndicesVals;

    if ( _ncFile        ) delete _ncFile;   

}

Member Function Documentation

void NcDataReader::allocate_vars ( )

private

Definition at line 254 of file NcDataReader.cpp.

References _boundaryGroupVals, _boundaryIDVals, _boundaryOffsetVals, _boundarySizeVals, _boundaryTypeVals, _cellsCountVals, _charSize, _dimensionVals, _faceCellsColCountVals, _faceCellsColVals, _faceCellsRowCountVals, _faceCellsRowVals, _faceNodesColCountVals, _faceNodesColVals, _faceNodesRowCountVals, _faceNodesRowVals, _facesCountVals, _gatherIndicesVals, _ghostCellsCountVals, _interfaceGroupVals, _interfaceIDVals, _interfaceOffsetVals, _interfaceSizeVals, _interiorFacesGroupVals, _mapCountVals, _meshIDVals, _nBoun, _nfaceCellsCol, _nfaceNodesCol, _nfaceRow, _nInterface, _nmesh, _nNeighMesh, _nnodes, _nodesCountVals, _scatterIndicesVals, _xVals, _yVals, and _zVals.

Referenced by get_var_values().

{
    _dimensionVals = new  int[ _nmesh ];
    _meshIDVals    = new  int[ _nmesh    ];

    _facesCountVals = new int[ _nmesh ];
    _cellsCountVals = new int[ _nmesh ];
    _ghostCellsCountVals = new int[ _nmesh ];
    _nodesCountVals  = new int[ _nmesh ];
    _mapCountVals    = new int[ _nmesh ];
    _interiorFacesGroupVals = new int [ _nmesh ];

    _boundaryGroupVals  = new int [ _nmesh ];
    _boundarySizeVals   = new int [ _nBoun ];
    _boundaryOffsetVals = new int [ _nBoun ];
    _boundaryIDVals     = new int [ _nBoun ];
    _boundaryTypeVals.reserve(_nBoun);
    for ( int n = 0; n < _nBoun; n++)
         _boundaryTypeVals.push_back( new char[ _charSize ] );

    _interfaceGroupVals  = new int [ _nmesh  ];
    _interfaceSizeVals   = new int [ _nNeighMesh ];
    _interfaceOffsetVals = new int [ _nNeighMesh ];
    _interfaceIDVals     = new int [ _nNeighMesh ];

    _xVals = new double [ _nnodes ];
    _yVals = new double [ _nnodes ];
    _zVals = new double [ _nnodes ];

   _faceCellsRowCountVals = new int [ _nmesh ];
   _faceCellsColCountVals = new int [ _nmesh ];
   _faceNodesRowCountVals = new int [ _nmesh ];
   _faceNodesColCountVals = new int [ _nmesh ];

   _faceCellsRowVals = new int [ _nfaceRow ];
   _faceCellsColVals = new int [ _nfaceCellsCol ];
   _faceNodesRowVals = new int [ _nfaceRow ];
   _faceNodesColVals = new int [ _nfaceNodesCol ];
   
   _gatherIndicesVals  = new int [ _nInterface ];
   _scatterIndicesVals    = new int [ _nInterface ];

}

void NcDataReader::boundary_faces ( int  id, const MeshList &  meshList  )

private

Definition at line 420 of file NcDataReader.cpp.

References _boundaryGroupVals, _boundaryIDVals, _boundaryOffsetVals, _boundarySizeVals, and _boundaryTypeVals.

Referenced by meshList().

{
       //boundary faces
       int indx = accumulate( _boundaryGroupVals, _boundaryGroupVals+id, 0 );
       int nboun   = _boundaryGroupVals[id];
       for ( int boun = 0; boun < nboun; boun++){
          int bndryID = _boundaryIDVals[indx];
          int size    = _boundarySizeVals[indx];
          int offset  = _boundaryOffsetVals[indx] ;
          string boundaryType (_boundaryTypeVals.at(indx) );
         meshList.at(id)->createBoundaryFaceGroup( size, offset, bndryID, boundaryType);
         indx++;
       }
 
}

void NcDataReader::coords ( int  id, const MeshList &  meshList  )

private

Definition at line 458 of file NcDataReader.cpp.

References _nodesCountVals, _xVals, _yVals, and _zVals.

Referenced by meshList().

{
     int nnodes = _nodesCountVals[id]; 
     int indx =  accumulate(_nodesCountVals, _nodesCountVals+id,0);
     shared_ptr< Array<Mesh::VecD3> >  coord( new Array<Mesh::VecD3>( nnodes ) );

     for ( int n = 0; n < nnodes; n++ ){
          (*coord)[n][0] = _xVals[indx];
          (*coord)[n][1] = _yVals[indx];
          (*coord)[n][2] = _zVals[indx];
          indx++;
      }

      meshList.at(id)->setCoordinates( coord );


}

void NcDataReader::createMappers

(

const MeshList &

globalMeshList

)

Definition at line 535 of file NcDataReader.cpp.

References _gatherIndicesVals, _interfaceGroupVals, _interfaceIDVals, _interfaceSizeVals, _meshIDVals, _nInterface, _nmesh, _scatterIndicesVals, Mesh::getCells(), StorageSite::getGatherMap(), Mesh::getGhostCellSiteGather(), Mesh::getGhostCellSiteScatter(), and StorageSite::getScatterMap().

{
    if ( _nInterface ==0 )
      return;


    int indx = 0;
    for ( int id = 0; id < _nmesh; id++)
    {
        // the id of our mesh in the global list
        const int thisMeshID = _meshIDVals[id];
        Mesh& thisMesh = *globalMeshList.at(thisMeshID);

        StorageSite::GatherMap& thisGatherMap = thisMesh.getCells().getGatherMap();
       //loop over mesh interfaces
        int offset = accumulate( _interfaceGroupVals, _interfaceGroupVals+id,0);
        for ( int n = 0; n  < _interfaceGroupVals[id]; n++)
        {
           int neighMeshID =  _interfaceIDVals[ offset + n ];

           Mesh& neighMesh = *globalMeshList.at(neighMeshID);

           StorageSite::ScatterMap& neighScatterMap = neighMesh.getCells().getScatterMap();
           int size = _interfaceSizeVals[ offset + n ];
           ArrayIntPtr  gatherIndices( new Array<int>( size ) );
           ArrayIntPtr  scatterIndices  ( new Array<int>( size ) );

          //get portion values
           for ( int i = 0; i < size; i++)
           {
              (*gatherIndices)[i] = _gatherIndicesVals[indx];
              (*scatterIndices)[i]   = _scatterIndicesVals[indx];
              indx++;
           }

           // the site we will gather from to is the neighbour mesh's ghost cell site for thisMesh
           Mesh::PartIDMeshIDPair pairID = make_pair<int,int>(thisMeshID,0);
           const StorageSite& ghostSiteScatter = *neighMesh.getGhostCellSiteScatter(pairID);
           const StorageSite& ghostSiteGather  = *neighMesh.getGhostCellSiteGather (pairID);

           thisGatherMap[&ghostSiteGather]   = scatterIndices;
           neighScatterMap[&ghostSiteScatter] = gatherIndices;
       }
//
//         const StorageSite& cells  = meshList.at(id)->getCells();
//         const StorageSite::ScatterMap& scatterMap = cells.getScatterMap();
//         const StorageSite::GatherMap&  gatherMap  = cells.getGatherMap();
//        if ( _fname == "test_3.cdf" ){
//           const StorageSite* site =  meshList.at(id)->getGhostCellSite(2);
//           const Array<int> & scatter_array =  *(scatterMap.find(site)->second);
//           const Array<int> & gather_array  =  *(gatherMap.find(site)->second);
//         
//           for ( int n = 0; n < scatter_array.getLength(); n++)
//              cout <<  "scatter array[" << n << "]=" << scatter_array[n] <<  endl;
// 
//           for ( int n = 0; n < gather_array.getLength(); n++)
//              cout <<  "gather array[" << n << "]=" << gather_array[n] <<  endl;
// 
//        }

        
    }
    

}

void NcDataReader::destroyMeshList ( MeshList  meshList )

static

Definition at line 70 of file NcDataReader.cpp.

                                                {

    MeshList::iterator it_mesh;
    for ( it_mesh = meshList.begin(); it_mesh != meshList.end(); it_mesh++)
        delete  *it_mesh;

}

void NcDataReader::face_cells ( int  id, const MeshList &  meshList  )

private

Definition at line 478 of file NcDataReader.cpp.

References _faceCellsColCountVals, _faceCellsColVals, and _facesCountVals.

Referenced by meshList().

{
     //faceCells
    int nfaces = _facesCountVals[id];
     CRConnectivityPtr  faceCells ( new CRConnectivity( meshList.at(id)->getFaces(), meshList.at(id)->getCells() ) );

     faceCells->initCount();

     for ( int n = 0; n < nfaces; n++ ) 
         faceCells->addCount(n,2);  // two cells around a face

     faceCells->finishCount();

     int indx =  accumulate(_faceCellsColCountVals, _faceCellsColCountVals+id, 0);
     for ( int n = 0; n < nfaces; n++ ){
         for ( int cell = 0; cell < 2; cell++){ //two cells around a face always
             faceCells->add( n, _faceCellsColVals[indx] );
         indx++;
         }
     }

     faceCells->finishAdd(); 
    meshList.at(id)->setFaceCells( faceCells );
}

void NcDataReader::face_nodes ( int  id, const MeshList &  meshList  )

private

Definition at line 505 of file NcDataReader.cpp.

References _faceNodesColCountVals, _faceNodesColVals, _faceNodesRowVals, and _facesCountVals.

Referenced by meshList().

{
     //faceNodes
    int nfaces = _facesCountVals[id];
     CRConnectivityPtr  faceNodes ( new CRConnectivity( meshList.at(id)->getFaces(), meshList.at(id)->getNodes() ) );

     faceNodes->initCount();
     int node_count = _faceNodesRowVals[1] - _faceNodesRowVals[0];   
     for ( int n = 0; n < nfaces; n++ ) 
         faceNodes->addCount(n, node_count);

     faceNodes->finishCount();

     int indx =  accumulate(_faceNodesColCountVals, _faceNodesColCountVals+id, 0);
     for ( int n = 0; n < nfaces; n++ ){
         for ( int node = 0; node < node_count; node++){
            faceNodes->add( n, _faceNodesColVals[indx] );
            indx++;
         }
     }

     faceNodes->finishAdd(); 
     meshList.at(id)->setFaceNodes  ( faceNodes );


}

void NcDataReader::get_bndry_vals ( )

private

Definition at line 300 of file NcDataReader.cpp.

References _boundaryGroup, _boundaryGroupVals, _boundaryID, _boundaryIDVals, _boundaryOffset, _boundaryOffsetVals, _boundarySize, _boundarySizeVals, _boundaryType, _boundaryTypeVals, _charSize, _nBoun, and _nmesh.

Referenced by get_var_values().

{

   if ( _nBoun  > 0 ){
      _boundaryGroup->get (_boundaryGroupVals, _nmesh );
      _boundarySize->get  (_boundarySizeVals,  _nBoun );
      _boundaryOffset->get( _boundaryOffsetVals, _nBoun );
      _boundaryID->get ( _boundaryIDVals, _nBoun );
      for ( int n = 0; n < _nBoun; n++){
         _boundaryType->set_cur(n);
         _boundaryType->get( _boundaryTypeVals.at(n), 1, _charSize );
      }
   }
}

void NcDataReader::get_connectivity_vals ( )

private

Definition at line 344 of file NcDataReader.cpp.

References _faceCellsCol, _faceCellsColCount, _faceCellsColCountVals, _faceCellsColVals, _faceCellsRow, _faceCellsRowCount, _faceCellsRowCountVals, _faceCellsRowVals, _faceNodesCol, _faceNodesColCount, _faceNodesColCountVals, _faceNodesColVals, _faceNodesRow, _faceNodesRowCount, _faceNodesRowCountVals, _faceNodesRowVals, _nfaceCellsCol, _nfaceNodesCol, _nfaceRow, and _nmesh.

Referenced by get_var_values().

{
    _faceCellsRowCount->get( _faceCellsRowCountVals, _nmesh );
    _faceNodesRowCount->get( _faceNodesRowCountVals, _nmesh );
    _faceCellsColCount->get( _faceCellsColCountVals, _nmesh );
    _faceNodesColCount->get( _faceNodesColCountVals, _nmesh );

    _faceCellsRow->get( _faceCellsRowVals, _nfaceRow );
    _faceNodesRow->get( _faceNodesRowVals, _nfaceRow );
    _faceCellsCol->get( _faceCellsColVals, _nfaceCellsCol );
    _faceNodesCol->get( _faceNodesColVals, _nfaceNodesCol );


}

void NcDataReader::get_coord_vals ( )

private

Definition at line 332 of file NcDataReader.cpp.

References _nnodes, _x, _xVals, _y, _yVals, _z, and _zVals.

Referenced by get_var_values().

{

    _x->get( _xVals, _nnodes );
    _y->get( _yVals, _nnodes );
    _z->get( _zVals, _nnodes );


}

void NcDataReader::get_interface_vals ( )

private

Definition at line 318 of file NcDataReader.cpp.

References _interfaceGroup, _interfaceGroupVals, _interfaceID, _interfaceIDVals, _interfaceOffset, _interfaceOffsetVals, _interfaceSize, _interfaceSizeVals, _nmesh, and _nNeighMesh.

Referenced by get_var_values().

{
   if ( _nNeighMesh  > 0 ){
      _interfaceGroup->get (_interfaceGroupVals, _nmesh );
      _interfaceSize->get  (_interfaceSizeVals,  _nNeighMesh );
      _interfaceOffset->get( _interfaceOffsetVals, _nNeighMesh );
      _interfaceID->get ( _interfaceIDVals, _nNeighMesh );
   }


}

void NcDataReader::get_mapper_vals ( )

private

Definition at line 361 of file NcDataReader.cpp.

References _gatherIndices, _gatherIndicesVals, _nInterface, _scatterIndices, and _scatterIndicesVals.

Referenced by get_var_values().

{
    if ( _nInterface > 0 ){
       _gatherIndices->get( _gatherIndicesVals, _nInterface );
       _scatterIndices->get( _scatterIndicesVals  , _nInterface );
    }

}

void NcDataReader::get_var_values ( )

private

Definition at line 231 of file NcDataReader.cpp.

References _cellsCount, _cellsCountVals, _dimension, _dimensionVals, _facesCount, _facesCountVals, _ghostCellsCount, _ghostCellsCountVals, _interiorFacesGroup, _interiorFacesGroupVals, _mapCount, _mapCountVals, _meshID, _meshIDVals, _nmesh, _nodesCount, _nodesCountVals, allocate_vars(), get_bndry_vals(), get_connectivity_vals(), get_coord_vals(), get_interface_vals(), and get_mapper_vals().

Referenced by getMeshList().

{

     allocate_vars();

    _dimension->get( _dimensionVals, _nmesh );
    _meshID->get( _meshIDVals      , _nmesh ); 
    _facesCount->get( _facesCountVals, _nmesh );
    _cellsCount->get( _cellsCountVals, _nmesh );
    _ghostCellsCount->get( _ghostCellsCountVals, _nmesh );
    _nodesCount->get( _nodesCountVals, _nmesh );
    _mapCount->get ( _mapCountVals   , _nmesh );
    _interiorFacesGroup->get( _interiorFacesGroupVals, _nmesh );

     get_bndry_vals();
     get_interface_vals(); 
     get_coord_vals();
     get_connectivity_vals();
     get_mapper_vals();

}

void NcDataReader::getDims ( )

private

Definition at line 146 of file NcDataReader.cpp.

References _charSize, _nBoun, _ncFile, _nfaceCellsCol, _nfaceNodesCol, _nfaceRow, _nInterface, _nmesh, _nNeighMesh, and _nnodes.

Referenced by getMeshList().

{
   _nmesh    = _ncFile->get_dim("nmesh")->size();
   if ( _ncFile->get_var("is_bounTypeDim_Valid")->as_int(0) == 1 ){
      _nBoun    = _ncFile->get_dim("boun_type_dim")->size();
   } else {
      _nBoun  = 0;
   }

   _charSize = _ncFile->get_dim("char_dim")->size();
   if ( _ncFile->get_var("is_neighMesh_Valid")->as_int(0) == 1 ){
      _nNeighMesh = _ncFile->get_dim("nNeighMesh")->size();
   } else { 
      _nNeighMesh = 0;
   }

   _nnodes     = _ncFile->get_dim("nnodes")->size();
   _nfaceRow   = _ncFile->get_dim("nface_row")->size();
   _nfaceCellsCol = _ncFile->get_dim("nfaceCells_col")->size();
   _nfaceNodesCol = _ncFile->get_dim("nfaceNodes_col")->size();
   if ( _ncFile->get_var("is_interface_Valid")->as_int(0) == 1 ){
      _nInterface    = _ncFile->get_dim("nInterface")->size();
   } else {
      _nInterface = 0;
   }



}

MeshList NcDataReader::getMeshList

(

)

Definition at line 79 of file NcDataReader.cpp.

References get_var_values(), getDims(), getVars(), meshList(), and setNcFile().

{
   setNcFile();
   getDims();
   getVars();
   get_var_values();

   return meshList();

}

void NcDataReader::getVars ( )

private

Definition at line 178 of file NcDataReader.cpp.

References _boundaryGroup, _boundaryID, _boundaryOffset, _boundarySize, _boundaryType, _cellsCount, _dimension, _faceCellsCol, _faceCellsColCount, _faceCellsRow, _faceCellsRowCount, _faceNodesCol, _faceNodesColCount, _faceNodesRow, _faceNodesRowCount, _facesCount, _gatherIndices, _ghostCellsCount, _interfaceGroup, _interfaceID, _interfaceOffset, _interfaceSize, _interiorFacesGroup, _mapCount, _meshID, _nBoun, _ncFile, _nInterface, _nNeighMesh, _nodesCount, _scatterIndices, _x, _y, and _z.

Referenced by getMeshList().

{
    _dimension =  _ncFile->get_var("dimension");
    _meshID    =  _ncFile->get_var("mesh_id"  ); 
    _facesCount = _ncFile->get_var("faces_count");
    _cellsCount = _ncFile->get_var("cells_count");
    _ghostCellsCount = _ncFile->get_var("ghost_cells_count");
    _nodesCount = _ncFile->get_var("nodes_count");
    _mapCount   = _ncFile->get_var("map_count");
    _interiorFacesGroup = _ncFile->get_var("interior_faces_group");

    _boundaryGroup   = _ncFile->get_var("boundary_group");
    if ( _nBoun > 0 ) {
       _boundarySize    = _ncFile->get_var("boundary_size");
       _boundaryOffset  = _ncFile->get_var("boundary_offset");
       _boundaryID      = _ncFile->get_var("boundary_id"); 
       _boundaryType    = _ncFile->get_var("boundary_type"); 
    }


    _interfaceGroup   = _ncFile->get_var("interface_group");
   if ( _nNeighMesh > 0 ){
      _interfaceSize    = _ncFile->get_var("interface_size");
      _interfaceOffset  = _ncFile->get_var("interface_offset");
      _interfaceID      = _ncFile->get_var("interface_id"); 
   }

    _x = _ncFile->get_var("x");
    _y = _ncFile->get_var("y");
    _z = _ncFile->get_var("z");     

    _faceCellsRowCount = _ncFile->get_var("face_cells_row_count");
    _faceCellsColCount = _ncFile->get_var("face_cells_col_count");
    _faceNodesRowCount = _ncFile->get_var("face_nodes_row_count");
    _faceNodesColCount = _ncFile->get_var("face_nodes_col_count");


    _faceCellsRow = _ncFile->get_var("face_cells_row");
    _faceCellsCol = _ncFile->get_var("face_cells_col");
    _faceNodesRow = _ncFile->get_var("face_nodes_row");
    _faceNodesCol = _ncFile->get_var("face_nodes_col");

    if ( _nInterface > 0 ) { 
       _gatherIndices = _ncFile->get_var("gather_indices");
       _scatterIndices   = _ncFile->get_var("scatter_indices");
    }


  
}

void NcDataReader::init ( )

private

Definition at line 93 of file NcDataReader.cpp.

References _boundaryGroupVals, _boundaryIDVals, _boundaryOffsetVals, _boundarySizeVals, _cellsCountVals, _dimensionVals, _faceCellsColCountVals, _faceCellsColVals, _faceCellsRowCountVals, _faceCellsRowVals, _faceNodesColCountVals, _faceNodesColVals, _faceNodesRowCountVals, _faceNodesRowVals, _facesCountVals, _gatherIndicesVals, _ghostCellsCountVals, _interfaceGroupVals, _interfaceIDVals, _interfaceOffsetVals, _interfaceSizeVals, _interiorFacesGroupVals, _mapCountVals, _meshIDVals, _ncFile, _nodesCountVals, _scatterIndicesVals, _xVals, _yVals, and _zVals.

Referenced by NcDataReader().

{
    _ncFile = NULL;
    _dimensionVals = NULL;
    _meshIDVals  = NULL;
    _facesCountVals = NULL;
    _cellsCountVals = NULL;
    _ghostCellsCountVals = NULL;
    _nodesCountVals = NULL;
    _mapCountVals = NULL;
    _interiorFacesGroupVals = NULL;

    _boundaryGroupVals = NULL;
    _boundarySizeVals  = NULL;
    _boundaryOffsetVals= NULL;
    _boundaryIDVals    = NULL;

    _interfaceGroupVals  = NULL;
    _interfaceSizeVals   = NULL;
    _interfaceOffsetVals = NULL;
    _interfaceIDVals     = NULL;

    _xVals = NULL;
    _yVals = NULL;
    _zVals = NULL;

    _faceCellsRowCountVals = NULL;
    _faceNodesRowCountVals = NULL;
    _faceCellsColCountVals = NULL;
    _faceNodesColCountVals = NULL;

    _faceCellsRowVals = NULL;
    _faceNodesRowVals = NULL;
    _faceCellsColVals = NULL;
    _faceNodesColVals = NULL;

    _gatherIndicesVals = NULL;
    _scatterIndicesVals   = NULL;
}                  

void NcDataReader::interfaces ( int  id, const MeshList &  meshList  )

private

Definition at line 437 of file NcDataReader.cpp.

References _interfaceGroupVals, _interfaceIDVals, _interfaceOffsetVals, and _interfaceSizeVals.

Referenced by meshList().

{
     //then interface faces
     int indx = accumulate( _interfaceGroupVals, _interfaceGroupVals+id,0);
     int  ninterfaces = _interfaceGroupVals[id];
     for ( int interface = 0; interface < ninterfaces; interface++ ){
         int interfaceID = _interfaceIDVals[indx];
         int size        = _interfaceSizeVals[indx]; 
         int offset      = _interfaceOffsetVals[indx];
         Mesh::PartIDMeshIDPair pairID = make_pair<int,int>(interfaceID,0);
         meshList.at(id)->createInterfaceGroup( size, offset, interfaceID );
         meshList.at(id)->createGhostCellSiteScatter( pairID, shared_ptr<StorageSite>( new StorageSite(size) ) );
         meshList.at(id)->createGhostCellSiteGather ( pairID, shared_ptr<StorageSite>( new StorageSite(size) ) );
         indx++;
     }



}

MeshList NcDataReader::meshList ( )

private

Definition at line 374 of file NcDataReader.cpp.

References _dimensionVals, _interiorFacesGroupVals, _nBoun, _nmesh, _nNeighMesh, boundary_faces(), coords(), face_cells(), face_nodes(), interfaces(), and storage_sites().

Referenced by getMeshList().

{

     MeshList   meshList;

     for ( int id = 0; id < _nmesh; id++ ){

        meshList.push_back(  new Mesh( _dimensionVals[id] )  );
         //storage sites
         storage_sites( id, meshList);
        //interior faces
         meshList.at(id)->createInteriorFaceGroup( _interiorFacesGroupVals[id] );
        //boundary faces
        if ( _nBoun > 0 )
           boundary_faces( id, meshList );

        if ( _nNeighMesh > 0 )
           interfaces( id, meshList );

        coords    ( id, meshList );
        face_cells( id, meshList );
        face_nodes( id, meshList );

     }
     


     return meshList;
}

void NcDataReader::setNcFile ( )

private

Definition at line 135 of file NcDataReader.cpp.

References _fname, and _ncFile.

Referenced by getMeshList().

{
   assert( !_ncFile );
   _ncFile = new NcFile( _fname.c_str(), NcFile::ReadOnly );
   assert ( _ncFile->is_valid() );

}  

void NcDataReader::storage_sites ( int  id, const MeshList &  meshList  )

private

Definition at line 406 of file NcDataReader.cpp.

References _cellsCountVals, _facesCountVals, _ghostCellsCountVals, _nodesCountVals, and StorageSite::setCount().

Referenced by meshList().

{
         StorageSite& faces = meshList.at(id)->getFaces();
         StorageSite& cells = meshList.at(id)->getCells();
         StorageSite& nodes = meshList.at(id)->getNodes();

         faces.setCount( _facesCountVals[id] );
         cells.setCount( _cellsCountVals[id], _ghostCellsCountVals[id] );
         nodes.setCount( _nodesCountVals[id] );
}

Member Data Documentation

NcVar* NcDataReader::_boundaryGroup

private

Definition at line 89 of file NcDataReader.h.

Referenced by get_bndry_vals(), and getVars().

int* NcDataReader::_boundaryGroupVals

private

Definition at line 129 of file NcDataReader.h.

Referenced by allocate_vars(), boundary_faces(), get_bndry_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_boundaryID

private

Definition at line 92 of file NcDataReader.h.

Referenced by get_bndry_vals(), and getVars().

int* NcDataReader::_boundaryIDVals

private

Definition at line 132 of file NcDataReader.h.

Referenced by allocate_vars(), boundary_faces(), get_bndry_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_boundaryOffset

private

Definition at line 91 of file NcDataReader.h.

Referenced by get_bndry_vals(), and getVars().

int* NcDataReader::_boundaryOffsetVals

private

Definition at line 131 of file NcDataReader.h.

Referenced by allocate_vars(), boundary_faces(), get_bndry_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_boundarySize

private

Definition at line 90 of file NcDataReader.h.

Referenced by get_bndry_vals(), and getVars().

int* NcDataReader::_boundarySizeVals

private

Definition at line 130 of file NcDataReader.h.

Referenced by allocate_vars(), boundary_faces(), get_bndry_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_boundaryType

private

Definition at line 93 of file NcDataReader.h.

Referenced by get_bndry_vals(), and getVars().

vector<char*> NcDataReader::_boundaryTypeVals

private

Definition at line 133 of file NcDataReader.h.

Referenced by allocate_vars(), boundary_faces(), get_bndry_vals(), and ~NcDataReader().

NcVar* NcDataReader::_cellsCount

private

Definition at line 83 of file NcDataReader.h.

Referenced by get_var_values(), and getVars().

int* NcDataReader::_cellsCountVals

private

Definition at line 122 of file NcDataReader.h.

Referenced by allocate_vars(), get_var_values(), init(), storage_sites(), and ~NcDataReader().

int NcDataReader::_charSize

private

Definition at line 69 of file NcDataReader.h.

Referenced by allocate_vars(), get_bndry_vals(), and getDims().

NcVar* NcDataReader::_dimension

private

Definition at line 80 of file NcDataReader.h.

Referenced by get_var_values(), and getVars().

int* NcDataReader::_dimensionVals

private

Definition at line 118 of file NcDataReader.h.

Referenced by allocate_vars(), get_var_values(), init(), meshList(), and ~NcDataReader().

NcVar* NcDataReader::_faceCellsCol

private

Definition at line 111 of file NcDataReader.h.

Referenced by get_connectivity_vals(), and getVars().

NcVar* NcDataReader::_faceCellsColCount

private

Definition at line 106 of file NcDataReader.h.

Referenced by get_connectivity_vals(), and getVars().

int* NcDataReader::_faceCellsColCountVals

private

Definition at line 145 of file NcDataReader.h.

Referenced by allocate_vars(), face_cells(), get_connectivity_vals(), and init().

int* NcDataReader::_faceCellsColVals

private

Definition at line 150 of file NcDataReader.h.

Referenced by allocate_vars(), face_cells(), get_connectivity_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_faceCellsRow

private

Definition at line 110 of file NcDataReader.h.

Referenced by get_connectivity_vals(), and getVars().

NcVar* NcDataReader::_faceCellsRowCount

private

Definition at line 105 of file NcDataReader.h.

Referenced by get_connectivity_vals(), and getVars().

int* NcDataReader::_faceCellsRowCountVals

private

Definition at line 144 of file NcDataReader.h.

Referenced by allocate_vars(), get_connectivity_vals(), and init().

int* NcDataReader::_faceCellsRowVals

private

Definition at line 149 of file NcDataReader.h.

Referenced by allocate_vars(), get_connectivity_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_faceNodesCol

private

Definition at line 113 of file NcDataReader.h.

Referenced by get_connectivity_vals(), and getVars().

NcVar* NcDataReader::_faceNodesColCount

private

Definition at line 108 of file NcDataReader.h.

Referenced by get_connectivity_vals(), and getVars().

int* NcDataReader::_faceNodesColCountVals

private

Definition at line 147 of file NcDataReader.h.

Referenced by allocate_vars(), face_nodes(), get_connectivity_vals(), and init().

int* NcDataReader::_faceNodesColVals

private

Definition at line 152 of file NcDataReader.h.

Referenced by allocate_vars(), face_nodes(), get_connectivity_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_faceNodesRow

private

Definition at line 112 of file NcDataReader.h.

Referenced by get_connectivity_vals(), and getVars().

NcVar* NcDataReader::_faceNodesRowCount

private

Definition at line 107 of file NcDataReader.h.

Referenced by get_connectivity_vals(), and getVars().

int* NcDataReader::_faceNodesRowCountVals

private

Definition at line 146 of file NcDataReader.h.

Referenced by allocate_vars(), get_connectivity_vals(), and init().

int* NcDataReader::_faceNodesRowVals

private

Definition at line 151 of file NcDataReader.h.

Referenced by allocate_vars(), face_nodes(), get_connectivity_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_facesCount

private

Definition at line 82 of file NcDataReader.h.

Referenced by get_var_values(), and getVars().

int* NcDataReader::_facesCountVals

private

Definition at line 121 of file NcDataReader.h.

Referenced by allocate_vars(), face_cells(), face_nodes(), get_var_values(), init(), storage_sites(), and ~NcDataReader().

string NcDataReader::_fname

private

Definition at line 62 of file NcDataReader.h.

Referenced by setNcFile().

NcVar* NcDataReader::_gatherIndices

private

Definition at line 115 of file NcDataReader.h.

Referenced by get_mapper_vals(), and getVars().

int* NcDataReader::_gatherIndicesVals

private

Definition at line 154 of file NcDataReader.h.

Referenced by allocate_vars(), createMappers(), get_mapper_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_ghostCellsCount

private

Definition at line 84 of file NcDataReader.h.

Referenced by get_var_values(), and getVars().

int* NcDataReader::_ghostCellsCountVals

private

Definition at line 123 of file NcDataReader.h.

Referenced by allocate_vars(), get_var_values(), init(), storage_sites(), and ~NcDataReader().

NcVar* NcDataReader::_interfaceGroup

private

Definition at line 96 of file NcDataReader.h.

Referenced by get_interface_vals(), and getVars().

int* NcDataReader::_interfaceGroupVals

private

Definition at line 135 of file NcDataReader.h.

Referenced by allocate_vars(), createMappers(), get_interface_vals(), init(), interfaces(), and ~NcDataReader().

NcVar* NcDataReader::_interfaceID

private

Definition at line 99 of file NcDataReader.h.

Referenced by get_interface_vals(), and getVars().

int* NcDataReader::_interfaceIDVals

private

Definition at line 138 of file NcDataReader.h.

Referenced by allocate_vars(), createMappers(), get_interface_vals(), init(), interfaces(), and ~NcDataReader().

NcVar* NcDataReader::_interfaceOffset

private

Definition at line 98 of file NcDataReader.h.

Referenced by get_interface_vals(), and getVars().

int* NcDataReader::_interfaceOffsetVals

private

Definition at line 137 of file NcDataReader.h.

Referenced by allocate_vars(), get_interface_vals(), init(), interfaces(), and ~NcDataReader().

NcVar* NcDataReader::_interfaceSize

private

Definition at line 97 of file NcDataReader.h.

Referenced by get_interface_vals(), and getVars().

int* NcDataReader::_interfaceSizeVals

private

Definition at line 136 of file NcDataReader.h.

Referenced by allocate_vars(), createMappers(), get_interface_vals(), init(), interfaces(), and ~NcDataReader().

NcVar* NcDataReader::_interiorFacesGroup

private

Definition at line 87 of file NcDataReader.h.

Referenced by get_var_values(), and getVars().

int* NcDataReader::_interiorFacesGroupVals

private

Definition at line 126 of file NcDataReader.h.

Referenced by allocate_vars(), get_var_values(), init(), meshList(), and ~NcDataReader().

NcVar* NcDataReader::_mapCount

private

Definition at line 86 of file NcDataReader.h.

Referenced by get_var_values(), and getVars().

int* NcDataReader::_mapCountVals

private

Definition at line 125 of file NcDataReader.h.

Referenced by allocate_vars(), get_var_values(), init(), and ~NcDataReader().

NcVar* NcDataReader::_meshID

private

Definition at line 81 of file NcDataReader.h.

Referenced by get_var_values(), and getVars().

int* NcDataReader::_meshIDVals

private

Definition at line 119 of file NcDataReader.h.

Referenced by allocate_vars(), createMappers(), get_var_values(), init(), and ~NcDataReader().

int NcDataReader::_nBoun

private

Definition at line 68 of file NcDataReader.h.

Referenced by allocate_vars(), get_bndry_vals(), getDims(), getVars(), and meshList().

NcFile* NcDataReader::_ncFile

private

Definition at line 66 of file NcDataReader.h.

Referenced by getDims(), getVars(), init(), setNcFile(), and ~NcDataReader().

int NcDataReader::_nfaceCellsCol

private

Definition at line 74 of file NcDataReader.h.

Referenced by allocate_vars(), get_connectivity_vals(), and getDims().

int NcDataReader::_nfaceNodesCol

private

Definition at line 75 of file NcDataReader.h.

Referenced by allocate_vars(), get_connectivity_vals(), and getDims().

int NcDataReader::_nfaceRow

private

Definition at line 73 of file NcDataReader.h.

Referenced by allocate_vars(), get_connectivity_vals(), and getDims().

int NcDataReader::_nInterface

private

Definition at line 76 of file NcDataReader.h.

Referenced by allocate_vars(), createMappers(), get_mapper_vals(), getDims(), and getVars().

int NcDataReader::_nmesh

private

Definition at line 67 of file NcDataReader.h.

Referenced by allocate_vars(), createMappers(), get_bndry_vals(), get_connectivity_vals(), get_interface_vals(), get_var_values(), getDims(), and meshList().

int NcDataReader::_nNeighMesh

private

Definition at line 70 of file NcDataReader.h.

Referenced by allocate_vars(), get_interface_vals(), getDims(), getVars(), and meshList().

int NcDataReader::_nnodes

private

Definition at line 71 of file NcDataReader.h.

Referenced by allocate_vars(), get_coord_vals(), and getDims().

NcVar* NcDataReader::_nodesCount

private

Definition at line 85 of file NcDataReader.h.

Referenced by get_var_values(), and getVars().

int* NcDataReader::_nodesCountVals

private

Definition at line 124 of file NcDataReader.h.

Referenced by allocate_vars(), coords(), get_var_values(), init(), storage_sites(), and ~NcDataReader().

NcVar* NcDataReader::_scatterIndices

private

Definition at line 116 of file NcDataReader.h.

Referenced by get_mapper_vals(), and getVars().

int* NcDataReader::_scatterIndicesVals

private

Definition at line 155 of file NcDataReader.h.

Referenced by allocate_vars(), createMappers(), get_mapper_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_x

private

Definition at line 101 of file NcDataReader.h.

Referenced by get_coord_vals(), and getVars().

double* NcDataReader::_xVals

private

Definition at line 140 of file NcDataReader.h.

Referenced by allocate_vars(), coords(), get_coord_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_y

private

Definition at line 102 of file NcDataReader.h.

Referenced by get_coord_vals(), and getVars().

double* NcDataReader::_yVals

private

Definition at line 141 of file NcDataReader.h.

Referenced by allocate_vars(), coords(), get_coord_vals(), init(), and ~NcDataReader().

NcVar* NcDataReader::_z

private

Definition at line 103 of file NcDataReader.h.

Referenced by get_coord_vals(), and getVars().

double* NcDataReader::_zVals

private

Definition at line 142 of file NcDataReader.h.

Referenced by allocate_vars(), coords(), get_coord_vals(), init(), and ~NcDataReader().

---

The documentation for this class was generated from the following files:

• NcDataReader.h
• NcDataReader.cpp