Nektar::Utilities::ProcessDetectSurf Class Reference

This processing module calculates the Jacobian of elements using SpatialDomains::GeomFactors and the Element::GetGeom method. For now it simply prints a list of elements which have negative Jacobian. More...

#include <ProcessDetectSurf.h>

Inheritance diagram for Nektar::Utilities::ProcessDetectSurf:

Collaboration diagram for Nektar::Utilities::ProcessDetectSurf:

Public Member Functions
	ProcessDetectSurf (MeshSharedPtr m)
virtual	~ProcessDetectSurf ()
virtual void	Process ()
	Write mesh to output file.
Public Member Functions inherited from Nektar::Utilities::ProcessModule
	ProcessModule (FieldSharedPtr p_f)
	ProcessModule (MeshSharedPtr p_m)
Public Member Functions inherited from Nektar::Utilities::Module
	Module (FieldSharedPtr p_f)
virtual void	Process (po::variables_map &vm)=0
void	RegisterConfig (string key, string value)
	Register a configuration option with a module.
void	PrintConfig ()
	Print out all configuration options for a module.
void	SetDefaults ()
	Sets default configuration options for those which have not been set.
bool	GetRequireEquiSpaced (void)
void	SetRequireEquiSpaced (bool pVal)
	Module (MeshSharedPtr p_m)
void	RegisterConfig (string key, string value)
void	PrintConfig ()
void	SetDefaults ()
MeshSharedPtr	GetMesh ()
virtual void	ProcessVertices ()
	Extract element vertices.

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

Static Public Attributes
static ModuleKey	className

Private Member Functions
void	FindContiguousSurface (ElementSharedPtr start, set< int > &doneIds, vector< ElementSharedPtr > &block)

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

Detailed Description

This processing module calculates the Jacobian of elements using SpatialDomains::GeomFactors and the Element::GetGeom method. For now it simply prints a list of elements which have negative Jacobian.

Definition at line 51 of file ProcessDetectSurf.h.

Constructor & Destructor Documentation

Nektar::Utilities::ProcessDetectSurf::ProcessDetectSurf

(

MeshSharedPtr

m

)

Definition at line 54 of file ProcessDetectSurf.cpp.

References Nektar::Utilities::Module::m_config.

                                                            : ProcessModule(m)
        {
            m_config["vol"] = ConfigOption(false, "-1",
                "Tag identifying surface to process.");
        }

Nektar::Utilities::ProcessDetectSurf::~ProcessDetectSurf ( )

virtual

Definition at line 60 of file ProcessDetectSurf.cpp.

        {
        }

Member Function Documentation

static boost::shared_ptr<Module> Nektar::Utilities::ProcessDetectSurf::create ( MeshSharedPtr  m )

inlinestatic

Creates an instance of this class.

Definition at line 55 of file ProcessDetectSurf.h.

                                                                   {
                return MemoryManager<ProcessDetectSurf>::AllocateSharedPtr(m);
            }

void Nektar::Utilities::ProcessDetectSurf::FindContiguousSurface ( ElementSharedPtr  start, set< int > &  doneIds, vector< ElementSharedPtr > &  block  )

private

Definition at line 212 of file ProcessDetectSurf.cpp.

Referenced by Process().

        {
            block.push_back(start);
            doneIds.erase(start->GetId());

            vector<EdgeSharedPtr> edges = start->GetEdgeList();

            for (int i = 0; i < edges.size(); ++i)
            {
                for (int j = 0; j < edges[i]->m_elLink.size(); ++j)
                {
                    ElementSharedPtr elmt = edges[i]->m_elLink[j].first;
                    if (elmt == start)
                    {
                        continue;
                    }

                    if (doneIds.count(elmt->GetId()) == 0)
                    {
                        continue;
                    }

                    FindContiguousSurface(elmt, doneIds, block);
                }
            }
        }

void Nektar::Utilities::ProcessDetectSurf::Process ( )

virtual

Write mesh to output file.

Implements Nektar::Utilities::Module.

Definition at line 71 of file ProcessDetectSurf.cpp.

References ASSERTL0, Nektar::LibUtilities::eSegment, FindContiguousSurface(), Nektar::ParseUtils::GenerateSeqVector(), Nektar::Utilities::GetElementFactory(), Nektar::iterator, Nektar::Utilities::Module::m_config, and Nektar::Utilities::Module::m_mesh.

        {
            if (m_mesh->m_expDim > 2)
            {
                cerr << "Surface detection only implemented for 2D meshes" << endl;
                return;
            }

            int i, j;
            string surf = m_config["vol"].as<string>();

            // Obtain vector of surface IDs from string.
            vector<unsigned int> surfs;
            if (surf != "-1")
            {
                ParseUtils::GenerateSeqVector(surf.c_str(), surfs);
                sort(surfs.begin(), surfs.end());
            }

            // If we're running in verbose mode print out a list of surfaces.
            if (m_mesh->m_verbose)
            {
                cout << "ProcessDetectSurf: detecting surfaces";
                if (surfs.size() > 0)
                {
                    cout << " for surface" << (surfs.size() == 1 ? "" : "s")
                         << " " << surf << endl;
                }
            }

            vector<ElementSharedPtr> &el = m_mesh->m_element[m_mesh->m_expDim];
            map<int, EdgeInfo> edgeCount;
            set<int> doneIds;
            map<int, int> idMap;

            // Iterate over list of surface elements.
            for (i = 0; i < el.size(); ++i)
            {
                // Work out whether this lies on our surface of interest.
                if (surfs.size() > 0)
                {
                    vector<int> inter, tags = el[i]->GetTagList();

                    sort(tags.begin(), tags.end());
                    set_intersection(surfs.begin(), surfs.end(),
                                     tags .begin(), tags .end(),
                                     back_inserter(inter));
                
                    // It doesn't continue to next element.
                    if (inter.size() != 1)
                    {
                        continue;
                    }
                }
                
                // List all edges.
                ElementSharedPtr elmt = el[i];
                for (j = 0; j < elmt->GetEdgeCount(); ++j)
                {
                    EdgeSharedPtr e = elmt->GetEdge(j);
                    int eId = e->m_id;
                    edgeCount[eId].count++;
                    edgeCount[eId].edge = e;
                }

                doneIds.insert(elmt->GetId());
                ASSERTL0(idMap.count(elmt->GetId()) == 0, "Shouldn't happen");
                idMap[elmt->GetId()] = i;
            }

            CompositeMap::iterator cIt;
            unsigned int maxId = 0;

            for (cIt = m_mesh->m_composite.begin(); cIt != m_mesh->m_composite.end(); ++cIt)
            {
                maxId = std::max(cIt->first, maxId);
            }

            ++maxId;

            map<int, EdgeInfo>::iterator eIt;

            while (doneIds.size() > 0)
            {
                ElementSharedPtr start
                    = m_mesh->m_element[m_mesh->m_expDim][idMap[*(doneIds.begin())]];

                vector<ElementSharedPtr> block;
                FindContiguousSurface(start, doneIds, block);
                ASSERTL0(block.size() > 0, "Contiguous block not found");

                // Loop over all edges in block.
                for (i = 0; i < block.size(); ++i)
                {
                    // Find edge info.
                    ElementSharedPtr elmt = block[i];

                    for (j = 0; j < elmt->GetEdgeCount(); ++j)
                    {
                        eIt = edgeCount.find(elmt->GetEdge(j)->m_id);
                        ASSERTL0(eIt != edgeCount.end(), "Couldn't find edge");
                        eIt->second.group = maxId;
                    }
                }

                ++maxId;
            }

            for (eIt = edgeCount.begin(); eIt != edgeCount.end(); ++eIt)
            {
                if (eIt->second.count > 1)
                {
                    continue;
                }

                unsigned int compId = eIt->second.group;
                CompositeMap::iterator cIt = m_mesh->m_composite.find(compId);

                if (cIt == m_mesh->m_composite.end())
                {
                    CompositeSharedPtr comp(new Composite());
                    comp->m_id  = compId;
                    comp->m_tag = "E";
                    cIt = m_mesh->m_composite.insert(std::make_pair(compId, comp)).first;
                }

                vector<int> tags(1);
                tags[0] = compId;
                vector<NodeSharedPtr> nodeList(2);
                nodeList[0] = eIt->second.edge->m_n1;
                nodeList[1] = eIt->second.edge->m_n2;

                ElmtConfig conf(LibUtilities::eSegment, 1, false, false);
                ElementSharedPtr elmt = GetElementFactory().
                    CreateInstance(LibUtilities::eSegment,conf,nodeList,tags);
                elmt->SetEdgeLink(eIt->second.edge);

                cIt->second->m_items.push_back(elmt);
            }
        }

Member Data Documentation

ModuleKey Nektar::Utilities::ProcessDetectSurf::className

static

Initial value:

 
            GetModuleFactory().RegisterCreatorFunction(
                ModuleKey(eProcessModule, "detect"), ProcessDetectSurf::create,
                "Process elements to detect a surface.")

Definition at line 58 of file ProcessDetectSurf.h.