Cppcheck report - MOAB: src/io/ReadNASTRAN.cpp

/**
 * 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.
 *
 */

#include "ReadNASTRAN.hpp"

#include <iostream>
#include <sstream>
#include <fstream>
#include <vector>
#include <cstdlib>
#include <cassert>
#include <cmath>

#include "moab/Interface.hpp"
#include "moab/ReadUtilIface.hpp"
#include "Internals.hpp"  // For MB_START_ID
#include "moab/Range.hpp"
#include "moab/FileOptions.hpp"
#include "FileTokenizer.hpp"
#include "MBTagConventions.hpp"
#include "moab/CN.hpp"

namespace moab
{

ReaderIface* ReadNASTRAN::factory( Interface* iface )
{
    return new ReadNASTRAN( iface );
}

// Constructor
ReadNASTRAN::ReadNASTRAN( Interface* impl ) : MBI( impl )
{
    assert( NULL != impl );
    MBI->query_interface( readMeshIface );
    assert( NULL != readMeshIface );
}

// Destructor
ReadNASTRAN::~ReadNASTRAN()
{
    if( readMeshIface )
    {
        MBI->release_interface( readMeshIface );
        readMeshIface = 0;
    }
}

ErrorCode ReadNASTRAN::read_tag_values( const char* /*file_name*/,
                                        const char* /*tag_name*/,
                                        const FileOptions& /*opts*/,
                                        std::vector< int >& /*tag_values_out*/,
                                        const SubsetList* /*subset_list*/ )
{
    return MB_NOT_IMPLEMENTED;
}

// Load the file as called by the Interface function
ErrorCode ReadNASTRAN::load_file( const char* filename,
                                  const EntityHandle* /* file_set */,
                                  const FileOptions& /* opts */,
                                  const ReaderIface::SubsetList* subset_list,
                                  const Tag* file_id_tag )
{
    // At this time there is no support for reading a subset of the file
    if( subset_list )
    {
        MB_SET_ERR( MB_UNSUPPORTED_OPERATION, "Reading subset of files not supported for NASTRAN" );
    }

    nodeIdMap.clear();
    elemIdMap.clear();

    bool debug = false;<--- Assignment 'debug=false', assigned value is 0
    if( debug ) std::cout << "begin ReadNASTRAN::load_file" << std::endl;<--- Condition 'debug' is always false
    ErrorCode result;

    // Count the entities of each type in the file. This is used to allocate the node array.
    int entity_count[MBMAXTYPE];
    for( int i = 0; i < MBMAXTYPE; i++ )
        entity_count[i] = 0;

    /* Determine the line_format of the first line. Assume that the entire file
       has the same format. */
    std::string line;
    std::ifstream file( filename );
    if( !getline( file, line ) ) return MB_FILE_DOES_NOT_EXIST;
    line_format format;
    result = determine_line_format( line, format );
    if( MB_SUCCESS != result ) return result;

    /* Count the number of each entity in the file. This allows one to allocate
       a sequential array of vertex handles. */
    while( !file.eof() )
    {
        // Cut the line into fields as determined by the line format.
        // Use a vector to allow for an unknown number of tokens (continue lines).
        // Continue lines are not implemented.
        std::vector< std::string > tokens;
        tokens.reserve( 10 );  // assume 10 fields to avoid extra vector resizing
        result = tokenize_line( line, format, tokens );
        if( MB_SUCCESS != result ) return result;

        // Process the tokens of the line. The first token describes the entity type.
        EntityType type;
        result = determine_entity_type( ( tokens.empty() ) ? "" : tokens.front(), type );
        if( MB_SUCCESS != result ) return result;
        entity_count[type]++;
        getline( file, line );
    }

    if( debug )
    {
        for( int i = 0; i < MBMAXTYPE; i++ )
        {
            std::cout << "entity_count[" << i << "]=" << entity_count[i] << std::endl;
        }
    }

    // Keep list of material sets
    std::vector< Range > materials;

    // Now that the number of vertices is known, create the vertices.
    EntityHandle start_vert = 0;
    std::vector< double* > coord_arrays( 3 );
    result = readMeshIface->get_node_coords( 3, entity_count[0], MB_START_ID, start_vert, coord_arrays );
    if( MB_SUCCESS != result ) return result;
    if( 0 == start_vert ) return MB_FAILURE;  // check for NULL
    int id, vert_index = 0;
    if( debug ) std::cout << "allocated coord arrays" << std::endl;

    // Read the file again to create the entities.
    file.clear();     // Clear eof state from object
    file.seekg( 0 );  // Rewind file
    while( !file.eof() )
    {
        getline( file, line );

        // Cut the line into fields as determined by the line format.
        // Use a vector to allow for an unknown number of tokens (continue lines).
        // Continue lines are not implemented.
        std::vector< std::string > tokens;
        tokens.reserve( 10 );  // assume 10 fields to avoid extra vector resizing
        result = tokenize_line( line, format, tokens );
        if( MB_SUCCESS != result ) return result;

        // Process the tokens of the line. The first token describes the entity type.
        EntityType type;
        result = determine_entity_type( tokens.front(), type );
        if( MB_SUCCESS != result ) return result;

        // Create the entity.
        if( MBVERTEX == type )
        {
            double* coords[3] = { coord_arrays[0] + vert_index, coord_arrays[1] + vert_index,
                                  coord_arrays[2] + vert_index };
            result            = read_node( tokens, debug, coords, id );
            if( MB_SUCCESS != result ) return result;
            if( !nodeIdMap.insert( id, start_vert + vert_index, 1 ).second ) return MB_FAILURE;  // Duplicate IDs!
            ++vert_index;
        }
        else
        {
            result = read_element( tokens, materials, type, debug );
            if( MB_SUCCESS != result ) return result;
        }
    }

    result = create_materials( materials );
    if( MB_SUCCESS != result ) return result;

    result = assign_ids( file_id_tag );
    if( MB_SUCCESS != result ) return result;

    file.close();
    nodeIdMap.clear();
    elemIdMap.clear();
    return MB_SUCCESS;
}

/* Determine the type of NASTRAN line: small field, large field, or free field.
   small field: each line has 10 fields of 8 characters
   large field: 1x8, 4x16, 1x8. Field 1 must have an asterisk following the character string
   free field: each line entry must be separated by a comma
   Implementation tries to avoid more searches than necessary. */
ErrorCode ReadNASTRAN::determine_line_format( const std::string& line, line_format& format )
{
    std::string::size_type found_asterisk = line.find( "*" );
    if( std::string::npos != found_asterisk )
    {
        format = LARGE_FIELD;
        return MB_SUCCESS;
    }
    else
    {
        std::string::size_type found_comma = line.find( "," );
        if( std::string::npos != found_comma )
        {
            format = FREE_FIELD;
            return MB_SUCCESS;
        }
        else
        {
            format = SMALL_FIELD;
            return MB_SUCCESS;
        }
    }
}

/* Tokenize the line. Continue-lines have not been implemented. */
ErrorCode ReadNASTRAN::tokenize_line( const std::string& line,
                                      const line_format format,
                                      std::vector< std::string >& tokens )
{
    size_t line_size = line.size();
    switch( format )
    {
        case SMALL_FIELD: {
            // Expect 10 fields of 8 characters.
            // The sample file does not have all 10 fields in each line
            const int field_length = 8;
            unsigned int n_tokens  = line_size / field_length;
            for( unsigned int i = 0; i < n_tokens; i++ )
            {
                tokens.push_back( line.substr( i * field_length, field_length ) );
            }
            break;
        }
        case LARGE_FIELD:
            return MB_NOT_IMPLEMENTED;
        case FREE_FIELD:
            return MB_NOT_IMPLEMENTED;
        default:
            return MB_FAILURE;
    }

    return MB_SUCCESS;
}

ErrorCode ReadNASTRAN::determine_entity_type( const std::string& first_token, EntityType& type )
{
    if( 0 == first_token.compare( "GRID    " ) )
        type = MBVERTEX;
    else if( 0 == first_token.compare( "CTETRA  " ) )
        type = MBTET;
    else if( 0 == first_token.compare( "CPENTA  " ) )
        type = MBPRISM;
    else if( 0 == first_token.compare( "CHEXA   " ) )
        type = MBHEX;
    else
        return MB_NOT_IMPLEMENTED;

    return MB_SUCCESS;
}

/* Some help from Jason:
   Nastran floats must contain a decimal point, may contain
   a leading '-' and may contain an exponent. The 'E' is optional
   when specifying an exponent.  A '-' or '+' at any location other
   than the first position indicates an exponent.  For a positive
   exponent, either a '+' or an 'E' must be specified.  For a
   negative exponent, the 'E' is option and the '-' is always specified.
   Examples for the real value 7.0 from mcs2006 quick reference guide:
   7.0  .7E1  0.7+1  .70+1  7.E+0  70.-1

   From the test file created in SC/Tetra:
   GRID           1       03.9804546.9052-15.6008-1
   has the coordinates: ( 3.980454, 6.9052e-1, 5.6008e-1 )
   GRID      200005       04.004752-3.985-15.4955-1
   has the coordinates: ( 4.004752, -3.985e-1, 5.4955e-1 ) */
ErrorCode ReadNASTRAN::get_real( const std::string& token, double& real )
{
    std::string significand = token;
    std::string exponent    = "0";

    // Cut off the first digit because a "-" could be here indicating a negative
    // number. Instead we are looking for a negative exponent.
    std::string back_token = token.substr( 1 );

    // A minus that is not the first digit is always a negative exponent
    std::string::size_type found_minus = back_token.find( "-" );
    if( std::string::npos != found_minus )
    {
        // separate the significand from the exponent at the "-"
        exponent    = token.substr( found_minus + 1 );
        significand = token.substr( 0, found_minus + 1 );

        // If the significand has an "E", remove it
        if( std::string::npos != significand.find( "E" ) )
            // Assume the "E" is at the end of the significand.
            significand = significand.substr( 1, significand.size() - 2 );

        // If a minus does not exist past the 1st digit, but an "E" or "+" does, then
        // it is a positive exponent. First look for an "E",
    }
    else
    {
        std::string::size_type found_E = token.find( "E" );
        if( std::string::npos != found_E )
        {
            significand = token.substr( 0, found_E - 1 );
            exponent    = token.substr( found_E + 1 );
            // If there is a "+" on the exponent, cut it off
            std::size_t found_plus = exponent.find( "+" );
            if( std::string::npos != found_plus )
            {
                exponent = exponent.substr( found_plus + 1 );
            }
        }
        else
        {
            // If there is a "+" on the exponent, cut it off
            std::size_t found_plus = token.find( "+" );
            if( std::string::npos != found_plus )
            {
                significand = token.substr( 0, found_plus - 1 );
                exponent    = token.substr( found_plus + 1 );
            }
        }
    }

    // Now assemble the real number
    double signi = atof( significand.c_str() );
    double expon = atof( exponent.c_str() );

    if( HUGE_VAL == signi || HUGE_VAL == expon ) return MB_FAILURE;

    real = signi * pow( 10, expon );

    return MB_SUCCESS;
}

/* It has been determined that this line is a vertex. Read the rest of
   the line and create the vertex. */
ErrorCode ReadNASTRAN::read_node( const std::vector< std::string >& tokens,
                                  const bool debug,
                                  double* coords[3],
                                  int& id )
{
    // Read the node's id (unique)
    ErrorCode result;
    id = atoi( tokens[1].c_str() );

    // Read the node's coordinate system number
    // "0" or blank refers to the basic coordinate system.
    int coord_system = atoi( tokens[2].c_str() );
    if( 0 != coord_system )
    {
        std::cerr << "ReadNASTRAN: alternative coordinate systems not implemented" << std::endl;
        return MB_NOT_IMPLEMENTED;
    }

    // Read the coordinates
    for( unsigned int i = 0; i < 3; i++ )
    {
        result = get_real( tokens[i + 3], *coords[i] );
        if( MB_SUCCESS != result ) return result;
        if( debug ) std::cout << "read_node: coords[" << i << "]=" << coords[i] << std::endl;
    }

    return MB_SUCCESS;
}

/* The type of element has already been identified. Read the rest of the
   line and create the element. Assume that all of the nodes have already
   been created. */
ErrorCode ReadNASTRAN::read_element( const std::vector< std::string >& tokens,
                                     std::vector< Range >& materials,
                                     const EntityType element_type,
                                     const bool /*debug*/ )
{
    // Read the element's id (unique) and material set
    ErrorCode result;
    int id       = atoi( tokens[1].c_str() );
    int material = atoi( tokens[2].c_str() );

    // Resize materials list if necessary. This code is somewhat complicated
    // so as to avoid copying of Ranges
    if( material >= (int)materials.size() )
    {
        if( (int)materials.capacity() < material )
            materials.resize( material + 1 );
        else
        {
            std::vector< Range > new_mat( material + 1 );
            for( size_t i = 0; i < materials.size(); ++i )
                new_mat[i].swap( materials[i] );
            materials.swap( new_mat );
        }
    }

    // The size of the connectivity array depends on the element type
    int n_conn = CN::VerticesPerEntity( element_type );
    EntityHandle conn_verts[27];
    assert( n_conn <= (int)( sizeof( conn_verts ) / sizeof( EntityHandle ) ) );

    // Read the connected node ids from the file
    for( int i = 0; i < n_conn; i++ )
    {
        int n         = atoi( tokens[3 + i].c_str() );
        conn_verts[i] = nodeIdMap.find( n );
        if( !conn_verts[i] )  // invalid vertex id
            return MB_FAILURE;
    }

    // Create the element and set the global id from the NASTRAN file
    EntityHandle element;
    result = MBI->create_element( element_type, conn_verts, n_conn, element );
    if( MB_SUCCESS != result ) return result;
    elemIdMap.insert( id, element, 1 );

    materials[material].insert( element );
    return MB_SUCCESS;
}

ErrorCode ReadNASTRAN::create_materials( const std::vector< Range >& materials )
{
    ErrorCode result;
    Tag material_tag;
    int negone = -1;
    result = MBI->tag_get_handle( MATERIAL_SET_TAG_NAME, 1, MB_TYPE_INTEGER, material_tag, MB_TAG_SPARSE | MB_TAG_CREAT,
                                  &negone );
    if( MB_SUCCESS != result ) return result;

    for( size_t i = 0; i < materials.size(); ++i )
    {
        if( materials[i].empty() ) continue;

        // Merge with existing or create new?  Original code effectively
        // created new by only merging with existing in current file set,
        // so do the same here. - j.kraftcheck

        EntityHandle handle;
        result = MBI->create_meshset( MESHSET_SET, handle );
        if( MB_SUCCESS != result ) return result;

        result = MBI->add_entities( handle, materials[i] );
        if( MB_SUCCESS != result ) return result;

        int id = i;
        result = MBI->tag_set_data( material_tag, &handle, 1, &id );
        if( MB_SUCCESS != result ) return result;
    }

    return MB_SUCCESS;
}

ErrorCode ReadNASTRAN::assign_ids( const Tag* file_id_tag )
{
    // Create tag
    ErrorCode result;
    Tag id_tag = MBI->globalId_tag();

    RangeMap< int, EntityHandle >::iterator i;
    for( int t = 0; t < 2; ++t )
    {
        RangeMap< int, EntityHandle >& fileIdMap = t ? elemIdMap : nodeIdMap;
        for( i = fileIdMap.begin(); i != fileIdMap.end(); ++i )
        {
            Range range( i->value, i->value + i->count - 1 );

            result = readMeshIface->assign_ids( id_tag, range, i->begin );
            if( MB_SUCCESS != result ) return result;

            if( file_id_tag && *file_id_tag != id_tag )
            {
                result = readMeshIface->assign_ids( *file_id_tag, range, i->begin );
                if( MB_SUCCESS != result ) return result;
            }
        }
    }

    return MB_SUCCESS;
}

}  // namespace moab