// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
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 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;
}
// -----------------------------------------------------------------------------
//
// -----------------------------------------------------------------------------
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 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;
}