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Commit 8891146d authored by Naumann, Andreas's avatar Naumann, Andreas
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implicit meshes tested and ready in gui

parent d3b19492
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Showing with 376 additions and 156 deletions
AMDiS/src/AMDiS.h
View file @ 8891146d
......@@ -72,6 +72,7 @@
#include "ProblemVec.h"
#include "ProblemInstat.h"
#include "ProblemTimeInterface.h"
#include "ProblemImplicit.h"
#include "ProblemInterpolScal.h"
#include "ProblemNonLin.h"
#include "ProblemStatBase.h"
......
AMDiS/src/ProblemImplicit.cc
View file @ 8891146d
#include "ProblemImplicit.h"
namespace AMDiS {
namespace calcspace {
void readDofvec(std::istream& in, DOFVector<double>* vec, Mesh* mesh)
{
long size = mesh->getNumberOfVertices();
std::string buf;
void ProblemImplicitBase::readDofVec(std::istream& in, DOFVector<double>* vec,
Mesh* mesh)
{
long size = mesh->getNumberOfVertices();
TEST_EXIT(vec->getSize()>=size)("dofvector smaller than vertex data vector\n");
std::string buf;
getline(in, buf);
while (!in.eof() && buf != "vertex values: solution")
getline(in, buf);
while (buf != "vertex values: solution")
getline(in, buf);
for (long i = 0; i < size; i++) {
in >> buf;
(*vec)[i] = atof(buf.c_str());
}
TEST_EXIT(!in.eof())("no vertex data\n");
for (long i = 0; i < size ; ++i) {
in >> buf;
(*vec)[i] = atof(buf.c_str());
}
}
void ProblemImplicitBase::readR(std::istream& inStream, double eps,
Mesh* mesh, int implMesh , int comp)
{
FUNCNAME("ProblemImplicitBase::readR()");
void readR(std::istream& inStream, double eps,
DOFVector<double>* r, DOFVector<double>* phi1,
DOFVector<double>* phi2, DOFVector<double>* levelSet,
Mesh* mesh)
{
readDofvec(inStream, r, mesh);
std::vector<double>& vecR = r->getVector();
std::vector<double>& vecPhi1 = phi1->getVector();
std::vector<double>& vecPhi2 = phi2->getVector();
std::vector<double>& vecLevelSet = levelSet->getVector();
bool checkSize =
vecR.size() != vecPhi1.size() && vecPhi2.size() != vecR.size();
TEST_EXIT(checkSize)("something went wrong\n");
for (int i = vecR.size() - 1; i >= 0; --i) {
vecPhi1[i] = Phi1(vecR[i], eps);
vecPhi2[i] = Phi2(vecR[i], eps);
vecLevelSet[i] = LevelSet(vecR[i]);
}
DOFVector< double >* r = getSignedDistance(implMesh, comp);
DOFVector< double >* phi1 = getPhi1(implMesh, comp);
DOFVector< double >* phi2 = getPhi2(implMesh, comp);
DOFVector< double >* levelSet = getLevelset(implMesh, comp);
TEST_EXIT( r != NULL )("no signed distance vector\n");
TEST_EXIT( phi1 != NULL )("no phasefield1 vector\n");
TEST_EXIT( phi2 != NULL )("no phasefield2 vector\n");
TEST_EXIT( levelSet != NULL )("no levelSet vector\n");
bool checkSize = r->getSize() == phi1->getSize() &&
r->getSize() == phi2->getSize();
TEST_EXIT(checkSize)("something went wrong\n");
readDofVec(inStream, r, mesh);
for (int i = r->getSize() - 1; i >= 0; --i) {
(*phi1)[i] = Phi1((*r)[i], eps);
(*phi2)[i] = Phi2((*r)[i], eps);
(*levelSet)[i] = LevelSet((*r)[i]);
}
}
void readPhi1(istream& inStream, double eps,
DOFVector<double>* r, DOFVector<double>* phi1,
DOFVector<double>* phi2, DOFVector<double>* levelSet,
Mesh* mesh)
{
readDofvec(inStream, phi1, mesh);
std::vector<double>& vecR = r->getVector();
std::vector<double>& vecPhi1 = phi1->getVector();
std::vector<double>& vecPhi2 = phi2->getVector();
std::vector<double>& vecLevelSet = levelSet->getVector();
bool checkSize =
vecR.size() != vecPhi1.size() && vecPhi2.size() != vecR.size();
TEST_EXIT(checkSize)("something went wrong\n");
for (int i = vecR.size() - 1; i>= 0; --i) {
vecR[i] = Phi1ToR(vecPhi1[i], eps);
//vecPhi2[i] = Phi2(vecR[i], eps);
vecPhi2[i] = 1 - vecPhi1[i];
vecLevelSet[i] = LevelSet(vecR[i]);
}
void ProblemImplicitBase::readPhi1(istream& inStream, double eps,
Mesh* mesh, int implMesh, int comp )
{
DOFVector< double >* r = getSignedDistance(implMesh, comp);
DOFVector< double >* phi1 = getPhi1(implMesh, comp);
DOFVector< double >* phi2 = getPhi2(implMesh, comp);
DOFVector< double >* levelSet = getLevelset(implMesh, comp);
TEST_EXIT( r != NULL )("no signed distance vector\n");
TEST_EXIT( phi1 != NULL )("no phasefield1 vector\n");
TEST_EXIT( phi2 != NULL )("no phasefield2 vector\n");
TEST_EXIT( levelSet != NULL )("no levelSet vector\n");
bool checkSize = r->getSize() == phi1->getSize() &&
r->getSize() == phi2->getSize();
TEST_EXIT(checkSize)("something went wrong\n");
readDofVec(inStream, phi1, mesh);
for (int i = r->getSize() - 1; i>= 0; --i) {
(*r)[i] = Phi1ToR((*phi1)[i], eps);
(*phi2)[i] = 1 - (*phi1)[i];
(*levelSet)[i] = LevelSet((*r)[i]);
}
}
void readPhi2(istream& inStream, double eps,
DOFVector<double>* r, DOFVector<double>* phi1,
DOFVector<double>* phi2, DOFVector<double>* levelSet,
Mesh* mesh)
{
readDofvec(inStream, phi2, mesh);
std::vector<double>& vecR = r->getVector();
std::vector<double>& vecPhi1 = phi1->getVector();
std::vector<double>& vecPhi2 = phi2->getVector();
std::vector<double>& vecLevelSet = levelSet->getVector();
bool checkSize = vecR.size() != vecPhi1.size() && vecPhi2.size() != vecR.size();
TEST_EXIT(checkSize)("something went wrong\n");
for (int i = vecR.size() - 1; i >= 0; --i) {
vecR[i] = Phi2ToR(vecPhi2[i], eps);
//vecPhi1[i] = Phi1(vecR[i], eps);
vecPhi1[i] = 1 - vecPhi2[i];
vecLevelSet[i] = LevelSet(vecR[i]);
}
void ProblemImplicitBase::readPhi2(istream& inStream, double eps,
Mesh* mesh, int implMesh, int comp )
{
DOFVector< double >* r = getSignedDistance(implMesh, comp);
DOFVector< double >* phi1 = getPhi1(implMesh, comp);
DOFVector< double >* phi2 = getPhi2(implMesh, comp);
DOFVector< double >* levelSet = getLevelset(implMesh, comp);
TEST_EXIT( r != NULL )("no signed distance vector\n");
TEST_EXIT( phi1 != NULL )("no phasefield1 vector\n");
TEST_EXIT( phi2 != NULL )("no phasefield2 vector\n");
TEST_EXIT( levelSet != NULL )("no levelSet vector\n");
bool checkSize = r->getSize() == phi1->getSize() &&
r->getSize() == phi2->getSize();
TEST_EXIT(checkSize)("something went wrong\n");
readDofVec(inStream, phi2, mesh);
for (int i = r->getSize() - 1; i >= 0; --i) {
(*r)[i] = Phi2ToR((*r)[i], eps);
(*phi1)[i] = 1 - (*phi2)[i];
(*levelSet)[i] = LevelSet((*r)[i]);
}
}
std::string ProblemImplicitBase::getDofFilename(std::string path, int implMesh)
{
std::string suffix = "[" +
boost::lexical_cast< std::string >(implMesh) +
"]";
std::string dofFilename("");
GET_PARAMETER(0, path + "dof file" + suffix, &dofFilename);
if (implMesh == 0 && dofFilename.length() == 0)
GET_PARAMETER(0, path + "dof file", &dofFilename);
return dofFilename;
}
double ProblemImplicitBase::getEpsilon(std::string path, int implMesh)
{
std::string suffix = "[" +
boost::lexical_cast< std::string >(implMesh) +
"]";
bool ProblemImplicitScal::createImplicitMesh()
double eps(-1);
GET_PARAMETER(0, path + "eps" + suffix, "%g", &eps);
if (implMesh == 0 && eps < 0)
GET_PARAMETER(0, path + "eps", "%g", &eps);
return eps;
}
int ProblemImplicitBase::getType(std::string path, int implMesh)
{
std::string suffix = "[" +
boost::lexical_cast< std::string >(implMesh) +
"]";
int serType(-1);
GET_PARAMETER(0, path + "type" + suffix, "%d", &serType);
if (implMesh == 0 && serType < 0)
GET_PARAMETER(0, path + "type", "%d", &serType);
return serType;
}
DOFVector< double >* ProblemImplicitScal::getSignedDistance(int im , int )
{
if (readImplMesh)
return r[im];
return NULL;
}
DOFVector< double >* ProblemImplicitScal::getPhi1(int im , int )
{
if (readImplMesh)
return phi1[im];
return NULL;
}
DOFVector< double >* ProblemImplicitScal::getPhi2(int im , int )
{
if (readImplMesh)
return phi2[im];
return NULL;
}
DOFVector< double >* ProblemImplicitScal::getLevelset(int im , int )
{
if (readImplMesh)
return levelSet[im];
return NULL;
}
void ProblemImplicitScal::createMesh()
{
FUNCNAME("ProblemImplicitScal::createMesh()");
ProblemScal::createMesh();
std::string path = name + "->implicit mesh";
std::string meshFilename("");
GET_PARAMETER(0, name + "->implicit mesh->mesh file", &meshFilename);
//if no file name is given, there's no implicit mesh
if (meshFilename.length() == 0)
GET_PARAMETER(0, path + "->macro file name", &meshFilename);
std::string serFilename("");
GET_PARAMETER(0, path + "->serialization file name", &serFilename);
if ( meshFilename.length() > 0)
mesh->setName(path);
else
if ( serFilename.length() > 0 ) {
//INFO(5,1)("loading implicit mesh %s \n", serFilename.c_str());
std::string oldName = mesh->getName();
std::ifstream inStream(serFilename.c_str());
mesh->deserialize(inStream);
inStream.close();
mesh->setName(oldName);
readImplMesh = true;
}
}
void ProblemImplicitScal::initialize(Flag initFlag, ProblemScal* adaptProblem,
Flag adoptFlag)
{
FUNCNAME("ProblemImplicitScal::initialize()");
ProblemScal::initialize(initFlag);
createImplicitMesh();
}
bool ProblemImplicitScal::createImplicitMesh()
{
if (!isImplicitMesh())
return false;
std::string path = name + "->implicit mesh->";
int nImplMesh(1);
GET_PARAMETER(0, name + "nr meshes", "%d", &nImplMesh);
std::string dofFilename("");
GET_PARAMETER(0, name + "->implicit mesh->dof file", &dofFilename);
r.resize(nImplMesh);
phi1.resize(nImplMesh);
phi2.resize(nImplMesh);
levelSet.resize(nImplMesh);
for ( int i = 0; i < nImplMesh ; ++i) {
r[i] = new DOFVector< double >(getFeSpace(), "r");
phi1[i] = new DOFVector< double >(getFeSpace(), "phi1");
phi2[i] = new DOFVector< double >(getFeSpace(), "phi2");
levelSet[i] = new DOFVector< double >(getFeSpace(), "levelSet");
createImplicitMesh(path, i);
}
return true;
}
bool ProblemImplicitScal::createImplicitMesh(string path, int p)
{
std::string dofFilename = getDofFilename(path, p);
if (dofFilename.length() == 0)
return false;
double eps(-1.0);
GET_PARAMETER(0, name + "->implicit mesh->eps", "%d", &eps);
if (eps < 0)
double eps = getEpsilon(path, p);
if (eps < 0.0)
return false;
int serType(-1);
GET_PARAMETER(0, name + "->implicit mesh->type", "%d", &serType);
int serType = getType(path, p);
if (serType < 0)
return false;
TEST_EXIT(mesh != NULL)("the mesh was not created\n");
std::ifstream inStream(meshFilename.c_str());
mesh->deserialize(inStream);
inStream.close();
//create the fespace with the correct admin
createFeSpace();
r = new DOFVector< double >(getFeSpace(), "r");
phi1 = new DOFVector<double>(getFeSpace(), "phi1");
phi2 = new DOFVector<double>(getFeSpace(), "phi2");
levelSet = new DOFVector< double >(getFeSpace(), "levelSet");
inStream.open(dofFilename.c_str());
std::ifstream inStream(dofFilename.c_str());
switch (serType) {
case 0:
calcspace::readR(inStream, eps, r, phi1, phi2, levelSet, mesh);
readR(inStream, eps, mesh, p);
break;
case 1:
calcspace::readPhi1(inStream, eps, r, phi1, phi2, levelSet, mesh);
readPhi1(inStream, eps, mesh, p);
break;
case 2:
calcspace::readPhi2(inStream, eps, r, phi1, phi2, levelSet, mesh);
readPhi2(inStream, eps, mesh, p);
break;
default:
WARNING("unknown implicit mesh type\n");
......@@ -138,16 +261,36 @@ namespace AMDiS {
}
void ProblemImplicitScal::initialize(Flag initFlag,
ProblemScal* adaptProblem, Flag adoptFlag)
DOFVector< double >* ProblemImplicitVec::getSignedDistance(int im , int m)
{
if ( m >= r.size() || im >= r[m].size())
return NULL;
return (r[m])[im];
}
DOFVector< double >* ProblemImplicitVec::getPhi1(int im, int m)
{
FUNCNAME("ProblemImplicitScal::initialize()");
ProblemScal::initialize(CREATE_MESH);
createImplicitMesh();
initFlag = initFlag & ~CREATE_MESH;
ProblemScal::initialize(initFlag);
if (m >= phi1.size() || im >= phi1[m].size())
return NULL;
return (phi1[m])[im];
}
DOFVector< double >* ProblemImplicitVec::getPhi2(int im, int m)
{
if (m >= phi2.size() || im >= phi2[m].size())
return NULL;
return (phi2[m])[im];
}
DOFVector< double >* ProblemImplicitVec::getLevelset(int im, int m)
{
if (m >= levelSet.size() || im >= levelSet[m].size())
return NULL;
return (levelSet[m])[im];
}
bool ProblemImplicitVec::createImplicitMesh()
{
......@@ -157,55 +300,64 @@ namespace AMDiS {
phi2.resize(meshes.size());
levelSet.resize(meshes.size());
for (int i = 0; i < meshes.size(); ++i)
createImplicitMesh(i);
createImplicitMesh(i);
return true;
}
bool ProblemImplicitVec::createImplicitMesh(int p)
{
std::string path =
name + "->implicit mesh[" + boost::lexical_cast< std::string >(p) + "]->";
std::string meshFilename("");
GET_PARAMETER(0, path + "mesh file", &meshFilename);
//if no file name is given, there's no implicit mesh
if (meshFilename.length() == 0)
FUNCNAME("ProblemImplicitVec::createImplicitMesh()");
//INFO(5,1)("initing mesh %d\n", p);
if (!isImplicitMesh(p))
return false;
std::string dofFilename("");
GET_PARAMETER(0,path + "dof file", &dofFilename);
std::string path = name + "->implicit mesh["
+ boost::lexical_cast< std::string >(p) + "]->";
int nImplMeshes(0);
GET_PARAMETER(0, path + "nr meshes", "%d", &nImplMeshes);
//INFO(5,1)("has %d meshe(s)\n", nImplMeshes);
r[p].resize(nImplMeshes);
phi1[p].resize(nImplMeshes);
phi2[p].resize(nImplMeshes);
levelSet[p].resize(nImplMeshes);
for ( int i = 0; i < nImplMeshes ; ++i ) {
(r[p])[i] = new DOFVector< double >(getFeSpace(p), "r");
(phi1[p])[i] = new DOFVector< double >(getFeSpace(p), "phi1");
(phi2[p])[i] = new DOFVector< double >(getFeSpace(p), "phi2");
(levelSet[p])[i] = new DOFVector< double >(getFeSpace(p), "levelSet");
createImplicitMesh(path, i, p);
}
return true;
}
bool ProblemImplicitVec::createImplicitMesh(std::string path, int implMesh,
int comp)
{
FUNCNAME("ProblemImplicitVec::createImplicitMesh()");
std::string dofFilename = getDofFilename(path, implMesh);
if (dofFilename.length() == 0)
return false;
double eps(-1.0);
GET_PARAMETER(0, path + "eps", "%d", &eps);
double eps = getEpsilon(path, implMesh);
if (eps < 0.0)
return false;
int serType(-1);
GET_PARAMETER(0, path + "type", "%d", &serType);
int serType = getType(path, implMesh);
if (serType < 0)
return false;
TEST_EXIT(meshes[p] != NULL)("the mesh was not created\n");
std::ifstream inStream(meshFilename.c_str());
meshes[p]->deserialize(inStream);
inStream.close();
//create the fespace with the correct admin
createFeSpace(NULL);
r[p] = new DOFVector< double >(getFeSpace(p), "r");
phi1[p] = new DOFVector<double>(getFeSpace(p), "phi1");
phi2[p] = new DOFVector<double>(getFeSpace(p), "phi2");
levelSet[p] = new DOFVector< double >(getFeSpace(p), "levelSet");
inStream.open(dofFilename.c_str());
TEST_EXIT(meshes[comp] != NULL)("the mesh was not created\n");
std::ifstream inStream(dofFilename.c_str());
switch (serType) {
case 0:
calcspace::readR(inStream, eps,r[p], phi1[p], phi2[p],
levelSet[p], meshes[p]);
readR(inStream, eps, meshes[comp], implMesh, comp);
break;
case 1:
calcspace::readPhi1(inStream, eps, r[p], phi1[p], phi2[p],
levelSet[p], meshes[p]);
readPhi1(inStream, eps, meshes[comp], implMesh, comp);
break;
case 2:
calcspace::readPhi2(inStream,eps, r[p], phi1[p], phi2[p],
levelSet[p], meshes[p]);
readPhi2(inStream, eps, meshes[comp], implMesh, comp);
break;
default:
WARNING("unknown implicit mesh type\n");
......@@ -214,14 +366,39 @@ namespace AMDiS {
return true;
}
void ProblemImplicitVec::createMesh()
{
FUNCNAME("ProblemImplicitVec::createMesh()");
ProblemVec::createMesh();
implMesh.resize(meshes.size());
for (int i = 0 ; i < meshes.size() ; ++i )
{
std::string path = name + "->implicit mesh[" +
boost::lexical_cast< std::string >(i) + "]";
std::string meshFilename("");
GET_PARAMETER(0, path + "->macro file name", &meshFilename);
std::string serFilename("");
GET_PARAMETER(0, path + "->serialization file name", &serFilename);
implMesh[i] = true;
if (meshFilename.length() > 0)
meshes[i]->setName(path);
else if (serFilename.length() > 0)
{
//INFO(5,1)("reading serialization file name %s \n", serFilename.c_str());
std::ifstream inStream(serFilename.c_str());
meshes[i]->deserialize(inStream);
inStream.close();
} else
implMesh[i] = false;
}
}
void ProblemImplicitVec::initialize(Flag initFlag,
ProblemScal* adaptProblem, Flag adoptFlag)
void ProblemImplicitVec::initialize(Flag initFlag, ProblemScal* adaptProblem,
Flag adoptFlag)
{
FUNCNAME("ProblemImplicitVec::initialize()");
ProblemVec::initialize(CREATE_MESH);
createImplicitMesh();
initFlag = initFlag & ~CREATE_MESH;
ProblemVec::initialize(initFlag);
createImplicitMesh();
}
}
AMDiS/src/ProblemImplicit.h
View file @ 8891146d
......@@ -27,15 +27,36 @@
#include "ProblemVec.h"
namespace AMDiS {
class ProblemImplicitScal : public ProblemScal
class ProblemImplicitBase
{
public:
virtual bool createImplicitMesh() = 0;
virtual DOFVector< double >* getSignedDistance(int im = 0, int m = 0) = 0;
virtual DOFVector< double >* getPhi1(int im = 0, int m = 0) = 0;
virtual DOFVector< double >* getPhi2(int im = 0, int m = 0) = 0;
virtual DOFVector< double >* getLevelset(int im = 0, int m = 0) = 0;
protected:
void readDofVec(std::istream& , DOFVector<double>* , Mesh* );
void readR(std::istream& , double , Mesh* , int implMesh = 0, int comp = 0);
void readPhi1(std::istream& , double , Mesh* , int implMesh = 0, int comp = 0);
void readPhi2(std::istream& , double , Mesh* , int implMesh = 0, int comp = 0);
std::string getDofFilename(std::string path, int implMesh = 0);
double getEpsilon(std::string path, int implMesh = 0);
int getType(std::string path, int implMesh = 0);
virtual bool isImplicitMesh(int comp = 0 ) = 0;
};
class ProblemImplicitScal : public ProblemScal , public ProblemImplicitBase
{
public:
ProblemImplicitScal(std::string name, ProblemIterationInterface* pis = NULL)
: ProblemScal(name, pis),
r(NULL),
phi1(NULL),
phi2(NULL),
levelSet(NULL)
r(0),
phi1(0),
phi2(0),
levelSet(0),
readImplMesh(false)
{}
/// @return: true if implicit mesh type is ok (see below) and false in
......@@ -52,26 +73,37 @@ namespace AMDiS {
/// a) already created, but not yet initialized mesh
/// b) already created feSpace
virtual bool createImplicitMesh();
virtual void createMesh();