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// ______ ______ _ _ _____ ______ |
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// | ____| ____| | (_)/ ____| | ____| |
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// | |__ | |__ | | _| (___ ___| |__ |
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// | __| | __| | | | |\___ \ / __| __| |
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// | | | |____| |____| |____) | (__| |____ |
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// |_| |______|______|_|_____/ \___|______| |
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// Finite Elements for Life Sciences and Engineering |
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// |
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// License: LGL2.1 License |
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// FELiScE default license: LICENSE in root folder |
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// |
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// Main authors: E. Schenone |
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// |
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// System includes |
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// External includes |
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// Project includes |
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#include "PETScInterface/romPETSC.hpp" |
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namespace felisce { |
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RomPETSC::RomPETSC(): |
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m_fstransient(nullptr), |
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m_buildBasis(false), |
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m_buildMass(false), |
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m_buildInverse(false), |
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m_isFirstStep(false) |
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{ |
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m_setPreconditionerOption = SAME_NONZERO_PATTERN; |
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} |
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RomPETSC::~RomPETSC() { |
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if(m_buildBasis) { |
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m_romBasis.destroy(); |
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m_romMatrix.destroy(); |
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} |
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if(m_buildMass) { |
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m_mass.destroy(); |
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} |
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if(m_buildInverse) { |
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m_inverseMatrix.destroy(); |
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} |
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if (m_isFirstStep) { |
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m_romRHS.destroy(); |
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m_romSolution.destroy(); |
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} |
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} |
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// initialize the pod basis parameters (passing AO& ao too - useful to find petsc dof indeces mapping) |
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void RomPETSC::initializeRom(FelisceTransient::Pointer fstransient,MPI_Comm& comm, AO& ao) { |
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m_fstransient = fstransient; |
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m_verbose = FelisceParam::verbose(); |
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m_MPIcomm = comm; |
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m_ao = ao; |
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m_filenameBasis = FelisceParam::instance().podBasisFile; |
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m_dimRomBasis = FelisceParam::instance().dimRomBasis; |
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m_dimFullRomBasis = m_dimRomBasis; |
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m_useInverse = true; |
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} |
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// initialize the pod basis parameters |
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void RomPETSC::initializeRom(FelisceTransient::Pointer fstransient,MPI_Comm& comm) { |
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m_fstransient = fstransient; |
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m_verbose = FelisceParam::verbose(); |
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m_MPIcomm = comm; |
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m_filenameBasis = FelisceParam::instance().podBasisFile; |
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m_dimRomBasis = FelisceParam::instance().dimRomBasis; |
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m_dimFullRomBasis = m_dimRomBasis; |
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m_useInverse = true; |
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} |
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// Intialize basis matrix from matrix |
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void RomPETSC::initializeRomBasis(const PetscMatrix& basis) { |
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felInt lengthBasis; |
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basis.getSize(&lengthBasis,&m_dimRomBasis); |
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m_romBasis.duplicateFrom(basis,MAT_COPY_VALUES); |
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m_romBasis.assembly(MAT_FINAL_ASSEMBLY); |
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m_buildBasis = true; |
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} |
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// Intialize basis matrix from matrix |
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void RomPETSC::initializeRomBasis(const std::vector<PetscVector*>& basis) { |
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m_dimRomBasis = basis.size(); |
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felInt lengthBasis; |
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(*basis[0]).getSize(&lengthBasis); |
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m_romBasis.createDense(m_MPIcomm,PETSC_DECIDE,PETSC_DECIDE,lengthBasis,m_dimRomBasis,FELISCE_PETSC_NULLPTR); |
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m_romBasis.setFromOptions(); |
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double tmpValue[lengthBasis]; |
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felInt ia[lengthBasis]; |
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for (felInt i=0; i< lengthBasis; i++) { |
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ia[i] = i; |
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} |
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AOApplicationToPetsc(m_ao,lengthBasis,ia); |
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int ja; |
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for (int j=0; j<m_dimRomBasis; j++) { |
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(*basis[j]).getValues(lengthBasis,ia,tmpValue); |
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ja = j; |
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AOApplicationToPetsc(m_ao,1,&ja); |
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m_romBasis.setValues(lengthBasis,ia,1,&ja,tmpValue,INSERT_VALUES); |
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} |
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m_romBasis.assembly(MAT_FINAL_ASSEMBLY); |
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m_buildBasis = true; |
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} |
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// read POD basis from file |
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// format: |
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// # of elements |
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// # of dof |
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// element1 || ...|| elementK |
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// element1 || ...|| elementK |
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// ... |
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// Intialize basis matrix from file |
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void RomPETSC::initializeRomBasis() { |
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m_filenameBasis = FelisceParam::instance().inputDirectory + "/" + FelisceParam::instance().podBasisFile; |
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if (m_verbose) { |
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std::cout << " Rom::initBasis: Reading from file "<< m_filenameBasis << std::endl; |
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} |
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std::ifstream basisFile(m_filenameBasis.c_str(),std::ios_base::in); |
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if (!basisFile) { |
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FEL_ERROR(" Rom::initBasis(): Impossible to read file: "+m_filenameBasis+" (POD basis)"); |
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} |
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felInt lengthBasis; |
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basisFile >> lengthBasis; // read n. of rows |
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basisFile >> m_dimFullRomBasis; // read n. of columns (total) |
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if (m_verbose) { |
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std::cout << "Read matrix of " << lengthBasis << " rows and " << m_dimFullRomBasis << " columns.\n"; |
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} |
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if (m_dimFullRomBasis<m_dimRomBasis) { |
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std::cout << " requested dimBasis = " << m_dimRomBasis << ", available elements = "<< m_dimFullRomBasis << std::endl; |
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FEL_ERROR(" Rom::initBasis: not enough basis element available !"); |
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} |
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m_romBasis.createDense(m_MPIcomm, PETSC_DECIDE, PETSC_DECIDE, lengthBasis, m_dimRomBasis, FELISCE_PETSC_NULLPTR); |
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m_romBasis.setFromOptions(); |
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double tmpValue[m_dimRomBasis]; |
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felInt ia[m_dimRomBasis]; |
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felInt ja; |
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char line[1024]; |
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double k = 1.0; |
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for (felInt j=0; j<lengthBasis; j++) { //rows |
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ja = j; |
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if ((j+1.0)>=(k*0.1*lengthBasis)) { |
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std::cout << "... " << 10*k << "% "; |
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k=k+1.0; |
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} |
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for (felInt i=0; i< m_dimRomBasis; i++) { // columns |
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ia[i] = i; |
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basisFile >> tmpValue[i]; |
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} |
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basisFile.getline(line, 1024, '\n'); |
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AOApplicationToPetsc(m_ao,1,&ja); |
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m_romBasis.setValues(1,&ja,m_dimRomBasis,ia,tmpValue,INSERT_VALUES); |
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} |
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m_romBasis.assembly(MAT_FINAL_ASSEMBLY); |
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m_buildBasis = true; |
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} |
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void RomPETSC::gatherVector(PetscVector& parVector, PetscVector& seqVector) { |
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PetscVector vout; |
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parVector.scatterToAll(vout,INSERT_VALUES,SCATTER_FORWARD); |
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seqVector.duplicateFrom(vout); |
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seqVector.copyFrom(vout); |
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vout.destroy(); |
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} |
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// given a full std::vector f, compute \hat f = Phi^t f |
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void RomPETSC::fullToReducedRHS(PetscVector& fullVector) { |
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if (m_fstransient->iteration == 1) { |
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m_romRHS.create(m_MPIcomm); |
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m_romRHS.setSizes(PETSC_DECIDE, m_dimRomBasis); |
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m_romRHS.setFromOptions(); |
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m_romRHS.zeroEntries(); |
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} |
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multTranspose(m_romBasis,fullVector,m_romRHS); |
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m_isFirstStep = true; |
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} |
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// given a full matrix A, compute \hat A = Phi^t A \Phi |
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void RomPETSC::fullToReducedMatrix(PetscMatrix& fullMatrix) { |
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PetscMatrix tmpMat; |
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// m_tmpMat = fullMatrix * m_romBasis |
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matMult(fullMatrix, m_romBasis, MAT_INITIAL_MATRIX, PETSC_DEFAULT, tmpMat); |
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// m_romMatrix = m_romBasis^T * tmpMat |
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transposeMatMult(m_romBasis, tmpMat, MAT_INITIAL_MATRIX, PETSC_DEFAULT, m_romMatrix); |
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tmpMat.destroy(); |
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if (m_useInverse) |
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calculateInverse(); |
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} |
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// solve the reduced linear system |
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void RomPETSC::solveALP() { |
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if (m_fstransient->iteration == 1) { |
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m_romSolution.duplicateFrom(m_romRHS); |
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} |
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m_romSolution.zeroEntries(); |
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if (m_verbose) { |
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std::cout << " Rom:: solveROM() - solve reduced model "<< std::endl; |
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} |
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mult(m_inverseMatrix, m_romRHS, m_romSolution); |
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} |
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// solve the reduced linear system |
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void RomPETSC::solveROM(PetscVector& solution) { |
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if (m_fstransient->iteration == 1) { |
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m_romSolution.duplicateFrom(m_romRHS); |
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} |
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m_romSolution.zeroEntries(); |
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if (m_verbose) { |
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std::cout << " Rom:: solveROM() - solve reduced model "<< std::endl; |
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} |
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if (!m_useInverse) { |
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PCFactorSetReuseFill(m_pc, PETSC_TRUE); |
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KSPSetOperators(m_ksp,m_romMatrix.toPetsc(),m_romMatrix.toPetsc()); |
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if(strcmp(FelisceParam::instance().setPreconditionerOption[0].c_str(), "SAME_PRECONDITIONER") == 0) |
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KSPSetReusePreconditioner(m_ksp, PETSC_TRUE); |
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else |
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KSPSetReusePreconditioner(m_ksp, PETSC_FALSE); |
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KSPSetFromOptions(m_ksp); |
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KSPSolve(m_ksp,m_romRHS.toPetsc(),m_romSolution.toPetsc()); |
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PetscInt its; |
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KSPGetIterationNumber(m_ksp,&its); |
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if (m_verbose) { |
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PetscPrintf(m_MPIcomm, "\n/================Information about solver==============/\n"); |
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PetscPrintf(m_MPIcomm, "Solver use: <%s>.\n",FelisceParam::instance().solver[0].c_str()); |
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PetscPrintf(m_MPIcomm, "Preconditioner use: <%s>.\n",FelisceParam::instance().preconditioner[0].c_str()); |
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PetscPrintf(m_MPIcomm, "Preconditioner re-use option: <%s>.\n",FelisceParam::instance().setPreconditionerOption[0].c_str()); |
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if (m_verbose > 1 ) { |
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PetscPrintf(m_MPIcomm, "Relative tolerance: %lf.\n",FelisceParam::instance().relativeTolerance[0]); |
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PetscPrintf(m_MPIcomm, "Absolute tolerance: %lf.\n",FelisceParam::instance().absoluteTolerance[0]); |
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PetscPrintf(m_MPIcomm, "Maximum of iterations: %d.\n",FelisceParam::instance().maxIteration[0]); |
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} |
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PetscPrintf(m_MPIcomm, "Number of iterations to inverse matrix: %d\n", its); |
| 260 |
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} |
| 261 |
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} else { |
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mult(m_inverseMatrix, m_romRHS, m_romSolution); |
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} |
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if (m_verbose) { |
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std::cout << " Rom:: solveROM() - get full solution "<< std::endl; |
| 267 |
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} |
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mult(m_romBasis,m_romSolution,solution); |
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} |
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void RomPETSC::setSolver(KSP ksp, PC pc, MatStructure setPreconditionerOption) |
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{ |
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IGNORE_UNUSED_ARGUMENT(ksp); |
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IGNORE_UNUSED_ARGUMENT(pc); |
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IGNORE_UNUSED_ARGUMENT(setPreconditionerOption); |
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const auto& r_instance = FelisceParam::instance(); |
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KSPCreate(m_MPIcomm,&m_ksp); |
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PCCreate(m_MPIcomm,&m_pc); |
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const auto& solver = r_instance.solver[0]; |
| 281 |
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if ( solver == "preonly" || solver == "mumps" || solver == "superlu_dist" ) |
| 282 |
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KSPSetType(m_ksp, KSPPREONLY); |
| 283 |
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else |
| 284 |
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KSPSetType(m_ksp, solver.c_str()); |
| 285 |
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PCSetFromOptions(m_pc); |
| 286 |
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KSPGetPC(m_ksp,&m_pc); |
| 287 |
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PCSetType(m_pc,r_instance.preconditioner[0].c_str()); |
| 288 |
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KSPSetTolerances(m_ksp,r_instance.relativeTolerance[0],r_instance.absoluteTolerance[0],PETSC_DEFAULT,r_instance.maxIteration[0]); |
| 289 |
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| 290 |
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// TODO: MATSOLVERPASTIX once it works |
| 291 |
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if ( solver == "preonly" || solver == "mumps" ) { |
| 292 |
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PCFactorSetMatSolverType(m_pc, MATSOLVERMUMPS); |
| 293 |
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} else |
| 294 |
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#if SUPERLU_DIST_COMPILED |
| 295 |
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if ( solver == "superlu_dist" ) { |
| 296 |
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PCFactorSetMatSolverType(m_pc, MATSOLVERSUPERLU_DIST); |
| 297 |
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} else |
| 298 |
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#else |
| 299 |
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if ( solver == "superlu_dist" ) { |
| 300 |
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FEL_WARNING("SuperLUDist not available, we proceed using MUMPS") |
| 301 |
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PCFactorSetMatSolverType(m_pc, MATSOLVERMUMPS); |
| 302 |
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} else |
| 303 |
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#endif |
| 304 |
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{ |
| 305 |
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✗ |
if ( r_instance.initSolverWithPreviousSolution[0] ) { |
| 306 |
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KSPSetInitialGuessNonzero(m_ksp, PETSC_TRUE); |
| 307 |
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} |
| 308 |
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} |
| 309 |
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| 310 |
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{ |
| 311 |
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// TODO: to be removed |
| 312 |
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✗ |
PetscOptionsSetValue(NULL, "-mat_mumps_icntl_20", "0"); |
| 313 |
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} |
| 314 |
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} |
| 315 |
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| 316 |
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✗ |
void RomPETSC::calculateInverse() { |
| 317 |
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//Create the identityMatrix |
| 318 |
|
✗ |
PetscMatrix identityMatrix; |
| 319 |
|
✗ |
identityMatrix.createDense(m_MPIcomm, PETSC_DECIDE, PETSC_DECIDE, m_dimRomBasis, m_dimRomBasis, FELISCE_PETSC_NULLPTR); |
| 320 |
|
✗ |
identityMatrix.setFromOptions(); |
| 321 |
|
✗ |
identityMatrix.zeroEntries(); |
| 322 |
|
✗ |
m_inverseMatrix.duplicateFrom(identityMatrix,MAT_COPY_VALUES); |
| 323 |
|
✗ |
identityMatrix.shift(1.0); |
| 324 |
|
|
|
| 325 |
|
|
// ILU factorization of_romMatrix |
| 326 |
|
|
IS perm; |
| 327 |
|
✗ |
ISCreateStride(m_MPIcomm, m_dimRomBasis, 0, 1, &perm); |
| 328 |
|
|
MatFactorInfo iluinfo; |
| 329 |
|
✗ |
iluinfo.fill = 1.0; |
| 330 |
|
✗ |
m_romMatrix.luFactor(perm, perm, &iluinfo); |
| 331 |
|
|
|
| 332 |
|
|
// Solve m_romMatrix * m_inverseMatrix = identityMatrix |
| 333 |
|
✗ |
MatMatSolve(m_romMatrix.toPetsc(), identityMatrix.toPetsc(), m_inverseMatrix.toPetsc()); |
| 334 |
|
|
|
| 335 |
|
✗ |
identityMatrix.destroy(); |
| 336 |
|
|
|
| 337 |
|
✗ |
m_buildInverse = true; |
| 338 |
|
|
|
| 339 |
|
|
} |
| 340 |
|
|
|
| 341 |
|
|
|
| 342 |
|
✗ |
void RomPETSC::readCase(int& precisionSol,std::vector<std::string>& variable, felInt& snapSize) { |
| 343 |
|
|
// Solution files. |
| 344 |
|
✗ |
std::string caseFileName = FelisceParam::instance().resultDir + "/" + FelisceParam::instance().prefixName[0] + ".case"; |
| 345 |
|
|
|
| 346 |
|
✗ |
std::ifstream casefile(caseFileName.c_str(), std::ios_base::in); |
| 347 |
|
|
char line[1024]; |
| 348 |
|
✗ |
std::string aux; |
| 349 |
|
✗ |
if ( !casefile ) { |
| 350 |
|
✗ |
std::cout << " ERROR: Can not open file "+caseFileName+"."<< std::endl; |
| 351 |
|
✗ |
exit(1); |
| 352 |
|
|
} else { |
| 353 |
|
✗ |
if (FelisceParam::verbose() > 0) { |
| 354 |
|
✗ |
std::cout << "Reading " << caseFileName << std::endl; |
| 355 |
|
|
} |
| 356 |
|
|
} |
| 357 |
|
|
|
| 358 |
|
✗ |
casefile.getline(line, 1024, ':'); |
| 359 |
|
✗ |
casefile.getline(line, 1024, ':'); |
| 360 |
|
✗ |
casefile.getline(line, 1024, ' '); |
| 361 |
|
✗ |
casefile.getline(line, 1024, ' '); |
| 362 |
|
✗ |
casefile.getline(line, 1024, '\n'); |
| 363 |
|
✗ |
std::string geoFileName = FelisceParam::instance().resultDir + "/" + line; |
| 364 |
|
✗ |
std::ifstream geoFile(geoFileName.c_str(),std::ios_base::in); |
| 365 |
|
✗ |
for (int i=0; i<5; i++) { |
| 366 |
|
✗ |
geoFile.getline(line,1024,'\n'); |
| 367 |
|
|
} |
| 368 |
|
✗ |
geoFile >> snapSize; |
| 369 |
|
✗ |
geoFile.close(); |
| 370 |
|
|
|
| 371 |
|
✗ |
bool endCase = false; |
| 372 |
|
✗ |
while (!endCase) { |
| 373 |
|
✗ |
casefile.getline(line, 1024, ':'); |
| 374 |
|
✗ |
casefile.getline(line, 1024, ' '); |
| 375 |
|
✗ |
casefile.getline(line, 1024, ' '); |
| 376 |
|
✗ |
casefile.getline(line, 1024, ' '); |
| 377 |
|
✗ |
casefile.getline(line, 1024, '.'); |
| 378 |
|
✗ |
variable.emplace_back(line); |
| 379 |
|
✗ |
casefile.getline(line, 1024, '.'); |
| 380 |
|
✗ |
aux = line; |
| 381 |
|
✗ |
precisionSol = aux.length(); |
| 382 |
|
✗ |
casefile.getline(line, 1024, '\n'); |
| 383 |
|
✗ |
casefile.getline(line, 1024, ' '); |
| 384 |
|
✗ |
aux = line; |
| 385 |
|
✗ |
if (aux == "TIME\ntime") { |
| 386 |
|
✗ |
endCase = true; |
| 387 |
|
|
} |
| 388 |
|
|
} |
| 389 |
|
✗ |
casefile.close(); |
| 390 |
|
|
|
| 391 |
|
✗ |
if (m_verbose) { |
| 392 |
|
✗ |
std::cout << "Variables:\n"; |
| 393 |
|
✗ |
for (std::size_t k=0; k < variable.size(); k++) { |
| 394 |
|
✗ |
std::cout << variable[k] << std::endl; |
| 395 |
|
|
} |
| 396 |
|
✗ |
std::cout << "Numbers of nodes per variable : " << snapSize << std::endl; |
| 397 |
|
|
} |
| 398 |
|
|
|
| 399 |
|
|
} |
| 400 |
|
|
|
| 401 |
|
✗ |
void RomPETSC::readEnsight(double* scalarValue,std::string sclFile, felInt snapSize) { |
| 402 |
|
✗ |
std::string snapFileName = FelisceParam::instance().resultDir + sclFile + ".scl"; |
| 403 |
|
✗ |
std::ifstream snap(snapFileName.c_str(), std::ios_base::in); |
| 404 |
|
|
|
| 405 |
|
✗ |
if ( !snap ) { |
| 406 |
|
✗ |
std::cout << " ERROR: Can not open file "+snapFileName+"."<< std::endl; |
| 407 |
|
|
} else { |
| 408 |
|
✗ |
if (FelisceParam::verbose() > 1) { |
| 409 |
|
✗ |
std::cout << "Reading " << snapFileName << std::endl; |
| 410 |
|
|
} |
| 411 |
|
|
} |
| 412 |
|
|
char newline[1024]; |
| 413 |
|
✗ |
snap.getline(newline, 1024, '\n'); |
| 414 |
|
✗ |
for (felInt j=0; j < snapSize; j++) { |
| 415 |
|
✗ |
snap >> scalarValue[j]; |
| 416 |
|
|
} |
| 417 |
|
✗ |
snap.close(); |
| 418 |
|
|
} |
| 419 |
|
|
|
| 420 |
|
|
|
| 421 |
|
|
} |
| 422 |
|
|
|