merge.cpp

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#include 
#include 
#include "moab/MergeMesh.hpp"
#include "moab/ProgOptions.hpp"

#ifdef MOAB_HAVE_MPI
#include "moab_mpi.h"
#include "moab/ParallelComm.hpp"
#include "moab/ParallelMergeMesh.hpp"
#endif

using namespace moab;

const char BRIEF_DESC[] = "Merges mesh files or entities in a mesh file. Use available options as desired.";
std::ostringstream LONG_DESC;

int main( int argc, char* argv[] )
{
#ifdef MOAB_HAVE_MPI
    int myID = 0, numprocs = 1;
    MPI_Init( &argc, &argv );
    MPI_Comm_rank( MPI_COMM_WORLD, &myID );
    MPI_Comm_size( MPI_COMM_WORLD, &numprocs );
#endif
    bool fsimple     = true;   // default
    bool ffile       = false;  // parmerge
    bool fall        = false;  // merge all
    std::string mtag = "";     // tag based merge
    std::string input_file, output_file;
    double merge_tol = 1.0e-4;

    LONG_DESC << "mbmerge tool has the ability to merge nodes in a mesh. For skin-based merge with "
                 "multiple"
                 "files parallel options is also supported."
              << std::endl
              << "If no method is specified, the default is simple merge. Simple merge case gets "
                 "all the skins available"
              << " in the mesh file and merges the nodes to obtain a conformal mesh. Options to "
                 "merge all duplicate nodes"
              << " and merging based on a specific tag on the nodes are also supported." << std::endl;

    ProgOptions opts( LONG_DESC.str(), BRIEF_DESC );

    opts.addOpt< void >( "all,a", "merge all including interior.", &fall );
    opts.addOpt< std::string >( "mergetag name,t", "merge based on nodes that have a specific tag name assigned",
                                &mtag );
    opts.addOpt< double >( "mergetolerance,e", "merge tolerance, default is 1e-4", &merge_tol );
    opts.addOpt< void >( "simple,s", "simple merge, merge based on skins provided as in the input mesh (Default)",
                         &fsimple );
    opts.addRequiredArg< std::string >( "input_file", "Input file to be merged", &input_file );
    opts.addRequiredArg< std::string >( "output_file", "Output mesh file name with extension", &output_file );
#ifdef MOAB_HAVE_MPI
    opts.addOpt< void >( "file,f",
                         "files based merge using skin for individual meshes. Input file is a file containing names"
                         "of mesh files to be merged (each on a different line). Only works with parallel build",
                         &ffile );
#endif
    opts.parseCommandLine( argc, argv );

    moab::Core* mb = new moab::Core();
    moab::ErrorCode rval;

    if( mtag != "" )
    {
        rval = mb->load_mesh( input_file.c_str() );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "Error Opening Mesh File " << input_file << std::endl;
            return 1;
        }
        else
        {
            std::cout << "Read input mesh file: " << input_file << std::endl;
        }
        int dim = 0;
        moab::Range verts;
        mb->get_entities_by_dimension( 0, dim, verts );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "failed to get entities by dimension" << std::endl;
            return 1;
        }
        Tag tag_for_merge;
        rval = mb->tag_get_handle( mtag.c_str(), tag_for_merge );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "unable to get tag: " << mtag << " specified" << std::endl;
            return 1;
        }
        MergeMesh mm( mb );
        rval = mm.merge_using_integer_tag( verts, tag_for_merge );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "error in routine merge using integer tag" << std::endl;
            return 1;
        }
        rval = mb->write_file( output_file.c_str() );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "Error Writing Mesh File " << output_file << std::endl;
            return 1;
        }
        else
        {
            std::cout << "Wrote output mesh file: " << output_file << std::endl;
        }
    }

    else if( fall == true )
    {

        rval = mb->load_mesh( input_file.c_str() );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "Error Opening Mesh File " << input_file << std::endl;
            return 1;
        }
        else
        {
            std::cout << "Read input mesh file: " << input_file << std::endl;
        }
        MergeMesh mm( mb );
        rval = mm.merge_all( 0, merge_tol );  // root set
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "error in merge_all routine" << std::endl;
            return 1;
        }
        rval = mb->write_file( output_file.c_str() );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "Error Writing Mesh File " << output_file << std::endl;
            return 1;
        }
        else
        {
            std::cout << "Wrote output mesh file: " << output_file << std::endl;
        }
    }
    else if( ffile == true )
    {
        /*
            Parmerge
            Takes multiple mesh files and merges them into a single output file.
            This is a driver for ParallelMergeMesh
            Does not currently work if #procs > #meshfiles

             is text file containing each mesh file on a line
            i.e.

            /my/path/file1
            /my/path/file2
            ...
            /my/path/fileN

             file is a single file where the entire mesh is written to
            It must be of type ".h5m"

             is the merging tolerance

            Typical usage of:
            mpirun -n <#procs> parmerge   
        */
        // Read in files from input files
        // Round robin distribution of reading meshes
#ifdef MOAB_HAVE_MPI
        std::ifstream file( input_file.c_str() );
        if( file.is_open() )
        {
            std::string line;
            int count = 0;
            // Read each line
            while( file.good() )
            {
                getline( file, line );
                if( myID == count && line != "" )
                {
                    // Read in the file
                    rval = mb->load_mesh( line.c_str() );
                    if( rval != moab::MB_SUCCESS )
                    {
                        std::cerr << "Error Opening Mesh File " << line << std::endl;
                        MPI_Abort( MPI_COMM_WORLD, 1 );
                        file.close();
                        return 1;
                    }
                    else
                    {
                        std::cout << "Read input mesh file: " << line << std::endl;
                    }
                }
                count = ( count + 1 ) % numprocs;
            }
            file.close();
        }
        else
        {
            std::cerr << "Error Opening Input File " << input_file << std::endl;
            MPI_Abort( MPI_COMM_WORLD, 1 );
            return 1;
        }

        // Get a pcomm object
        moab::ParallelComm* pc = new moab::ParallelComm( mb, MPI_COMM_WORLD );

        // Call the resolve parallel function
        moab::ParallelMergeMesh pm( pc, merge_tol );
        rval = pm.merge();
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "Merge Failed" << std::endl;
            MPI_Abort( MPI_COMM_WORLD, 1 );
            return 1;
        }

        // Write out the file
        rval = mb->write_file( output_file.c_str(), 0, "PARALLEL=WRITE_PART" );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "Writing output file failed. Code:";
            // Temporary File error info.
            std::cerr << mb->get_error_string( rval ) << std::endl;
            std::string foo = "";
            mb->get_last_error( foo );
            std::cerr << "File Error: " << foo << std::endl;
            return 1;
        }
        else if( myID == 0 )
        {
            std::cout << "Wrote output mesh file: " << output_file << std::endl;
        }

        // The barrier may be necessary to stop items from being deleted when needed
        // But probably not necessary
        MPI_Barrier( MPI_COMM_WORLD );

        delete pc;
#endif
    }
    else if( fsimple == true )
    {
        rval = mb->load_mesh( input_file.c_str() );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "Error Opening Mesh File " << input_file << std::endl;
            return 1;
        }
        else
        {
            std::cout << "Read input mesh file: " << input_file << std::endl;
        }
        int dim = 3;
        moab::Range ents;
        mb->get_entities_by_dimension( 0, dim, ents );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "error getting entities by dimension" << std::endl;
            return 1;
        }
        MergeMesh mm( mb );
        rval = mm.merge_entities( ents, merge_tol );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "error in merge entities routine" << std::endl;
            return 1;
        }
        rval = mb->write_file( output_file.c_str() );
        if( rval != moab::MB_SUCCESS )
        {
            std::cerr << "   Writing Mesh File " << output_file << std::endl;
            return 1;
        }
        else
        {
            std::cout << "Wrote output mesh file: " << output_file << std::endl;
        }
    }
    else
    {
        std::cerr << " Unhandled option " << std::endl;
        return 1;
    }

    delete mb;
#ifdef MOAB_HAVE_MPI
    MPI_Finalize();
#endif

    return 0;
}