/usr/include/trilinos/mrtr_utils.H is in libtrilinos-moertel-dev 12.10.1-3.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 192 193 194 195 196 197 198 199 200 201 202 203 204 205 206 207 208 209 210 211 212 213 214 215 216 217 218 219 220 221 222 223 224 225 226 227 228 229 230 231 232 233 234 235 236 237 238 239 240 241 242 243 244 245 246 247 248 249 250 251 252 253 254 255 256 257 258 259 260 261 262 263 264 265 266 267 268 269 270 271 272 273 274 275 276 277 278 279 280 281 282 283 284 285 286 287 288 289 290 291 292 293 294 295 296 297 298 299 300 301 302 303 304 305 306 307 308 309 310 311 312 313 314 315 316 317 318 319 320 321 322 323 324 325 326 327 328 329 330 331 332 333 334 335 336 337 338 339 340 341 342 343 344 345 346 347 348 349 350 351 352 353 354 355 356 357 358 359 360 361 362 363 364 365 366 367 368 369 370 371 372 373 374 375 376 377 378 379 380 381 382 383 384 385 386 387 388 389 390 | /*
#@HEADER
# ************************************************************************
#
# Moertel FE Package
# Copyright (2006) Sandia Corporation
#
# Under terms of Contract DE-AC04-94AL85000, there is a non-exclusive
# license for use of this work by or on behalf of the U.S. Government.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions are
# met:
#
# 1. Redistributions of source code must retain the above copyright
# notice, this list of conditions and the following disclaimer.
#
# 2. Redistributions in binary form must reproduce the above copyright
# notice, this list of conditions and the following disclaimer in the
# documentation and/or other materials provided with the distribution.
#
# 3. Neither the name of the Corporation nor the names of the
# contributors may be used to endorse or promote products derived from
# this software without specific prior written permission.
#
# THIS SOFTWARE IS PROVIDED BY SANDIA CORPORATION "AS IS" AND ANY
# EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
# IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR
# PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL SANDIA CORPORATION OR THE
# CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL,
# EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR
# PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF
# LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING
# NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS
# SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
#
# Questions? Contact Glen Hansen (gahanse@sandia.gov)
#
# ************************************************************************
#@HEADER
*/
/* ******************************************************************** */
/* See the file COPYRIGHT for a complete copyright notice, contact */
/* person and disclaimer. */
/* ******************************************************************** */
/*!
* \file mrtr_utils.H
*
* \brief A couple utility methods for the Moertel package
*
* \date Last update do Doxygen: 16-Dec-05
*
*/
#ifndef MOERTEL_UTILS_H
#define MOERTEL_UTILS_H
#include <ctime>
#include <iostream>
// external package headers
#include "Teuchos_RCP.hpp"
#include <Epetra_Comm.h> // Epetra_Comm.h defines std:: as a global namespace
#ifdef HAVE_MPI
#include <Epetra_MpiComm.h>
#else
#include <Epetra_SerialComm.h>
#endif
#include "Epetra_SerialDenseMatrix.h"
#include "Epetra_SerialDenseSolver.h"
#include "Epetra_CrsMatrix.h"
#include "Epetra_Vector.h"
#include "Epetra_Export.h"
#include "ml_common.h"
#include "ml_include.h"
#include "ml_epetra_utils.h"
#include "ml_epetra.h"
#include "ml_epetra_operator.h"
// Moertel package headers
#include "mrtr_segment.H"
#include "mrtr_functions.H"
#include "mrtr_node.H"
#include "mrtr_point.H"
/*!
\brief MOERTEL: namespace of the Moertel package
The Moertel package depends on \ref Epetra, \ref EpetraExt, \ref Teuchos,
\ref Amesos, \ref ML and \ref AztecOO:<br>
Use at least the following lines in the configure of Trilinos:<br>
\code
--enable-moertel
--enable-epetra
--enable-epetraext
--enable-teuchos
--enable-ml
--enable-aztecoo --enable-aztecoo-teuchos
--enable-amesos
\endcode
*/
namespace MOERTEL
{
// forward declarations
class Segment;
class Node;
/*!
\brief Allocate a function of the correct type
For communication reasons, every single derived function class needs
to have a unique typ-id. This type Id can be communicated easily.
So when introducing a new derived Function class, one needs to add
it's type to the enum FunctionType in the virtual base class in
mrtr_function.H and one needs to add a case to this method
MOERTEL::AllocateFunction in mrtr_utils.cpp
\param type : Type of Function to allocate and return pointer to
*/
MOERTEL::Function* AllocateFunction(MOERTEL::Function::FunctionType type, int out);
/*!
\brief Allocate a Segment of the correct type
For communication reasons, every single derived segment class needs
to have a unique typ-id. This type Id can be communicated easily.
So when introducing a new segment class, one needs to add
it's type to the enum SegmentType in the virtual base class in
mrtr_segment.H and one needs to add a case to this method
MOERTEL::AllocateSegment in mrtr_utils.cpp
\param type : Type of segment to allocate and return pointer to
\param out : Level of output to be generated to stdout ( 0 - 10 )
*/
MOERTEL::Segment* AllocateSegment(int type, int out);
/*!
\brief Cross product
Perform cross product out = g1 x g2 for vectors of dimension 3
*/
bool cross(double* out, const double* g1, const double* g2);
/*!
\brief Dot product
Perform dot product g1 dot g2 for vectors of dimension dim and return result
*/
double dot(const double* g1, const double* g2, const int dim);
/*!
\brief Length of a vector
Return L2 norm of a vector of dimension dim
*/
double length(const double* g, const int dim);
/*!
\brief Solve dense 2x2 system of equations
Ax=b
*/
bool solve22(const double A[][2], double* x, const double* b);
/*!
\brief Solve dense 3x3 system of equations
Ax=b
*/
bool solve33(const double A[][3], double* x, const double* b);
/*!
\brief Return the '10' digit from an integer number
*/
int digit_ten(int i);
/*!
\brief Sort dlist of length N in ascending, sort list2 according to dlist
This piece of code was lend from the Trilinos package ML
*/
void sort(double* dlist, int N, int* list2);
/*!
\brief Template to swap 2 <kind> instances
<kind> has to implement the assignment operator =
*/
template<typename kind>
void swap(kind& a, kind& b)
{
kind tmp = a;
a = b;
b = tmp;
return;
}
/*!
\brief Add matrices A+B
Perform B = scalarB * B + scalarA * A ^ transposeA
If scalarB is 0.0, then B = scalarA * A ^ transposeA isperformed.
This is a modified version of EpetraExt's MatrixMatrixAdd.
FillComplete() must not be called on B upon entry,
FillComplete() will not be called on B upon exit by this method.
\param A : Matrix A to add to B
\param transposeA : flag indicating whether A*T shall be added
\param scalarA : scalar factor for A
\param B : Matrix B to be added to
\param scalarB : scalar factor for B
\return Zero upon success
*/
int MatrixMatrixAdd(const Epetra_CrsMatrix& A, bool transposeA,double scalarA,
Epetra_CrsMatrix& B,double scalarB);
#if 0
/*!
\brief Multiply matrices A*B
matrices A and B are mutliplied and the result is allocated and returned.
The method makes use of the ML matrix-matrix mutliply functions.
The user is responsible for freeing the returned result.
\param A : Matrix A to multiply
\param transA : flag indicating whether A*T shall be used
\param B : Matrix B to multiply
\param transB : flag indicating whether B*T shall be used
\return Result upon success and NULL upon failure
\warning The method fails if any of A or B have empty columns.
See ML bug 1913 for details.
*/
Epetra_CrsMatrix* MatMatMult(Epetra_CrsMatrix& A, bool transA,
Epetra_CrsMatrix& B, bool transB);
#endif
/*!
\brief Multiply matrices A*B
matrices A and B are mutliplied and the result is allocated and returned.
The method makes uses EpetraExt for multiplication
The user is responsible for freeing the returned result.
\param A : Matrix A to multiply
\param transA : flag indicating whether A*T shall be used
\param B : Matrix B to multiply
\param transB : flag indicating whether B*T shall be used
\return Result upon success and NULL upon failure
*/
Epetra_CrsMatrix* MatMatMult(const Epetra_CrsMatrix& A, bool transA,
const Epetra_CrsMatrix& B, bool transB,
int outlevel);
/*!
\brief Allocate and return a matrix padded with val on the diagonal.
FillComplete() is NOT called on exit.
*/
Epetra_CrsMatrix* PaddedMatrix(const Epetra_Map rowmap, double val,const int numentriesperrow);
/*!
\brief Strip out values from a matrix below a certain tolerance
Allocates and returns a new matrix and copies A to it where entries
with an absoute value smaller then eps are negelected.
The method calls FillComplete(A.OperatorDomainMap(),A.OperatorRangeMap())
on the result.
\param A : Matrix A to strip
\param eps : tolerance
\return The new matrix upon success, NULL otherwise
*/
Epetra_CrsMatrix* StripZeros(Epetra_CrsMatrix& A, double eps);
/*!
\brief split a matrix into a 2x2 block system where the rowmap of one of the blocks is given
Splits a given matrix into a 2x2 block system where the rowmap of one of the blocks is given
on input. Blocks A11 and A22 are assumed to be square.
All values on entry have to be Teuchos::null except the given rowmap and matrix A.
Note that either A11rowmap or A22rowmap or both have to be nonzero. In case
both rowmaps are supplied they have to be an exact and nonoverlapping split of A->RowMap().
Matrix blocks are FillComplete() on exit.
\param A : Matrix A on input
\param A11rowmap : rowmap of A11 or null
\param A22rowmap : rowmap of A22 or null
\param A11 : on exit matrix block A11
\param A12 : on exit matrix block A12
\param A21 : on exit matrix block A21
\param A22 : on exit matrix block A22
*/
bool SplitMatrix2x2(Teuchos::RCP<Epetra_CrsMatrix> A,
Teuchos::RCP<Epetra_Map>& A11rowmap,
Teuchos::RCP<Epetra_Map>& A22rowmap,
Teuchos::RCP<Epetra_CrsMatrix>& A11,
Teuchos::RCP<Epetra_CrsMatrix>& A12,
Teuchos::RCP<Epetra_CrsMatrix>& A21,
Teuchos::RCP<Epetra_CrsMatrix>& A22);
/*!
\brief split a rowmap of matrix A
splits A->RowMap() into 2 maps and returns them, where one of the rowmaps has
to be given on input
\param Amap : Map to split on input
\param Agiven : on entry submap that is given and part of Amap
\return the remainder map of Amap that is not overlapping with Agiven
*/
Epetra_Map* SplitMap(const Epetra_Map& Amap,
const Epetra_Map& Agiven);
/*!
\brief split a vector into 2 non-overlapping pieces
*/
bool SplitVector(const Epetra_Vector& x,
const Epetra_Map& x1map,
Epetra_Vector*& x1,
const Epetra_Map& x2map,
Epetra_Vector*& x2);
/*!
\brief merge results from 2 vectors into one (assumes matching submaps)
*/
bool MergeVector(const Epetra_Vector& x1,
const Epetra_Vector& x2,
Epetra_Vector& xresult);
/*!
\brief Print matrix to file
Prints an Epetra_CrsMatrix to file in serial and parallel.
Will create several files with process id appended to the name in parallel.
Index base can either be 0 or 1.
The first row of the file gives the global size of the range and domain map,
the sond row gives the local size of the row- and column map.
\param name : Name of file without appendix, appendix will be .mtx
\param A : Matrix to print
\param ibase : Index base, should be either 1 or 0
*/
bool Print_Matrix(std::string name, Epetra_CrsMatrix& A, int ibase);
/*!
\brief Print graph to file
Prints an Epetra_CrsGraph to file in serial and parallel.
Will create several files with process id appended to the name in parallel.
Index base can either be 0 or 1.
The first row of the file gives the global size of the range and domain map,
the second row gives the local size of the row- and column map.
\param name : Name of file without appendix, appendix will be .mtx
\param A : Graph to print
\param ibase : Index base, should be either 1 or 0
*/
bool Print_Graph(std::string name, Epetra_CrsGraph& A, int ibase);
/*!
\brief Print vector to file
Prints an Epetra_Vector to file in serial and parallel.
Will create several files with process id appended to the name in parallel.
Index base can either be 0 or 1.
\param name : Name of file without appendix, appendix will be .vec
\param v : Vector to print
\param ibase : Index base, should be either 1 or 0
*/
bool Print_Vector(std::string name, Epetra_Vector& v, int ibase);
//! Error reporting method
int ReportError(const std::stringstream &Message);
} // namespace MOERTEL
#endif // MOERTEL_UTILS_H
|