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dumper_paraview.cc
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dumper_paraview.cc
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/**
* @file dumper_paraview.cc
*
* @author Guillaume Anciaux <guillaume.anciaux@epfl.ch>
* @author David Simon Kammer <david.kammer@epfl.ch>
*
* @date creation: Thu Mar 11 2010
* @date last modification: Mon Jun 10 2013
*
* @brief implementation of the paraview dumper
*
*
* Copyright (©) 2010-2012, 2014 EPFL (Ecole Polytechnique Fédérale de Lausanne)
* Laboratory (LSMS - Laboratoire de Simulation en Mécanique des Solides)
*
* IOHelper is free software: you can redistribute it and/or modify it under the
* terms of the GNU Lesser General Public License as published by the Free
* Software Foundation, either version 3 of the License, or (at your option) any
* later version.
*
* IOHelper is distributed in the hope that it will be useful, but WITHOUT ANY
* WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR
* A PARTICULAR PURPOSE. See the GNU Lesser General Public License for more
* details.
*
* You should have received a copy of the GNU Lesser General Public License
* along with IOHelper. If not, see <http://www.gnu.org/licenses/>.
*
*/
/* -------------------------------------------------------------------------- */
#include <sys/stat.h>
#include <sys/types.h>
#include <string>
#include <iomanip>
#include "dumper_paraview.hh"
#include "file_manager.hh"
/* -------------------------------------------------------------------------- */
namespace iohelper {
/* -------------------------------------------------------------------------- */
/* -------------------------------------------------------------------------- */
#if defined(__INTEL_COMPILER)
/// remark #981: operands are evaluated in unspecified order
#pragma warning ( disable : 981 )
/// remark #383: value copied to temporary, reference to temporary used
#pragma warning ( disable : 383 )
#endif //defined(__INTEL_COMPILER)
/* -------------------------------------------------------------------------- */
DumperParaview::DumperParaview(const std::string & prefix) :
Dumper(prefix), flag_compressed(false) {
mode_offset = 0;
this->mode = BASE64;
this->registerDumpOptions("pvtu", "", ".pvtu", _df_counter);
this->registerDumpOptions("vtu", "", ".vtu", _df_counter | _df_proc_id);
this->registerDumpOptions("pvd", "", ".pvd", _df_no_flag);
}
/* -------------------------------------------------------------------------- */
DumperParaview::~DumperParaview() {
}
/* -------------------------------------------------------------------------- */
void DumperParaview::setConnectivity(int * connectivity,
ElemType element_type,
UInt nb_elem,
int mode) {
Dumper::setConnectivity(connectivity,element_type,nb_elem,mode);
if (connectivity_mode == FORTRAN_MODE) {
mode_offset = -1;
} else {
mode_offset = 0;
}
}
/* -------------------------------------------------------------------------- */
void DumperParaview::setMode(int mode){
Dumper::setMode(mode);
}
/* -------------------------------------------------------------------------- */
void DumperParaview::dump(const std::string & current_name, UInt count) {
Dumper::dump(current_name, count);
File file;
//create directory to the files
iohelper_mkdir(std::string(this->getAbsoluteFolderPath("pvtu")).c_str(), 0755);
//create directory to store the per proc vtus
iohelper_mkdir(std::string(this->getAbsoluteFolderPath("vtu")).c_str(), 0755);
if (my_rank == root_rank){
std::string fname = this->getAbsoluteFilePath(this->getBaseName(),
"pvtu");
file.open(fname);
if (!file.is_open()) IOHELPER_THROW("could not open file " << fname,
_et_file_error);
ParaviewHelper paraHelper(file, this->mode);
std::vector<std::string> vtus;
for (Int i = 0; i < world_size; ++i) {
vtus.push_back(this->getRelativeFilePath(this->getBaseName(), "vtu", i));
}
paraHelper.writePVTU(per_node_data,per_element_data, vtus);
}
//open current file
std::string fullvtuname = this->getAbsoluteFilePath(this->getBaseName(), "vtu");
file.open(fullvtuname, std::fstream::out, flag_compressed);
if (!file.is_open()) IOHELPER_THROW("could not open file " << fullvtuname,
_et_file_error);
ParaviewHelper paraHelper(file, this->mode);
auto pos_it = per_node_data.find("positions");
if (pos_it == per_node_data.end())
IOHELPER_THROW("positions field was not specified",
_et_missing_field);
FieldInterface & positions = *(pos_it->second);
UInt nb_nodes = positions.size();
//connectivity dump
bool point_set_flag = false;
auto conn_it = per_element_data.find("connectivities");
if (conn_it == per_element_data.end()) {
point_set_flag = true;
}
// IOHELPER_THROW("connectivities were not specified",
// _et_missing_field);
FieldInterface * connectivities_ptr = NULL;
if (!point_set_flag){
connectivities_ptr = (conn_it->second);
UInt nb_elems = connectivities_ptr->size();
paraHelper.writeHeader(nb_nodes, nb_elems);
} else {
paraHelper.writeHeader(nb_nodes, 1);
}
FieldInterface & connectivities = *connectivities_ptr;
paraHelper.startDofList(3);
paraHelper.pushPosition(positions);
paraHelper.endDofList();
// start to push info on cells
paraHelper.startCells();
// push connectivities
paraHelper.startCellsConnectivityList();
if (point_set_flag) {
for (UInt i = 0; i < positions.size(); ++i) {
paraHelper.pushDatum(i);
}
} else {
paraHelper.pushConnectivity(connectivities);
}
paraHelper.endCellsConnectivityList();
// build offsets
paraHelper.startCellsoffsetsList();
if (point_set_flag) {
paraHelper.pushDatum(positions.size());
} else {
paraHelper.buildOffsets(connectivities);
}
paraHelper.endCellsoffsetsList();
// push cell types
paraHelper.startCellstypesList();
if (point_set_flag) {
paraHelper.pushDatum(POINT_SET);
} else {
auto elty_it = per_element_data.find("element_type");
if (elty_it != per_element_data.end()) {
paraHelper.pushField(*(elty_it->second));
} else {
paraHelper.pushElemType(connectivities);
}
}
paraHelper.endCellstypesList();
//close cell section
paraHelper.endCells();
//! add data fields
paraHelper.pushDataFields(per_node_data, per_element_data);
paraHelper.write_conclusion();
file.close();
if(my_rank == root_rank) {
if(write_time_desc_file) {
this->pvtu_file_names.push_back(std::make_pair(current_time,
this->getRelativeFilePath(this->getBaseName(),
"pvtu")));
ParaviewHelper::writeTimePVD(this->getAbsoluteFilePath(this->time_description_file_name, "pvd"),
this->pvtu_file_names);
current_time += time_step;
}
}
this->incDumpStep();
}
/* -------------------------------------------------------------------------- */
void DumperParaview::setVTUSubDirectory(const std::string & sub){
this->getDumpOptions("vtu").setFolder(sub);
}
/* -------------------------------------------------------------------------- */
}

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