LinearCellConnectivity.h

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#ifndef __smoab_LinearCellConnectivity_h
#define __smoab_LinearCellConnectivity_h

#include "CellTypeToType.h"
#include "ContinousCellInfo.h"

#include 
#include 

namespace smoab
{
namespace detail
{

    namespace internal
    {
        //we want a subset of the real connetivity array,
        //this does that for use with a super easy wrapper
        struct SubsetArray
        {
            SubsetArray( EntityHandle* realConn, int numCells, int currentVertsPerCell, int newVertsPerCell ) : Array()
            {
                const int size = numCells * newVertsPerCell;
                this->Array.reserve( size );
                if( currentVertsPerCell == newVertsPerCell )
                {
                    std::copy( realConn, realConn + size, std::back_inserter( this->Array ) );
                }
                else
                {
                    //skip copy only the first N points which we want
                    //since moab stores linear points first per cell
                    EntityHandle* pos = realConn;
                    for( int i = 0; i < numCells; ++i )
                    {
                        std::copy( pos, pos + newVertsPerCell, std::back_inserter( this->Array ) );
                        pos += currentVertsPerCell;
                    }
                }
            }
            typedef std::vector< EntityHandle >::const_iterator const_iterator;
            typedef std::vector< EntityHandle >::iterator iterator;

            const_iterator begin() const
            {
                return this->Array.begin();
            }
            iterator begin()
            {
                return this->Array.begin();
            }

            const_iterator end() const
            {
                return this->Array.end();
            }
            iterator end()
            {
                return this->Array.end();
            }

          private:
            std::vector< EntityHandle > Array;
        };
    }  // namespace internal

    class LinearCellConnectivity
    {
      public:
        LinearCellConnectivity( smoab::Range const& cells, moab::Interface* moab )
            : Connectivity(), UniquePoints(), Info()
        {
            int count                  = 0;
            const std::size_t cellSize = cells.size();
            while( count != cellSize )
            {
                EntityHandle* connectivity;
                int numVerts = 0, iterationCount = 0;
                //use the highly efficent calls, since we know that are of the same dimension
                moab->connect_iterate( cells.begin() + count, cells.end(), connectivity, numVerts, iterationCount );
                //if we didn't read anything, break!
                if( iterationCount == 0 )
                {
                    break;
                }

                //identify the cell type that we currently have,
                //store that along with the connectivity in a temp storage vector
                const moab::EntityType type = moab->type_from_handle( *cells.begin() + count );

                int vtkNumVerts;
                int vtkCellType = smoab::detail::vtkLinearCellType( type, vtkNumVerts );

                ContinousCellInfo info = { vtkCellType, vtkNumVerts, 0, iterationCount };
                this->Info.push_back( info );

                //we need to copy only a subset of the connectivity array
                internal::SubsetArray conn( connectivity, iterationCount, numVerts, vtkNumVerts );
                this->Connectivity.push_back( conn );

                count += iterationCount;
            }
        }

        //----------------------------------------------------------------------------
        void compactIds( vtkIdType& numCells, vtkIdType& connectivityLength )
        {
            //converts all the ids to be ordered starting at zero, and also
            //keeping the orginal logical ordering. Stores the result of this
            //operation in the unstrucutred grid that is passed in

            //lets determine the total length of the connectivity
            connectivityLength = 0;
            numCells           = 0;
            for( InfoConstIterator i = this->Info.begin(); i != this->Info.end(); ++i )
            {
                connectivityLength += ( *i ).numCells * ( *i ).numVerts;
                numCells += ( *i ).numCells;
            }

            this->UniquePoints.reserve( connectivityLength );

            this->copyConnectivity( this->UniquePoints );
            std::sort( this->UniquePoints.begin(), this->UniquePoints.end() );

            typedef std::vector< EntityHandle >::iterator EntityIterator;
            EntityIterator newEnd = std::unique( this->UniquePoints.begin(), this->UniquePoints.end() );

            const std::size_t newSize = std::distance( this->UniquePoints.begin(), newEnd );
            this->UniquePoints.resize( newSize );
        }

        //----------------------------------------------------------------------------
        void moabPoints( smoab::Range& range ) const
        {
            //from the documentation a reverse iterator is the fastest way
            //to insert into a range.
            std::copy( this->UniquePoints.rbegin(), this->UniquePoints.rend(), moab::range_inserter( range ) );
        }

        //----------------------------------------------------------------------------
        //copy the connectivity from the moab held arrays to the user input vector
        void copyConnectivity( std::vector< EntityHandle >& output ) const
        {
            //walk the info to find the length of each sub connectivity array,
            //and insert them into the vector, ordering is implied by the order
            //the connecitivy sub array are added to this class
            ConnConstIterator c = this->Connectivity.begin();
            for( InfoConstIterator i = this->Info.begin(); i != this->Info.end(); ++i, ++c )
            {
                //remember our Connectivity is a vector of pointers whose
                //length is held in the info vector.
                const int numUnusedPoints = ( *i ).numUnusedVerts;
                const int connLength      = ( *i ).numCells * ( *i ).numVerts;
                std::copy( c->begin(), c->end(), std::back_inserter( output ) );
            }
        }

        //copy the information from this contianer to a vtk cell array, and
        //related lookup information
        void copyToVtkCellInfo( vtkIdType* cellArray ) const
        {
            ConnConstIterator c = this->Connectivity.begin();
            for( InfoConstIterator i = this->Info.begin(); i != this->Info.end(); ++i, ++c )
            {
                //for this group of the same cell type we need to fill the cellTypes
                const int numCells = ( *i ).numCells;
                const int numVerts = ( *i ).numVerts;

                //for each cell in this collection that have the same type
                //grab the raw array now, so we can properly increment for each vert in each cell
                internal::SubsetArray::const_iterator moabConnectivity = c->begin();
                for( int j = 0; j < numCells; ++j )
                {
                    //cell arrays start and end are different, since we
                    //have to account for element that states the length of each cell
                    cellArray[0] = numVerts;

                    for( int k = 0; k < numVerts; ++k, ++moabConnectivity )
                    {
                        //this is going to be a root of some failures when we start
                        //reading really large datasets under 32bit.

                        //fyi, don't use a range ds for unique points, distance
                        //function is horribly slow they need to override it
                        EntityConstIterator result =
                            std::lower_bound( this->UniquePoints.begin(), this->UniquePoints.end(), *moabConnectivity );
                        std::size_t newId = std::distance( this->UniquePoints.begin(), result );
                        cellArray[k + 1]  = static_cast< vtkIdType >( newId );
                    }
                    cellArray += numVerts + 1;
                }
            }
        }

      private:
        std::vector< internal::SubsetArray > Connectivity;
        std::vector< EntityHandle > UniquePoints;

        std::vector< detail::ContinousCellInfo > Info;

        typedef std::vector< EntityHandle >::const_iterator EntityConstIterator;
        typedef std::vector< internal::SubsetArray >::const_iterator ConnConstIterator;
        typedef std::vector< detail::ContinousCellInfo >::const_iterator InfoConstIterator;
    };
}  // namespace detail
}  // namespace smoab

#endif  // __smoab_LinearCellConnectivity_h