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GModelIO_Mesh.cpp 90.89 KiB
// Gmsh - Copyright (C) 1997-2009 C. Geuzaine, J.-F. Remacle
//
// See the LICENSE.txt file for license information. Please report all
// bugs and problems to <gmsh@geuz.org>.
#include <stdlib.h>
#include <string.h>
#include <map>
#include <string>
#include "GModel.h"
#include "GmshDefines.h"
#include "MPoint.h"
#include "MLine.h"
#include "MTriangle.h"
#include "MQuadrangle.h"
#include "MTetrahedron.h"
#include "MHexahedron.h"
#include "MPrism.h"
#include "MPyramid.h"
#include "SBoundingBox3d.h"
#include "StringUtils.h"
#include "GmshMessage.h"
#include "discreteVertex.h"
#include "discreteEdge.h"
#include "discreteFace.h"
#include "discreteRegion.h"
#include "MElement.h"
#include "GEdgeCompound.h"
#include "GFaceCompound.h"
#include <iostream> // DBG
static void storePhysicalTagsInEntities(GModel *m, int dim,
std::map<int, std::map<int, std::string> > &map)
{
std::map<int, std::map<int, std::string> >::const_iterator it = map.begin();
for(; it != map.end(); ++it){
GEntity *ge = 0;
switch(dim){
case 0: ge = m->getVertexByTag(it->first); break;
case 1: ge = m->getEdgeByTag(it->first); break;
case 2: ge = m->getFaceByTag(it->first); break;
case 3: ge = m->getRegionByTag(it->first); break;
}
if(ge){
std::map<int, std::string>::const_iterator it2 = it->second.begin();
for(; it2 != it->second.end(); ++it2){
if(std::find(ge->physicals.begin(), ge->physicals.end(), it2->first) ==
ge->physicals.end())
ge->physicals.push_back(it2->first);
}
}
}
}
static bool getVertices(int num, int *indices, std::map<int, MVertex*> &map,
std::vector<MVertex*> &vertices)
{
for(int i = 0; i < num; i++){
if(!map.count(indices[i])){
Msg::Error("Wrong vertex index %d", indices[i]);
return false;
}
else
vertices.push_back(map[indices[i]]);
}
return true;
}
static bool getVertices(int num, int *indices, std::vector<MVertex*> &vec, std::vector<MVertex*> &vertices)
{
for(int i = 0; i < num; i++){
if(indices[i] < 0 || indices[i] > (int)(vec.size() - 1)){
Msg::Error("Wrong vertex index %d", indices[i]);
return false;
}
else
vertices.push_back(vec[indices[i]]);
}
return true;
}
static void createElementMSH(GModel *m, int num, int type, int physical,
int reg, int part, std::vector<MVertex*> &v,
std::map<int, std::vector<MElement*> > elements[8],
std::map<int, std::map<int, std::string> > physicals[4])
{
MElementFactory factory;
MElement *e = factory.create(type, v, num, part);
if(!e){
Msg::Error("Unknown type of element %d", type);
return;
}
switch(e->getNumEdges()){
case 0 : elements[0][reg].push_back(e); break;
case 1 : elements[1][reg].push_back(e); break;
case 3 : elements[2][reg].push_back(e); break;
case 4 : elements[3][reg].push_back(e); break;
case 6 : elements[4][reg].push_back(e); break;
case 12 : elements[5][reg].push_back(e); break;
case 9 : elements[6][reg].push_back(e); break;
case 8 : elements[7][reg].push_back(e); break;
default : Msg::Error("Wrong number of edges in element"); return;
}
int dim = e->getDim();
if(physical && (!physicals[dim].count(reg) || !physicals[dim][reg].count(physical)))
physicals[dim][reg][physical] = "unnamed";
if(part) m->getMeshPartitions().insert(part);
}
int GModel::readMSH(const std::string &name)
{
FILE *fp = fopen(name.c_str(), "rb");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
char str[256] = "XXX";
double version = 1.0;
bool binary = false, swap = false, postpro = false;
std::map<int, std::vector<MElement*> > elements[8];
std::map<int, std::map<int, std::string> > physicals[4];
std::map<int, MVertex*> vertexMap;
std::vector<MVertex*> vertexVector;
while(1) {
while(str[0] != '$'){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
}
if(feof(fp))
break;
if(!strncmp(&str[1], "MeshFormat", 10)) {
if(!fgets(str, sizeof(str), fp)) return 0;
int format, size;
if(sscanf(str, "%lf %d %d", &version, &format, &size) != 3) return 0;
if(format){
binary = true;
Msg::Info("Mesh is in binary format");
int one;
if(fread(&one, sizeof(int), 1, fp) != 1) return 0;
if(one != 1){
swap = true;
Msg::Info("Swapping bytes from binary file");
}
}
}
else if(!strncmp(&str[1], "PhysicalNames", 13)) {
if(!fgets(str, sizeof(str), fp)) return 0;
int numNames;
if(sscanf(str, "%d", &numNames) != 1) return 0;
for(int i = 0; i < numNames; i++) {
int dim = -1, num;
if(version > 2.0){
if(fscanf(fp, "%d", &dim) != 1) return 0;
}
if(fscanf(fp, "%d", &num) != 1) return 0;
if(!fgets(str, sizeof(str), fp)) return 0;
std::string name = ExtractDoubleQuotedString(str, 256);
if(name.size()) setPhysicalName(name, dim, num);
}
}
else if(!strncmp(&str[1], "NO", 2) || !strncmp(&str[1], "Nodes", 5) ||
!strncmp(&str[1], "ParametricNodes", 15)) {
const bool parametric = !strncmp(&str[1], "ParametricNodes", 15);
if(!fgets(str, sizeof(str), fp)) return 0;
int numVertices;
if(sscanf(str, "%d", &numVertices) != 1) return 0;
Msg::Info("%d vertices", numVertices);
Msg::ResetProgressMeter();
vertexVector.clear();
vertexMap.clear();
int minVertex = numVertices + 1, maxVertex = -1;
for(int i = 0; i < numVertices; i++) {
int num;
double xyz[3], uv[2];
MVertex *newVertex = 0;
if (!parametric){
if(!binary){
if (fscanf(fp, "%d %lf %lf %lf", &num, &xyz[0], &xyz[1], &xyz[2]) != 4)
return 0;
}
else{
if(fread(&num, sizeof(int), 1, fp) != 1) return 0;
if(swap) SwapBytes((char*)&num, sizeof(int), 1);
if(fread(xyz, sizeof(double), 3, fp) != 3) return 0;
if(swap) SwapBytes((char*)xyz, sizeof(double), 3);
}
newVertex = new MVertex(xyz[0], xyz[1], xyz[2], 0, num);
}
else{
int iClasDim, iClasTag;
if(!binary){
if (fscanf(fp, "%d %lf %lf %lf %d %d", &num, &xyz[0], &xyz[1], &xyz[2],
&iClasDim, &iClasTag) != 6)
return 0; }
else{
if(fread(&num, sizeof(int), 1, fp) != 1) return 0;
if(swap) SwapBytes((char*)&num, sizeof(int), 1);
if(fread(xyz, sizeof(double), 3, fp) != 3) return 0;
if(swap) SwapBytes((char*)xyz, sizeof(double), 3);
if(fread(&iClasDim, sizeof(int), 1, fp) != 1) return 0;
if(swap) SwapBytes((char*)&iClasDim, sizeof(int), 1);
if(fread(&iClasTag, sizeof(int), 1, fp) != 1) return 0;
if(swap) SwapBytes((char*)&iClasTag, sizeof(int), 1);
}
if (iClasDim == 0){
GVertex *gv = getVertexByTag(iClasTag);
if (gv) gv->deleteMesh();
newVertex = new MVertex(xyz[0], xyz[1], xyz[2], gv, num);
}
else if (iClasDim == 1){
GEdge *ge = getEdgeByTag(iClasTag);
if(!binary){
if (fscanf(fp, "%lf", &uv[0]) != 1) return 0;
}
else{
if(fread(uv, sizeof(double), 1, fp) != 1) return 0;
if(swap) SwapBytes((char*)uv, sizeof(double), 1);
}
newVertex = new MEdgeVertex(xyz[0], xyz[1], xyz[2], ge, uv[0], -1.0, num);
}
else if (iClasDim == 2){
GFace *gf = getFaceByTag(iClasTag);
if(!binary){
if (fscanf(fp, "%lf %lf", &uv[0], &uv[1]) != 2) return 0;
}
else{
if(fread(uv, sizeof(double), 2, fp) != 2) return 0;
if(swap) SwapBytes((char*)uv, sizeof(double), 2);
}
newVertex = new MFaceVertex(xyz[0], xyz[1], xyz[2], gf, uv[0], uv[1], num);
}
else if (iClasDim == 3){
GRegion *gr = getRegionByTag(iClasTag);
newVertex = new MVertex(xyz[0], xyz[1], xyz[2], gr, num);
}
}
minVertex = std::min(minVertex, num);
maxVertex = std::max(maxVertex, num);
if(vertexMap.count(num))
Msg::Warning("Skipping duplicate vertex %d", num);
vertexMap[num] = newVertex;
if(numVertices > 100000)
Msg::ProgressMeter(i + 1, numVertices, "Reading nodes");
}
// If the vertex numbering is dense, tranfer the map into a
// vector to speed up element creation
if((int)vertexMap.size() == numVertices &&
((minVertex == 1 && maxVertex == numVertices) ||
(minVertex == 0 && maxVertex == numVertices - 1))){
Msg::Info("Vertex numbering is dense");
vertexVector.resize(vertexMap.size() + 1);
if(minVertex == 1)
vertexVector[0] = 0;
else
vertexVector[numVertices] = 0;
std::map<int, MVertex*>::const_iterator it = vertexMap.begin();
for(; it != vertexMap.end(); ++it)
vertexVector[it->first] = it->second;
vertexMap.clear();
}
}
else if(!strncmp(&str[1], "ELM", 3) || !strncmp(&str[1], "Elements", 8)) {
if(!fgets(str, sizeof(str), fp)) return 0;
int numElements;
sscanf(str, "%d", &numElements);
Msg::Info("%d elements", numElements);
Msg::ResetProgressMeter();
if(!binary){
for(int i = 0; i < numElements; i++) {
int num, type, physical = 0, elementary = 0, partition = 0, numVertices;
if(version <= 1.0){
fscanf(fp, "%d %d %d %d %d", &num, &type, &physical, &elementary, &numVertices);
if(numVertices != MElement::getInfoMSH(type)) return 0;
}
else{
int numTags;
fscanf(fp, "%d %d %d", &num, &type, &numTags);
for(int j = 0; j < numTags; j++){
int tag;
fscanf(fp, "%d", &tag);
if(j == 0) physical = tag;
else if(j == 1) elementary = tag;
else if(j == 2) partition = tag;
// ignore any other tags for now
}
if(!(numVertices = MElement::getInfoMSH(type))) return 0;
}
int indices[60];
for(int j = 0; j < numVertices; j++) fscanf(fp, "%d", &indices[j]);
std::vector<MVertex*> vertices;
if(vertexVector.size()){
if(!getVertices(numVertices, indices, vertexVector, vertices)) return 0;
}
else{
if(!getVertices(numVertices, indices, vertexMap, vertices)) return 0;
}
createElementMSH(this, num, type, physical, elementary, partition,
vertices, elements, physicals);
if(numElements > 100000)
Msg::ProgressMeter(i + 1, numElements, "Reading elements");
}
}
else{
int numElementsPartial = 0;
while(numElementsPartial < numElements){
int header[3];
if(fread(header, sizeof(int), 3, fp) != 3) return 0;
if(swap) SwapBytes((char*)header, sizeof(int), 3);
int type = header[0];
int numElms = header[1];
int numTags = header[2];
int numVertices = MElement::getInfoMSH(type);
unsigned int n = 1 + numTags + numVertices;
int *data = new int[n];
for(int i = 0; i < numElms; i++) {
if(fread(data, sizeof(int), n, fp) != n) return 0;
if(swap) SwapBytes((char*)data, sizeof(int), n);
int num = data[0];
int physical = (numTags > 0) ? data[4 - numTags] : 0;
int elementary = (numTags > 1) ? data[4 - numTags + 1] : 0;
int partition = (numTags > 2) ? data[4 - numTags + 2] : 0;
int *indices = &data[numTags + 1];
std::vector<MVertex*> vertices;
if(vertexVector.size()){
if(!getVertices(numVertices, indices, vertexVector, vertices)) return 0;
}
else{
if(!getVertices(numVertices, indices, vertexMap, vertices)) return 0;
}
createElementMSH(this, num, type, physical, elementary, partition,
vertices, elements, physicals); if(numElements > 100000)
Msg::ProgressMeter(numElementsPartial + i + 1, numElements,
"Reading elements");
}
delete [] data;
numElementsPartial += numElms;
}
}
}
else if(!strncmp(&str[1], "NodeData", 8)) {
// there's some nodal post-processing data to read later on, so
// cache the vertex indexing data
if(vertexVector.size())
_vertexVectorCache = vertexVector;
else
_vertexMapCache = vertexMap;
postpro = true;
break;
}
else if(!strncmp(&str[1], "ElementData", 11) ||
!strncmp(&str[1], "ElementNodeData", 15)) {
// there's some element post-processing data to read later on
postpro = true;
break;
}
do {
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
} while(str[0] != '$');
}
// store the elements in their associated elementary entity. If the
// entity does not exist, create a new (discrete) one.
for(int i = 0; i < (int)(sizeof(elements) / sizeof(elements[0])); i++)
_storeElementsInEntities(elements[i]);
// associate the correct geometrical entity with each mesh vertex
_associateEntityWithMeshVertices();
// store the vertices in their associated geometrical entity
if(vertexVector.size())
_storeVerticesInEntities(vertexVector);
else
_storeVerticesInEntities(vertexMap);
// store the physical tags
for(int i = 0; i < 4; i++)
storePhysicalTagsInEntities(this, i, physicals[i]);
fclose(fp);
return postpro ? 2 : 1;
}
static void writeElementHeaderMSH(bool binary, FILE *fp, std::map<int,int> &elements,
int t1, int t2=0, int t3=0, int t4=0,
int t5=0, int t6=0, int t7=0, int t8=0)
{
if(!binary) return;
int numTags = 3;
int data[3];
if(elements.count(t1)){
data[0] = t1; data[1] = elements[t1]; data[2] = numTags; fwrite(data, sizeof(int), 3, fp);
}
else if(t2 && elements.count(t2)){
data[0] = t2; data[1] = elements[t2]; data[2] = numTags;
fwrite(data, sizeof(int), 3, fp);
}
else if(t3 && elements.count(t3)){
data[0] = t3; data[1] = elements[t3]; data[2] = numTags;
fwrite(data, sizeof(int), 3, fp);
}
else if(t4 && elements.count(t4)){
data[0] = t4; data[1] = elements[t4]; data[2] = numTags;
fwrite(data, sizeof(int), 3, fp);
}
else if(t5 && elements.count(t5)){
data[0] = t5; data[1] = elements[t5]; data[2] = numTags;
fwrite(data, sizeof(int), 3, fp);
}
else if(t6 && elements.count(t6)){
data[0] = t6; data[1] = elements[t6]; data[2] = numTags;
fwrite(data, sizeof(int), 3, fp);
}
else if(t7 && elements.count(t7)){
data[0] = t7; data[1] = elements[t7]; data[2] = numTags;
fwrite(data, sizeof(int), 3, fp);
}
else if(t8 && elements.count(t8)){
data[0] = t8; data[1] = elements[t8]; data[2] = numTags;
fwrite(data, sizeof(int), 3, fp);
}
}
template<class T>
static void writeElementsMSH(FILE *fp, const std::vector<T*> &ele, bool saveAll,
double version, bool binary, int &num, int elementary,
std::vector<int> &physicals)
{
for(unsigned int i = 0; i < ele.size(); i++)
if(saveAll)
ele[i]->writeMSH(fp, version, binary, ++num, elementary, 0);
else
for(unsigned int j = 0; j < physicals.size(); j++)
ele[i]->writeMSH(fp, version, binary, ++num, elementary, physicals[j]);
}
int GModel::writeMSH(const std::string &name, double version, bool binary,
bool saveAll, bool saveParametric, double scalingFactor)
{
FILE *fp = fopen(name.c_str(), binary ? "wb" : "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
// if there are no physicals we save all the elements
if(noPhysicalGroups()) saveAll = true;
// get the number of vertices and index the vertices in a continuous
// sequence
int numVertices = indexMeshVertices(saveAll);
// binary format exists only in version 2
if(binary) version = 2.1;
// get the number of elements (we assume that all the elements in a
// list have the same type, i.e., they are all of the same
// polynomial order)
std::map<int, int> elements; for(viter it = firstVertex(); it != lastVertex(); ++it){
int p = (saveAll ? 1 : (*it)->physicals.size());
int n = p * (*it)->points.size();
if(n) elements[(*it)->points[0]->getTypeForMSH()] += n;
}
for(eiter it = firstEdge(); it != lastEdge(); ++it){
int p = (saveAll ? 1 : (*it)->physicals.size());
int n = p * (*it)->lines.size();
if(n) elements[(*it)->lines[0]->getTypeForMSH()] += n;
}
for(fiter it = firstFace(); it != lastFace(); ++it){
int p = (saveAll ? 1 : (*it)->physicals.size());
int n = p * (*it)->triangles.size();
if(n) elements[(*it)->triangles[0]->getTypeForMSH()] += n;
n = p * (*it)->quadrangles.size();
if(n) elements[(*it)->quadrangles[0]->getTypeForMSH()] += n;
}
for(riter it = firstRegion(); it != lastRegion(); ++it){
int p = (saveAll ? 1 : (*it)->physicals.size());
int n = p * (*it)->tetrahedra.size();
if(n) elements[(*it)->tetrahedra[0]->getTypeForMSH()] += n;
n = p * (*it)->hexahedra.size();
if(n) elements[(*it)->hexahedra[0]->getTypeForMSH()] += n;
n = p * (*it)->prisms.size();
if(n) elements[(*it)->prisms[0]->getTypeForMSH()] += n;
n = p * (*it)->pyramids.size();
if(n) elements[(*it)->pyramids[0]->getTypeForMSH()] += n;
}
int numElements = 0;
std::map<int, int>::const_iterator it = elements.begin();
for(; it != elements.end(); ++it)
numElements += it->second;
if(version >= 2.0){
fprintf(fp, "$MeshFormat\n");
fprintf(fp, "%g %d %d\n", version, binary ? 1 : 0, (int)sizeof(double));
if(binary){
int one = 1;
fwrite(&one, sizeof(int), 1, fp);
fprintf(fp, "\n");
}
fprintf(fp, "$EndMeshFormat\n");
if(numPhysicalNames()){
fprintf(fp, "$PhysicalNames\n");
fprintf(fp, "%d\n", numPhysicalNames());
for(piter it = firstPhysicalName(); it != lastPhysicalName(); it++)
fprintf(fp, "%d %d \"%s\"\n", it->first.first, it->first.second,
it->second.c_str());
fprintf(fp, "$EndPhysicalNames\n");
}
if (saveParametric)
fprintf(fp, "$ParametricNodes\n");
else
fprintf(fp, "$Nodes\n");
}
else
fprintf(fp, "$NOD\n");
fprintf(fp, "%d\n", numVertices);
std::vector<GEntity*> entities;
getEntities(entities);
for(unsigned int i = 0; i < entities.size(); i++)
for(unsigned int j = 0; j < entities[i]->mesh_vertices.size(); j++) entities[i]->mesh_vertices[j]->writeMSH(fp, binary, saveParametric,
scalingFactor);
if(binary) fprintf(fp, "\n");
if(version >= 2.0){
if(saveParametric)
fprintf(fp, "$EndParametricNodes\n");
else
fprintf(fp, "$EndNodes\n");
fprintf(fp, "$Elements\n");
}
else{
fprintf(fp, "$ENDNOD\n");
fprintf(fp, "$ELM\n");
}
fprintf(fp, "%d\n", numElements);
int num = 0;
writeElementHeaderMSH(binary, fp, elements, MSH_PNT);
for(viter it = firstVertex(); it != lastVertex(); ++it)
writeElementsMSH(fp, (*it)->points, saveAll, version, binary, num,
(*it)->tag(), (*it)->physicals);
writeElementHeaderMSH
(binary, fp, elements, MSH_LIN_2, MSH_LIN_3, MSH_LIN_4, MSH_LIN_5);
for(eiter it = firstEdge(); it != lastEdge(); ++it)
writeElementsMSH(fp, (*it)->lines, saveAll, version, binary, num,
(*it)->tag(), (*it)->physicals);
writeElementHeaderMSH(binary, fp, elements, MSH_TRI_3, MSH_TRI_6, MSH_TRI_9,
MSH_TRI_10, MSH_TRI_12, MSH_TRI_15, MSH_TRI_15I, MSH_TRI_21);
for(fiter it = firstFace(); it != lastFace(); ++it)
writeElementsMSH(fp, (*it)->triangles, saveAll, version, binary, num,
(*it)->tag(), (*it)->physicals);
writeElementHeaderMSH(binary, fp, elements, MSH_QUA_4, MSH_QUA_9, MSH_QUA_8);
for(fiter it = firstFace(); it != lastFace(); ++it)
writeElementsMSH(fp, (*it)->quadrangles, saveAll, version, binary, num,
(*it)->tag(), (*it)->physicals);
writeElementHeaderMSH(binary, fp, elements, MSH_TET_4, MSH_TET_10, MSH_TET_20,
MSH_TET_35, MSH_TET_56, MSH_TET_52);
for(riter it = firstRegion(); it != lastRegion(); ++it)
writeElementsMSH(fp, (*it)->tetrahedra, saveAll, version, binary, num,
(*it)->tag(), (*it)->physicals);
writeElementHeaderMSH(binary, fp, elements, MSH_HEX_8, MSH_HEX_27, MSH_HEX_20);
for(riter it = firstRegion(); it != lastRegion(); ++it)
writeElementsMSH(fp, (*it)->hexahedra, saveAll, version, binary, num,
(*it)->tag(), (*it)->physicals);
writeElementHeaderMSH(binary, fp, elements, MSH_PRI_6, MSH_PRI_18, MSH_PRI_15);
for(riter it = firstRegion(); it != lastRegion(); ++it)
writeElementsMSH(fp, (*it)->prisms, saveAll, version, binary, num,
(*it)->tag(), (*it)->physicals);
writeElementHeaderMSH(binary, fp, elements, MSH_PYR_5, MSH_PYR_14, MSH_PYR_13);
for(riter it = firstRegion(); it != lastRegion(); ++it)
writeElementsMSH(fp, (*it)->pyramids, saveAll, version, binary, num,
(*it)->tag(), (*it)->physicals);
if(binary) fprintf(fp, "\n");
if(version >= 2.0){
fprintf(fp, "$EndElements\n");
}
else{
fprintf(fp, "$ENDELM\n");
}
fclose(fp);
return 1;
}
int GModel::writePOS(const std::string &name, bool printElementary,
bool printElementNumber, bool printGamma, bool printEta,
bool printRho, bool printDisto, bool saveAll,
double scalingFactor)
{
FILE *fp = fopen(name.c_str(), "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
bool f[6] = {printElementary, printElementNumber, printGamma, printEta, printRho,
printDisto};
bool first = true;
std::string names;
if(f[0]){
if(first) first = false; else names += ",";
names += "\"Elementary Entity\"";
}
if(f[1]){
if(first) first = false; else names += ",";
names += "\"Element Number\"";
}
if(f[2]){
if(first) first = false; else names += ",";
names += "\"Gamma\"";
}
if(f[3]){
if(first) first = false; else names += ",";
names += "\"Eta\"";
}
if(f[4]){
if(first) first = false; else names += ",";
names += "\"Rho\"";
}
if(f[5]){
if(first) first = false; else names += ",";
names += "\"Disto\"";
}
if(names.empty()) return 0;
if(noPhysicalGroups()) saveAll = true;
fprintf(fp, "View \"Statistics\" {\n");
fprintf(fp, "T2(1.e5,30,%d){%s};\n", (1<<16)|(4<<8), names.c_str());
std::vector<GEntity*> entities;
getEntities(entities);
for(unsigned int i = 0; i < entities.size(); i++)
if(saveAll || entities[i]->physicals.size())
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++)
entities[i]->getMeshElement(j)->writePOS
(fp, f[0], f[1], f[2], f[3], f[4], f[5], scalingFactor, entities[i]->tag());
fprintf(fp, "};\n");
fclose(fp);
return 1;
}
int GModel::readSTL(const std::string &name, double tolerance)
{
FILE *fp = fopen(name.c_str(), "rb");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
// store triplets of points for each solid found in the file
std::vector<std::vector<SPoint3> > points;
SBoundingBox3d bbox;
// "solid", or binary data header
char buffer[256];
fgets(buffer, sizeof(buffer), fp);
// workaround for stupid tools which use "solid" to start their
// binary files
if(!strncmp(buffer, "solid 3D-DOCTOR", 15)) buffer[0] = 'z';
if(!strncmp(buffer, "solid binary STL from Solid Edge", 32)) buffer[0] = 'z';
if(!strncmp(buffer, "solid", 5)){
// ASCII STL
points.resize(1);
while(!feof(fp)) {
// "facet normal x y z" or "endsolid"
if(!fgets(buffer, sizeof(buffer), fp)) break;
if(!strncmp(buffer, "endsolid", 8)){
// "solid"
if(!fgets(buffer, sizeof(buffer), fp)) break;
if(!strncmp(buffer, "solid", 5)){
points.resize(points.size() + 1);
// "facet normal x y z"
if(!fgets(buffer, sizeof(buffer), fp)) break;
}
}
// "outer loop"
if(!fgets(buffer, sizeof(buffer), fp)) break;
// "vertex x y z"
for(int i = 0; i < 3; i++){
if(!fgets(buffer, sizeof(buffer), fp)) break;
char s1[256];
double x, y, z;
if(sscanf(buffer, "%s %lf %lf %lf", s1, &x, &y, &z) != 4) break;
SPoint3 p(x, y, z);
points.back().push_back(p);
bbox += p;
}
// "endloop"
if(!fgets(buffer, sizeof(buffer), fp)) break;
// "endfacet"
if(!fgets(buffer, sizeof(buffer), fp)) break;
}
}
else{
// Binary STL
Msg::Info("Mesh is in binary format");
rewind(fp);
while(!feof(fp)) {
char header[80];
if(!fread(header, sizeof(char), 80, fp)) break;
unsigned int nfacets = 0;
size_t ret = fread(&nfacets, sizeof(unsigned int), 1, fp);
bool swap = false;
if(nfacets > 100000000){
Msg::Info("Swapping bytes from binary file");
swap = true;
SwapBytes((char*)&nfacets, sizeof(unsigned int), 1);
}
if(ret && nfacets){
points.resize(points.size() + 1);
char *data = new char[nfacets * 50 * sizeof(char)];
ret = fread(data, sizeof(char), nfacets * 50, fp);
if(ret == nfacets * 50){
for(unsigned int i = 0; i < nfacets; i++) {
float *xyz = (float *)&data[i * 50 * sizeof(char)];
if(swap) SwapBytes((char*)xyz, sizeof(float), 12);
for(int j = 0; j < 3; j++){ SPoint3 p(xyz[3 + 3 * j], xyz[3 + 3 * j + 1], xyz[3 + 3 * j + 2]);
points.back().push_back(p);
bbox += p;
}
}
}
delete data;
}
}
}
std::vector<GFace*> faces;
for(unsigned int i = 0; i < points.size(); i++){
if(points[i].empty()){
Msg::Error("No facets found in STL file for solid %d", i);
return 0;
}
if(points[i].size() % 3){
Msg::Error("Wrong number of points (%d) in STL file for solid %d",
points[i].size(), i);
return 0;
}
Msg::Info("%d facets in solid %d", points[i].size() / 3, i);
// create face
GFace *face = new discreteFace(this, getNumFaces() + 1);
faces.push_back(face);
add(face);
}
// create (unique) vertices and triangles
double lc = norm(SVector3(bbox.max(), bbox.min()));
double old_tol = MVertexLessThanLexicographic::tolerance;
MVertexLessThanLexicographic::tolerance = lc * tolerance;
std::set<MVertex*, MVertexLessThanLexicographic> vertices;
for(unsigned int i = 0; i < points.size(); i ++){
for(unsigned int j = 0; j < points[i].size(); j += 3){
MVertex *v[3];
for(int k = 0; k < 3; k++){
double x = points[i][j + k].x();
double y = points[i][j + k].y();
double z = points[i][j + k].z();
MVertex w(x, y, z);
std::set<MVertex*, MVertexLessThanLexicographic>::iterator it = vertices.find(&w);
if(it != vertices.end()) {
v[k] = *it;
}
else {
v[k] = new MVertex(x, y, z, faces[i]);
vertices.insert(v[k]);
faces[i]->mesh_vertices.push_back(v[k]);
}
}
faces[i]->triangles.push_back(new MTriangle(v[0], v[1], v[2]));
}
}
MVertexLessThanLexicographic::tolerance = old_tol;
fclose(fp);
return 1;
}
int GModel::writeSTL(const std::string &name, bool binary, bool saveAll,
double scalingFactor)
{
FILE *fp = fopen(name.c_str(), binary ? "wb" : "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
if(noPhysicalGroups()) saveAll = true;
if(!binary){
fprintf(fp, "solid Created by Gmsh\n");
}
else{
char header[80];
strncpy(header, "Created by Gmsh", 80);
fwrite(header, sizeof(char), 80, fp);
unsigned int nfacets = 0;
for(fiter it = firstFace(); it != lastFace(); ++it){
if(saveAll || (*it)->physicals.size()){
nfacets += (*it)->triangles.size() + 2 * (*it)->quadrangles.size();
}
}
fwrite(&nfacets, sizeof(unsigned int), 1, fp);
}
for(fiter it = firstFace(); it != lastFace(); ++it) {
if(saveAll || (*it)->physicals.size()){
for(unsigned int i = 0; i < (*it)->triangles.size(); i++)
(*it)->triangles[i]->writeSTL(fp, binary, scalingFactor);
for(unsigned int i = 0; i < (*it)->quadrangles.size(); i++)
(*it)->quadrangles[i]->writeSTL(fp, binary, scalingFactor);
}
}
if(!binary)
fprintf(fp, "endsolid Created by Gmsh\n");
fclose(fp);
return 1;
}
static int skipUntil(FILE *fp, const char *key)
{
char str[256], key_bracket[256];
strcpy(key_bracket, key);
strcat(key_bracket, "[");
while(fscanf(fp, "%s", str)){
if(!strcmp(str, key)){
while(!feof(fp) && fgetc(fp) != '['){}
return 1;
}
if(!strcmp(str, key_bracket)){
return 1;
}
}
return 0;
}
static int readVerticesVRML(FILE *fp, std::vector<MVertex*> &vertexVector,
std::vector<MVertex*> &allVertexVector)
{
double x, y, z;
if(fscanf(fp, "%lf %lf %lf", &x, &y, &z) != 3) return 0;
vertexVector.push_back(new MVertex(x, y, z));
while(fscanf(fp, " , %lf %lf %lf", &x, &y, &z) == 3)
vertexVector.push_back(new MVertex(x, y, z));
for(unsigned int i = 0; i < vertexVector.size(); i++)
allVertexVector.push_back(vertexVector[i]);
Msg::Info("%d vertices", vertexVector.size());
return 1;
}
static int readElementsVRML(FILE *fp, std::vector<MVertex*> &vertexVector, int region,
std::map<int, std::vector<MElement*> > elements[3],
bool strips=false)
{ int i;
std::vector<int> idx;
if(fscanf(fp, "%d", &i) != 1) return 0;
idx.push_back(i);
// check if vertex indices are separated by commas
char tmp[256];
const char *format;
fpos_t position;
fgetpos(fp, &position);
fgets(tmp, sizeof(tmp), fp);
fsetpos(fp, &position);
if(strstr(tmp, ","))
format = " , %d";
else
format = " %d";
while(fscanf(fp, format, &i) == 1){
if(i != -1){
idx.push_back(i);
}
else{
std::vector<MVertex*> vertices;
if(!getVertices(idx.size(), &idx[0], vertexVector, vertices)) return 0;
idx.clear();
if(vertices.size() < 2){
Msg::Info("Skipping %d-vertex element", (int)vertices.size());
}
else if(vertices.size() == 2){
elements[0][region].push_back(new MLine(vertices));
}
else if(vertices.size() == 3){
elements[1][region].push_back(new MTriangle(vertices));
}
else if(!strips && vertices.size() == 4){
elements[2][region].push_back(new MQuadrangle(vertices));
}
else if(strips){ // triangle strip
for(unsigned int j = 2; j < vertices.size(); j++){
if(j % 2)
elements[1][region].push_back
(new MTriangle(vertices[j], vertices[j - 1], vertices[j - 2]));
else
elements[1][region].push_back
(new MTriangle(vertices[j - 2], vertices[j - 1], vertices[j]));
}
}
else{ // import polygon as triangle fan
for(unsigned int j = 2; j < vertices.size(); j++){
elements[1][region].push_back
(new MTriangle(vertices[0], vertices[j-1], vertices[j]));
}
}
}
}
if(idx.size()){
Msg::Error("Prematured end of VRML file");
return 0;
}
Msg::Info("%d elements", elements[0][region].size() +
elements[1][region].size() + elements[2][region].size());
return 1;
}
int GModel::readVRML(const std::string &name)
{
FILE *fp = fopen(name.c_str(), "r");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0; }
// This is by NO means a complete VRML/Inventor parser (but it's
// sufficient for reading simple Inventor files... which is all I
// need)
std::vector<MVertex*> vertexVector, allVertexVector;
std::map<int, std::vector<MElement*> > elements[3];
int region = 0;
char buffer[256], str[256];
while(!feof(fp)) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
if(buffer[0] != '#'){ // skip comments
sscanf(buffer, "%s", str);
if(!strcmp(str, "Coordinate3")){
vertexVector.clear();
if(!skipUntil(fp, "point")) break;
if(!readVerticesVRML(fp, vertexVector, allVertexVector)) break;
}
else if(!strcmp(str, "coord")){
vertexVector.clear();
if(!skipUntil(fp, "point")) break;
if(!readVerticesVRML(fp, vertexVector, allVertexVector)) break;
if(!skipUntil(fp, "coordIndex")) break;
if(!readElementsVRML(fp, vertexVector, region, elements, true)) break;
}
else if(!strcmp(str, "IndexedTriangleStripSet")){
region++;
vertexVector.clear();
if(!skipUntil(fp, "vertex")) break;
if(!readVerticesVRML(fp, vertexVector, allVertexVector)) break;
if(!skipUntil(fp, "coordIndex")) break;
if(!readElementsVRML(fp, vertexVector, region, elements, true)) break;
}
else if(!strcmp(str, "IndexedFaceSet") || !strcmp(str, "IndexedLineSet")){
region++;
if(!skipUntil(fp, "coordIndex")) break;
if(!readElementsVRML(fp, vertexVector, region, elements)) break;
}
else if(!strcmp(str, "DEF")){
char str1[256], str2[256];
if(!sscanf(buffer, "%s %s %s", str1, str2, str)) break;
if(!strcmp(str, "Coordinate")){
vertexVector.clear();
if(!skipUntil(fp, "point")) break;
if(!readVerticesVRML(fp, vertexVector, allVertexVector)) break;
}
else if(!strcmp(str, "IndexedFaceSet") || !strcmp(str, "IndexedLineSet")){
region++;
if(!skipUntil(fp, "coordIndex")) break;
if(!readElementsVRML(fp, vertexVector, region, elements)) break;
}
}
}
}
for(int i = 0; i < (int)(sizeof(elements) / sizeof(elements[0])); i++)
_storeElementsInEntities(elements[i]);
_associateEntityWithMeshVertices();
_storeVerticesInEntities(allVertexVector);
fclose(fp);
return 1;
}
int GModel::writeVRML(const std::string &name, bool saveAll, double scalingFactor)
{
FILE *fp = fopen(name.c_str(), "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0; }
if(noPhysicalGroups()) saveAll = true;
indexMeshVertices(saveAll);
fprintf(fp, "#VRML V1.0 ascii\n");
fprintf(fp, "#created by Gmsh\n");
fprintf(fp, "Coordinate3 {\n");
fprintf(fp, " point [\n");
for(viter it = firstVertex(); it != lastVertex(); ++it)
for(unsigned int i = 0; i < (*it)->mesh_vertices.size(); i++)
(*it)->mesh_vertices[i]->writeVRML(fp, scalingFactor);
for(eiter it = firstEdge(); it != lastEdge(); ++it)
for(unsigned int i = 0; i < (*it)->mesh_vertices.size(); i++)
(*it)->mesh_vertices[i]->writeVRML(fp, scalingFactor);
for(fiter it = firstFace(); it != lastFace(); ++it)
for(unsigned int i = 0; i < (*it)->mesh_vertices.size(); i++)
(*it)->mesh_vertices[i]->writeVRML(fp, scalingFactor);
fprintf(fp, " ]\n");
fprintf(fp, "}\n");
for(eiter it = firstEdge(); it != lastEdge(); ++it){
if(saveAll || (*it)->physicals.size()){
fprintf(fp, "DEF Curve%d IndexedLineSet {\n", (*it)->tag());
fprintf(fp, " coordIndex [\n");
for(unsigned int i = 0; i < (*it)->lines.size(); i++)
(*it)->lines[i]->writeVRML(fp);
fprintf(fp, " ]\n");
fprintf(fp, "}\n");
}
}
for(fiter it = firstFace(); it != lastFace(); ++it){
if(saveAll || (*it)->physicals.size()){
fprintf(fp, "DEF Surface%d IndexedFaceSet {\n", (*it)->tag());
fprintf(fp, " coordIndex [\n");
for(unsigned int i = 0; i < (*it)->triangles.size(); i++)
(*it)->triangles[i]->writeVRML(fp);
for(unsigned int i = 0; i < (*it)->quadrangles.size(); i++)
(*it)->quadrangles[i]->writeVRML(fp);
fprintf(fp, " ]\n");
fprintf(fp, "}\n");
}
}
fclose(fp);
return 1;
}
int GModel::readUNV(const std::string &name)
{
FILE *fp = fopen(name.c_str(), "r");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
char buffer[256];
std::map<int, MVertex*> vertexMap;
std::map<int, std::vector<MElement*> > elements[7];
std::map<int, std::map<int, std::string> > physicals[4];
while(!feof(fp)) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
if(!strncmp(buffer, " -1", 6)){
if(!fgets(buffer, sizeof(buffer), fp)) break;
if(!strncmp(buffer, " -1", 6)) if(!fgets(buffer, sizeof(buffer), fp)) break;
int record = 0;
sscanf(buffer, "%d", &record);
if(record == 2411){ // nodes
while(fgets(buffer, sizeof(buffer), fp)){
if(!strncmp(buffer, " -1", 6)) break;
int num, dum;
if(sscanf(buffer, "%d %d %d %d", &num, &dum, &dum, &dum) != 4) break;
if(!fgets(buffer, sizeof(buffer), fp)) break;
double x, y, z;
for(unsigned int i = 0; i < strlen(buffer); i++)
if(buffer[i] == 'D') buffer[i] = 'E';
if(sscanf(buffer, "%lf %lf %lf", &x, &y, &z) != 3) break;
vertexMap[num] = new MVertex(x, y, z, 0, num);
}
}
else if(record == 2412){ // elements
while(fgets(buffer, sizeof(buffer), fp)){
if(strlen(buffer) < 3) continue; // possible line ending after last fscanf
if(!strncmp(buffer, " -1", 6)) break;
int num, type, elementary, physical, color, numNodes;
if(sscanf(buffer, "%d %d %d %d %d %d", &num, &type, &elementary, &physical,
&color, &numNodes) != 6) break;
if(elementary < 0) elementary = 1;
if(physical < 0) physical = 0;
switch(type){
case 11: case 21: case 22: case 31:
case 23: case 24: case 32:
// beam elements
if(!fgets(buffer, sizeof(buffer), fp)) break;
int dum;
if(sscanf(buffer, "%d %d %d", &dum, &dum, &dum) != 3) break;
break;
}
int n[30];
for(int i = 0; i < numNodes; i++) if(!fscanf(fp, "%d", &n[i])) return 0;
std::vector<MVertex*> vertices;
if(!getVertices(numNodes, n, vertexMap, vertices)) return 0;
int dim = -1;
switch(type){
case 11: case 21: case 22: case 31:
elements[0][elementary].push_back(new MLine(vertices, num));
dim = 1;
break;
case 23: case 24: case 32:
elements[0][elementary].push_back
(new MLine3(vertices[0], vertices[2], vertices[1], num));
dim = 1;
break;
case 41: case 51: case 61: case 74: case 81: case 91:
elements[1][elementary].push_back(new MTriangle(vertices, num));
dim = 2;
break;
case 42: case 52: case 62: case 72: case 82: case 92:
elements[1][elementary].push_back
(new MTriangle6(vertices[0], vertices[2], vertices[4], vertices[1],
vertices[3], vertices[5], num));
dim = 2;
break;
case 44: case 54: case 64: case 71: case 84: case 94:
elements[2][elementary].push_back(new MQuadrangle(vertices, num));
dim = 2;
break;
case 45: case 55: case 65: case 75: case 85: case 95:
elements[2][elementary].push_back
(new MQuadrangle8(vertices[0], vertices[2], vertices[4], vertices[6],
vertices[1], vertices[3], vertices[5], vertices[7],
num));
dim = 2; break;
case 111:
elements[3][elementary].push_back(new MTetrahedron(vertices, num));
dim = 3;
break;
case 118:
elements[3][elementary].push_back
(new MTetrahedron10(vertices[0], vertices[2], vertices[4], vertices[9],
vertices[1], vertices[3], vertices[5], vertices[8],
vertices[6], vertices[7], num));
dim = 3;
break;
case 104: case 115:
elements[4][elementary].push_back(new MHexahedron(vertices, num));
dim = 3;
break;
case 105: case 116:
elements[4][elementary].push_back
(new MHexahedron20(vertices[0], vertices[2], vertices[4], vertices[6],
vertices[12], vertices[14], vertices[16], vertices[18],
vertices[1], vertices[7], vertices[8], vertices[3],
vertices[9], vertices[5], vertices[10], vertices[11],
vertices[13], vertices[19], vertices[15], vertices[17],
num));
dim = 3;
break;
case 101: case 112:
elements[5][elementary].push_back(new MPrism(vertices, num));
dim = 3;
break;
case 102: case 113:
elements[5][elementary].push_back
(new MPrism15(vertices[0], vertices[2], vertices[4], vertices[9],
vertices[11], vertices[13], vertices[1], vertices[5],
vertices[6], vertices[3], vertices[7], vertices[8],
vertices[10], vertices[14], vertices[12], num));
dim = 3;
break;
}
if(dim >= 0 && physical && (!physicals[dim].count(elementary) ||
!physicals[dim][elementary].count(physical)))
physicals[dim][elementary][physical] = "unnamed";
}
}
}
}
for(int i = 0; i < (int)(sizeof(elements) / sizeof(elements[0])); i++)
_storeElementsInEntities(elements[i]);
_associateEntityWithMeshVertices();
_storeVerticesInEntities(vertexMap);
for(int i = 0; i < 4; i++)
storePhysicalTagsInEntities(this, i, physicals[i]);
fclose(fp);
return 1;
}
int GModel::writeUNV(const std::string &name, bool saveAll, bool saveGroupsOfNodes,
double scalingFactor)
{
FILE *fp = fopen(name.c_str(), "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
if(noPhysicalGroups()) saveAll = true;
indexMeshVertices(saveAll);
std::vector<GEntity*> entities;
getEntities(entities);
// nodes
fprintf(fp, "%6d\n", -1);
fprintf(fp, "%6d\n", 2411);
for(unsigned int i = 0; i < entities.size(); i++)
for(unsigned int j = 0; j < entities[i]->mesh_vertices.size(); j++)
entities[i]->mesh_vertices[j]->writeUNV(fp, scalingFactor);
fprintf(fp, "%6d\n", -1);
// elements
fprintf(fp, "%6d\n", -1);
fprintf(fp, "%6d\n", 2412);
int num = 0;
for(unsigned int i = 0; i < entities.size(); i++){
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++){
MElement *e = entities[i]->getMeshElement(j);
if(saveAll)
e->writeUNV(fp, ++num, entities[i]->tag(), 0);
else
for(unsigned int k = 0; k < entities[i]->physicals.size(); k++)
e->writeUNV(fp, ++num, entities[i]->tag(), entities[i]->physicals[k]);
}
}
fprintf(fp, "%6d\n", -1);
// groups of nodes for physical groups
if(saveGroupsOfNodes){
fprintf(fp, "%6d\n", -1);
fprintf(fp, "%6d\n", 2477);
std::map<int, std::vector<GEntity*> > groups[4];
getPhysicalGroups(groups);
int gr = 1;
for(int dim = 1; dim <= 3; dim++){
for(std::map<int, std::vector<GEntity*> >::iterator it = groups[dim].begin();
it != groups[dim].end(); it++){
std::set<MVertex*> nodes;
std::vector<GEntity *> &entities = it->second;
for(unsigned int i = 0; i < entities.size(); i++){
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++){
MElement *e = entities[i]->getMeshElement(j);
for (int k = 0; k < e->getNumVertices(); k++)
nodes.insert(e->getVertex(k));
}
}
fprintf(fp, "%10d%10d%10d%10d%10d%10d%10d%10d\n",
gr, 0, 0, 0, 0, 0, 0, (int)nodes.size());
fprintf(fp, "PERMANENT GROUP%d\n", gr++);
int row = 0;
for(std::set<MVertex*>::iterator it2 = nodes.begin(); it2 != nodes.end(); it2++){
if(row == 2) {
fprintf(fp, "\n");
row = 0;
}
fprintf(fp, "%10d%10d%10d%10d", 7, (*it2)->getIndex(), 0, 0);
row++;
}
fprintf(fp, "\n");
}
}
fprintf(fp, "%6d\n", -1);
}
fclose(fp);
return 1;
}
int GModel::readMESH(const std::string &name)
{
FILE *fp = fopen(name.c_str(), "r");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
char buffer[256];
fgets(buffer, sizeof(buffer), fp);
char str[256];
int format;
sscanf(buffer, "%s %d", str, &format);
if(format == 3){
Msg::Error("Medit mesh import only available for ASCII files");
return 0;
}
std::vector<MVertex*> vertexVector;
std::map<int, std::vector<MElement*> > elements[4];
std::vector<MVertex*> corners,ridges;
while(!feof(fp)) {
if(!fgets(buffer, 256, fp)) break;
if(buffer[0] != '#'){ // skip comments and empty lines
str[0]='\0';
sscanf(buffer, "%s", str);
if(!strcmp(str, "Dimension")){
if(!fgets(buffer, sizeof(buffer), fp)) break;
}
else if(!strcmp(str, "Vertices")){
if(!fgets(buffer, sizeof(buffer), fp)) break;
int nbv;
sscanf(buffer, "%d", &nbv);
Msg::Info("%d vertices", nbv);
vertexVector.resize(nbv);
for(int i = 0; i < nbv; i++) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int dum;
double x, y, z;
sscanf(buffer, "%lf %lf %lf %d", &x, &y, &z, &dum);
vertexVector[i] = new MVertex(x, y, z);
}
}
else if(!strcmp(str, "Edges")){
if(!fgets(buffer, sizeof(buffer), fp)) break;
int nbe;
sscanf(buffer, "%d", &nbe);
Msg::Info("%d edges", nbe);
for(int i = 0; i < nbe; i++) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int n[2], cl;
sscanf(buffer, "%d %d %d", &n[0], &n[1], &cl);
for(int j = 0; j < 2; j++) n[j]--;
std::vector<MVertex*> vertices;
if(!getVertices(2, n, vertexVector, vertices)) return 0;
elements[3][cl].push_back(new MLine(vertices));
}
}
else if(!strcmp(str, "Triangles")){
if(!fgets(buffer, sizeof(buffer), fp)) break;
int nbe;
sscanf(buffer, "%d", &nbe);
Msg::Info("%d triangles", nbe);
for(int i = 0; i < nbe; i++) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int n[3], cl;
sscanf(buffer, "%d %d %d %d", &n[0], &n[1], &n[2], &cl); for(int j = 0; j < 3; j++) n[j]--;
std::vector<MVertex*> vertices;
if(!getVertices(3, n, vertexVector, vertices)) return 0;
elements[0][cl].push_back(new MTriangle(vertices));
}
}
else if(!strcmp(str, "Corners")){
if(!fgets(buffer, sizeof(buffer), fp)) break;
int nbe;
sscanf(buffer, "%d", &nbe);
Msg::Info("%d corners", nbe);
for(int i = 0; i < nbe; i++) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int n[1];
sscanf(buffer, "%d", &n[0]);
for(int j = 0; j < 1; j++) n[j]--;
// std::vector<MVertex*> vertices;
// if(!getVertices(1, n, vertexVector, vertices)) return 0;
// corners.push_back(vertices[0]);
}
}
else if(!strcmp(str, "Ridges")){
if(!fgets(buffer, sizeof(buffer), fp)) break;
int nbe;
sscanf(buffer, "%d", &nbe);
Msg::Info("%d ridges", nbe);
for(int i = 0; i < nbe; i++) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int n[1];
sscanf(buffer, "%d", &n[0]);
for(int j = 0; j < 1; j++) n[j]--;
// std::vector<MVertex*> vertices;
// if(!getVertices(1, n, vertexVector, vertices)) return 0;
// ridges.push_back(vertices[0]);
}
}
else if(!strcmp(str, "Quadrilaterals")) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int nbe;
sscanf(buffer, "%d", &nbe);
Msg::Info("%d quadrangles", nbe);
for(int i = 0; i < nbe; i++) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int n[4], cl;
sscanf(buffer, "%d %d %d %d %d", &n[0], &n[1], &n[2], &n[3], &cl);
for(int j = 0; j < 4; j++) n[j]--;
std::vector<MVertex*> vertices;
if(!getVertices(4, n, vertexVector, vertices)) return 0;
elements[1][cl].push_back(new MQuadrangle(vertices));
}
}
else if(!strcmp(str, "Tetrahedra")) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int nbe;
sscanf(buffer, "%d", &nbe);
Msg::Info("%d tetrahedra", nbe);
for(int i = 0; i < nbe; i++) {
if(!fgets(buffer, sizeof(buffer), fp)) break;
int n[4], cl;
sscanf(buffer, "%d %d %d %d %d", &n[0], &n[1], &n[2], &n[3], &cl);
for(int j = 0; j < 4; j++) n[j]--;
std::vector<MVertex*> vertices;
if(!getVertices(4, n, vertexVector, vertices)) return 0;
elements[2][cl].push_back(new MTetrahedron(vertices));
}
}
}
}
for(int i = 0; i < (int)(sizeof(elements) / sizeof(elements[0])); i++) _storeElementsInEntities(elements[i]);
_associateEntityWithMeshVertices();
_storeVerticesInEntities(vertexVector);
fclose(fp);
return 1;
}
int GModel::writeMESH(const std::string &name, bool saveAll, double scalingFactor)
{
FILE *fp = fopen(name.c_str(), "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
if(noPhysicalGroups()) saveAll = true;
int numVertices = indexMeshVertices(saveAll);
fprintf(fp, " MeshVersionFormatted 1\n");
fprintf(fp, " Dimension\n");
fprintf(fp, " 3\n");
fprintf(fp, " Vertices\n");
fprintf(fp, " %d\n", numVertices);
std::vector<GEntity*> entities;
getEntities(entities);
for(unsigned int i = 0; i < entities.size(); i++)
for(unsigned int j = 0; j < entities[i]->mesh_vertices.size(); j++)
entities[i]->mesh_vertices[j]->writeMESH(fp, scalingFactor);
int numTriangles = 0, numQuadrangles = 0, numTetrahedra = 0;
for(fiter it = firstFace(); it != lastFace(); ++it){
if(saveAll || (*it)->physicals.size()){
numTriangles += (*it)->triangles.size();
numQuadrangles += (*it)->quadrangles.size();
}
}
for(riter it = firstRegion(); it != lastRegion(); ++it){
if(saveAll || (*it)->physicals.size()){
numTetrahedra += (*it)->tetrahedra.size();
}
}
if(numTriangles){
fprintf(fp, " Triangles\n");
fprintf(fp, " %d\n", numTriangles);
for(fiter it = firstFace(); it != lastFace(); ++it){
if(saveAll || (*it)->physicals.size()){
for(unsigned int i = 0; i < (*it)->triangles.size(); i++)
(*it)->triangles[i]->writeMESH(fp, (*it)->tag());
}
}
}
if(numQuadrangles){
fprintf(fp, " Quadrilaterals\n");
fprintf(fp, " %d\n", numQuadrangles);
for(fiter it = firstFace(); it != lastFace(); ++it){
if(saveAll || (*it)->physicals.size()){
for(unsigned int i = 0; i < (*it)->quadrangles.size(); i++)
(*it)->quadrangles[i]->writeMESH(fp, (*it)->tag());
}
}
}
if(numTetrahedra){
fprintf(fp, " Tetrahedra\n");
fprintf(fp, " %d\n", numTetrahedra);
for(riter it = firstRegion(); it != lastRegion(); ++it){
if(saveAll || (*it)->physicals.size()){ for(unsigned int i = 0; i < (*it)->tetrahedra.size(); i++)
(*it)->tetrahedra[i]->writeMESH(fp, (*it)->tag());
}
}
}
fprintf(fp, " End\n");
fclose(fp);
return 1;
}
static int getFormatBDF(char *buffer, int &keySize)
{
if(buffer[keySize] == '*'){ keySize++; return 2; } // long fields
for(unsigned int i = 0; i < strlen(buffer); i++)
if(buffer[i] == ',') return 0; // free fields
return 1; // small fields;
}
static double atofBDF(char *str)
{
int len = strlen(str);
// classic numbers with E or D exponent notation
for(int i = 0; i < len; i++){
if(str[i] == 'E' || str[i] == 'e') {
return atof(str);
}
else if(str[i] == 'D' || str[i] == 'd'){
str[i] = 'E';
return atof(str);
}
}
// special Nastran floating point format (e.g. "-7.-1" instead of
// "-7.E-01" or "2.3+2" instead of "2.3E+02")
char tmp[32];
int j = 0, leading_minus = 1;
for(int i = 0; i < len; i++){
if(leading_minus && str[i] != ' ' && str[i] != '-') leading_minus = 0;
if(!leading_minus && str[i] == '-') tmp[j++] = 'E';
if(str[i] == '+') tmp[j++] = 'E';
tmp[j++] = str[i];
}
tmp[j] = '\0';
return atof(tmp);
}
static int readVertexBDF(FILE *fp, char *buffer, int keySize,
int *num, double *x, double *y, double *z)
{
char tmp[5][32];
int j = keySize;
switch(getFormatBDF(buffer, keySize)){
case 0: // free field
for(int i = 0; i < 5; i++){
tmp[i][16] = '\0';
strncpy(tmp[i], &buffer[j + 1], 16);
for(int k = 0; k < 16; k++){ if(tmp[i][k] == ',') tmp[i][k] = '\0'; }
j++;
while(j < (int)strlen(buffer) && buffer[j] != ',') j++;
}
break;
case 1: // small field
for(int i = 0; i < 5; i++) tmp[i][8] = '\0';
strncpy(tmp[0], &buffer[8], 8);
strncpy(tmp[2], &buffer[24], 8);
strncpy(tmp[3], &buffer[32], 8);
strncpy(tmp[4], &buffer[40], 8);
break; case 2: // long field
for(int i = 0; i < 5; i++) tmp[i][16] = '\0';
strncpy(tmp[0], &buffer[8], 16);
strncpy(tmp[2], &buffer[40], 16);
strncpy(tmp[3], &buffer[56], 16);
char buffer2[256];
for(unsigned int i = 0; i < sizeof(buffer2); i++) buffer2[i] = '\0';
if(!fgets(buffer2, sizeof(buffer2), fp)) return 0;
strncpy(tmp[4], &buffer2[8], 16);
break;
}
*num = atoi(tmp[0]);
*x = atofBDF(tmp[2]);
*y = atofBDF(tmp[3]);
*z = atofBDF(tmp[4]);
return 1;
}
static bool emptyFieldBDF(char *field, int length)
{
for(int i = 0; i < length; i++)
if(field[i] != '\0' && field[i] != ' ' && field[i] != '\n' && field[i] != '\r')
return false;
return true;
}
static void readLineBDF(char *buffer, int format, std::vector<char*> &fields)
{
int cmax = (format == 2) ? 16 : 8; // max char per (center) field
int nmax = (format == 2) ? 4 : 8; // max num of (center) fields per line
if(format == 0){ // free fields
for(unsigned int i = 0; i < strlen(buffer); i++){
if(buffer[i] == ',') fields.push_back(&buffer[i + 1]);
}
}
else{ // small or long fields
for(int i = 0; i < nmax + 1; i++){
if(!emptyFieldBDF(&buffer[8 + cmax * i], cmax))
fields.push_back(&buffer[8 + cmax * i]);
}
}
}
static int readElementBDF(FILE *fp, char *buffer, int keySize, int numVertices,
int &num, int ®ion, std::vector<MVertex*> &vertices,
std::map<int, MVertex*> &vertexMap)
{
char buffer2[256], buffer3[256];
std::vector<char*> fields;
int format = getFormatBDF(buffer, keySize);
for(unsigned int i = 0; i < sizeof(buffer2); i++) buffer2[i] = buffer3[i] = '\0';
readLineBDF(buffer, format, fields);
if(((int)fields.size() - 2 < abs(numVertices)) ||
(numVertices < 0 && (fields.size() == 9))){
if(fields.size() == 9) fields.pop_back();
if(!fgets(buffer2, sizeof(buffer2), fp)) return 0;
readLineBDF(buffer2, format, fields);
}
if(((int)fields.size() - 2 < abs(numVertices)) ||
(numVertices < 0 && (fields.size() == 17))){
if(fields.size() == 17) fields.pop_back();
if(!fgets(buffer3, sizeof(buffer3), fp)) return 0;
readLineBDF(buffer3, format, fields);
}
// negative 'numVertices' gives the minimum required number of vertices
if((int)fields.size() - 2 < abs(numVertices)){
Msg::Error("Wrong number of vertices %d for element", fields.size() - 2);
return 0;
}
int n[30], cmax = (format == 2) ? 16 : 8; // max char per (center) field
char tmp[32];
tmp[cmax] = '\0';
strncpy(tmp, fields[0], cmax); num = atoi(tmp);
strncpy(tmp, fields[1], cmax); region = atoi(tmp);
for(unsigned int i = 2; i < fields.size(); i++){
strncpy(tmp, fields[i], cmax); n[i - 2] = atoi(tmp);
}
// ignore the extra fields when we know how many vertices we need
int numCheck = (numVertices > 0) ? numVertices : fields.size() - 2;
if(!getVertices(numCheck, n, vertexMap, vertices)) return 0;
return 1;
}
int GModel::readBDF(const std::string &name)
{
FILE *fp = fopen(name.c_str(), "r");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
char buffer[256];
std::map<int, MVertex*> vertexMap;
std::map<int, std::vector<MElement*> > elements[7];
// nodes can be defined after elements, so parse the file twice
while(!feof(fp)) {
for(unsigned int i = 0; i < sizeof(buffer); i++) buffer[i] = '\0';
if(!fgets(buffer, sizeof(buffer), fp)) break;
if(buffer[0] != '$'){ // skip comments
if(!strncmp(buffer, "GRID", 4)){
int num;
double x, y, z;
if(!readVertexBDF(fp, buffer, 4, &num, &x, &y, &z)) break;
vertexMap[num] = new MVertex(x, y, z, 0, num);
}
}
}
Msg::Info("%d vertices", vertexMap.size());
rewind(fp);
while(!feof(fp)) {
for(unsigned int i = 0; i < sizeof(buffer); i++) buffer[i] = '\0';
if(!fgets(buffer, sizeof(buffer), fp)) break;
if(buffer[0] != '$'){ // skip comments
int num, region;
std::vector<MVertex*> vertices;
if(!strncmp(buffer, "CBAR", 4)){
if(readElementBDF(fp, buffer, 4, 2, num, region, vertices, vertexMap))
elements[0][region].push_back(new MLine(vertices, num));
}
else if(!strncmp(buffer, "CROD", 4)){
if(readElementBDF(fp, buffer, 4, 2, num, region, vertices, vertexMap))
elements[0][region].push_back(new MLine(vertices, num));
}
else if(!strncmp(buffer, "CBEAM", 5)){
if(readElementBDF(fp, buffer, 5, 2, num, region, vertices, vertexMap))
elements[0][region].push_back(new MLine(vertices, num));
}
else if(!strncmp(buffer, "CTRIA3", 6)){ if(readElementBDF(fp, buffer, 6, 3, num, region, vertices, vertexMap))
elements[1][region].push_back(new MTriangle(vertices, num));
}
else if(!strncmp(buffer, "CTRIA6", 6)){
if(readElementBDF(fp, buffer, 6, 6, num, region, vertices, vertexMap))
elements[1][region].push_back(new MTriangle6(vertices, num));
}
else if(!strncmp(buffer, "CQUAD4", 6)){
if(readElementBDF(fp, buffer, 6, 4, num, region, vertices, vertexMap))
elements[2][region].push_back(new MQuadrangle(vertices, num));
}
else if(!strncmp(buffer, "CQUAD8", 6)){
if(readElementBDF(fp, buffer, 6, 8, num, region, vertices, vertexMap))
elements[2][region].push_back(new MQuadrangle8(vertices, num));
}
else if(!strncmp(buffer, "CQUAD", 5)){
if(readElementBDF(fp, buffer, 5, -4, num, region, vertices, vertexMap)){
if(vertices.size() == 9)
elements[2][region].push_back(new MQuadrangle9(vertices, num));
else if(vertices.size() == 8)
elements[2][region].push_back(new MQuadrangle8(vertices, num));
else
elements[2][region].push_back(new MQuadrangle(vertices, num));
}
}
else if(!strncmp(buffer, "CTETRA", 6)){
if(readElementBDF(fp, buffer, 6, -4, num, region, vertices, vertexMap)){
if(vertices.size() == 10)
elements[3][region].push_back
(new MTetrahedron10(vertices[0], vertices[1], vertices[2], vertices[3],
vertices[4], vertices[5], vertices[6], vertices[7],
vertices[9], vertices[8], num));
else
elements[3][region].push_back(new MTetrahedron(vertices, num));
}
}
else if(!strncmp(buffer, "CHEXA", 5)){
if(readElementBDF(fp, buffer, 5, -8, num, region, vertices, vertexMap)){
if(vertices.size() == 20)
elements[4][region].push_back
(new MHexahedron20(vertices[0], vertices[1], vertices[2], vertices[3],
vertices[4], vertices[5], vertices[6], vertices[7],
vertices[8], vertices[11], vertices[12], vertices[9],
vertices[13], vertices[10], vertices[14], vertices[15],
vertices[16], vertices[19], vertices[17], vertices[18],
num));
else
elements[4][region].push_back(new MHexahedron(vertices, num));
}
}
else if(!strncmp(buffer, "CPENTA", 6)){
if(readElementBDF(fp, buffer, 6, -6, num, region, vertices, vertexMap)){
if(vertices.size() == 15)
elements[5][region].push_back
(new MPrism15(vertices[0], vertices[1], vertices[2], vertices[3],
vertices[4], vertices[5], vertices[6], vertices[8],
vertices[9], vertices[7], vertices[10], vertices[11],
vertices[12], vertices[14], vertices[13], num));
else
elements[5][region].push_back(new MPrism(vertices, num));
}
}
else if(!strncmp(buffer, "CPYRAM", 6)){
if(readElementBDF(fp, buffer, 6, 5, num, region, vertices, vertexMap))
elements[6][region].push_back(new MPyramid(vertices, num));
}
}
}
for(int i = 0; i < (int)(sizeof(elements) / sizeof(elements[0])); i++) _storeElementsInEntities(elements[i]);
_associateEntityWithMeshVertices();
_storeVerticesInEntities(vertexMap);
fclose(fp);
return 1;
}
int GModel::writeBDF(const std::string &name, int format, bool saveAll,
double scalingFactor)
{
FILE *fp = fopen(name.c_str(), "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
if(noPhysicalGroups()) saveAll = true;
indexMeshVertices(saveAll);
fprintf(fp, "$ Created by Gmsh\n");
std::vector<GEntity*> entities;
getEntities(entities);
// nodes
for(unsigned int i = 0; i < entities.size(); i++)
for(unsigned int j = 0; j < entities[i]->mesh_vertices.size(); j++)
entities[i]->mesh_vertices[j]->writeBDF(fp, format, scalingFactor);
// elements
for(unsigned int i = 0; i < entities.size(); i++)
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++)
if(saveAll || entities[i]->physicals.size())
entities[i]->getMeshElement(j)->writeBDF(fp, format, entities[i]->tag());
fprintf(fp, "ENDDATA\n");
fclose(fp);
return 1;
}
int GModel::readP3D(const std::string &name)
{
FILE *fp = fopen(name.c_str(), "r");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
int numBlocks = 0;
if(fscanf(fp, "%d", &numBlocks) != 1 || numBlocks <= 0) return 0;
std::vector<int> Ni(numBlocks), Nj(numBlocks), Nk(numBlocks);
for(int n = 0; n < numBlocks; n++)
if(fscanf(fp, "%d %d %d", &Ni[n], &Nj[n], &Nk[n]) != 3) return 0;
for(int n = 0; n < numBlocks; n++){
if(Nk[n] == 1){
GFace *gf = new discreteFace(this, getNumFaces() + 1);
add(gf);
gf->transfinite_vertices.resize(Ni[n]);
for(int i = 0; i < Ni[n]; i++)
gf->transfinite_vertices[i].resize(Nj[n]);
for(int coord = 0; coord < 3; coord++){
for(int i = 0; i < Ni[n]; i++){
for(int j = 0; j < Nj[n]; j++){
double d;
if(fscanf(fp, "%lf", &d) != 1) return 0; if(coord == 0){
MVertex *v = new MVertex(d, 0., 0., gf);
gf->transfinite_vertices[i][j] = v;
gf->mesh_vertices.push_back(v);
}
else if(coord == 1){
gf->transfinite_vertices[i][j]->y() = d;
}
else if(coord == 2){
gf->transfinite_vertices[i][j]->z() = d;
}
}
}
}
for(unsigned int i = 0; i < gf->transfinite_vertices.size() - 1; i++)
for(unsigned int j = 0; j < gf->transfinite_vertices[0].size() - 1; j++)
gf->quadrangles.push_back
(new MQuadrangle(gf->transfinite_vertices[i ][j ],
gf->transfinite_vertices[i + 1][j ],
gf->transfinite_vertices[i + 1][j + 1],
gf->transfinite_vertices[i ][j + 1]));
}
else{
GRegion *gr = new discreteRegion(this, getNumRegions() + 1);
add(gr);
gr->transfinite_vertices.resize(Ni[n]);
for(int i = 0; i < Ni[n]; i++){
gr->transfinite_vertices[i].resize(Nj[n]);
for(int j = 0; j < Nj[n]; j++){
gr->transfinite_vertices[i][j].resize(Nk[n]);
}
}
for(int coord = 0; coord < 3; coord++){
for(int i = 0; i < Ni[n]; i++){
for(int j = 0; j < Nj[n]; j++){
for(int k = 0; k < Nk[n]; k++){
double d;
if(fscanf(fp, "%lf", &d) != 1) return 0;
if(coord == 0){
MVertex *v = new MVertex(d, 0., 0., gr);
gr->transfinite_vertices[i][j][k] = v;
gr->mesh_vertices.push_back(v);
}
else if(coord == 1){
gr->transfinite_vertices[i][j][k]->y() = d;
}
else if(coord == 2){
gr->transfinite_vertices[i][j][k]->z() = d;
}
}
}
}
}
for(unsigned int i = 0; i < gr->transfinite_vertices.size() - 1; i++)
for(unsigned int j = 0; j < gr->transfinite_vertices[0].size() - 1; j++)
for(unsigned int k = 0; k < gr->transfinite_vertices[0][0].size() - 1; k++)
gr->hexahedra.push_back
(new MHexahedron(gr->transfinite_vertices[i ][j ][k ],
gr->transfinite_vertices[i + 1][j ][k ],
gr->transfinite_vertices[i + 1][j + 1][k ],
gr->transfinite_vertices[i ][j + 1][k ],
gr->transfinite_vertices[i ][j ][k + 1],
gr->transfinite_vertices[i + 1][j ][k + 1],
gr->transfinite_vertices[i + 1][j + 1][k + 1],
gr->transfinite_vertices[i ][j + 1][k + 1]));
}
}
fclose(fp);
return 1;}
int GModel::writeP3D(const std::string &name, bool saveAll, double scalingFactor)
{
FILE *fp = fopen(name.c_str(), "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
if(noPhysicalGroups()) saveAll = true;
std::vector<GFace*> faces;
for(fiter it = firstFace(); it != lastFace(); ++it)
if((*it)->transfinite_vertices.size() &&
(*it)->transfinite_vertices[0].size() &&
((*it)->physicals.size() || saveAll)) faces.push_back(*it);
std::vector<GRegion*> regions;
for(riter it = firstRegion(); it != lastRegion(); ++it)
if((*it)->transfinite_vertices.size() &&
(*it)->transfinite_vertices[0].size() &&
(*it)->transfinite_vertices[0][0].size() &&
((*it)->physicals.size() || saveAll)) regions.push_back(*it);
if(faces.empty() && regions.empty()){
Msg::Warning("No structured grids to save");
fclose(fp);
return 0;
}
fprintf(fp, "%d\n", (int)(faces.size() + regions.size()));
for(unsigned int i = 0; i < faces.size(); i++)
fprintf(fp, "%d %d 1\n",
(int)faces[i]->transfinite_vertices.size(),
(int)faces[i]->transfinite_vertices[0].size());
for(unsigned int i = 0; i < regions.size(); i++)
fprintf(fp, "%d %d %d\n",
(int)regions[i]->transfinite_vertices.size(),
(int)regions[i]->transfinite_vertices[0].size(),
(int)regions[i]->transfinite_vertices[0][0].size());
for(unsigned int i = 0; i < faces.size(); i++){
GFace *gf = faces[i];
for(int coord = 0; coord < 3; coord++){
for(unsigned int j = 0; j < gf->transfinite_vertices.size(); j++){
for(unsigned int k = 0; k < gf->transfinite_vertices[j].size(); k++){
MVertex *v = gf->transfinite_vertices[j][k];
double d = (coord == 0) ? v->x() : (coord == 1) ? v->y() : v->z();
fprintf(fp, "%g ", d * scalingFactor);
}
fprintf(fp, "\n");
}
}
}
for(unsigned int i = 0; i < regions.size(); i++){
GRegion *gr = regions[i];
for(int coord = 0; coord < 3; coord++){
for(unsigned int j = 0; j < gr->transfinite_vertices.size(); j++){
for(unsigned int k = 0; k < gr->transfinite_vertices[j].size(); k++){
for(unsigned int l = 0; l < gr->transfinite_vertices[j][k].size(); l++){
MVertex *v = gr->transfinite_vertices[j][k][l];
double d = (coord == 0) ? v->x() : (coord == 1) ? v->y() : v->z();
fprintf(fp, "%g ", d * scalingFactor);
}
fprintf(fp, "\n");
} }
}
}
fclose(fp);
return 1;
}
int GModel::writeVTK(const std::string &name, bool binary, bool saveAll,
double scalingFactor, bool bigEndian)
{
FILE *fp = fopen(name.c_str(), binary ? "wb" : "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
if(noPhysicalGroups()) saveAll = true;
// get the number of vertices and index the vertices in a continuous
// sequence
int numVertices = indexMeshVertices(saveAll);
fprintf(fp, "# vtk DataFile Version 2.0\n");
fprintf(fp, "%s, Created by Gmsh\n", getName().c_str());
if(binary)
fprintf(fp, "BINARY\n");
else
fprintf(fp, "ASCII\n");
fprintf(fp, "DATASET UNSTRUCTURED_GRID\n");
// get all the entities in the model
std::vector<GEntity*> entities;
getEntities(entities);
// write mesh vertices
fprintf(fp, "POINTS %d double\n", numVertices);
for(unsigned int i = 0; i < entities.size(); i++)
for(unsigned int j = 0; j < entities[i]->mesh_vertices.size(); j++)
entities[i]->mesh_vertices[j]->writeVTK(fp, binary, scalingFactor, bigEndian);
fprintf(fp, "\n");
// loop over all elements we need to save and count vertices
int numElements = 0, totalNumInt = 0;
for(unsigned int i = 0; i < entities.size(); i++){
if(entities[i]->physicals.size() || saveAll){
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++){
if(entities[i]->getMeshElement(j)->getTypeForVTK()){
numElements++;
totalNumInt += entities[i]->getMeshElement(j)->getNumVertices() + 1;
}
}
}
}
// print vertex indices in ascii or binary
fprintf(fp, "CELLS %d %d\n", numElements, totalNumInt);
for(unsigned int i = 0; i < entities.size(); i++){
if(entities[i]->physicals.size() || saveAll){
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++){
if(entities[i]->getMeshElement(j)->getTypeForVTK())
entities[i]->getMeshElement(j)->writeVTK(fp, binary, bigEndian);
}
}
}
fprintf(fp, "\n");
// print element types in ascii or binary
fprintf(fp, "CELL_TYPES %d\n", numElements);
for(unsigned int i = 0; i < entities.size(); i++){ if(entities[i]->physicals.size() || saveAll){
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++){
int type = entities[i]->getMeshElement(j)->getTypeForVTK();
if(type){
if(binary){
// VTK always expects big endian binary data
if(!bigEndian) SwapBytes((char*)&type, sizeof(int), 1);
fwrite(&type, sizeof(int), 1, fp);
}
else
fprintf(fp, "%d\n", type);
}
}
}
}
fclose(fp);
return 1;
}
int GModel::readVTK(const std::string &name, bool bigEndian)
{
FILE *fp = fopen(name.c_str(), "rb");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
char buffer[256], buffer2[256];
fgets(buffer, sizeof(buffer), fp); // version line
fgets(buffer, sizeof(buffer), fp); // title
fscanf(fp, "%s", buffer); // ASCII or BINARY
bool binary = false;
if(!strcmp(buffer, "BINARY")) binary = true;
if(fscanf(fp, "%s %s", buffer, buffer2) != 2) return 0;
if(strcmp(buffer, "DATASET") || strcmp(buffer2, "UNSTRUCTURED_GRID")){
Msg::Error("VTK reader can only read unstructured datasets");
return 0;
}
// read mesh vertices
int numVertices;
if(fscanf(fp, "%s %d %s\n", buffer, &numVertices, buffer2) != 3) return 0;
if(strcmp(buffer, "POINTS") || !numVertices){
Msg::Warning("No points in dataset");
return 0;
}
int datasize;
if(!strcmp(buffer2, "double"))
datasize = sizeof(double);
else if(!strcmp(buffer2, "float"))
datasize = sizeof(float);
else{
Msg::Warning("VTK reader only accepts float or double datasets");
return 0;
}
Msg::Info("Reading %d points", numVertices);
std::vector<MVertex*> vertices(numVertices);
for(int i = 0 ; i < numVertices; i++){
double xyz[3];
if(binary){
if(datasize == sizeof(float)){
float f[3];
if(fread(f, sizeof(float), 3, fp) != 3) return 0;
if(!bigEndian) SwapBytes((char*)f, sizeof(float), 3);
for(int j = 0; j < 3; j++) xyz[j] = f[j]; }
else{
if(fread(xyz, sizeof(double), 3, fp) != 3) return 0;
if(!bigEndian) SwapBytes((char*)xyz, sizeof(double), 3);
}
}
else{
if(fscanf(fp, "%lf %lf %lf", &xyz[0], &xyz[1], &xyz[2]) != 3) return 0;
}
vertices[i] = new MVertex(xyz[0], xyz[1], xyz[2]);
}
// read mesh elements
int numElements, totalNumInt;
if(fscanf(fp, "%s %d %d\n", buffer, &numElements, &totalNumInt) != 3) return 0;
if(strcmp(buffer, "CELLS") || !numElements){
Msg::Warning("No cells in dataset");
return 0;
}
Msg::Info("Reading %d cells", numElements);
std::vector<std::vector<MVertex*> > cells(numElements);
for(unsigned int i = 0; i < cells.size(); i++){
int numVerts, n[100];
if(binary){
if(fread(&numVerts, sizeof(int), 1, fp) != 1) return 0;
if(!bigEndian) SwapBytes((char*)&numVerts, sizeof(int), 1);
if((int)fread(n, sizeof(int), numVerts, fp) != numVerts) return 0;
if(!bigEndian) SwapBytes((char*)n, sizeof(int), numVerts);
}
else{
if(fscanf(fp, "%d", &numVerts) != 1) return 0;
for(int j = 0; j < numVerts; j++){
if(fscanf(fp, "%d", &n[j]) != 1) return 0;
}
}
for(int j = 0; j < numVerts; j++){
if(n[j] >= 0 && n[j] < (int)vertices.size())
cells[i].push_back(vertices[n[j]]);
else
Msg::Error("Bad vertex index");
}
}
if(fscanf(fp, "%s %d\n", buffer, &numElements) != 2) return 0;
if(strcmp(buffer, "CELL_TYPES") || numElements != (int)cells.size()){
Msg::Error("No or invalid number of cells types");
return 0;
}
std::map<int, std::vector<MElement*> > elements[8];
for(unsigned int i = 0; i < cells.size(); i++){
int type;
if(binary){
if(fread(&type, sizeof(int), 1, fp) != 1) return 0;
if(!bigEndian) SwapBytes((char*)&type, sizeof(int), 1);
}
else{
if(fscanf(fp, "%d", &type) != 1) return 0;
}
switch(type){
case 1: elements[0][1].push_back(new MPoint(cells[i])); break;
case 3: elements[1][1].push_back(new MLine(cells[i])); break;
case 5: elements[2][1].push_back(new MTriangle(cells[i])); break;
case 9: elements[3][1].push_back(new MQuadrangle(cells[i])); break;
case 10: elements[4][1].push_back(new MTetrahedron(cells[i])); break;
case 12: elements[5][1].push_back(new MHexahedron(cells[i])); break;
case 13: elements[6][1].push_back(new MPrism(cells[i])); break;
case 14: elements[7][1].push_back(new MPyramid(cells[i])); break;
default:
Msg::Error("Unknown type of cell %d", type);
break;
} }
for(int i = 0; i < (int)(sizeof(elements) / sizeof(elements[0])); i++)
_storeElementsInEntities(elements[i]);
_associateEntityWithMeshVertices();
_storeVerticesInEntities(vertices);
fclose(fp);
return 1;
}
int GModel::readDIFF(const std::string &name)
{
FILE *fp = fopen(name.c_str(), "r");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
char str[256] = "XXX";
std::map<int, std::vector<MElement*> > elements[8];
std::map<int, std::map<int, std::string> > physicals[4];
std::map<int, MVertex*> vertexMap;
std::vector<MVertex*> vertexVector;
while(1) {
while(strstr(str, "Number of space dim. =") == NULL){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
}
int dim;
if(sscanf(str, "%*s %*s %*s %*s %*s %d", &dim) != 1) return 0;
Msg::Info("dimension %d", dim);
int numElements;
if(!fgets(str, sizeof(str), fp) || feof(fp)) return 0;
while(strstr(str, "Number of elements =") == NULL){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
}
if(sscanf(str, "%*s %*s %*s %*s %d", &numElements) != 1) return 0;
Msg::Info("%d elements", numElements);
int numVertices;
if(!fgets(str, sizeof(str), fp) || feof(fp)) return 0;
while(strstr(str, "Number of nodes =") == NULL){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
}
if(sscanf(str, "%*s %*s %*s %*s %d", &numVertices) != 1) return 0;
Msg::Info("%d vertices", numVertices);
int numVerticesPerElement;
if(!fgets(str, sizeof(str), fp)||feof(fp)) return 0;
while(strstr(str, "Max number of nodes in an element:")==NULL){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
}
if(sscanf(str, "%*s %*s %*s %*s %*s %*s %*s %d", &numVerticesPerElement) != 1)
return 0;
Msg::Info("numVerticesPerElement %d",numVerticesPerElement);
bool several_subdomains;
if(!fgets(str, sizeof(str), fp) || feof(fp)) return 0;
while(strstr(str, "Only one subdomain el :") == NULL){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
} if(!strncmp(&str[39], "dpFALSE", 6))
several_subdomains = true;
else
several_subdomains = false;
Msg::Info("several_subdomains %x", several_subdomains);
int nbi;
std::vector<int> bi;
if(!fgets(str, sizeof(str), fp) || feof(fp)) return 0;
while(strstr(str, "Boundary indicators:") == NULL){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
}
if(sscanf(str, "%d %*s %*s", &nbi) != 1) return 0;
Msg::Info("nbi %d", nbi);
if(nbi != 0)
bi.resize(nbi);
std::string format_read_bi = "%*d %*s %*s";
for(int i = 0; i < nbi; i++){
if(format_read_bi[format_read_bi.size()-1] == 'd') {
format_read_bi[format_read_bi.size()-1] = '*';
format_read_bi += "d %d";
}
else
format_read_bi += " %d";
if(sscanf(str, format_read_bi.c_str(), &bi[i]) != 1) return 0;
Msg::Info("bi[%d]=%d", i, bi[i]);
}
while(str[0] != '#'){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
}
vertexVector.clear();
vertexMap.clear();
int minVertex = numVertices + 1, maxVertex = -1;
int num = 0;
std::vector<std::vector<int> > elementary(numVertices);
Msg::ResetProgressMeter();
for(int i = 0; i < numVertices; i++){
if(!fgets(str, sizeof(str), fp)) return 0;
double xyz[3];
int tmp;
if(sscanf(str, "%d ( %lf , %lf , %lf ) [%d]", &num, &xyz[0], &xyz[1], &xyz[2],
&tmp) != 5) return 0;
elementary[i].resize(tmp + 1);
elementary[i][0] = tmp;
minVertex = std::min(minVertex, num);
maxVertex = std::max(maxVertex, num);
if(vertexMap.count(num))
Msg::Warning("Skipping duplicate vertex %d", num);
else
vertexMap[num] = new MVertex(xyz[0], xyz[1], xyz[2], 0, num);
if(numVertices > 100000)
Msg::ProgressMeter(i + 1, numVertices, "Reading nodes");
// If the vertex numbering is dense, tranfer the map into a
// vector to speed up element creation
if((int)vertexMap.size() == numVertices &&
((minVertex == 1 && maxVertex == numVertices) ||
(minVertex == 0 && maxVertex == numVertices - 1))){
Msg::Info("Vertex numbering is dense");
vertexVector.resize(vertexMap.size() + 1);
if(minVertex == 1)
vertexVector[0] = 0;
else
vertexVector[numVertices] = 0;
std::map<int, MVertex*>::const_iterator it = vertexMap.begin();
for(; it != vertexMap.end(); ++it)
vertexVector[it->first] = it->second; vertexMap.clear();
}
Msg::Info("%d ( %lf , %lf , %lf ) [%d]",i, xyz[0], xyz[1], xyz[2],
elementary[i][0]);
std::string format_read_bi = "%*d ( %*lf , %*lf , %*lf ) [%*d]";
for(int j = 0; j < elementary[i][0]; j++){
if(format_read_bi[format_read_bi.size() - 1] == 'd') {
format_read_bi[format_read_bi.size() - 1] = '*';
format_read_bi += "d %d";
}
else
format_read_bi += " %d";
if(sscanf(str, format_read_bi.c_str(), &(elementary[i][j + 1])) != 1)
return 0;
Msg::Info("elementary[%d][%d]=%d", i + 1, j + 1, elementary[i][j + 1]);
}
}
while(str[0] != '#'){
if(!fgets(str, sizeof(str), fp) || feof(fp))
break;
}
std::vector<int> material(numElements);
std::vector<std::vector<int> > ElementsNodes(numElements);
for(int i = 0; i < numVertices; i++){
ElementsNodes[i].resize(numVerticesPerElement);
}
char eleTypec[20]="";
std::string eleType;
Msg::ResetProgressMeter();
std::vector<int> mapping;
for(int i = 1; i <= numElements; i++){
if(!fgets(str, sizeof(str), fp)) return 0;
int num = 0, type, physical = 0, partition = 0;
int indices[60];
if(sscanf(str, "%*d %s %d", eleTypec, &material[i-1]) != 2) return 0;
eleType = std::string(eleTypec);
int k2; // local number for the element
int NoVertices; // number of vertices per element
if(eleType == "ElmT3n2D"){
NoVertices = 3;
static int map[3] = {0, 1, 2}; // identical to gmsh
mapping=std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_TRI_3;
}
else if(eleType == "ElmT6n2D"){
NoVertices = 6;
static int map[6] = {0, 1, 2, 3, 4, 5}; // identical to gmsh
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_TRI_6;
}
else if(eleType == "ElmB4n2D"){
NoVertices = 4;
static int map[4] = {0, 1, 3, 2}; // local numbering
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_QUA_4;
}
else if(eleType == "ElmB8n2D"){
NoVertices = 8;
static int map[8] = {0, 1, 3, 2, 4, 6, 7, 5}; // local numbering
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_QUA_8;
}
else if(eleType == "ElmB9n2D"){
NoVertices = 9;
static int map[9] = {0, 4, 1, 7, 8, 5, 3, 6, 2}; // local numbering
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_QUA_9;
}
else if(eleType == "ElmT4n3D"){
NoVertices = 4; static int map[4] = {0, 1, 2, 3}; // identical to gmsh
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_TET_4;
}
else if(eleType == "ElmT10n3D"){
NoVertices = 10;
static int map[10] = {0, 1, 2, 3, 4, 5, 6, 7, 8, 9}; // local numbering
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_TET_10;
}
else if(eleType == "ElmB8n3D"){
NoVertices = 8;
static int map[8] = {4, 5, 0, 1, 7, 6, 3, 2};
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_HEX_8;
}
else if(eleType == "ElmB20n3D"){
NoVertices = 20;
static int map[20] = {4, 5, 0, 1, 7, 6, 3, 2, 16, 8, 19, 13, 15, 12,
14, 17, 18, 9, 11};
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_HEX_20;
}
else if(eleType == "ElmB27n3D"){
NoVertices = 27;
static int map[27] = {4, 16, 5, 10, 21, 12, 0, 8, 1, 17, 25, 18, 22,
26, 23, 9, 20, 11, 7, 19, 6, 15, 24, 14, 3, 13, 2};
mapping = std::vector<int>(map, map + sizeof(map) / sizeof(int));
type = MSH_HEX_27;
}
else{
return 0;
}
std::string format_read_vertices = "%*d %*s %*d";
for(int k = 0; k < NoVertices; k++){
if(format_read_vertices[format_read_vertices.size()-2] != '*') {
format_read_vertices[format_read_vertices.size()-1] = '*';
format_read_vertices += "d %d";
}
else
format_read_vertices += " %d";
k2 = mapping[k];
if(sscanf(str, format_read_vertices.c_str(), &ElementsNodes[i-1][k2]) != 1)
return 0;
}
mapping.clear();
for(int j = 0; j < NoVertices; j++)
indices[j] = ElementsNodes[i - 1][j];
std::vector<MVertex*> vertices;
if(vertexVector.size()){
if(!getVertices(numVerticesPerElement, indices, vertexVector, vertices))
return 0;
}
else{
if(!getVertices(numVerticesPerElement, indices, vertexMap, vertices))
return 0;
}
createElementMSH(this, num, type, physical, elementary[i-1][1], partition,
vertices, elements, physicals);
// trouble if elementary[i-1][0]>1 nodal post-processing needed ?
if(numElements > 100000)
Msg::ProgressMeter(i + 1, numElements, "Reading elements");
}
}
// store the elements in their associated elementary entity. If the
// entity does not exist, create a new (discrete) one.
for(int i = 0; i < (int)(sizeof(elements) / sizeof(elements[0])); i++)
_storeElementsInEntities(elements[i]);
// associate the correct geometrical entity with each mesh vertex
_associateEntityWithMeshVertices();
// store the vertices in their associated geometrical entity
if(vertexVector.size())
_storeVerticesInEntities(vertexVector);
else
_storeVerticesInEntities(vertexMap);
// store the physical tags
for(int i = 0; i < 4; i++)
storePhysicalTagsInEntities(this, i, physicals[i]);
fclose(fp);
return 1;
}
int GModel::writeDIFF(const std::string &name, bool binary, bool saveAll,
double scalingFactor)
{
if(binary){
Msg::Error("Binary DIFF output is not implemented");
return 0;
}
FILE *fp = fopen(name.c_str(), binary ? "wb" : "w");
if(!fp){
Msg::Error("Unable to open file '%s'", name.c_str());
return 0;
}
if(noPhysicalGroups()) saveAll = true;
// get the number of vertices and index the vertices in a continuous
// sequence
int numVertices = indexMeshVertices(saveAll);
// tag the vertices according to which surface they belong to (Note
// that we use a brute force approach here, so that we can deal with
// models with incomplete topology. For example, when we merge 2 STL
// triangulations we don't have the boundary information between the
// faces, and the vertices would end up categorized on either one.)
std::vector<std::list<int> > vertexTags(numVertices);
std::list<int> boundaryIndicators;
for(riter it = firstRegion(); it != lastRegion(); it++){
std::list<GFace*> faces = (*it)->faces();
for(std::list<GFace*>::iterator itf = faces.begin(); itf != faces.end(); itf++){
GFace *gf = *itf;
boundaryIndicators.push_back(gf->tag());
for(unsigned int i = 0; i < gf->getNumMeshElements(); i++){
MElement *e = gf->getMeshElement(i);
for(int j = 0; j < e->getNumVertices(); j++){
MVertex *v = e->getVertex(j);
if(v->getIndex() > 0)
vertexTags[v->getIndex() - 1].push_back(gf->tag());
}
}
}
}
boundaryIndicators.sort();
boundaryIndicators.unique();
for(int i = 0; i < numVertices; i++){
vertexTags[i].sort();
vertexTags[i].unique();
}
// get all the entities in the model
std::vector<GEntity*> entities;
getEntities(entities);
// find max dimension of mesh elements we need to save
int dim = 0;
for(unsigned int i = 0; i < entities.size(); i++)
if(entities[i]->physicals.size() || saveAll)
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++)
dim = std::max(dim, entities[i]->getMeshElement(j)->getDim());
// loop over all elements we need to save
int numElements = 0, maxNumNodesPerElement = 0;
for(unsigned int i = 0; i < entities.size(); i++){
if(entities[i]->physicals.size() || saveAll){
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++){
MElement *e = entities[i]->getMeshElement(j);
if(e->getStringForDIFF() && e->getDim() == dim){
numElements++;
maxNumNodesPerElement = std::max(maxNumNodesPerElement, e->getNumVertices());
}
}
}
}
fprintf(fp, "\n\n");
fprintf(fp, " Finite element mesh (GridFE):\n\n");
fprintf(fp, " Number of space dim. = 3\n");
fprintf(fp, " Number of elements = %d\n", numElements);
fprintf(fp, " Number of nodes = %d\n\n", numVertices);
fprintf(fp, " All elements are of the same type : dpTRUE\n");
fprintf(fp, " Max number of nodes in an element: %d \n", maxNumNodesPerElement);
fprintf(fp, " Only one subdomain el : dpFALSE\n");
fprintf(fp, " Lattice data ? 0\n\n\n\n");
fprintf(fp, " %d Boundary indicators: ", (int)boundaryIndicators.size());
for(std::list<int>::iterator it = boundaryIndicators.begin();
it != boundaryIndicators.end(); it++)
fprintf(fp, " %d", *it);
fprintf(fp, "\n\n\n");
fprintf(fp," Nodal coordinates and nodal boundary indicators,\n");
fprintf(fp," the columns contain:\n");
fprintf(fp," - node number\n");
fprintf(fp," - coordinates\n");
fprintf(fp," - no of boundary indicators that are set (ON)\n");
fprintf(fp," - the boundary indicators that are set (ON) if any.\n");
fprintf(fp,"#\n");
// write mesh vertices
for(unsigned int i = 0; i < entities.size(); i++){
for(unsigned int j = 0; j < entities[i]->mesh_vertices.size(); j++){
MVertex *v = entities[i]->mesh_vertices[j];
if(v->getIndex() > 0){
v->writeDIFF(fp, binary, scalingFactor);
fprintf(fp, " [%d] ", (int)vertexTags[v->getIndex() - 1].size());
for(std::list<int>::iterator it = vertexTags[v->getIndex() - 1].begin();
it != vertexTags[v->getIndex() - 1].end(); it++)
fprintf(fp," %d ", *it);
fprintf(fp,"\n");
}
}
}
fprintf(fp, "\n");
fprintf(fp, "\n");
fprintf(fp, " Element types and connectivity\n");
fprintf(fp, " the columns contain:\n");
fprintf(fp, " - element number\n");
fprintf(fp, " - element type\n");
fprintf(fp, " - subdomain number \n");
fprintf(fp, " - the global node numbers of the nodes in the element.\n");
fprintf(fp, "#\n");
// write mesh elements int num = 0;
for(unsigned int i = 0; i < entities.size(); i++){
if(entities[i]->physicals.size() || saveAll){
for(unsigned int j = 0; j < entities[i]->getNumMeshElements(); j++){
MElement *e = entities[i]->getMeshElement(j);
if(e->getStringForDIFF() && e->getDim() == dim)
e->writeDIFF(fp, ++num, binary, entities[i]->tag());
}
}
}
fprintf(fp, "\n");
fclose(fp);
return 1;
}