Chaste Release::3.1
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00001 /* 00002 00003 Copyright (c) 2005-2012, University of Oxford. 00004 All rights reserved. 00005 00006 University of Oxford means the Chancellor, Masters and Scholars of the 00007 University of Oxford, having an administrative office at Wellington 00008 Square, Oxford OX1 2JD, UK. 00009 00010 This file is part of Chaste. 00011 00012 Redistribution and use in source and binary forms, with or without 00013 modification, are permitted provided that the following conditions are met: 00014 * Redistributions of source code must retain the above copyright notice, 00015 this list of conditions and the following disclaimer. 00016 * Redistributions in binary form must reproduce the above copyright notice, 00017 this list of conditions and the following disclaimer in the documentation 00018 and/or other materials provided with the distribution. 00019 * Neither the name of the University of Oxford nor the names of its 00020 contributors may be used to endorse or promote products derived from this 00021 software without specific prior written permission. 00022 00023 THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" 00024 AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE 00025 IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE 00026 ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE 00027 LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR 00028 CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE 00029 GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) 00030 HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT 00031 LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT 00032 OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. 00033 00034 */ 00035 00036 #include "ReplicatableVector.hpp" 00037 #include "Exception.hpp" 00038 #include "PetscTools.hpp" 00039 00040 #include <cassert> 00041 #include <iostream> 00042 00043 // Private methods 00044 00045 void ReplicatableVector::RemovePetscContext() 00046 { 00047 if (mToAll != NULL) 00048 { 00049 VecScatterDestroy(PETSC_DESTROY_PARAM(mToAll)); 00050 mToAll = NULL; 00051 } 00052 00053 if (mReplicated != NULL) 00054 { 00055 PetscTools::Destroy(mReplicated); 00056 mReplicated = NULL; 00057 } 00058 00059 if (mpData != NULL) 00060 { 00061 delete[] mpData; 00062 mpData = NULL; 00063 } 00064 } 00065 00066 // Constructors & destructors 00067 00068 ReplicatableVector::ReplicatableVector() 00069 : mpData(NULL), 00070 mSize(0), 00071 mToAll(NULL), 00072 mReplicated(NULL) 00073 { 00074 } 00075 00076 ReplicatableVector::ReplicatableVector(Vec vec) 00077 : mpData(NULL), 00078 mSize(0), 00079 mToAll(NULL), 00080 mReplicated(NULL) 00081 { 00082 ReplicatePetscVector(vec); 00083 } 00084 00085 ReplicatableVector::ReplicatableVector(unsigned size) 00086 : mpData(NULL), 00087 mSize(0), 00088 mToAll(NULL), 00089 mReplicated(NULL) 00090 { 00091 Resize(size); 00092 } 00093 00094 ReplicatableVector::~ReplicatableVector() 00095 { 00096 RemovePetscContext(); 00097 } 00098 00099 // Vector interface methods 00100 00101 unsigned ReplicatableVector::GetSize() 00102 { 00103 return mSize; 00104 } 00105 00106 void ReplicatableVector::Resize(unsigned size) 00107 { 00108 // PETSc stuff will be out of date 00109 RemovePetscContext(); 00110 00111 mSize = size; 00112 00113 try 00114 { 00115 mpData = new double[mSize]; 00116 } 00117 catch(std::bad_alloc &badAlloc) 00118 { 00119 #define COVERAGE_IGNORE 00120 std::cout << "Failed to allocate a ReplicatableVector of size " << size << std::endl; 00121 PetscTools::ReplicateException(true); 00122 throw badAlloc; 00123 #undef COVERAGE_IGNORE 00124 } 00125 PetscTools::ReplicateException(false); 00126 } 00127 00128 double& ReplicatableVector::operator[](unsigned index) 00129 { 00130 assert(index < mSize); 00131 return mpData[index]; 00132 } 00133 00134 // The workhorse methods 00135 00136 void ReplicatableVector::Replicate(unsigned lo, unsigned hi) 00137 { 00138 // Create a PetSC vector with the array containing the distributed data 00139 Vec distributed_vec; 00140 VecCreateMPIWithArray(PETSC_COMM_WORLD, hi-lo, this->GetSize(), &mpData[lo], &distributed_vec); 00141 00142 // Now do the real replication 00143 ReplicatePetscVector(distributed_vec); 00144 00145 // Clean up 00146 PetscTools::Destroy(distributed_vec); 00147 } 00148 00149 void ReplicatableVector::ReplicatePetscVector(Vec vec) 00150 { 00151 // If the size has changed then we'll need to make a new context 00152 PetscInt isize; 00153 VecGetSize(vec, &isize); 00154 unsigned size = isize; 00155 00156 if (this->GetSize() != size) 00157 { 00158 Resize(size); 00159 } 00160 if (mReplicated == NULL) 00161 { 00162 // This creates mToAll (the scatter context) and mReplicated (to store values) 00163 VecScatterCreateToAll(vec, &mToAll, &mReplicated); 00164 } 00165 00166 // Replicate the data 00167 //PETSc-3.x.x or PETSc-2.3.3 00168 #if ( (PETSC_VERSION_MAJOR == 3) || (PETSC_VERSION_MAJOR == 2 && PETSC_VERSION_MINOR == 3 && PETSC_VERSION_SUBMINOR == 3)) //2.3.3 or 3.x.x 00169 VecScatterBegin(mToAll, vec, mReplicated, INSERT_VALUES, SCATTER_FORWARD); 00170 VecScatterEnd (mToAll, vec, mReplicated, INSERT_VALUES, SCATTER_FORWARD); 00171 #else 00172 //PETSc-2.3.2 or previous 00173 VecScatterBegin(vec, mReplicated, INSERT_VALUES, SCATTER_FORWARD, mToAll); 00174 VecScatterEnd (vec, mReplicated, INSERT_VALUES, SCATTER_FORWARD, mToAll); 00175 #endif 00176 00177 // Information is now in mReplicated PETSc vector 00178 // Copy into mData 00179 double* p_replicated; 00180 VecGetArray(mReplicated, &p_replicated); 00181 for (unsigned i=0; i<size; i++) 00182 { 00183 mpData[i] = p_replicated[i]; 00184 } 00185 }