Nektar::Utilities::InputXml Class Reference

#include <InputXml.h>

Inheritance diagram for Nektar::Utilities::InputXml:

Collaboration diagram for Nektar::Utilities::InputXml:

Public Member Functions
	InputXml (FieldSharedPtr f)
	Set up InputXml object. More...
virtual	~InputXml ()
virtual void	Process (po::variables_map &vm)
Public Member Functions inherited from Nektar::Utilities::InputModule
	InputModule (FieldSharedPtr p_m)
void	AddFile (string fileType, string fileName)
	InputModule (MeshSharedPtr p_m)
void	OpenStream ()
	Open a file for input. More...
Public Member Functions inherited from Nektar::Utilities::Module
	Module (FieldSharedPtr p_f)
void	RegisterConfig (string key, string value)
	Register a configuration option with a module. More...
void	PrintConfig ()
	Print out all configuration options for a module. More...
void	SetDefaults ()
	Sets default configuration options for those which have not been set. More...
bool	GetRequireEquiSpaced (void)
void	SetRequireEquiSpaced (bool pVal)
void	EvaluateTriFieldAtEquiSpacedPts (LocalRegions::ExpansionSharedPtr &exp, const Array< OneD, const NekDouble > &infield, Array< OneD, NekDouble > &outfield)
	Module (MeshSharedPtr p_m)
virtual void	Process ()=0
void	RegisterConfig (string key, string value)
void	PrintConfig ()
void	SetDefaults ()
MeshSharedPtr	GetMesh ()
virtual void	ProcessVertices ()
	Extract element vertices. More...

Static Public Member Functions
static ModuleSharedPtr	create (FieldSharedPtr f)
	Creates an instance of this class. More...

Static Public Attributes
static ModuleKey	m_className []
	ModuleKey for class. More...

Additional Inherited Members
Protected Member Functions inherited from Nektar::Utilities::InputModule
void	PrintSummary ()
	Print summary of elements. More...
void	PrintSummary ()
	Print summary of elements. More...
Protected Member Functions inherited from Nektar::Utilities::Module
	Module ()
virtual void	ProcessEdges (bool ReprocessEdges=true)
	Extract element edges. More...
virtual void	ProcessFaces (bool ReprocessFaces=true)
	Extract element faces. More...
virtual void	ProcessElements ()
	Generate element IDs. More...
virtual void	ProcessComposites ()
	Generate composites. More...
void	ReorderPrisms (PerMap &perFaces)
	Reorder node IDs so that prisms and tetrahedra are aligned correctly. More...
void	PrismLines (int prism, PerMap &perFaces, set< int > &prismsDone, vector< ElementSharedPtr > &line)
Protected Attributes inherited from Nektar::Utilities::InputModule
set< string >	m_allowedFiles
std::ifstream	m_mshFile
	Input stream. More...
Protected Attributes inherited from Nektar::Utilities::Module
FieldSharedPtr	m_f
	Field object. More...
map< string, ConfigOption >	m_config
	List of configuration values. More...
bool	m_requireEquiSpaced
MeshSharedPtr	m_mesh
	Mesh object. More...

Detailed Description

Input module for Xml files.

Definition at line 49 of file InputXml.h.

Constructor & Destructor Documentation

Nektar::Utilities::InputXml::InputXml

(

FieldSharedPtr

f

)

Set up InputXml object.

Definition at line 64 of file InputXml.cpp.

References Nektar::Utilities::InputModule::m_allowedFiles.

                                   : InputModule(f)
{
    m_allowedFiles.insert("xml");
    m_allowedFiles.insert("xml.gz");
    m_allowedFiles.insert("fld"); // these files could be allowed with xml files
    m_allowedFiles.insert("chk");
    m_allowedFiles.insert("rst");
}

Nektar::Utilities::InputXml::~InputXml ( )

virtual

Definition at line 77 of file InputXml.cpp.

{
}

Member Function Documentation

static ModuleSharedPtr Nektar::Utilities::InputXml::create ( FieldSharedPtr  f )

inlinestatic

Creates an instance of this class.

Definition at line 57 of file InputXml.h.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr().

        {
            return MemoryManager<InputXml>::AllocateSharedPtr(f);
        }

void Nektar::Utilities::InputXml::Process ( po::variables_map &  vm )

virtual

Implements Nektar::Utilities::Module.

Definition at line 85 of file InputXml.cpp.

References Nektar::MemoryManager< DataType >::AllocateSharedPtr(), ASSERTL0, Nektar::LibUtilities::SessionReader::CreateInstance(), Nektar::ParseUtils::GenerateUnOrderedVector(), Nektar::Utilities::Module::m_f, Nektar::Utilities::Module::m_requireEquiSpaced, Nektar::SpatialDomains::NullDomainRangeShPtr, Nektar::SpatialDomains::MeshGraph::Read(), Nektar::LibUtilities::ShapeTypeMap, and Nektar::LibUtilities::SIZE_ShapeType.

{

    if(m_f->m_verbose)
    {
        cout << "Processing input xml file" << endl;
    }
    // check to see if fld file defined so can use in
    // expansion defintion if required
    string fldending;
    bool fldfilegiven = true;

    //Determine appropriate field input
    if(m_f->m_inputfiles.count("fld") != 0)
    {
        fldending = "fld";
    }
    else if(m_f->m_inputfiles.count("chk") != 0)
    {
        fldending = "chk";
    }
    else if (m_f->m_inputfiles.count("rst") != 0)
    {
        fldending = "rst";
    }
    else
    {
        fldfilegiven = false;
    }

    string xml_ending = "xml";
    string xml_gz_ending = "xml.gz";


    std::vector<std::string> files;
    // load .xml ending
    for (int i = 0; i < m_f->m_inputfiles[xml_ending].size(); ++i)
    {
        files.push_back(m_f->m_inputfiles[xml_ending][i]);
    }

    // load any .xml.gz endings
    for (int j =0; j < m_f->m_inputfiles[xml_gz_ending].size(); ++j)
    {
        files.push_back(m_f->m_inputfiles[xml_gz_ending][j]);
    }

    SpatialDomains::DomainRangeShPtr rng =
                                SpatialDomains::NullDomainRangeShPtr;


    // define range to process output
    if(vm.count("range"))
    {
        vector<NekDouble> values;
        ASSERTL0(ParseUtils::GenerateUnOrderedVector(
                    vm["range"].as<string>().c_str(), values),
                 "Failed to interpret range string");

        ASSERTL0(values.size() > 1,
                 "Do not have minimum values of xmin,xmax");
        ASSERTL0(values.size() % 2 == 0,
                 "Do not have an even number of range values");

        int nvalues = values.size()/2;
        rng = MemoryManager<SpatialDomains::DomainRange>::
                                                AllocateSharedPtr();

        rng->m_doZrange     = false;
        rng->m_doYrange     = false;
        rng->m_checkShape   = false;

        switch(nvalues)
        {
        case 3:
            rng->m_doZrange = true;
            rng->m_zmin     = values[4];
            rng->m_zmax     = values[5];
        case 2:
            rng->m_doYrange = true;
            rng->m_ymin     = values[2];
            rng->m_ymax     = values[3];
        case 1:
            rng->m_doXrange = true;
            rng->m_xmin     = values[0];
            rng->m_xmax     = values[1];
            break;
        default:
            ASSERTL0(false,"too many values specfied in range");
        }
    }

    // define range to only take a single shape.
    if(vm.count("onlyshape"))
    {
        if(rng == SpatialDomains::NullDomainRangeShPtr)
        {
            rng = MemoryManager<SpatialDomains::DomainRange>::
                                                    AllocateSharedPtr();
            rng->m_doXrange = false;
            rng->m_doYrange = false;
            rng->m_doZrange = false;
        }

        rng->m_checkShape = true;

        string shapematch =
                    boost::to_upper_copy(vm["onlyshape"].as<string>());
        int i;
        for(i = 0; i < LibUtilities::SIZE_ShapeType; ++i)
        {
            string shapeval = LibUtilities::ShapeTypeMap[i];
            boost::to_upper(shapeval);
            if(shapematch.compare(shapeval) == 0)
            {
                rng->m_shapeType = (LibUtilities::ShapeType)i;
                break;
            }
        }
        ASSERTL0(i != LibUtilities::SIZE_ShapeType,
                 "Failed to find shape type in -onlyshape command line "
                 "argument");
    }


    if(m_f->m_verbose)
    {
        string firstarg = "FieldConvert";
        string verbose = "-v";
        char **argv;
        argv = (char**)malloc(2*sizeof(char*));
        argv[0] = (char *)malloc(firstarg.size()*sizeof(char));
        argv[1] = (char *)malloc(verbose.size()*sizeof(char));

        sprintf(argv[0],"%s",firstarg.c_str());
        sprintf(argv[1],"%s",verbose.c_str());

        m_f->m_session = LibUtilities::SessionReader::
            CreateInstance(2, (char **)argv, files, m_f->m_comm);
    }
    else
    {
        m_f->m_session = LibUtilities::SessionReader::
            CreateInstance(0, 0, files, m_f->m_comm);
    }

    m_f->m_graph = SpatialDomains::MeshGraph::Read(m_f->m_session,rng);
    m_f->m_fld = MemoryManager<LibUtilities::FieldIO>
                    ::AllocateSharedPtr(m_f->m_session->GetComm());

    // currently load all field (possibly could read data from
    // expansion list but it is re-arranged in expansion)
    const SpatialDomains::ExpansionMap &expansions = m_f->m_graph->GetExpansions();

    // if Range has been speficied it is possible to have a
    // partition which is empty so ccheck this and return if
    // no elements present.
    if(!expansions.size())
    {
        return;
    }

    m_f->m_exp.resize(1);

    // load fielddef if fld file is defined This gives
    // precedence to Homogeneous definition in fld file
    int NumHomogeneousDir = 0;
    if(fldfilegiven)
    {
        m_f->m_fld->Import(m_f->m_inputfiles[fldending][0],m_f->m_fielddef);
        NumHomogeneousDir = m_f->m_fielddef[0]->m_numHomogeneousDir;

        //----------------------------------------------
        // Set up Expansion information to use mode order from field
        m_f->m_graph->SetExpansions(m_f->m_fielddef);
    }
    else
    {
        if(m_f->m_session->DefinesSolverInfo("HOMOGENEOUS"))
        {
            std::string HomoStr = m_f->m_session->GetSolverInfo("HOMOGENEOUS");

            if((HomoStr == "HOMOGENEOUS1D") || (HomoStr == "Homogeneous1D")
               || (HomoStr == "1D") || (HomoStr == "Homo1D"))
            {
                NumHomogeneousDir = 1;
            }
            if((HomoStr == "HOMOGENEOUS2D") || (HomoStr == "Homogeneous2D")
               || (HomoStr == "2D") || (HomoStr == "Homo2D"))
            {
                NumHomogeneousDir = 2;
            }
        }
    }

    // reset expansion defintion to use equispaced points if required.
    if(m_requireEquiSpaced) // set up points to be equispaced
    {
        int nPointsNew = 0;

        if(vm.count("output-points"))
        {
            nPointsNew = vm["output-points"].as<int>();
        }


        m_f->m_graph->SetExpansionsToEvenlySpacedPoints(nPointsNew);
    }

    m_f->m_exp[0] = m_f->SetUpFirstExpList(NumHomogeneousDir,fldfilegiven);
}

Member Data Documentation

ModuleKey Nektar::Utilities::InputXml::m_className

static

Initial value:

= {
    GetModuleFactory().RegisterCreatorFunction(
        ModuleKey(eInputModule, "xml"), InputXml::create,
        "Reads Xml file."),
    GetModuleFactory().RegisterCreatorFunction(
        ModuleKey(eInputModule, "xml.gz"), InputXml::create,
        "Reads Xml file."),
}

ModuleKey for class.

Definition at line 62 of file InputXml.h.