| 1 | tim | 1064 | #include <math.h> | 
| 2 |  |  | #include "OOPSEMinimizer.hpp" | 
| 3 |  |  |  | 
| 4 |  |  | OOPSEMinimizer::OOPSEMinimizer( SimInfo *theInfo, ForceFields* the_ff , | 
| 5 |  |  | MinimizerParameterSet * param) | 
| 6 |  |  | :RealIntegrator(theInfo, the_ff), bVerbose(false), bShake(true){ | 
| 7 |  |  |  | 
| 8 |  |  | tStats = new Thermo(info); | 
| 9 |  |  | dumpOut = new DumpWriter(info); | 
| 10 |  |  | statOut = new StatWriter(info); | 
| 11 |  |  |  | 
| 12 |  |  | paramSet = param; | 
| 13 |  |  |  | 
| 14 |  |  | calcDim(); | 
| 15 |  |  |  | 
| 16 |  |  | curX = getCoor(); | 
| 17 |  |  | curG.resize(ndim); | 
| 18 |  |  |  | 
| 19 | tim | 1074 | preMove(); | 
| 20 | tim | 1064 | } | 
| 21 |  |  |  | 
| 22 |  |  | OOPSEMinimizer::~OOPSEMinimizer(){ | 
| 23 |  |  | delete tStats; | 
| 24 |  |  | delete dumpOut; | 
| 25 |  |  | delete statOut; | 
| 26 |  |  | delete paramSet; | 
| 27 |  |  | } | 
| 28 |  |  |  | 
| 29 |  |  | void OOPSEMinimizer::calcEnergyGradient(vector<double>& x, vector<double>& grad, | 
| 30 |  |  | double& energy, int& status){ | 
| 31 |  |  |  | 
| 32 |  |  | DirectionalAtom* dAtom; | 
| 33 |  |  | int index; | 
| 34 |  |  | double force[3]; | 
| 35 |  |  | double dAtomGrad[6]; | 
| 36 |  |  | int shakeStatus; | 
| 37 |  |  |  | 
| 38 |  |  | setCoor(x); | 
| 39 |  |  |  | 
| 40 |  |  | if (nConstrained && bShake){ | 
| 41 |  |  | shakeStatus = shakeR(); | 
| 42 |  |  | } | 
| 43 |  |  |  | 
| 44 |  |  | calcForce(1, 1); | 
| 45 |  |  |  | 
| 46 |  |  | if (nConstrained && bShake){ | 
| 47 |  |  | shakeStatus |= shakeF(); | 
| 48 |  |  | } | 
| 49 |  |  |  | 
| 50 |  |  | x = getCoor(); | 
| 51 |  |  |  | 
| 52 |  |  |  | 
| 53 |  |  | index = 0; | 
| 54 |  |  |  | 
| 55 | gezelter | 1097 | for(int i = 0; i < integrableObjects.size(); i++){ | 
| 56 | tim | 1064 |  | 
| 57 | gezelter | 1097 | if (integrableObjects[i]->isDirectional()) { | 
| 58 | tim | 1064 |  | 
| 59 | gezelter | 1097 | integrableObjects[i]->getGrad(dAtomGrad); | 
| 60 |  |  |  | 
| 61 | tim | 1064 | //gradient is equal to -f | 
| 62 |  |  | grad[index++] = -dAtomGrad[0]; | 
| 63 |  |  | grad[index++] = -dAtomGrad[1]; | 
| 64 |  |  | grad[index++] = -dAtomGrad[2]; | 
| 65 |  |  | grad[index++] = -dAtomGrad[3]; | 
| 66 |  |  | grad[index++] = -dAtomGrad[4]; | 
| 67 |  |  | grad[index++] = -dAtomGrad[5]; | 
| 68 |  |  |  | 
| 69 |  |  | } | 
| 70 |  |  | else{ | 
| 71 | gezelter | 1097 | integrableObjects[i]->getFrc(force); | 
| 72 | tim | 1064 |  | 
| 73 |  |  | grad[index++] = -force[0]; | 
| 74 |  |  | grad[index++] = -force[1]; | 
| 75 |  |  | grad[index++] = -force[2]; | 
| 76 |  |  |  | 
| 77 |  |  | } | 
| 78 |  |  |  | 
| 79 |  |  | } | 
| 80 |  |  |  | 
| 81 |  |  | energy = tStats->getPotential(); | 
| 82 |  |  |  | 
| 83 |  |  | status = shakeStatus; | 
| 84 |  |  | } | 
| 85 |  |  |  | 
| 86 |  |  | /** | 
| 87 |  |  | * | 
| 88 |  |  | */ | 
| 89 |  |  |  | 
| 90 |  |  | void OOPSEMinimizer::setCoor(vector<double>& x){ | 
| 91 |  |  |  | 
| 92 |  |  | DirectionalAtom* dAtom; | 
| 93 |  |  | int index; | 
| 94 |  |  | double position[3]; | 
| 95 |  |  | double eulerAngle[3]; | 
| 96 |  |  |  | 
| 97 |  |  |  | 
| 98 |  |  | index = 0; | 
| 99 |  |  |  | 
| 100 | gezelter | 1097 | for(int i = 0; i < integrableObjects.size(); i++){ | 
| 101 | tim | 1064 |  | 
| 102 |  |  | position[0] = x[index++]; | 
| 103 |  |  | position[1] = x[index++]; | 
| 104 |  |  | position[2] = x[index++]; | 
| 105 |  |  |  | 
| 106 | gezelter | 1097 | integrableObjects[i]->setPos(position); | 
| 107 | tim | 1064 |  | 
| 108 | gezelter | 1097 | if (integrableObjects[i]->isDirectional()){ | 
| 109 | tim | 1064 |  | 
| 110 |  |  | eulerAngle[0] = x[index++]; | 
| 111 |  |  | eulerAngle[1] = x[index++]; | 
| 112 |  |  | eulerAngle[2] = x[index++]; | 
| 113 |  |  |  | 
| 114 | gezelter | 1097 | integrableObjects[i]->setEuler(eulerAngle[0], | 
| 115 |  |  | eulerAngle[1], | 
| 116 |  |  | eulerAngle[2]); | 
| 117 | tim | 1064 |  | 
| 118 |  |  | } | 
| 119 |  |  |  | 
| 120 |  |  | } | 
| 121 |  |  |  | 
| 122 |  |  | } | 
| 123 |  |  |  | 
| 124 |  |  | /** | 
| 125 |  |  | * | 
| 126 |  |  | */ | 
| 127 |  |  | vector<double> OOPSEMinimizer::getCoor(){ | 
| 128 |  |  |  | 
| 129 |  |  | DirectionalAtom* dAtom; | 
| 130 |  |  | int index; | 
| 131 |  |  | double position[3]; | 
| 132 |  |  | double eulerAngle[3]; | 
| 133 |  |  | vector<double> x; | 
| 134 |  |  |  | 
| 135 |  |  | x.resize(getDim()); | 
| 136 |  |  |  | 
| 137 |  |  | index = 0; | 
| 138 |  |  |  | 
| 139 | gezelter | 1097 | for(int i = 0; i < integrableObjects.size(); i++){ | 
| 140 |  |  | integrableObjects[i]->getPos(position); | 
| 141 | tim | 1064 |  | 
| 142 |  |  | x[index++] = position[0]; | 
| 143 |  |  | x[index++] = position[1]; | 
| 144 |  |  | x[index++] = position[2]; | 
| 145 |  |  |  | 
| 146 | gezelter | 1097 | if (integrableObjects[i]->isDirectional()){ | 
| 147 | tim | 1064 |  | 
| 148 | gezelter | 1097 | integrableObjects[i]->getEulerAngles(eulerAngle); | 
| 149 |  |  |  | 
| 150 | tim | 1064 | x[index++] = eulerAngle[0]; | 
| 151 |  |  | x[index++] = eulerAngle[1]; | 
| 152 |  |  | x[index++] = eulerAngle[2]; | 
| 153 |  |  |  | 
| 154 |  |  | } | 
| 155 |  |  |  | 
| 156 |  |  | } | 
| 157 |  |  |  | 
| 158 |  |  | return x; | 
| 159 |  |  |  | 
| 160 |  |  | } | 
| 161 |  |  |  | 
| 162 |  |  | int OOPSEMinimizer::shakeR(){ | 
| 163 |  |  | int i, j; | 
| 164 |  |  | int done; | 
| 165 |  |  | double posA[3], posB[3]; | 
| 166 |  |  | double velA[3], velB[3]; | 
| 167 |  |  | double pab[3]; | 
| 168 |  |  | double rab[3]; | 
| 169 |  |  | int a, b, ax, ay, az, bx, by, bz; | 
| 170 |  |  | double rma, rmb; | 
| 171 |  |  | double dx, dy, dz; | 
| 172 |  |  | double rpab; | 
| 173 |  |  | double rabsq, pabsq, rpabsq; | 
| 174 |  |  | double diffsq; | 
| 175 |  |  | double gab; | 
| 176 |  |  | int iteration; | 
| 177 |  |  |  | 
| 178 |  |  | for (i = 0; i < nAtoms; i++){ | 
| 179 |  |  | moving[i] = 0; | 
| 180 |  |  | moved[i] = 1; | 
| 181 |  |  | } | 
| 182 |  |  |  | 
| 183 |  |  | iteration = 0; | 
| 184 |  |  | done = 0; | 
| 185 |  |  | while (!done && (iteration < maxIteration)){ | 
| 186 |  |  | done = 1; | 
| 187 |  |  | for (i = 0; i < nConstrained; i++){ | 
| 188 |  |  | a = constrainedA[i]; | 
| 189 |  |  | b = constrainedB[i]; | 
| 190 |  |  |  | 
| 191 |  |  | ax = (a * 3) + 0; | 
| 192 |  |  | ay = (a * 3) + 1; | 
| 193 |  |  | az = (a * 3) + 2; | 
| 194 |  |  |  | 
| 195 |  |  | bx = (b * 3) + 0; | 
| 196 |  |  | by = (b * 3) + 1; | 
| 197 |  |  | bz = (b * 3) + 2; | 
| 198 |  |  |  | 
| 199 |  |  | if (moved[a] || moved[b]){ | 
| 200 |  |  | atoms[a]->getPos(posA); | 
| 201 |  |  | atoms[b]->getPos(posB); | 
| 202 |  |  |  | 
| 203 |  |  | for (j = 0; j < 3; j++) | 
| 204 |  |  | pab[j] = posA[j] - posB[j]; | 
| 205 |  |  |  | 
| 206 |  |  | //periodic boundary condition | 
| 207 |  |  |  | 
| 208 |  |  | info->wrapVector(pab); | 
| 209 |  |  |  | 
| 210 |  |  | pabsq = pab[0] * pab[0] + pab[1] * pab[1] + pab[2] * pab[2]; | 
| 211 |  |  |  | 
| 212 |  |  | rabsq = constrainedDsqr[i]; | 
| 213 |  |  | diffsq = rabsq - pabsq; | 
| 214 |  |  |  | 
| 215 |  |  | // the original rattle code from alan tidesley | 
| 216 |  |  | if (fabs(diffsq) > (tol * rabsq * 2)){ | 
| 217 |  |  | rab[0] = oldPos[ax] - oldPos[bx]; | 
| 218 |  |  | rab[1] = oldPos[ay] - oldPos[by]; | 
| 219 |  |  | rab[2] = oldPos[az] - oldPos[bz]; | 
| 220 |  |  |  | 
| 221 |  |  | info->wrapVector(rab); | 
| 222 |  |  |  | 
| 223 |  |  | rpab = rab[0] * pab[0] + rab[1] * pab[1] + rab[2] * pab[2]; | 
| 224 |  |  |  | 
| 225 |  |  | rpabsq = rpab * rpab; | 
| 226 |  |  |  | 
| 227 |  |  |  | 
| 228 |  |  | if (rpabsq < (rabsq * -diffsq)){ | 
| 229 |  |  | #ifdef IS_MPI | 
| 230 |  |  | a = atoms[a]->getGlobalIndex(); | 
| 231 |  |  | b = atoms[b]->getGlobalIndex(); | 
| 232 |  |  | #endif //is_mpi | 
| 233 |  |  | //cerr << "Waring: constraint failure" << endl; | 
| 234 |  |  | gab = sqrt(rabsq/pabsq); | 
| 235 |  |  | rab[0] = (posA[0] - posB[0])*gab; | 
| 236 |  |  | rab[1]= (posA[1] - posB[1])*gab; | 
| 237 |  |  | rab[2] = (posA[2] - posB[2])*gab; | 
| 238 |  |  |  | 
| 239 |  |  | info->wrapVector(rab); | 
| 240 |  |  |  | 
| 241 |  |  | rpab = rab[0] * pab[0] + rab[1] * pab[1] + rab[2] * pab[2]; | 
| 242 |  |  |  | 
| 243 |  |  | } | 
| 244 |  |  |  | 
| 245 |  |  | //rma = 1.0 / atoms[a]->getMass(); | 
| 246 |  |  | //rmb = 1.0 / atoms[b]->getMass(); | 
| 247 |  |  | rma = 1.0; | 
| 248 |  |  | rmb =1.0; | 
| 249 |  |  |  | 
| 250 |  |  | gab = diffsq / (2.0 * (rma + rmb) * rpab); | 
| 251 |  |  |  | 
| 252 |  |  | dx = rab[0] * gab; | 
| 253 |  |  | dy = rab[1] * gab; | 
| 254 |  |  | dz = rab[2] * gab; | 
| 255 |  |  |  | 
| 256 |  |  | posA[0] += rma * dx; | 
| 257 |  |  | posA[1] += rma * dy; | 
| 258 |  |  | posA[2] += rma * dz; | 
| 259 |  |  |  | 
| 260 |  |  | atoms[a]->setPos(posA); | 
| 261 |  |  |  | 
| 262 |  |  | posB[0] -= rmb * dx; | 
| 263 |  |  | posB[1] -= rmb * dy; | 
| 264 |  |  | posB[2] -= rmb * dz; | 
| 265 |  |  |  | 
| 266 |  |  | atoms[b]->setPos(posB); | 
| 267 |  |  |  | 
| 268 |  |  | moving[a] = 1; | 
| 269 |  |  | moving[b] = 1; | 
| 270 |  |  | done = 0; | 
| 271 |  |  | } | 
| 272 |  |  | } | 
| 273 |  |  | } | 
| 274 |  |  |  | 
| 275 |  |  | for (i = 0; i < nAtoms; i++){ | 
| 276 |  |  | moved[i] = moving[i]; | 
| 277 |  |  | moving[i] = 0; | 
| 278 |  |  | } | 
| 279 |  |  |  | 
| 280 |  |  | iteration++; | 
| 281 |  |  | } | 
| 282 |  |  |  | 
| 283 |  |  | if (!done){ | 
| 284 |  |  | cerr << "Waring: can not constraint within maxIteration" << endl; | 
| 285 |  |  | return -1; | 
| 286 |  |  | } | 
| 287 |  |  | else | 
| 288 |  |  | return 1; | 
| 289 |  |  | } | 
| 290 |  |  |  | 
| 291 |  |  |  | 
| 292 |  |  | //remove constraint force along the bond direction | 
| 293 |  |  | int OOPSEMinimizer::shakeF(){ | 
| 294 |  |  | int i, j; | 
| 295 |  |  | int done; | 
| 296 |  |  | double posA[3], posB[3]; | 
| 297 |  |  | double frcA[3], frcB[3]; | 
| 298 |  |  | double rab[3], fpab[3]; | 
| 299 |  |  | int a, b, ax, ay, az, bx, by, bz; | 
| 300 |  |  | double rma, rmb; | 
| 301 |  |  | double rvab; | 
| 302 |  |  | double gab; | 
| 303 |  |  | double rabsq; | 
| 304 |  |  | double rfab; | 
| 305 |  |  | int iteration; | 
| 306 |  |  |  | 
| 307 |  |  | for (i = 0; i < nAtoms; i++){ | 
| 308 |  |  | moving[i] = 0; | 
| 309 |  |  | moved[i] = 1; | 
| 310 |  |  | } | 
| 311 |  |  |  | 
| 312 |  |  | done = 0; | 
| 313 |  |  | iteration = 0; | 
| 314 |  |  | while (!done && (iteration < maxIteration)){ | 
| 315 |  |  | done = 1; | 
| 316 |  |  |  | 
| 317 |  |  | for (i = 0; i < nConstrained; i++){ | 
| 318 |  |  | a = constrainedA[i]; | 
| 319 |  |  | b = constrainedB[i]; | 
| 320 |  |  |  | 
| 321 |  |  | ax = (a * 3) + 0; | 
| 322 |  |  | ay = (a * 3) + 1; | 
| 323 |  |  | az = (a * 3) + 2; | 
| 324 |  |  |  | 
| 325 |  |  | bx = (b * 3) + 0; | 
| 326 |  |  | by = (b * 3) + 1; | 
| 327 |  |  | bz = (b * 3) + 2; | 
| 328 |  |  |  | 
| 329 |  |  | if (moved[a] || moved[b]){ | 
| 330 |  |  |  | 
| 331 |  |  | atoms[a]->getPos(posA); | 
| 332 |  |  | atoms[b]->getPos(posB); | 
| 333 |  |  |  | 
| 334 |  |  | for (j = 0; j < 3; j++) | 
| 335 |  |  | rab[j] = posA[j] - posB[j]; | 
| 336 |  |  |  | 
| 337 |  |  | info->wrapVector(rab); | 
| 338 |  |  |  | 
| 339 |  |  | atoms[a]->getFrc(frcA); | 
| 340 |  |  | atoms[b]->getFrc(frcB); | 
| 341 |  |  |  | 
| 342 |  |  | //rma = 1.0 / atoms[a]->getMass(); | 
| 343 |  |  | //rmb = 1.0 / atoms[b]->getMass(); | 
| 344 |  |  | rma = 1.0; | 
| 345 |  |  | rmb = 1.0; | 
| 346 |  |  |  | 
| 347 |  |  |  | 
| 348 |  |  | fpab[0] = frcA[0] * rma - frcB[0] * rmb; | 
| 349 |  |  | fpab[1] = frcA[1] * rma - frcB[1] * rmb; | 
| 350 |  |  | fpab[2] = frcA[2] * rma - frcB[2] * rmb; | 
| 351 |  |  |  | 
| 352 |  |  |  | 
| 353 |  |  | gab=fpab[0] * fpab[0] + fpab[1] * fpab[1] + fpab[2] * fpab[2]; | 
| 354 |  |  |  | 
| 355 |  |  | if (gab < 1.0) | 
| 356 |  |  | gab = 1.0; | 
| 357 |  |  |  | 
| 358 |  |  | rabsq = rab[0] * rab[0] + rab[1] * rab[1] + rab[2] * rab[2]; | 
| 359 |  |  | rfab = rab[0] * fpab[0] + rab[1] * fpab[1] + rab[2] * fpab[2]; | 
| 360 |  |  |  | 
| 361 |  |  | if (fabs(rfab) > sqrt(rabsq*gab) * 0.00001){ | 
| 362 |  |  |  | 
| 363 |  |  | gab = -rfab /(rabsq*(rma + rmb)); | 
| 364 |  |  |  | 
| 365 |  |  | frcA[0] = rab[0] * gab; | 
| 366 |  |  | frcA[1] = rab[1] * gab; | 
| 367 |  |  | frcA[2] = rab[2] * gab; | 
| 368 |  |  |  | 
| 369 |  |  | atoms[a]->addFrc(frcA); | 
| 370 |  |  |  | 
| 371 |  |  |  | 
| 372 |  |  | frcB[0] = -rab[0] * gab; | 
| 373 |  |  | frcB[1] = -rab[1] * gab; | 
| 374 |  |  | frcB[2] = -rab[2] * gab; | 
| 375 |  |  |  | 
| 376 |  |  | atoms[b]->addFrc(frcB); | 
| 377 |  |  |  | 
| 378 |  |  | moving[a] = 1; | 
| 379 |  |  | moving[b] = 1; | 
| 380 |  |  | done = 0; | 
| 381 |  |  | } | 
| 382 |  |  | } | 
| 383 |  |  | } | 
| 384 |  |  |  | 
| 385 |  |  | for (i = 0; i < nAtoms; i++){ | 
| 386 |  |  | moved[i] = moving[i]; | 
| 387 |  |  | moving[i] = 0; | 
| 388 |  |  | } | 
| 389 |  |  |  | 
| 390 |  |  | iteration++; | 
| 391 |  |  | } | 
| 392 |  |  |  | 
| 393 |  |  | if (!done){ | 
| 394 |  |  | cerr << "Waring: can not constraint within maxIteration" << endl; | 
| 395 |  |  | return -1; | 
| 396 |  |  | } | 
| 397 |  |  | else | 
| 398 |  |  | return 1; | 
| 399 |  |  | } | 
| 400 |  |  |  | 
| 401 |  |  | //calculate the value of object function | 
| 402 |  |  | void OOPSEMinimizer::calcF(){ | 
| 403 |  |  | calcEnergyGradient(curX, curG, curF, egEvalStatus); | 
| 404 |  |  | } | 
| 405 |  |  |  | 
| 406 |  |  | void OOPSEMinimizer::calcF(vector<double>& x, double&f, int& status){ | 
| 407 |  |  | vector<double> tempG; | 
| 408 |  |  | tempG.resize(x.size()); | 
| 409 |  |  |  | 
| 410 |  |  | calcEnergyGradient(x, tempG, f, status); | 
| 411 |  |  | } | 
| 412 |  |  |  | 
| 413 |  |  | //calculate the gradient | 
| 414 |  |  | void OOPSEMinimizer::calcG(){ | 
| 415 |  |  | calcEnergyGradient(curX, curG, curF, egEvalStatus); | 
| 416 |  |  | } | 
| 417 |  |  |  | 
| 418 |  |  | void OOPSEMinimizer::calcG(vector<double>& x, vector<double>& g, double& f, int& status){ | 
| 419 |  |  | calcEnergyGradient(x, g, f, status); | 
| 420 |  |  | } | 
| 421 |  |  |  | 
| 422 |  |  | void OOPSEMinimizer::calcDim(){ | 
| 423 |  |  | DirectionalAtom* dAtom; | 
| 424 |  |  |  | 
| 425 |  |  | ndim = 0; | 
| 426 |  |  |  | 
| 427 | gezelter | 1097 | for(int i = 0; i < integrableObjects.size(); i++){ | 
| 428 | tim | 1064 | ndim += 3; | 
| 429 | gezelter | 1097 | if (integrableObjects[i]->isDirectional()) | 
| 430 | tim | 1064 | ndim += 3; | 
| 431 |  |  | } | 
| 432 |  |  | } | 
| 433 |  |  |  | 
| 434 |  |  | void OOPSEMinimizer::setX(vector < double > & x){ | 
| 435 |  |  |  | 
| 436 |  |  | if (x.size() != ndim && bVerbose){ | 
| 437 |  |  | //sprintf(painCave.errMsg, | 
| 438 |  |  | //          "OOPSEMinimizer Error: dimesion of x and curX does not match\n"); | 
| 439 |  |  | // painCave.isFatal = 1; | 
| 440 |  |  | // simError(); | 
| 441 |  |  | } | 
| 442 |  |  |  | 
| 443 |  |  | curX = x; | 
| 444 |  |  | } | 
| 445 |  |  |  | 
| 446 |  |  | void OOPSEMinimizer::setG(vector < double > & g){ | 
| 447 |  |  |  | 
| 448 |  |  | if (g.size() != ndim && bVerbose){ | 
| 449 |  |  | //sprintf(painCave.errMsg, | 
| 450 |  |  | //          "OOPSEMinimizer Error: dimesion of g and curG does not match\n"); | 
| 451 |  |  | // painCave.isFatal = 1; | 
| 452 |  |  | //simError(); | 
| 453 |  |  | } | 
| 454 |  |  |  | 
| 455 |  |  | curG = g; | 
| 456 |  |  | } | 
| 457 |  |  |  | 
| 458 |  |  | void OOPSEMinimizer::writeOut(vector<double>& x, double iter){ | 
| 459 |  |  |  | 
| 460 |  |  | setX(x); | 
| 461 |  |  |  | 
| 462 |  |  | calcG(); | 
| 463 |  |  |  | 
| 464 |  |  | dumpOut->writeDump(iter); | 
| 465 |  |  | statOut->writeStat(iter); | 
| 466 |  |  | } | 
| 467 |  |  |  | 
| 468 |  |  |  | 
| 469 |  |  | void OOPSEMinimizer::printMinimizerInfo(){ | 
| 470 |  |  | cout << "--------------------------------------------------------------------" << endl; | 
| 471 |  |  | cout << minimizerName << endl; | 
| 472 |  |  | cout << "minimization parameter set" << endl; | 
| 473 |  |  | cout << "function tolerance = " << paramSet->getFTol() << endl; | 
| 474 |  |  | cout << "gradient tolerance = " << paramSet->getGTol() << endl; | 
| 475 |  |  | cout << "step tolerance = "<< paramSet->getFTol() << endl; | 
| 476 |  |  | cout << "absolute gradient tolerance = " << endl; | 
| 477 |  |  | cout << "max iteration = " << paramSet->getMaxIteration() << endl; | 
| 478 |  |  | cout << "max line search iteration = " << paramSet->getLineSearchMaxIteration() <<endl; | 
| 479 |  |  | cout << "shake algorithm = " << bShake << endl; | 
| 480 |  |  | cout << "--------------------------------------------------------------------" << endl; | 
| 481 |  |  |  | 
| 482 |  |  | } | 
| 483 |  |  |  | 
| 484 |  |  | /** | 
| 485 |  |  | * In thoery, we need to find the minimum along the search direction | 
| 486 |  |  | * However, function evaluation is too expensive. I | 
| 487 |  |  | * At the very begining of the problem, we check the search direction and make sure | 
| 488 |  |  | * it is a descent direction | 
| 489 |  |  | * we will compare the energy of two end points, | 
| 490 |  |  | * if the right end point has lower energy, we just take it | 
| 491 |  |  | * | 
| 492 |  |  | * | 
| 493 |  |  | * | 
| 494 |  |  | */ | 
| 495 |  |  |  | 
| 496 |  |  | int OOPSEMinimizer::doLineSearch(vector<double>& direction, double stepSize){ | 
| 497 |  |  | vector<double> xa; | 
| 498 |  |  | vector<double> xb; | 
| 499 |  |  | vector<double> xc; | 
| 500 |  |  | vector<double> ga; | 
| 501 |  |  | vector<double> gb; | 
| 502 |  |  | vector<double> gc; | 
| 503 |  |  | double fa; | 
| 504 |  |  | double fb; | 
| 505 |  |  | double fc; | 
| 506 |  |  | double a; | 
| 507 |  |  | double b; | 
| 508 |  |  | double c; | 
| 509 |  |  | int status; | 
| 510 |  |  | double initSlope; | 
| 511 |  |  | double slopeA; | 
| 512 |  |  | double slopeB; | 
| 513 |  |  | double slopeC; | 
| 514 |  |  | bool foundLower; | 
| 515 |  |  | int iter; | 
| 516 |  |  | int maxLSIter; | 
| 517 |  |  | double mu; | 
| 518 |  |  | double eta; | 
| 519 |  |  | double ftol; | 
| 520 | tim | 1074 | double lsTol; | 
| 521 | tim | 1064 |  | 
| 522 |  |  | xa.resize(ndim); | 
| 523 |  |  | xb.resize(ndim); | 
| 524 |  |  | xc.resize(ndim); | 
| 525 |  |  |  | 
| 526 |  |  | ga.resize(ndim); | 
| 527 |  |  | gb.resize(ndim); | 
| 528 |  |  | gc.resize(ndim); | 
| 529 |  |  |  | 
| 530 |  |  | a = 0.0; | 
| 531 |  |  | fa =  curF; | 
| 532 |  |  | xa = curX; | 
| 533 |  |  | ga = curG; | 
| 534 |  |  | c = a + stepSize; | 
| 535 |  |  | ftol = paramSet->getFTol(); | 
| 536 | tim | 1074 | lsTol = paramSet->getLineSearchTol(); | 
| 537 | tim | 1064 |  | 
| 538 |  |  | //calculate the derivative at a = 0 | 
| 539 |  |  | for (size_t i = 0; i < ndim; i++) | 
| 540 |  |  | slopeA += curG[i]*direction[i]; | 
| 541 |  |  |  | 
| 542 |  |  | initSlope = slopeA; | 
| 543 |  |  |  | 
| 544 |  |  | // if  going uphill, use negative gradient as searching direction | 
| 545 |  |  | if (slopeA > 0) { | 
| 546 |  |  |  | 
| 547 |  |  | if (bVerbose){ | 
| 548 |  |  | cout << "LineSearch Warning: initial searching direction is not a descent searching direction, " | 
| 549 |  |  | << " use negative gradient instead. Therefore, finding a smaller vaule of function " | 
| 550 |  |  | << " is guaranteed" | 
| 551 |  |  | << endl; | 
| 552 |  |  | } | 
| 553 |  |  |  | 
| 554 |  |  | for (size_t i = 0; i < ndim; i++) | 
| 555 |  |  | direction[i] = -curG[i]; | 
| 556 |  |  |  | 
| 557 |  |  | for (size_t i = 0; i < ndim; i++) | 
| 558 |  |  | slopeA += curG[i]*direction[i]; | 
| 559 |  |  |  | 
| 560 |  |  | initSlope = slopeA; | 
| 561 |  |  | } | 
| 562 |  |  |  | 
| 563 |  |  | // Take a trial step | 
| 564 |  |  | for(size_t i = 0; i < ndim; i++) | 
| 565 |  |  | xc[i] = curX[i] + direction[i] * c; | 
| 566 |  |  |  | 
| 567 |  |  | calcG(xc, gc, fc, status); | 
| 568 |  |  |  | 
| 569 |  |  | if (status < 0){ | 
| 570 |  |  | if (bVerbose) | 
| 571 |  |  | cerr << "Function Evaluation Error" << endl; | 
| 572 |  |  | } | 
| 573 |  |  |  | 
| 574 |  |  | //calculate the derivative at c | 
| 575 |  |  | slopeC = 0; | 
| 576 |  |  | for (size_t i = 0; i < ndim; i++) | 
| 577 |  |  | slopeC += gc[i]*direction[i]; | 
| 578 |  |  |  | 
| 579 |  |  | // found a lower point | 
| 580 |  |  | if (fc < fa) { | 
| 581 |  |  | curX = xc; | 
| 582 |  |  | curG = gc; | 
| 583 |  |  | curF = fc; | 
| 584 |  |  | return LS_SUCCEED; | 
| 585 |  |  | } | 
| 586 |  |  | else { | 
| 587 |  |  |  | 
| 588 |  |  | if (slopeC > 0) | 
| 589 |  |  | stepSize *= 0.618034; | 
| 590 |  |  | } | 
| 591 |  |  |  | 
| 592 |  |  | maxLSIter = paramSet->getLineSearchMaxIteration(); | 
| 593 |  |  |  | 
| 594 |  |  | iter = 0; | 
| 595 |  |  |  | 
| 596 |  |  | do { | 
| 597 |  |  | // Select a new trial point. | 
| 598 |  |  | // If the derivatives at points a & c have different sign we use cubic interpolate | 
| 599 |  |  | //if (slopeC > 0){ | 
| 600 |  |  | eta = 3 *(fa -fc) /(c - a) + slopeA + slopeC; | 
| 601 |  |  | mu = sqrt(eta * eta - slopeA * slopeC); | 
| 602 |  |  | b = a + (c - a) * (1 - (slopeC + mu - eta) /(slopeC - slopeA + 2 * mu)); | 
| 603 | tim | 1074 |  | 
| 604 |  |  | if (b < lsTol){ | 
| 605 |  |  | if (bVerbose) | 
| 606 |  |  | cout << "stepSize is less than line search tolerance" << endl; | 
| 607 |  |  | break; | 
| 608 |  |  | } | 
| 609 | tim | 1064 | //} | 
| 610 |  |  |  | 
| 611 |  |  | // Take a trial step to this new point - new coords in xb | 
| 612 |  |  | for(size_t i = 0; i < ndim; i++) | 
| 613 |  |  | xb[i] = curX[i] + direction[i] * b; | 
| 614 |  |  |  | 
| 615 |  |  | //function evaluation | 
| 616 |  |  | calcG(xb, gb, fb, status); | 
| 617 |  |  |  | 
| 618 |  |  | if (status < 0){ | 
| 619 |  |  | if (bVerbose) | 
| 620 |  |  | cerr << "Function Evaluation Error" << endl; | 
| 621 |  |  | } | 
| 622 |  |  |  | 
| 623 |  |  | //calculate the derivative at c | 
| 624 |  |  | slopeB = 0; | 
| 625 |  |  | for (size_t i = 0; i < ndim; i++) | 
| 626 |  |  | slopeB += gb[i]*direction[i]; | 
| 627 |  |  |  | 
| 628 |  |  | //Amijo Rule to stop the line search | 
| 629 |  |  | if (fb <= curF +  initSlope * ftol * b) { | 
| 630 |  |  | curF = fb; | 
| 631 |  |  | curX = xb; | 
| 632 |  |  | curG = gb; | 
| 633 |  |  | return LS_SUCCEED; | 
| 634 |  |  | } | 
| 635 |  |  |  | 
| 636 |  |  | if (slopeB <0 &&  fb < fa) { | 
| 637 |  |  | //replace a by b | 
| 638 |  |  | fa = fb; | 
| 639 |  |  | a = b; | 
| 640 |  |  | slopeA = slopeB; | 
| 641 |  |  |  | 
| 642 |  |  | // swap coord  a/b | 
| 643 |  |  | std::swap(xa, xb); | 
| 644 |  |  | std::swap(ga, gb); | 
| 645 |  |  | } | 
| 646 |  |  | else { | 
| 647 |  |  | //replace c by b | 
| 648 |  |  | fc = fb; | 
| 649 |  |  | c = b; | 
| 650 |  |  | slopeC = slopeB; | 
| 651 |  |  |  | 
| 652 |  |  | // swap coord  b/c | 
| 653 |  |  | std::swap(gb, gc); | 
| 654 |  |  | std::swap(xb, xc); | 
| 655 |  |  | } | 
| 656 |  |  |  | 
| 657 |  |  |  | 
| 658 |  |  | iter++; | 
| 659 |  |  | } while((fb > fa || fb > fc) && (iter < maxLSIter)); | 
| 660 |  |  |  | 
| 661 |  |  | if(fb < curF || iter >= maxLSIter) { | 
| 662 |  |  | //could not find a lower value, we might just go uphill. | 
| 663 |  |  | return LS_ERROR; | 
| 664 |  |  | } | 
| 665 |  |  |  | 
| 666 |  |  | //select the end point | 
| 667 |  |  |  | 
| 668 |  |  | if (fa <= fc) { | 
| 669 |  |  | curX = xa; | 
| 670 |  |  | curG = ga; | 
| 671 |  |  | curF = fa; | 
| 672 |  |  | } | 
| 673 |  |  | else { | 
| 674 |  |  | curX = xc; | 
| 675 |  |  | curG = gc; | 
| 676 |  |  | curF = fc; | 
| 677 |  |  | } | 
| 678 |  |  |  | 
| 679 |  |  | return LS_SUCCEED; | 
| 680 |  |  |  | 
| 681 |  |  | } | 
| 682 |  |  |  | 
| 683 |  |  | void OOPSEMinimizer::minimize(){ | 
| 684 |  |  |  | 
| 685 |  |  | int convgStatus; | 
| 686 |  |  | int stepStatus; | 
| 687 |  |  | int maxIter; | 
| 688 |  |  | //int resetFrq; | 
| 689 |  |  | //int nextResetIter; | 
| 690 |  |  | int writeFrq; | 
| 691 |  |  | int nextWriteIter; | 
| 692 |  |  |  | 
| 693 |  |  | if (bVerbose) | 
| 694 |  |  | printMinimizerInfo(); | 
| 695 |  |  |  | 
| 696 |  |  | init(); | 
| 697 |  |  |  | 
| 698 |  |  | //resetFrq = paramSet->getResetFrq(); | 
| 699 |  |  | //nextResetIter = resetFrq; | 
| 700 |  |  |  | 
| 701 |  |  | writeFrq = paramSet->getWriteFrq(); | 
| 702 |  |  | nextWriteIter = writeFrq; | 
| 703 |  |  |  | 
| 704 |  |  | maxIter = paramSet->getMaxIteration(); | 
| 705 |  |  |  | 
| 706 |  |  | for (curIter = 1; curIter <= maxIter; curIter++){ | 
| 707 |  |  |  | 
| 708 |  |  | stepStatus = step(); | 
| 709 |  |  |  | 
| 710 |  |  | if (stepStatus < 0){ | 
| 711 |  |  | saveResult(); | 
| 712 |  |  | minStatus = MIN_LSERROR; | 
| 713 |  |  | cerr << "OOPSEMinimizer Error: line search error, please try a small stepsize" << endl; | 
| 714 |  |  | return; | 
| 715 |  |  | } | 
| 716 |  |  |  | 
| 717 |  |  | if (curIter == nextWriteIter){ | 
| 718 |  |  | nextWriteIter += writeFrq; | 
| 719 |  |  | writeOut(curX, curIter); | 
| 720 |  |  | } | 
| 721 |  |  |  | 
| 722 |  |  | //if (curIter == nextResetIter){ | 
| 723 |  |  | //  reset(); | 
| 724 |  |  | //  nextResetIter += resetFrq; | 
| 725 |  |  | //} | 
| 726 |  |  |  | 
| 727 |  |  | convgStatus = checkConvg(); | 
| 728 |  |  |  | 
| 729 |  |  | if (convgStatus > 0){ | 
| 730 |  |  | saveResult(); | 
| 731 |  |  | minStatus = MIN_CONVERGE; | 
| 732 |  |  | return; | 
| 733 |  |  | } | 
| 734 |  |  |  | 
| 735 |  |  | prepareStep(); | 
| 736 |  |  |  | 
| 737 |  |  | } | 
| 738 |  |  |  | 
| 739 |  |  |  | 
| 740 |  |  | if (bVerbose) { | 
| 741 |  |  | cout << "OOPSEMinimizer Warning: " | 
| 742 |  |  | << minimizerName << " algorithm did not converge within " | 
| 743 |  |  | << maxIter << " iteration" << endl; | 
| 744 |  |  | } | 
| 745 |  |  | minStatus = MIN_MAXITER; | 
| 746 |  |  | saveResult(); | 
| 747 |  |  |  | 
| 748 |  |  | } |