// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void AdjustVolumeOrigin::updateSurfaceMesh()
{
int err = 0;
std::stringstream ss;
setErrorCondition(err);
SurfaceMeshDataContainer* m = getSurfaceMeshDataContainer();
if(NULL == m)
{
setErrorCondition(-999);
notifyErrorMessage("The SurfaceMeshing DataContainer Object was NULL", -999);
return;
}
setErrorCondition(0);
notifyStatusMessage("Starting");
#ifdef DREAM3D_USE_PARALLEL_ALGORITHMS
tbb::task_scheduler_init init;
bool doParallel = true;
#endif
DREAM3D::SurfaceMesh::VertListPointer_t nodesPtr = getSurfaceMeshDataContainer()->getVertices();
DREAM3D::SurfaceMesh::Vert_t* nodes = nodesPtr->GetPointer(0);
// First get the min/max coords.
float min[3] = { std::numeric_limits<float>::max(), std::numeric_limits<float>::max(), std::numeric_limits<float>::max() };
// float max[3] = { std::numeric_limits<float>::min(), std::numeric_limits<float>::min(), std::numeric_limits<float>::min() };
size_t count = nodesPtr->GetNumberOfTuples();
for (size_t i = 0; i < count; i++)
{
// if (nodes[i].pos[0] > max[0]) { max[0] = nodes[i].pos[0]; }
// if (nodes[i].pos[1] > max[1]) { max[1] = nodes[i].pos[1]; }
// if (nodes[i].pos[2] > max[2]) { max[2] = nodes[i].pos[2]; }
if (nodes[i].pos[0] < min[0]) { min[0] = nodes[i].pos[0]; }
if (nodes[i].pos[1] < min[1]) { min[1] = nodes[i].pos[1]; }
if (nodes[i].pos[2] < min[2]) { min[2] = nodes[i].pos[2]; }
}
float delta[3] = {min[0] - m_Origin.x, min[1] - m_Origin.y, min[2] - m_Origin.z };
#ifdef DREAM3D_USE_PARALLEL_ALGORITHMS
if (doParallel == true)
{
tbb::parallel_for(tbb::blocked_range<size_t>(0, count),
Detail::UpdateVerticesImpl(nodesPtr, delta), tbb::auto_partitioner());
}
else
#endif
{
Detail::UpdateVerticesImpl serial(nodesPtr, delta);
serial.generate(0, count);
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void GenerateSurfaceMeshConnectivity::execute()
{
int err = 0;
std::stringstream ss;
setErrorCondition(err);
VoxelDataContainer* m = getVoxelDataContainer();
if(NULL == m)
{
setErrorCondition(-999);
notifyErrorMessage("The Voxel DataContainer Object was NULL", -999);
return;
}
setErrorCondition(0);
dataCheck(false, 1, 1, 1);
if (getErrorCondition() < 0)
{
return;
}
// We need the vertex->Triangle Lists to build the Triangle Neighbor lists so if either
// of those are true then build the vertex->triangle lists
if (m_GenerateVertexTriangleLists == true || m_GenerateTriangleNeighbors == true)
{
notifyStatusMessage("Generating Vertex Triangle List");
getSurfaceMeshDataContainer()->buildMeshVertLinks();
}
if (m_GenerateTriangleNeighbors == true)
{
notifyStatusMessage("Generating Face Neighbors List");
getSurfaceMeshDataContainer()->buildMeshFaceNeighborLists();
}
if (m_GenerateEdgeIdList == true)
{
// There was no Edge connectivity before this filter so delete it when we are done with it
GenerateUniqueEdges::Pointer conn = GenerateUniqueEdges::New();
ss.str("");
ss << getMessagePrefix() << " |->Generating Unique Edge Ids |->";
conn->setMessagePrefix(ss.str());
conn->setObservers(getObservers());
conn->setVoxelDataContainer(getVoxelDataContainer());
conn->setSurfaceMeshDataContainer(getSurfaceMeshDataContainer());
conn->setSolidMeshDataContainer(getSolidMeshDataContainer());
conn->execute();
if(conn->getErrorCondition() < 0)
{
setErrorCondition(conn->getErrorCondition());
return;
}
}
/* Let the GUI know we are done with this filter */
notifyStatusMessage("Complete");
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void BinaryNodesTrianglesReader::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
std::stringstream ss;
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if(NULL == sm)
{
setErrorCondition(-384);
addErrorMessage(getHumanLabel(), "SurfaceMeshDataContainer is missing", getErrorCondition());
}
if (getBinaryNodesFile().empty() == true)
{
std::stringstream ss;
ss << ClassName() << " needs the Binary Nodes File path set and it was not.";
setErrorCondition(-387);
addErrorMessage(getHumanLabel(), ss.str(), getErrorCondition());
}
if (getBinaryNodesFile().empty() == true)
{
std::stringstream ss;
ss << ClassName() << " needs the Binary Nodes File path set and it was not.";
setErrorCondition(-387);
addErrorMessage(getHumanLabel(), ss.str(), getErrorCondition());
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void AbaqusSurfaceMeshWriter::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
if (m_OutputFile.empty() == true)
{
setErrorCondition(-1003);
addErrorMessage(getHumanLabel(), "Abaqus Output file is not set.", getErrorCondition());
}
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if (NULL == sm)
{
setErrorCondition(-384);
addErrorMessage(getHumanLabel(), "SurfaceMeshDataContainer is missing", getErrorCondition());
}
else
{
if (sm->getFaces().get() == NULL)
{
setErrorCondition(-385);
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Triangles",getErrorCondition());
}
if (sm->getVertices().get() == NULL)
{
setErrorCondition(-386);
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Nodes",getErrorCondition());
}
std::stringstream ss;
GET_PREREQ_DATA(sm, DREAM3D, FaceData, SurfaceMeshFaceLabels, ss, -30, int32_t, Int32ArrayType, sm->getNumFaceTuples(), 2)
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void AdjustVolumeOrigin::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
std::stringstream ss;
if (m_ApplyToVoxelVolume == true)
{
VoxelDataContainer* m = getVoxelDataContainer();
if(NULL == m)
{
setErrorCondition(-383);
addErrorMessage(getHumanLabel(), "VoxelDataContainer is missing", getErrorCondition());
}
}
if (m_ApplyToSurfaceMesh == true)
{
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if(NULL == sm)
{
setErrorCondition(-383);
addErrorMessage(getHumanLabel(), "SurfaceMeshDataContainer is missing", getErrorCondition());
}
else
{
// We MUST have Nodes
if(sm->getVertices().get() == NULL)
{
setErrorCondition(-384);
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Nodes", getErrorCondition());
}
}
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void GenerateSurfaceMeshConnectivity::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
std::stringstream ss;
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if(NULL == sm)
{
setErrorCondition(-383);
addErrorMessage(getHumanLabel(), "SurfaceMeshDataContainer is missing", getErrorCondition());
}
else
{
// We MUST have Nodes
if(sm->getVertices().get() == NULL)
{
setErrorCondition(-384);
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Nodes", getErrorCondition());
}
// We MUST have Triangles defined also.
if(sm->getFaces().get() == NULL)
{
setErrorCondition(-385);
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Triangles", getErrorCondition());
}
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void GenerateNodeTriangleConnectivity::execute()
{
int err = 0;
std::stringstream ss;
setErrorCondition(err);
SurfaceMeshDataContainer* m = getSurfaceMeshDataContainer();
if(NULL == m)
{
setErrorCondition(-999);
notifyErrorMessage("The SurfaceMesh DataContainer Object was NULL", -999);
return;
}
setErrorCondition(0);
// Just to double check we have everything.
dataCheck(false, 0,0,0);
if (getErrorCondition() < 0)
{
return;
}
notifyStatusMessage("Starting");
// Generate the connectivity data
generateConnectivity();
/* Let the GUI know we are done with this filter */
notifyStatusMessage("Complete");
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void TriangleNormalFilter::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
std::stringstream ss;
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if(NULL == sm)
{
setErrorCondition(-383);
addErrorMessage(getHumanLabel(), "SurfaceMeshDataContainer is missing", getErrorCondition());
}
else
{
// We MUST have Nodes
if(sm->getVertices().get() == NULL)
{
setErrorCondition(-384);
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Nodes", getErrorCondition());
}
// We MUST have Triangles defined also.
if(sm->getFaces().get() == NULL)
{
setErrorCondition(-385);
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Triangles", getErrorCondition());
}
else
{
CREATE_NON_PREREQ_DATA(sm, DREAM3D, FaceData, SurfaceMeshTriangleNormals, ss, double, DoubleArrayType, 0, voxels, 3)
}
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void TriangleNormalFilter::execute()
{
int err = 0;
std::stringstream ss;
setErrorCondition(err);
SurfaceMeshDataContainer* m = getSurfaceMeshDataContainer();
if(NULL == m)
{
setErrorCondition(-999);
notifyErrorMessage("The SurfaceMesh DataContainer Object was NULL", -999);
return;
}
setErrorCondition(0);
notifyStatusMessage("Starting");
#ifdef DREAM3D_USE_PARALLEL_ALGORITHMS
bool doParallel = true;
#endif
DREAM3D::SurfaceMesh::VertListPointer_t nodesPtr = getSurfaceMeshDataContainer()->getVertices();
DREAM3D::SurfaceMesh::FaceListPointer_t trianglesPtr = getSurfaceMeshDataContainer()->getFaces();
size_t totalPoints = trianglesPtr->GetNumberOfTuples();
// Run the data check to allocate the memory for the centroid array
dataCheck(false, trianglesPtr->GetNumberOfTuples(), 0, 0);
#ifdef DREAM3D_USE_PARALLEL_ALGORITHMS
if (doParallel == true)
{
tbb::parallel_for(tbb::blocked_range<size_t>(0, totalPoints),
CalculateNormalsImpl(nodesPtr, trianglesPtr, m_SurfaceMeshTriangleNormals), tbb::auto_partitioner());
}
else
#endif
{
CalculateNormalsImpl serial(nodesPtr, trianglesPtr, m_SurfaceMeshTriangleNormals);
serial.generate(0, totalPoints);
}
/* Let the GUI know we are done with this filter */
notifyStatusMessage("Complete");
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void GoldfeatherReader::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
std::stringstream ss;
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if (getInputFile().empty() == true)
{
ss << ClassName() << " needs the Input File Set and it was not.";
setErrorCondition(-387);
addErrorMessage(getHumanLabel(), ss.str(), getErrorCondition());
}
else if (MXAFileInfo::exists(getInputFile()) == false)
{
ss << "The input file does not exist.";
setErrorCondition(-388);
addErrorMessage(getHumanLabel(), ss.str(), getErrorCondition());
}
DREAM3D::SurfaceMesh::VertListPointer_t vertices = DREAM3D::SurfaceMesh::VertList_t::CreateArray(1, DREAM3D::VertexData::SurfaceMeshNodes);
DREAM3D::SurfaceMesh::FaceListPointer_t triangles = DREAM3D::SurfaceMesh::FaceList_t::CreateArray(1, DREAM3D::FaceData::SurfaceMeshFaces);
sm->setVertices(vertices);
sm->setFaces(triangles);
DoubleArrayType::Pointer normalsPtr = DoubleArrayType::CreateArray(1, 3, DREAM3D::VertexData::SurfaceMeshNodeNormals);
//addCreatedCellData( normalsPtr->GetName());
sm->addVertexData(normalsPtr->GetName(), normalsPtr);
DoubleArrayType::Pointer pcurv1Ptr = DoubleArrayType::CreateArray(1, 1, "Principal_Curvature_1");
//addCreatedCellData( pcurv1Ptr->GetName());
sm->addVertexData(pcurv1Ptr->GetName(), pcurv1Ptr);
DoubleArrayType::Pointer pcurv2Ptr = DoubleArrayType::CreateArray(1, 1, "Principal_Curvature_2");
// addCreatedCellData( pcurv2Ptr->GetName());
sm->addVertexData(pcurv2Ptr->GetName(), pcurv2Ptr);
DoubleArrayType::Pointer pDirection1Ptr = DoubleArrayType::CreateArray(1, 3, "Principal_Direction_1");
// addCreatedCellData( pDirection1Ptr->GetName());
sm->addVertexData(pDirection1Ptr->GetName(), pDirection1Ptr);
DoubleArrayType::Pointer pDirection2Ptr = DoubleArrayType::CreateArray(1, 3, "Principal_Direction_2");
// addCreatedCellData( pDirection2Ptr->GetName());
sm->addVertexData(pDirection2Ptr->GetName(), pDirection2Ptr);
DataArray<int32_t>::Pointer faceLabelPtr = DataArray<int32_t>::CreateArray(1, 2, DREAM3D::FaceData::SurfaceMeshFaceLabels);
// addCreatedFieldData( faceLabelPtr->GetName());
sm->addFaceData(faceLabelPtr->GetName(), faceLabelPtr);
DoubleArrayType::Pointer triNormalsPtr = DoubleArrayType::CreateArray(1, 3, DREAM3D::FaceData::SurfaceMeshFaceNormals);
// addCreatedFieldData( triNormalsPtr->GetName());
sm->addFaceData(triNormalsPtr->GetName(), triNormalsPtr);
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void AbaqusSurfaceMeshWriter::execute()
{
int err = 0;
std::stringstream ss;
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
dataCheck(false, 1, 1, 1);
if(getErrorCondition() < 0)
{
return;
}
// Make sure any directory path is also available as the user may have just typed
// in a path without actually creating the full path
std::string parentPath = MXAFileInfo::parentPath(getOutputFile());
if(!MXADir::mkdir(parentPath, true))
{
std::stringstream ss;
ss << "Error creating parent path '" << parentPath << "'";
notifyErrorMessage(ss.str(), -1);
setErrorCondition(-1);
return;
}
DREAM3D::SurfaceMesh::VertListPointer_t nodesPtr = sm->getVertices();
DREAM3D::SurfaceMesh::FaceListPointer_t trianglePtr = sm->getFaces();
// Get the Labels(GrainIds or Region Ids) for the triangles
Int32ArrayType::Pointer faceLabelsPtr = boost::dynamic_pointer_cast<Int32ArrayType>(sm->getFaceData(DREAM3D::FaceData::SurfaceMeshFaceLabels));
int32_t* faceLabels = faceLabelsPtr->GetPointer(0);
// Store all the unique Spins
std::set<int> uniqueSpins;
for (int i = 0; i < trianglePtr->GetNumberOfTuples(); i++)
{
uniqueSpins.insert(faceLabels[i*2]);
uniqueSpins.insert(faceLabels[i*2+1]);
}
FILE* f = fopen(m_OutputFile.c_str(), "wb");
ScopedFileMonitor fileMonitor(f);
err = writeHeader(f, nodesPtr->GetNumberOfTuples(), trianglePtr->GetNumberOfTuples(), uniqueSpins.size()-1);
err = writeNodes(f);
err = writeTriangles(f);
err = writeGrains(f);
setErrorCondition(0);
notifyStatusMessage("Complete");
return;
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void SurfaceMeshDataContainerWriter::writeXdmfGridHeader()
{
if (m_WriteXdmfFile == false || m_XdmfPtr == NULL)
{
return;
}
DREAM3D::SurfaceMesh::FaceListPointer_t faces = getSurfaceMeshDataContainer()->getFaces();
if (NULL == faces.get())
{
return;
}
DREAM3D::SurfaceMesh::VertListPointer_t verts = getSurfaceMeshDataContainer()->getVertices();
if(NULL == verts.get())
{
return;
}
std::ostream& out = *m_XdmfPtr;
out << " <Grid Name=\"SurfaceMesh DataContainer\">" << std::endl;
out << " <Topology TopologyType=\"Triangle\" NumberOfElements=\"" << faces->GetNumberOfTuples() << "\">" << std::endl;
out << " <DataItem Format=\"HDF\" NumberType=\"Int\" Dimensions=\"" << faces->GetNumberOfTuples() << " 3\">" << std::endl;
ssize_t nameSize = H5Fget_name(m_HdfFileId, NULL, 0) + 1;
std::vector<char> nameBuffer(nameSize, 0);
nameSize = H5Fget_name(m_HdfFileId, &(nameBuffer.front()), nameSize);
std::string hdfFileName(&(nameBuffer.front()), nameSize);
hdfFileName = MXAFileInfo::filename(hdfFileName);
out << " " << hdfFileName << ":/SurfaceMeshDataContainer/Faces" << std::endl;
out << " </DataItem>" << std::endl;
out << " </Topology>" << std::endl;
out << " <Geometry Type=\"XYZ\">" << std::endl;
out << " <DataItem Format=\"HDF\" Dimensions=\"" << verts->GetNumberOfTuples() << " 3\" NumberType=\"Float\" Precision=\"4\">" << std::endl;
out << " " << hdfFileName << ":/SurfaceMeshDataContainer/Vertices" << std::endl;
out << " </DataItem>" << std::endl;
out << " </Geometry>" << std::endl;
out << "" << std::endl;
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void SurfaceMeshDataContainerWriter::writeXdmfGridFooter()
{
if (m_WriteXdmfFile == false || m_XdmfPtr == NULL)
{
return;
}
DREAM3D::SurfaceMesh::FaceListPointer_t faces = getSurfaceMeshDataContainer()->getFaces();
if (NULL == faces.get())
{
return;
}
std::ostream& out = *m_XdmfPtr;
out << " </Grid>" << std::endl;
out << " <!-- *************** END OF SurfaceMesh DataContainer *************** -->" << std::endl;
out << std::endl;
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void SurfaceMeshDataContainerWriter::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
std::stringstream ss;
SurfaceMeshDataContainer* m = getSurfaceMeshDataContainer();
if(NULL == m)
{
setErrorCondition(-383);
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer is missing", getErrorCondition());
}
if(m_HdfFileId < 0)
{
setErrorCondition(-150);
addErrorMessage(getHumanLabel(), "The HDF5 file id was < 0. This means this value was not set correctly from the calling object.", getErrorCondition());
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
int AbaqusSurfaceMeshWriter::writeNodes(FILE* f)
{
DREAM3D::SurfaceMesh::VertListPointer_t nodesPtr = getSurfaceMeshDataContainer()->getVertices();
DREAM3D::SurfaceMesh::Vert_t* nodes = nodesPtr->GetPointer(0);
size_t numNodes = nodesPtr->GetNumberOfTuples();
int err = 0;
fprintf(f, "*Node,NSET=NALL\n");
//1, 72.520433763730, 70.306420652241, 100.000000000000
for(size_t i = 1; i <= numNodes; ++i)
{
DREAM3D::SurfaceMesh::Vert_t& n = nodes[i-1];
fprintf(f, "%lu, %0.6f, %0.6f, %0.6f\n", i, n.pos[0], n.pos[1], n.pos[2]);
}
return err;
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void GenerateNodeTriangleConnectivity::dataCheck()
{
setErrorCondition(0);
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if(NULL == sm)
{
setErrorCondition(-384);
notifyErrorMessage(getHumanLabel(), "SurfaceMeshDataContainer is missing", getErrorCondition());
}
else
{
// We MUST have Nodes
if(sm->getVertices().get() == NULL)
{
setErrorCondition(-384);
notifyErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Nodes", getErrorCondition());
}
// We MUST have Triangles defined also.
if(sm->getFaces().get() == NULL)
{
setErrorCondition(-384);
notifyErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Triangles", getErrorCondition());
}
else
{
// This depends on the triangles array already being created
int size = sm->getFaces()->GetNumberOfTuples();
m_SurfaceMeshTriangleEdgesPtr = sattrMat->createNonPrereqArray<DataArray<int32_t>, AbstractFilter, int32_t>(this, m_CellAttributeMatrixName, m_SurfaceMeshTriangleEdgesArrayName, 0, size, 3); /* Assigns the shared_ptr<> to an instance variable that is a weak_ptr<> */
if( NULL != m_SurfaceMeshTriangleEdgesPtr.lock().get() ) /* Validate the Weak Pointer wraps a non-NULL pointer to a DataArray<T> object */
{ m_SurfaceMeshTriangleEdges = m_SurfaceMeshTriangleEdgesPtr.lock()->getPointer(0); } /* Now assign the raw pointer to data from the DataArray<T> object */
}
// We do not know the size of the array so we can not use the macro so we just manually call
// the needed methods that will propagate these array additions to the pipeline
DataArray<int>::Pointer uniqueEdgesArray = DataArray<int>::CreateArray(1, 2, SIMPL::CellData::SurfaceMeshUniqueEdges);
sm->getAttributeMatrix(getCellAttributeMatrixName())->addAttributeArray(SIMPL::CellData::SurfaceMeshUniqueEdges, uniqueEdgesArray);
// This is just for tracking what Arrays are being created by this filter. Normally the macro
// would do this for us.
addCreatedCellData(SIMPL::CellData::SurfaceMeshUniqueEdges);
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
int AbaqusSurfaceMeshWriter::writeTriangles(FILE* f)
{
int err = 0;
DREAM3D::SurfaceMesh::FaceListPointer_t trianglePtr = getSurfaceMeshDataContainer()->getFaces();
DREAM3D::SurfaceMesh::Face_t* triangles = trianglePtr->GetPointer(0);
size_t numTri = trianglePtr->GetNumberOfTuples();
fprintf(f, "*ELEMENT, TYPE=%s\n", TRI_ELEMENT_TYPE);
for(size_t i = 1; i <= numTri; ++i)
{
// When we get the node index, add 1 to it because Abaqus number is 1 based.
int nId0 = triangles[i-1].verts[0] + 1;
int nId1 = triangles[i-1].verts[1] + 1;
int nId2 = triangles[i-1].verts[2] + 1;
fprintf(f, "%lu, %d, %d, %d\n", i, nId0, nId1, nId2);
}
return err;
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void GenerateNodeTriangleConnectivity::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
std::stringstream ss;
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if(NULL == sm)
{
addErrorMessage(getHumanLabel(), "SurfaceMeshDataContainer is missing", -383);
setErrorCondition(-384);
}
else
{
// We MUST have Nodes
if(sm->getVertices().get() == NULL)
{
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Nodes", -384);
setErrorCondition(-384);
}
// We MUST have Triangles defined also.
if(sm->getFaces().get() == NULL)
{
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Triangles", -383);
setErrorCondition(-384);
}
else
{
// This depends on the triangles array already being created
int size = sm->getFaces()->GetNumberOfTuples();
CREATE_NON_PREREQ_DATA(sm, DREAM3D, CellData, SurfaceMeshTriangleEdges, ss, int32_t, Int32ArrayType, 0, size, 3)
}
// We do not know the size of the array so we can not use the macro so we just manually call
// the needed methods that will propagate these array additions to the pipeline
DataArray<int>::Pointer uniqueEdgesArray = DataArray<int>::CreateArray(1, 2, DREAM3D::CellData::SurfaceMeshUniqueEdges);
sm->addCellData(DREAM3D::CellData::SurfaceMeshUniqueEdges, uniqueEdgesArray);
// This is just for tracking what Arrays are being created by this filter. Normally the macro
// would do this for us.
addCreatedCellData(DREAM3D::CellData::SurfaceMeshUniqueEdges);
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void GenerateNodeTriangleConnectivity::generateConnectivity()
{
// Get our Reference counted Array of Triangle Structures
StructArray<SurfaceMesh::DataStructures::Face_t>::Pointer trianglesPtr = getSurfaceMeshDataContainer()->getTriangles();
if(NULL == trianglesPtr.get())
{
setErrorCondition(-556);
notifyErrorMessage("The SurfaceMesh DataContainer Does NOT contain Triangles", -556);
return;
}
int ntri = trianglesPtr->GetNumberOfTuples();
NodeTrianglesMap_t m_Node2Triangle;
notifyStatusMessage("Creating the Mapping of Triangles to Node");
// get the triangle definitions - use the pointer to the start of the Struct Array
Triangle* triangles = trianglesPtr->GetPointer(0);
// Generate the map of node_id -> Triangles that include that node_id value
for(int i = 0; i < ntri; ++i)
{
Triangle& tri = triangles[i];
m_Node2Triangle[tri.node_id[0]].insert(i);
m_Node2Triangle[tri.node_id[1]].insert(i);
m_Node2Triangle[tri.node_id[2]].insert(i);
}
if (getCancel() == true) { return; }
ManagedPointerArray<int>::Pointer nodeTriangleArray = ManagedPointerArray<int>::CreateArray(m_Node2Triangle.size(), DREAM3D::CellData::SurfaceMeshNodeTriangles);
float progIndex = 0.0;
float curPercent = 0.0;
float total = static_cast<float>(m_Node2Triangle.size());
std::stringstream ss;
// Loop over each entry in the map
for(NodeTrianglesMap_t::iterator iter = m_Node2Triangle.begin(); iter != m_Node2Triangle.end(); ++iter)
{
if ( progIndex/total * 100.0f > (curPercent) )
{
ss.str("");
ss << (progIndex/total * 100.0f) << "% Complete";
notifyStatusMessage(ss.str());
curPercent += 5.0f;
}
progIndex++;
if (getCancel() == true) { return; }
int nodeId = (*iter).first;
ManagedPointerArray<int>::Data_t& entry = *(nodeTriangleArray->GetPointer(nodeId));
UniqueTriangleIds_t& triangles = (*iter).second;
// Allocate enough memory to hold the list of triangles
entry.count = triangles.size();
if (entry.count > 0)
{
entry.data = (int*)(malloc(sizeof(int) * entry.count));
int index = 0;
for(UniqueTriangleIds_t::iterator tIter = triangles.begin(); tIter != triangles.end(); ++tIter)
{
entry.data[index++] = *tIter; // Copy the value from the triangle Ids set into the ManagedPointer
}
}
}
getSurfaceMeshDataContainer()->addCellData(nodeTriangleArray->GetName(), nodeTriangleArray);
return;
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
int AbaqusSurfaceMeshWriter::writeGrains(FILE* f)
{
//*Elset, elset=Grain1
//1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16
int err = 0;
std::stringstream ss;
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
DREAM3D::SurfaceMesh::VertListPointer_t nodesPtr = sm->getVertices();
DREAM3D::SurfaceMesh::FaceListPointer_t trianglePtr = sm->getFaces();
// Get the Labels(GrainIds or Region Ids) for the triangles
Int32ArrayType::Pointer faceLabelsPtr = boost::dynamic_pointer_cast<Int32ArrayType>(sm->getFaceData(DREAM3D::FaceData::SurfaceMeshFaceLabels));
int32_t* faceLabels = faceLabelsPtr->GetPointer(0);
int nTriangles = trianglePtr->GetNumberOfTuples();
// Store all the unique Spins
std::set<int> uniqueSpins;
for (int i = 0; i < nTriangles; i++)
{
uniqueSpins.insert(faceLabels[i*2]);
uniqueSpins.insert(faceLabels[i*2+1]);
}
int spin = 0;
//Loop over the unique Spins
for (std::set<int>::iterator spinIter = uniqueSpins.begin(); spinIter != uniqueSpins.end(); ++spinIter )
{
spin = *spinIter;
if(spin < 0) { continue; }
fprintf(f, "*ELSET, ELSET=Grain%d\n", spin);
ss.str("");
ss << "Writing ELSET for Grain Id " << spin;
notifyStatusMessage(ss.str());
// Loop over all the triangles for this spin
int lineCount = 0;
for(int t = 0; t < nTriangles; ++t)
{
if (faceLabels[t*2] != spin && faceLabels[t*2+1] != spin)
{
continue; // We do not match either spin so move to the next triangle
}
// Only print 15 Triangles per line
if (lineCount == 15)
{
fprintf(f, ", %d\n", t);
lineCount = 0;
}
else if(lineCount == 0) // First value on the line
{
fprintf(f,"%d", t);
lineCount++;
}
else
{
fprintf(f,", %d", t);
lineCount++;
}
}
// Make sure we have a new line at the end of the section
if (lineCount != 0)
{
fprintf(f, "\n");
}
}
return err;
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void SurfaceMeshDataContainerWriter::execute()
{
int err = 0;
std::stringstream ss;
setErrorCondition(err);
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if(NULL == sm)
{
setErrorCondition(-999);
notifyErrorMessage("The Surfacemesh DataContainer Object was NULL", -999);
return;
}
setErrorCondition(0);
// Create the HDF5 Group for the Data Container
err = H5Utilities::createGroupsFromPath(DREAM3D::HDF5::SurfaceMeshDataContainerName.c_str(), m_HdfFileId);
if (err < 0)
{
ss.str("");
ss << "Error creating HDF Group " << DREAM3D::HDF5::SurfaceMeshDataContainerName << std::endl;
setErrorCondition(-60);
addErrorMessage(getHumanLabel(), ss.str(), err);
return;
}
hid_t dcGid = H5Gopen(m_HdfFileId, DREAM3D::HDF5::SurfaceMeshDataContainerName.c_str(), H5P_DEFAULT );
if (dcGid < 0)
{
ss.str("");
ss << "Error opening Group " << DREAM3D::HDF5::SurfaceMeshDataContainerName << std::endl;
setErrorCondition(-61);
addErrorMessage(getHumanLabel(), ss.str(), err);
return;
}
// Add some VTK hints into the group
err = createVtkObjectGroup(DREAM3D::HDF5::SurfaceMeshDataContainerName, H5_VTK_POLYDATA);
if (err < 0) {
return;
}
writeXdmfGridHeader();
H5GroupAutoCloser dcGidAutoCloser(&dcGid);
err = writeVertices(dcGid);
if (err < 0)
{
return;
}
err = writeMeshVertLinks(dcGid);
if (err < 0)
{
return;
}
err = writeVertexAttributeData(dcGid);
if (err < 0)
{
return;
}
err = writeFaces(dcGid);
if (err < 0)
{
return;
}
err = writeMeshFaceNeighborLists(dcGid);
if (err < 0)
{
return;
}
err = writeFaceAttributeData(dcGid);
if (err < 0)
{
return;
}
err = writeEdges(dcGid);
if (err < 0)
{
return;
}
err = writeEdgeAttributeData(dcGid);
if (err < 0)
{
return;
}
err = writeFieldData(dcGid);
if (err < 0)
{
H5Gclose(dcGid); // Close the Data Container Group
return;
}
err = writeEnsembleData(dcGid);
if (err < 0)
{
H5Gclose(dcGid); // Close the Data Container Group
return;
}
// Now finally close the group and the HDf5 File
H5Gclose(dcGid); // Close the Data Container Group
dcGid = -1;
writeXdmfGridFooter();
notifyStatusMessage("Complete");
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void RemoveArrays::dataCheck(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
typedef std::set<std::string> NameList_t;
VoxelDataContainer* m = getVoxelDataContainer();
if (NULL != m)
{
for(NameList_t::iterator iter = m_SelectedVoxelCellArrays.begin(); iter != m_SelectedVoxelCellArrays.end(); ++iter)
{
m->removeCellData(*iter);
}
for(NameList_t::iterator iter = m_SelectedVoxelFieldArrays.begin(); iter != m_SelectedVoxelFieldArrays.end(); ++iter)
{
m->removeFieldData(*iter);
}
for(NameList_t::iterator iter = m_SelectedVoxelEnsembleArrays.begin(); iter != m_SelectedVoxelEnsembleArrays.end(); ++iter)
{
m->removeEnsembleData(*iter);
}
}
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if (NULL != sm)
{
for(NameList_t::iterator iter = m_SelectedSurfaceVertexArrays.begin(); iter != m_SelectedSurfaceVertexArrays.end(); ++iter)
{
sm->removeVertexData(*iter);
}
for(NameList_t::iterator iter = m_SelectedSurfaceFaceArrays.begin(); iter != m_SelectedSurfaceFaceArrays.end(); ++iter)
{
sm->removeFaceData(*iter);
}
for(NameList_t::iterator iter = m_SelectedSurfaceEdgeArrays.begin(); iter != m_SelectedSurfaceEdgeArrays.end(); ++iter)
{
sm->removeEdgeData(*iter);
}
for(NameList_t::iterator iter = m_SelectedSurfaceFieldArrays.begin(); iter != m_SelectedSurfaceFieldArrays.end(); ++iter)
{
sm->removeFieldData(*iter);
}
for(NameList_t::iterator iter = m_SelectedSurfaceEnsembleArrays.begin(); iter != m_SelectedSurfaceEnsembleArrays.end(); ++iter)
{
sm->removeEnsembleData(*iter);
}
}
SolidMeshDataContainer* sol = getSolidMeshDataContainer();
if (NULL != sol)
{
for(NameList_t::iterator iter = m_SelectedSolidMeshVertexArrays.begin(); iter != m_SelectedSolidMeshVertexArrays.end(); ++iter)
{
sol->removeVertexData(*iter);
}
for(NameList_t::iterator iter = m_SelectedSolidMeshFaceArrays.begin(); iter != m_SelectedSolidMeshFaceArrays.end(); ++iter)
{
sol->removeFaceData(*iter);
}
for(NameList_t::iterator iter = m_SelectedSolidMeshEdgeArrays.begin(); iter != m_SelectedSolidMeshEdgeArrays.end(); ++iter)
{
sol->removeEdgeData(*iter);
}
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
int BinaryNodesTrianglesReader::read()
{
SurfaceMeshDataContainer *sm = getSurfaceMeshDataContainer();
int err = 0;
setErrorCondition(err);
std::stringstream s;
// Open the Nodes file for reading
FILE* nodesFile = fopen(m_BinaryNodesFile.c_str(), "rb+");
if(nodesFile == NULL)
{
s.str("");
s << "Error opening nodes file '" << m_BinaryNodesFile << "'";
setErrorCondition(786);
// PipelineMessage em (getHumanLabel(), s.str(), -1);
// addErrorMessage(em);
// notifyMessage(em);
return getErrorCondition();
}
ScopedFileMonitor nodesMonitor(nodesFile);
// Calculate how many nodes are in the file based on the file size
fseek(nodesFile, 0, SEEK_END);
size_t fLength = ftell(nodesFile);
size_t nNodes = fLength / SurfaceMesh::NodesFile::ByteCount;
fseek(nodesFile, 0, SEEK_SET);
fLength = ftell(nodesFile);
if(0 != fLength)
{
s.str("");
s << getNameOfClass() << ": Error Could not rewind to beginning of file after nodes count.'" << m_BinaryNodesFile << "'";
setErrorCondition(787);
// PipelineMessage em (getHumanLabel(), s.str(), -1);
// addErrorMessage(em);
// notifyMessage(em);
return getErrorCondition();
}
s.str("");
s << "Calc Node Count from Nodes.bin File: " << nNodes;
notifyStatusMessage(s.str());
// Open the triangles file for reading
FILE* triFile = fopen(m_BinaryTrianglesFile.c_str(), "rb+");
if(triFile == NULL)
{
s.str("");
s << getNameOfClass() << ": Error opening Triangles file '" << m_BinaryTrianglesFile << "'";
setErrorCondition(788);
// PipelineMessage em (getHumanLabel(), s.str(), -1);
// addErrorMessage(em);
// notifyMessage(em);
return getErrorCondition();
}
ScopedFileMonitor trianglesMonitor(triFile);
// Calculate how many Triangles are in the file based in the file size
fseek(triFile, 0, SEEK_END);
fLength = ftell(triFile);
size_t nTriangles = fLength / SurfaceMesh::TrianglesFile::ByteCount;
fseek(triFile, 0, SEEK_SET);
fLength = ftell(triFile);
if(0 != fLength)
{
s.str("");
s << getNameOfClass() << ": Error Could not rewind to beginning of file after triangles count.'" << m_BinaryTrianglesFile << "'";
setErrorCondition(789);
// PipelineMessage em (getHumanLabel(), s.str(), -1);
// addErrorMessage(em);
// notifyMessage(em);
return getErrorCondition();
}
s.str("");
s << "Calc Triangle Count from Triangles.bin File: " << nTriangles;
notifyStatusMessage(s.str());
// Allocate all the nodes
typedef DREAM3D::SurfaceMesh::Vert_t Vert_t;
StructArray<Vert_t>::Pointer m_NodeListPtr = StructArray<Vert_t>::CreateArray(nNodes, DREAM3D::VertexData::SurfaceMeshNodes);
Vert_t* m_NodeList = m_NodeListPtr->GetPointer(0);
Int8ArrayType::Pointer nodeTypePtr = Int8ArrayType::CreateArray(nNodes, 1, DREAM3D::VertexData::SurfaceMeshNodeType);
nodeTypePtr->initializeWithZeros();
int8_t* nodeType = nodeTypePtr->GetPointer(0);
s.str("");
s << "Reading Nodes file into Memory";
notifyStatusMessage(s.str());
size_t nread = 0;
SurfaceMesh::NodesFile::NodesFileRecord_t nRecord;
for (size_t i = 0; i < nNodes; i++)
{
nread = fread(&nRecord, SurfaceMesh::NodesFile::ByteCount, 1, nodesFile); // Read one set of positions from the nodes file
if(nread != 1)
{
break;
}
DREAM3D::SurfaceMesh::Vert_t& node = m_NodeList[nRecord.nodeId];
node.pos[0] = nRecord.x;
node.pos[1] = nRecord.y;
node.pos[2] = nRecord.z;
nodeType[nRecord.nodeId] = nRecord.nodeKind;
}
s.str("");
s << "Reading Triangles file into Memory";
notifyStatusMessage(s.str());
// Allocate all the Triangle Objects
typedef DREAM3D::SurfaceMesh::Face_t Face_t;
StructArray<Face_t>::Pointer m_TriangleListPtr = StructArray<Face_t>::CreateArray(nTriangles, DREAM3D::FaceData::SurfaceMeshFaces);
Face_t* m_TriangleList = m_TriangleListPtr->GetPointer(0);
::memset(m_TriangleList, 0xAB, sizeof(Face_t) * nTriangles);
DataArray<int32_t>::Pointer faceLabelPtr = DataArray<int32_t>::CreateArray(nTriangles, 2, DREAM3D::FaceData::SurfaceMeshFaceLabels);
int32_t* faceLabels = faceLabelPtr->GetPointer(0);
faceLabelPtr->initializeWithZeros();
SurfaceMesh::TrianglesFile::TrianglesFileRecord_t tRecord;
for (size_t i = 0; i < nTriangles; i++)
{
// Read from the Input Triangles Temp File
nread = fread(&tRecord, SurfaceMesh::TrianglesFile::ByteCount, 1, triFile);
if(nread != 1)
{
break;
}
DREAM3D::SurfaceMesh::Face_t& triangle = m_TriangleList[tRecord.triId];
triangle.verts[0] = tRecord.nodeId_0;
triangle.verts[1] = tRecord.nodeId_1;
triangle.verts[2] = tRecord.nodeId_2;
faceLabels[tRecord.triId * 2] = tRecord.label_0;
faceLabels[tRecord.triId * 2 + 1] = tRecord.label_1;
}
sm->setVertices(m_NodeListPtr);
sm->setFaces(m_TriangleListPtr);
sm->addFaceData(faceLabelPtr->GetName(), faceLabelPtr);
sm->addVertexData(nodeTypePtr->GetName(), nodeTypePtr);
// The ScopedFileMonitor classes will take care of closing the files
return getErrorCondition();
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void FindFaceAverage::dataCheckSurfaceMesh(bool preflight, size_t voxels, size_t fields, size_t ensembles)
{
setErrorCondition(0);
std::stringstream ss;
SurfaceMeshDataContainer* sm = getSurfaceMeshDataContainer();
if(NULL == sm)
{
addErrorMessage(getHumanLabel(), "SurfaceMeshDataContainer is missing", -383);
setErrorCondition(-383);
}
else
{
// We MUST have Triangles defined.
if(sm->getFaces().get() == NULL)
{
addErrorMessage(getHumanLabel(), "SurfaceMesh DataContainer missing Triangles", -385);
setErrorCondition(-385);
}
else
{
GET_PREREQ_DATA(sm, DREAM3D, FaceData, SurfaceMeshGrainFaceId, ss, -387, int32_t, Int32ArrayType, fields, 1)
if(1==m_AverageMethod)
{
GET_PREREQ_DATA(sm, DREAM3D, FaceData, SurfaceMeshTriangleAreas, ss, -387, double, DoubleArrayType, fields, 1)
}
if(m_SelectedFaceArrayName.empty() == true)
{
setErrorCondition(-11000);
addErrorMessage(getHumanLabel(), "An array from the Face Data Container must be selected.", getErrorCondition());
}
else if(preflight)
{
IDataArray::Pointer inputData = sm->getFaceData(m_SelectedFaceArrayName);
if (NULL == inputData.get())
{
ss.str("");
ss << "Selected array '" << m_SelectedFaceArrayName << "' does not exist in the Surface Mesh Data Container. Was it spelled correctly?";
setErrorCondition(-11001);
notifyErrorMessage(ss.str(), getErrorCondition());
return;
}
int numberOfComponents = inputData->GetNumberOfComponents();
std::string dType = inputData->getTypeAsString();
IDataArray::Pointer p = IDataArray::NullPointer();
if (dType.compare("int8_t") == 0)
{
p = Int8ArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("uint8_t") == 0)
{
p = UInt8ArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("int16_t") == 0)
{
p = Int16ArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("uint16_t") == 0)
{
p = UInt16ArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("int32_t") == 0)
{
p = Int32ArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("uint32_t") == 0)
{
p = UInt32ArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("int64_t") == 0)
{
p = Int64ArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("uint64_t") == 0)
{
p = UInt64ArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("float") == 0)
{
p = FloatArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("double") == 0)
{
p = DoubleArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
else if (dType.compare("bool") == 0)
{
p = BoolArrayType::CreateArray(1, numberOfComponents, m_SelectedFaceArrayName);
}
sm->addFieldData(p->GetName(), p);
}
}
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
void GoldfeatherReader::execute()
{
int err = 0;
std::stringstream ss;
setErrorCondition(err);
SurfaceMeshDataContainer* m = getSurfaceMeshDataContainer();
if(NULL == m)
{
setErrorCondition(-999);
notifyErrorMessage("The Voxel DataContainer Object was NULL", -999);
return;
}
setErrorCondition(0);
FILE* f = fopen(m_InputFile.c_str(), "r");
if (NULL == f)
{
setErrorCondition(-999);
notifyErrorMessage("Error opening Input file", getErrorCondition());
return;
}
ScopedFileMonitor fileMonitor(f);
int nNodes = 0;
fscanf(f, "%d\n", &nNodes);
dataCheck(false, nNodes, 1, 1);
// Allocate the Nodes, Normals, curvatures and principal direction vectors
DREAM3D::SurfaceMesh::VertListPointer_t nodesPtr = DREAM3D::SurfaceMesh::VertList_t::CreateArray(nNodes, DREAM3D::VertexData::SurfaceMeshNodes);
nodesPtr->initializeWithZeros();
DREAM3D::SurfaceMesh::Vert_t* nodes = nodesPtr->GetPointer(0);
DoubleArrayType::Pointer normalsPtr = DoubleArrayType::CreateArray(nNodes, 3, DREAM3D::VertexData::SurfaceMeshNodeNormals);
double* normals = normalsPtr->GetPointer(0);
DoubleArrayType::Pointer pcurv1Ptr = DoubleArrayType::CreateArray(nNodes, 1, "Principal_Curvature_1");
double* pcurv1 = pcurv1Ptr->GetPointer(0);
DoubleArrayType::Pointer pcurv2Ptr = DoubleArrayType::CreateArray(nNodes, 1, "Principal_Curvature_2");
double* pcurv2 = pcurv2Ptr->GetPointer(0);
DoubleArrayType::Pointer pDirection1Ptr = DoubleArrayType::CreateArray(nNodes, 3, "Principal_Direction_1");
double* pDirection1 = pDirection1Ptr->GetPointer(0);
DoubleArrayType::Pointer pDirection2Ptr = DoubleArrayType::CreateArray(nNodes, 3, "Principal_Direction_2");
double* pDirection2 = pDirection2Ptr->GetPointer(0);
float x, y, z, n0, n1, n2, p1, p2;
for(int n = 0; n < nNodes; ++n)
{
fscanf(f, "%f %f %f %f %f %f %f %f\n", &x, &y, &z, &n0, &n1, &n2, &p1, &p2);
nodes[n].pos[0] = x;
nodes[n].pos[1] = y;
nodes[n].pos[2] = z;
normals[n*3+0] = n0;
normals[n*3+1] = n1;
normals[n*3+2] = n2;
pcurv1[n] = p1;
pcurv2[n] = p2;
// Read the next line of the data which is the principal direction vectors
fscanf(f, "%f %f %f %f %f %f\n", &x, &y, &z, &n0, &n1, &n2);
pDirection1[n*3+0] = x;
pDirection1[n*3+1] = y;
pDirection1[n*3+2] = z;
pDirection2[n*3+0] = n0;
pDirection2[n*3+1] = n1;
pDirection2[n*3+2] = n2;
}
m->setVertices(nodesPtr);
m->addVertexData(normalsPtr->GetName(), normalsPtr);
m->addVertexData(pcurv1Ptr->GetName(), pcurv1Ptr);
m->addVertexData(pcurv2Ptr->GetName(), pcurv2Ptr);
m->addVertexData(pDirection1Ptr->GetName(), pDirection1Ptr);
m->addVertexData(pDirection2Ptr->GetName(), pDirection2Ptr);
int nTriangles = 0;
err = fscanf(f, "%d\n", &nTriangles);
if (err < 0)
{
off_t fpos;
fpos = ftell(f);
setErrorCondition(-876);
notifyErrorMessage("Error Reading the number of Triangles from the file", getErrorCondition());
return;
}
DREAM3D::SurfaceMesh::FaceListPointer_t trianglesPtr = DREAM3D::SurfaceMesh::FaceList_t::CreateArray(nTriangles, DREAM3D::FaceData::SurfaceMeshFaces);
trianglesPtr->initializeWithZeros();
DREAM3D::SurfaceMesh::Face_t* triangles = trianglesPtr->GetPointer(0);
DataArray<int32_t>::Pointer faceLabelPtr = DataArray<int32_t>::CreateArray(nTriangles, 2, DREAM3D::FaceData::SurfaceMeshFaceLabels);
faceLabelPtr->initializeWithZeros();
int32_t* faceLabels = faceLabelPtr->GetPointer(0);
DoubleArrayType::Pointer triNormalsPtr = DoubleArrayType::CreateArray(nTriangles, 3, DREAM3D::FaceData::SurfaceMeshFaceNormals);
double* triNormals = triNormalsPtr->GetPointer(0);
for(int t = 0; t < nTriangles; ++t)
{
fscanf(f, "%f %f %f %f %f %f", &x, &y, &z, &n0, &n1, &n2);
triangles[t].verts[0] = x;
triangles[t].verts[1] = y;
triangles[t].verts[2] = z;
// triangles[t].tIndex = t;
faceLabels[t*2] = 0;
faceLabels[t*2+1] = 1;
triNormals[t*3+0] = n0;
triNormals[t*3+1] = n1;
triNormals[t*3+2] = n2;
}
m->setFaces(trianglesPtr);
m->addFaceData(faceLabelPtr->GetName(), faceLabelPtr);
m->addFaceData(triNormalsPtr->GetName(), triNormalsPtr);
/* Let the GUI know we are done with this filter */
notifyStatusMessage("Complete");
}