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//
// Software License for AMDiS
//
// Copyright (c) 2010 Dresden University of Technology
// All rights reserved.
// Authors: Simon Vey, Thomas Witkowski et al.
//
// This file is part of AMDiS
//
// See also license.opensource.txt in the distribution.
/** \file VtkVectorWriter.hh */
#ifndef AMDIS_VTKVECTORWRITER_HH
#define AMDIS_VTKVECTORWRITER_HH
#include <list>
#include <vector>
#include "DOFVector.h"
#include <stdio.h>
#include <string>
#include <fstream>
#include <sstream>
#include <cmath>
#include <boost/filesystem/operations.hpp>
#include <boost/filesystem/convenience.hpp>
#include <boost/lexical_cast.hpp>
#ifdef HAVE_PARALLEL_DOMAIN_AMDIS
#include <mpi.h>
#endif
#include "DataCollector.h"
#include "SurfaceRegion_ED.h"
#include "ElementRegion_ED.h"
namespace AMDiS {
template<typename S>
int VtkVectorWriter::Impl<S>::writeFile(std::string name)
{
FUNCNAME("VtkVectorWriter::Impl<S>::writeFile()");
boost::iostreams::filtering_ostream file;
switch (compress) {
case GZIP:
file.push(boost::iostreams::gzip_compressor());
name.append(".gz");
break;
case BZIP2:
file.push(boost::iostreams::bzip2_compressor());
name.append(".bz2");
break;
default:
break;
}
{
std::ofstream swapfile(name.c_str(), std::ios::out | std::ios::trunc);
TEST_EXIT(swapfile.is_open())
("Cannot open file %s for writing!\n", name.c_str());
swapfile.close();
}
file.push(boost::iostreams::file_descriptor_sink(name, std::ios::trunc));
writeFileToStream(file);
return 0;
}
template<typename S>
void VtkVectorWriter::Impl<S>::writeParallelFile(std::string name, int nRanks,
std::string fnPrefix, std::string fnPostfix)
{
FUNCNAME("VtkVectorWriter::Impl<S>::writeParallelFile()");
boost::iostreams::filtering_ostream file;
{
std::ofstream swapfile(name.c_str(), std::ios::out | std::ios::trunc);
TEST_EXIT(swapfile.is_open())
("Cannot open file %s for writing!\n", name.c_str());
swapfile.close();
}
file.push(boost::iostreams::file_descriptor_sink(name, std::ios::trunc));
file << "<?xml version=\"1.0\"?>\n";
file << "<VTKFile type=\"PUnstructuredGrid\">\n";
file << " <PUnstructuredGrid GhostLevel=\"0\">\n";
file << " <PPoints>\n"
<< " <PDataArray type=\"Float32\" NumberOfComponents=\"3\" format=\"ascii\"/>\n"
<< " </PPoints>\n";
file << " <PCells>\n"
<< " <PDataArray type=\"Int32\" Name=\"offsets\"/>\n"
<< " <PDataArray type=\"UInt8\" Name=\"types\"/>\n"
<< " <PDataArray type=\"Int32\" Name=\"connectivity\"/>\n"
<< " </PCells>\n";
file << " <PPointData>\n";
for (int i = 0; i < static_cast<int>(dataCollector->size()); i++)
file << " <PDataArray type=\"Float32\" Name=\"value"
<< i << "\" format=\"ascii\"/>\n";
file << " </PPointData>\n";
for (int i = 0; i < nRanks; i++) {
std::stringstream oss;
oss << fnPrefix << "-p" << i << "-" << fnPostfix;
boost::filesystem::path filepath(oss.str());
file << " <Piece Source=\""
<< boost::filesystem::basename(filepath)
<< boost::filesystem::extension(filepath) << "\"/>\n";
}
file << " </PUnstructuredGrid>\n";
file << "</VTKFile>\n";
}
template<typename S> template<typename T>
void VtkVectorWriter::Impl<S>::writeFileToStream(T &file)
{
int nVertices = (*dataCollector)[0]->getNumberVertices();
int nElements = (*dataCollector)[0]->getNumberElements();
int vertices = (*dataCollector)[0]->getMesh()->getGeo(VERTEX);
if ((dim == 2) && (degree == 2)) {
nVertices += (*dataCollector)[0]->getNumberInterpPoints();
nElements *= 4;
} else if ((dim == 2) && (degree == 3)) {
nVertices += (*dataCollector)[0]->getNumberInterpPoints();
nElements *= 9;
} else if ((dim == 2) && (degree == 4)) {
nVertices += (*dataCollector)[0]->getNumberInterpPoints();
nElements *= 16;
}
file << "<?xml version=\"1.0\"?>\n";
file << "<VTKFile type=\"UnstructuredGrid\" version=\"0.1\" byte_order=\"LittleEndian\">\n";
file << " <UnstructuredGrid>\n";
file << " <Piece NumberOfPoints=\"" << nVertices
<< "\" NumberOfCells=\"" << nElements << "\">\n";
file << " <Points>\n";
file << " <DataArray type=\"Float32\" NumberOfComponents=\"3\" format=\"ascii\">\n";
writeVertexCoords(file);
file << " </DataArray>\n";
file << " </Points>\n";
file << " <Cells>\n";
file << " <DataArray type=\"Int32\" Name=\"offsets\">\n";
for (int i = 0; i < nElements; i++)
file << " " << (i + 1) * vertices << "\n";
file << " </DataArray>\n";
file << " <DataArray type=\"UInt8\" Name=\"types\">\n";
for (int i = 0; i < nElements; i++) {
switch (vertices) {
case 2:
file << " 3\n";
break;
case 3:
file << " 5\n";
break;
case 4:
file << " 10\n";
break;
default:
break;
}
}
file << " </DataArray>\n";
file << " <DataArray type=\"Int32\" Name=\"connectivity\">\n";
writeConnectivity(file);
file << " </DataArray>\n";
file << " </Cells>\n";
file << " <PointData>\n";
for (int i = 0; i < static_cast<int>(dataCollector->size()); i++) {
S temp = (*((*dataCollector)[i]->getValues()))[0];
int numComponent = num_rows(temp);
std::string name = (*dataCollector)[i]->getValues()->getName();
if (name.find_first_not_of(" \n\r\t") == std::string::npos)
name = "value" + boost::lexical_cast<std::string>(i);
file << " <DataArray type=\"Float32\" Name=\""
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<< "\" format=\"ascii\"" << (numComponent > 1 ? " NumberOfComponents=\"" + boost::lexical_cast<std::string>(numComponent) + "\"" : "") << ">\n";
writeVertexValues(file, i);
file << " </DataArray>\n";
}
file << " </PointData>\n";
file << " </Piece>\n";
file << " </UnstructuredGrid>\n";
file << "</VTKFile>\n";
} //
template<typename S> template<typename T>
void VtkVectorWriter::Impl<S>::writeVertexCoords(T &file)
{
DOFVector< std::list<VertexInfo> > *vertexInfos =
(*dataCollector)[0]->getVertexInfos();
DOFVector< std::list<VertexInfo> >::Iterator it(vertexInfos, USED_DOFS);
int counter = 0;
// For all DOFs of vertices, write the coordinates.
for (it.reset(); !it.end(); ++it) {
// for all vertex infos of this DOF
for (std::list<VertexInfo>::iterator it2 = it->begin(); it2 != it->end(); ++it2) {
it2->outputIndex = counter++;
writeCoord(file, it2->coords);
}
}
// For the second dim case, write also the interpolation points.
if ((dim == 2) && (degree > 1)) {
DOFVector< std::list< WorldVector<double> > > *interpPointCoords = (*dataCollector)[0]->getInterpPointCoords();
DOFVector< std::list< WorldVector<double> > >::Iterator pointIt(interpPointCoords, USED_DOFS);
counter = 0;
for (pointIt.reset(); !pointIt.end(); ++pointIt) {
for (std::list< WorldVector<double> >::iterator it2 = pointIt->begin();
it2 != pointIt->end(); ++it2) {
counter++;
writeCoord(file, *it2);
}
}
}
}
template<typename S> template<typename T>
void VtkVectorWriter::Impl<S>::writeVertexValues(T &file, int componentNo)
{
DOFVector<int> *interpPointInd = (*dataCollector)[componentNo]->getInterpPointInd();
DOFVector<S> *values = (*dataCollector)[componentNo]->getValues();
DOFVector< std::list<WorldVector<double> > > *dofCoords = (*dataCollector)[componentNo]->getDofCoords();
DOFVector<int>::Iterator intPointIt(interpPointInd, USED_DOFS);
typename DOFVector<S>::Iterator valueIt(values, USED_DOFS);
DOFVector< std::list<WorldVector<double> > >::Iterator coordIt(dofCoords, USED_DOFS);
file << std::scientific;
file.precision(5);
// Write the values for all vertex DOFs.
for (intPointIt.reset(), valueIt.reset(), coordIt.reset();
!intPointIt.end();
++intPointIt, ++valueIt, ++coordIt) {
if (*intPointIt == -2)
for (int i = 0; i < static_cast<int>(coordIt->size()); i++) {
file << " " ;
print(*valueIt,file);
file << "\n";
}
}
// For the second dim case, write also the values of the interpolation points.
if ((dim == 2) && (degree > 1)) {
DOFVector< std::list<WorldVector<double> > >::Iterator
interpCoordIt((*dataCollector)[componentNo]->getInterpPointCoords(), USED_DOFS);
for (intPointIt.reset(), valueIt.reset(), interpCoordIt.reset();
!intPointIt.end();
++intPointIt, ++valueIt, ++interpCoordIt) {
if (*intPointIt >= 0) {
for (unsigned int i = 0; i < interpCoordIt->size(); i++) {
file << " ";
print(*valueIt,file);
file << "\n";
}
}
}
}
}
template<typename S> template<typename T>
void VtkVectorWriter::Impl<S>::writeConnectivity(T &file)
{
// For the second dim case, and if higher order Lagrange elements are used,
// write the connectivity by extra functions.
if ((dim == 2) && (degree == 2)) {
writeConnectivity_dim2_degree2(file);
} else if ((dim == 2) && (degree == 3)) {
writeConnectivity_dim2_degree3(file);
} else if ((dim == 2) && (degree == 4)) {
writeConnectivity_dim2_degree4(file);
} else {
std::list<ElementInfo> *elements = (*dataCollector)[0]->getElementInfos();
std::list<ElementInfo>::iterator elementIt;
int vertices = (*dataCollector)[0]->getMesh()->getGeo(VERTEX);
for (elementIt = elements->begin(); elementIt != elements->end(); ++elementIt) {
// for all vertices
for (int i = 0; i < vertices; i++) {
file << " " << elementIt->vertexInfo[i]->outputIndex;
}
file << "\n";
}
}
}
template<typename S> template<typename T>
void VtkVectorWriter::Impl<S>::writeConnectivity_dim2_degree2(T &file)
{
std::list<ElementInfo> *elements = (*dataCollector)[0]->getElementInfos();
std::list<ElementInfo>::iterator elementIt;
std::vector< std::vector<int> > *interpPoints = (*dataCollector)[0]->getInterpPoints();
std::vector< std::vector<int> >::iterator pointIt;
int nVertices = (*dataCollector)[0]->getNumberVertices();
for (pointIt = interpPoints->begin(), elementIt = elements->begin();
pointIt != interpPoints->end();
++pointIt, ++elementIt) {
file << " " << elementIt->vertexInfo[0]->outputIndex
<< " " << (*pointIt)[1] + nVertices
<< " " << (*pointIt)[2] + nVertices << "\n";
file << " " << elementIt->vertexInfo[2]->outputIndex
<< " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[1] + nVertices << "\n";
file << " " << elementIt->vertexInfo[1]->outputIndex
<< " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[2] + nVertices << "\n";
file << " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[1] + nVertices
<< " " << (*pointIt)[2] + nVertices << "\n";
}
}
template<typename S> template<typename T>
void VtkVectorWriter::Impl<S>::writeConnectivity_dim2_degree3(T &file)
{
std::list<ElementInfo> *elements = (*dataCollector)[0]->getElementInfos();
std::list<ElementInfo>::iterator elementIt;
std::vector< std::vector<int> > *interpPoints = (*dataCollector)[0]->getInterpPoints();
std::vector< std::vector<int> >::iterator pointIt;
int nVertices = (*dataCollector)[0]->getNumberVertices();
for (pointIt = interpPoints->begin(), elementIt = elements->begin();
pointIt != interpPoints->end();
++pointIt, ++elementIt) {
file << " " << elementIt->vertexInfo[0]->outputIndex
<< " " << (*pointIt)[3] + nVertices
<< " " << (*pointIt)[4] + nVertices << "\n";
file << " " << (*pointIt)[4] + nVertices
<< " " << (*pointIt)[5] + nVertices
<< " " << (*pointIt)[6] + nVertices << "\n";
file << " " << (*pointIt)[3] + nVertices
<< " " << (*pointIt)[4] + nVertices
<< " " << (*pointIt)[6] + nVertices << "\n";
file << " " << (*pointIt)[2] + nVertices
<< " " << (*pointIt)[3] + nVertices
<< " " << (*pointIt)[6] + nVertices << "\n";
file << " " << elementIt->vertexInfo[1]->outputIndex
<< " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[5] + nVertices << "\n";
file << " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[6] + nVertices
<< " " << (*pointIt)[5] + nVertices << "\n";
file << " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[1] + nVertices
<< " " << (*pointIt)[6] + nVertices << "\n";
file << " " << (*pointIt)[1] + nVertices
<< " " << (*pointIt)[2] + nVertices
<< " " << (*pointIt)[6] + nVertices << "\n";
file << " " << elementIt->vertexInfo[2]->outputIndex
<< " " << (*pointIt)[1] + nVertices
<< " " << (*pointIt)[2] + nVertices << "\n";
}
}
template<typename S> template<typename T>
void VtkVectorWriter::Impl<S>::writeConnectivity_dim2_degree4(T &file)
{
std::list<ElementInfo> *elements = (*dataCollector)[0]->getElementInfos();
std::list<ElementInfo>::iterator elementIt;
std::vector< std::vector<int> > *interpPoints = (*dataCollector)[0]->getInterpPoints();
std::vector< std::vector<int> >::iterator pointIt;
int nVertices = (*dataCollector)[0]->getNumberVertices();
for (pointIt = interpPoints->begin(), elementIt = elements->begin();
pointIt != interpPoints->end();
++pointIt, ++elementIt) {
file << " " << elementIt->vertexInfo[0]->outputIndex
<< " " << (*pointIt)[5] + nVertices
<< " " << (*pointIt)[6] + nVertices << "\n";
file << " " << (*pointIt)[5] + nVertices
<< " " << (*pointIt)[9] + nVertices
<< " " << (*pointIt)[6] + nVertices << "\n";
file << " " << (*pointIt)[6] + nVertices
<< " " << (*pointIt)[7] + nVertices
<< " " << (*pointIt)[9] + nVertices << "\n";
file << " " << (*pointIt)[7] + nVertices
<< " " << (*pointIt)[9] + nVertices
<< " " << (*pointIt)[10] + nVertices << "\n";
file << " " << (*pointIt)[7] + nVertices
<< " " << (*pointIt)[8] + nVertices
<< " " << (*pointIt)[10] + nVertices << "\n";
file << " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[8] + nVertices
<< " " << (*pointIt)[10] + nVertices << "\n";
file << " " << elementIt->vertexInfo[1]->outputIndex
<< " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[8] + nVertices << "\n";
file << " " << (*pointIt)[4] + nVertices
<< " " << (*pointIt)[5] + nVertices
<< " " << (*pointIt)[9] + nVertices << "\n";
file << " " << (*pointIt)[4] + nVertices
<< " " << (*pointIt)[9] + nVertices
<< " " << (*pointIt)[11] + nVertices << "\n";
file << " " << (*pointIt)[9] + nVertices
<< " " << (*pointIt)[10] + nVertices
<< " " << (*pointIt)[11] + nVertices << "\n";
file << " " << (*pointIt)[1] + nVertices
<< " " << (*pointIt)[10] + nVertices
<< " " << (*pointIt)[11] + nVertices << "\n";
file << " " << (*pointIt)[0] + nVertices
<< " " << (*pointIt)[1] + nVertices
<< " " << (*pointIt)[10] + nVertices << "\n";
file << " " << (*pointIt)[3] + nVertices
<< " " << (*pointIt)[4] + nVertices
<< " " << (*pointIt)[11] + nVertices << "\n";
file << " " << (*pointIt)[2] + nVertices
<< " " << (*pointIt)[3] + nVertices
<< " " << (*pointIt)[11] + nVertices << "\n";
file << " " << (*pointIt)[1] + nVertices
<< " " << (*pointIt)[2] + nVertices
<< " " << (*pointIt)[11] + nVertices << "\n";
file << " " << elementIt->vertexInfo[2]->outputIndex
<< " " << (*pointIt)[2] + nVertices
<< " " << (*pointIt)[3] + nVertices << "\n";
}
}
}
Thomas Witkowski
committed
#endif // AMDIS_VTKVECTORWRITER_HH