ReadUtilIface.hpp

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/**
 * MOAB, a Mesh-Oriented datABase, is a software component for creating,
 * storing and accessing finite element mesh data.
 *
 * Copyright 2004 Sandia Corporation.  Under the terms of Contract
 * DE-AC04-94AL85000 with Sandia Corporation, the U.S. Government
 * retains certain rights in this software.
 *
 * This library is free software; you can redistribute it and/or
 * modify it under the terms of the GNU Lesser General Public
 * License as published by the Free Software Foundation; either
 * version 2.1 of the License, or (at your option) any later version.
 *
 */

#ifndef MOAB_READ_UTIL_IFACE_HPP
#define MOAB_READ_UTIL_IFACE_HPP

#include <vector>
#include <string>
#include "moab/Types.hpp"
#include "moab/Compiler.hpp"

namespace moab
{

class Range;

//! Interface implemented in MOAB which provides memory for mesh reading utilities
class ReadUtilIface
{
  public:
    //! Constructor
    ReadUtilIface() {}

    //! Destructor
    virtual ~ReadUtilIface() {}

    //! Given a requested number of vertices and number of coordinates, returns
    //! memory space which will be used to store vertex coordinates and information
    //! about what handles those new vertices are assigned; allows direct read of
    //! coordinate data into memory
    //! \param num_arrays Number of node position arrays requested
    //! \param num_nodes Number of nodes
    //! \param preferred_start_id Preferred integer id starting value
    //! \param actual_start_handle Actual starting id value
    //! \param arrays STL vector of double*'s, point to memory storage to be used for
    //!     these vertices
    //! \param sequence_size If specified, allocate this sequence size instead of
    //!      SequenceManager::DEFAULT_VERTEX_SEQUENCE_SIZE
    //! \return status Success/failure of this call
    virtual ErrorCode get_node_coords( const int num_arrays,
                                       const int num_nodes,
                                       const int preferred_start_id,
                                       EntityHandle& actual_start_handle,
                                       std::vector< double* >& arrays,
                                       const int sequence_size = -1 ) = 0;

    //! Given requested number of elements, element type, and number of
    //! elements, returns pointer to memory space allocated to store connectivity
    //! of those elements; allows direct read of connectivity data into memory
    //! \param num_elements Number of elements being requested
    //! \param verts_per_element Number of vertices per element (incl. higher-order nodes)
    //! \param mdb_type Element type
    //! \param preferred_start_id Preferred integer id for first element
    //! \param actual_start_handle Actual integer id for first element (returned)
    //! \param array Pointer to memory allocated for storing connectivity for these elements
    //! \param sequence_size If specified, allocate this sequence size instead of
    //!      SequenceManager::DEFAULT_VERTEX_SEQUENCE_SIZE
    //! \return status Success/failure of this call
    virtual ErrorCode get_element_connect( const int num_elements,
                                           const int verts_per_element,
                                           const EntityType mdb_type,
                                           const int preferred_start_id,
                                           EntityHandle& actual_start_handle,
                                           EntityHandle*& array,
                                           int sequence_size = -1 ) = 0;

    /**
     *\brief Gather entities related to those in the partition
     * Gather entities related to those in the input partition. Related
     * means down-adjacent to, contained in, etc.
     * \param partition Entities for which to gather related entities
     * \param related_ents Related entities
     * \param file_set If non-NULL, entity sets contained in this set will be checked;
     *        otherwise, all sets in the instance will be checked
     */
    virtual ErrorCode gather_related_ents( Range& partition, Range& related_ents, EntityHandle* file_set = NULL ) = 0;

    virtual ErrorCode create_entity_sets( EntityID num_sets,
                                          const unsigned* set_flags,
                                          EntityID preffered_start_id,
                                          EntityHandle& actual_start_handle ) = 0;

    //! Update adjacencies
    //! Given information about new elements, adjacency information will be updated
    //! in MOAB. Think of this function as a way of Readers telling MOAB what elements are
    //! new because we aren't using the Interface to create elements.
    //! \param start_handle Handle of first new element
    //! \param number_elements Number of new elements
    //! \param number_vertices_per_element Number of vertices in each new element
    //! \param conn_array Connectivity of new elements
    //! \return status Success/failure of this call
    virtual ErrorCode update_adjacencies( const EntityHandle start_handle,
                                          const int number_elements,
                                          const int number_vertices_per_element,
                                          const EntityHandle* conn_array ) = 0;

    /**\brief Re-order incoming element connectivity
     *
     * Permute the connectivity of each element such that the node
     * order is that of MBCN rather than the target file format.
     *\param order The permutation to use.  Must be an array of 'node_per_elem'
     *             integers and be a permutation of the values [0..node_per_elem-1].
     *             Such that for a single element:
     *             mbcn_conn[order[i]] == target_conn[i]
     *\param conn  The connectivity array to re-order
     *\param num_elem  The number of elements in the connectivity array
     *\param node_per_elem The number of nodes in each element's connectivity list.
     */
    static inline void reorder( const int* order, EntityHandle* conn, int num_elem, int node_per_elem );

    //! Given an ordered list of bounding entities and the sense of
    //! those entities, return an ordered list of vertices
    virtual ErrorCode get_ordered_vertices( EntityHandle* bound_ents,
                                            int* sense,
                                            int num_bound,
                                            int dim,
                                            EntityHandle* bound_verts,
                                            EntityType& etype ) = 0;

    //! Assign sequential IDS to entities in range and store IDs in tag
    virtual ErrorCode assign_ids( Tag id_tag, const Range& ents, int start = 0 ) = 0;

    //! Assign to each entity in an array the ID that is its position
    //! in the array plus the value of 'start'.  For any non-zero handles
    //! in the array, store the ID value in the passed tag.
    virtual ErrorCode assign_ids( Tag id_tag, const EntityHandle* ents, size_t num_ents, int start = 0 ) = 0;

    //! Create a new gather set with tag GATHER_SET
    virtual ErrorCode create_gather_set( EntityHandle& gather_set ) = 0;

    //! Get entity handle of an existing gather set
    virtual ErrorCode get_gather_set( EntityHandle& gather_set ) = 0;
};

inline void ReadUtilIface::reorder( const int* order, EntityHandle* conn, int num_elem, int node_per_elem )
{
    std::vector< EntityHandle > elem( node_per_elem );
    EntityHandle* const end = conn + num_elem * node_per_elem;
    while( conn != end )
    {
        std::copy( conn, conn + node_per_elem, elem.begin() );
        for( int j = 0; j < node_per_elem; ++j )
            conn[order[j]] = elem[j];
        conn += node_per_elem;
    }
}

}  // namespace moab

#endif