Nektar::Utilities::ProcessPointDataToFld Class Reference

This processing module interpolates one field to another. More...

#include <ProcessPointDataToFld.h>

Inheritance diagram for Nektar::Utilities::ProcessPointDataToFld:

Collaboration diagram for Nektar::Utilities::ProcessPointDataToFld:

Public Member Functions
	ProcessPointDataToFld (FieldSharedPtr f)
virtual	~ProcessPointDataToFld ()
virtual void	Process (po::variables_map &vm)
	Write mesh to output file. More...
virtual std::string	GetModuleName ()
Public Member Functions inherited from Nektar::Utilities::ProcessModule
	ProcessModule ()
	ProcessModule (FieldSharedPtr p_f)
	ProcessModule (MeshSharedPtr p_m)
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 (std::string key, std::string value)
void	PrintConfig ()
void	SetDefaults ()
MeshSharedPtr	GetMesh ()
virtual void	ProcessVertices ()
	Extract element vertices. More...
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...
virtual void	ClearElementLinks ()

Static Public Member Functions
static boost::shared_ptr< Module >	create (FieldSharedPtr f)
	Creates an instance of this class. More...

Static Public Attributes
static ModuleKey	className

Additional Inherited Members
Protected Member Functions inherited from Nektar::Utilities::Module
	Module ()
void	ReorderPrisms (PerMap &perFaces)
	Reorder node IDs so that prisms and tetrahedra are aligned correctly. More...
void	PrismLines (int prism, PerMap &perFaces, std::set< int > &prismsDone, std::vector< ElementSharedPtr > &line)
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...
std::map< std::string, ConfigOption >	m_config
	List of configuration values. More...

Detailed Description

This processing module interpolates one field to another.

Definition at line 51 of file ProcessPointDataToFld.h.

Constructor & Destructor Documentation

Nektar::Utilities::ProcessPointDataToFld::ProcessPointDataToFld

(

FieldSharedPtr

f

)

Definition at line 59 of file ProcessPointDataToFld.cpp.

References Nektar::Utilities::Module::m_config, and Nektar::Utilities::Module::m_requireEquiSpaced.

        : ProcessModule(f)
{
    m_requireEquiSpaced = true;

    m_config["setnantovalue"] = ConfigOption(false,"NotSet",
                                             "reset any nan value to prescribed value");

    if((f->m_inputfiles.count("pts") == 0))
    {
        cout << endl << "A pts input file must be specified for the boundary extraction module" << endl;

        cout << "Usage: Fieldconvert -m pointdatatofld file.pts file.xml out.fld" << endl;
        exit(3);
    }

    if((f->m_inputfiles.count("xml") == 0)&&(f->m_inputfiles.count("xml.gz") == 0))
    {
        cout << endl << "An xml or xml.gz input file must be specified for the boundary extraction module" << endl;
        cout << "Usage: Fieldconvert -m pointdatatofld file.pts file.xml out.fld" << endl;
        exit(3);
    }

}

Nektar::Utilities::ProcessPointDataToFld::~ProcessPointDataToFld ( )

virtual

Definition at line 84 of file ProcessPointDataToFld.cpp.

{
}

Member Function Documentation

static boost::shared_ptr<Module> Nektar::Utilities::ProcessPointDataToFld::create ( FieldSharedPtr  f )

inlinestatic

Creates an instance of this class.

Definition at line 55 of file ProcessPointDataToFld.h.

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

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

virtual std::string Nektar::Utilities::ProcessPointDataToFld::GetModuleName ( )

inlinevirtual

Implements Nektar::Utilities::Module.

Definition at line 66 of file ProcessPointDataToFld.h.

        {
            return "ProcessPointDataToFld";
        }

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

virtual

Write mesh to output file.

Implements Nektar::Utilities::Module.

Definition at line 88 of file ProcessPointDataToFld.cpp.

References ASSERTL0, Nektar::LibUtilities::eIsEquiSpacedData, Nektar::Utilities::Module::m_config, Nektar::Utilities::Module::m_f, Nektar::LibUtilities::NullPtsField, Vmath::Vcopy(), and WARNINGL0.

{
    if (m_f->m_verbose)
    {
        if(m_f->m_comm->TreatAsRankZero())
        {
            cout << "ProcessPointDataToFld: projecting data to expansion..."
                 << endl;
        }
    }

    int i,j;
    bool setnantovalue = false;
    NekDouble defvalue;

    if(!boost::iequals(m_config["setnantovalue"].as<string>(),"NotSet"))
    {
        setnantovalue = true;
        defvalue = m_config["setnantovalue"].as<NekDouble>();
    }

    // Check for command line point specification if no .pts file specified
    ASSERTL0(m_f->m_fieldPts != LibUtilities::NullPtsField,
             "No input points found");

    int nFields = m_f->m_fieldPts->GetNFields();
    ASSERTL0(nFields > 0,
             "No field values provided in input");

    int dim = m_f->m_fieldPts->GetDim();

    // assume one field is already defined from input file.
    m_f->m_exp.resize(nFields);
    for(i = 1; i < nFields; ++i)
    {
        m_f->m_exp[i] = m_f->AppendExpList(0);
    }

    Array<OneD, Array<OneD, NekDouble> > pts;
    m_f->m_fieldPts->GetPts(pts);

    // set any nan values to default value if requested 
    if(setnantovalue)
    {
        for(int i = 0; i < pts[0].num_elements(); ++i)
        {
            for(int j = 0; j < nFields; ++j)
            {
                if ((boost::math::isnan)(pts[j+dim][i]))
                {
                    pts[j+dim][i] = defvalue; 
                }
            }
        }
    }

    if(m_f->m_fieldPts->m_ptsInfo.count(LibUtilities::eIsEquiSpacedData) != 0)
    {
        int totcoeffs = m_f->m_exp[0]->GetNcoeffs();
        
        ASSERTL0(pts[0].num_elements() != totcoeffs,"length of points in .pts file is different "
                 "to the number of coefficients in expansion ");
        
        for(int i = 0; i < nFields; ++i)
        {
            Array<OneD, NekDouble> coeffs = m_f->m_exp[i]->UpdateCoeffs(), tmp;
            int cnt = 0; 
            for(int e = 0; e < m_f->m_exp[0]->GetNumElmts(); ++e)
            {
                int ncoeffs = m_f->m_exp[i]->GetExp(e)->GetNcoeffs(); 
                int offset = m_f->m_exp[i]->GetCoeff_Offset(e);
                Vmath::Vcopy(ncoeffs,&pts[i+dim][cnt],1,&coeffs[offset],1);
                
                m_f->m_exp[i]->GetExp(e)->EquiSpacedToCoeffs(coeffs+offset,tmp = coeffs+offset);
                cnt += ncoeffs; 
            }
        }
    }
    else
    {
        int totpoints = m_f->m_exp[0]->GetTotPoints();
        Array< OneD, Array<OneD, NekDouble> > coords(3);
        
        coords[0] = Array<OneD,NekDouble>(totpoints);
        coords[1] = Array<OneD,NekDouble>(totpoints);
        coords[2] = Array<OneD,NekDouble>(totpoints);
        
        m_f->m_exp[0]->GetCoords(coords[0],coords[1],coords[2]);
        
        
        if(pts[0].num_elements() != totpoints)
        {
            WARNINGL0(false,"length of points in .pts file is different to the number of quadrature points in xml file");
            totpoints = min(totpoints,(int)pts[0].num_elements());
        }
        
        int mismatch = 0; 
        for(i = 0; i < totpoints; ++i)
        {
            for(j = 0; j < dim; ++j)
            {
                if(fabs(coords[j][i]-pts[j][i]) > 1e-4)
                {
                    string outstring = "Coordinates do not match within 1e-4: " 
                        + boost::lexical_cast<string>(coords[j][i])
                        + " versus "
                        + boost::lexical_cast<string>(pts[j][i])
                        + " diff " + boost::lexical_cast<string>(fabs(coords[j][i]-pts[j][i]));;
                    WARNINGL0(false,outstring);
                    mismatch +=1;
                }
            }

            for(j = 0;j < nFields; ++j)
            {
                m_f->m_exp[j]->SetPhys(i, pts[j+dim][i]);
            }
        }
        
        if(m_f->m_session->GetComm()->GetRank() == 0)
        {
            cout << endl;
        }
        
        // forward transform fields
        for(i = 0; i < nFields; ++i)
        {
            m_f->m_exp[i]->FwdTrans_IterPerExp(m_f->m_exp[i]->GetPhys(),
                                               m_f->m_exp[i]->UpdateCoeffs());
        }
    }

    // set up output fld file.
    std::vector<LibUtilities::FieldDefinitionsSharedPtr> FieldDef
        = m_f->m_exp[0]->GetFieldDefinitions();
    std::vector<std::vector<NekDouble> > FieldData(FieldDef.size());

    for (j = 0; j < nFields; ++j)
    {
        for (i = 0; i < FieldDef.size(); ++i)
        {
            FieldDef[i]->m_fields.push_back(m_f->m_fieldPts->GetFieldName(j));

            m_f->m_exp[j]->AppendFieldData(FieldDef[i], FieldData[i]);
        }
    }

    m_f->m_fielddef = FieldDef;
    m_f->m_data     = FieldData;
}

Member Data Documentation

ModuleKey Nektar::Utilities::ProcessPointDataToFld::className

static

Initial value:

=
    GetModuleFactory().RegisterCreatorFunction(
       ModuleKey(eProcessModule, "pointdatatofld"),
       ProcessPointDataToFld::create,
       "Given discrete data at quadrature points project them onto an expansion"
       "basis and output fld file. Requires .pts .xml and .fld files.")

Definition at line 58 of file ProcessPointDataToFld.h.