--- trunk/src/applications/staticProps/Hxy.cpp 2006/05/12 21:34:43 955 +++ trunk/src/applications/staticProps/Hxy.cpp 2006/05/16 20:38:23 957 @@ -44,7 +44,7 @@ * * Created by Xiuquan Sun on 05/09/06. * @author Xiuquan Sun - * @version $Id: Hxy.cpp,v 1.1 2006-05-12 21:34:43 xsun Exp $ + * @version $Id: Hxy.cpp,v 1.3 2006-05-16 20:38:23 gezelter Exp $ * */ @@ -60,8 +60,6 @@ #include #include #include -#include -#include namespace oopse { @@ -76,23 +74,24 @@ namespace oopse { gridsample_.resize(nBinsX_*nBinsY_); gridZ_.resize(nBinsX_*nBinsY_); - sum_bin.resize(nbins); - avg_bin.resize(nbins); - errbin_sum.resize(nbins); - errbin.resize(nbins); - sum_bin_sq.resize(nbins); - avg_bin_sq.resize(nbins); - errbin_sum_sq.resize(nbins); - errbin_sq.resize(nbins); + sum_bin.resize(nbins_); + avg_bin.resize(nbins_); + errbin_sum.resize(nbins_); + errbin.resize(nbins_); + sum_bin_sq.resize(nbins_); + avg_bin_sq.resize(nbins_); + errbin_sum_sq.resize(nbins_); + errbin_sq.resize(nbins_); setOutputName(getPrefix(filename) + ".Hxy"); } void Hxy::process() { +#if defined(HAVE_FFTW_H) || defined(HAVE_DFFTW_H) || defined(HAVE_FFTW3_H) DumpReader reader(info_, dumpFilename_); int nFrames = reader.getNFrames(); nProcessed_ = nFrames/step_; - + std::vector mag, newmag; double lenX_, lenY_; double gridX_, gridY_; @@ -105,63 +104,63 @@ namespace oopse { double freq_x, freq_y, zero_freq_x, zero_freq_y, freq; double maxfreqx, maxfreqy, maxfreq, dfreq; int whichbin; + int nMolecules; for (int istep = 0; istep < nFrames; istep += step_) { - int nMolecules = reader.getNMolecules(); - - fftw_complex *in, *out; + reader.readFrame(istep); + currentSnapshot_ = info_->getSnapshotManager()->getCurrentSnapshot(); + nMolecules = info_->getNGlobalMolecules(); + + Mat3x3d hmat = currentSnapshot_->getHmat(); + +#ifdef HAVE_FFTW3_H fftw_plan p; +#else + fftwnd_plan p; +#endif + fftw_complex *in, *out; - in = fftw_malloc(sizeof(fftw_complex) * (nBinsX_*nBinsY_)); - out = fftw_malloc(sizeof(fftw_complex) *(nBinsX_*nBinsY_)); - p = fftw_plan_dft_2d(nBinsX_, - nBinsY_, - in, out, - FFTW_FORWARD, - FFTW_ESTIMATE); - int i, j; + in = (fftw_complex*) fftw_malloc(sizeof(fftw_complex) * (nBinsX_*nBinsY_)); + out = (fftw_complex*) fftw_malloc(sizeof(fftw_complex) *(nBinsX_*nBinsY_)); - for(i=0; i < nBinsX_*nBinsY_; i++){ - gridsample_[i].clear(); - gridZ_[i].clear(); - } - - for(i=0; i < nbins; i++){ - sum_bin[i].clear(); - avg_bin[i].clear(); - errbin_sum[i].clear(); - errbin[i].clear(); - sum_bin_sq[i].clear(); - avg_bin_sq[i].clear(); - errbin_sum_sq[i].clear(); - errbin_sq[i].clear(); - } - - mag.resize(nBinsX_*nBinsY_); - newmag.resize(nBinsX_*nBinsY_); - - for(i=0; i < nBinsX_*nBinsY_; i++){ - mag[i].clear(); - newmag[i].clear(); - } +#ifdef HAVE_FFTW3_H + p = fftw_plan_dft_2d(nBinsX_, nBinsY_, in, out, + FFTW_FORWARD, FFTW_ESTIMATE); +#else + p = fftw2d_create_plan(nBinsX_, nBinsY_, FFTW_FORWARD, FFTW_ESTIMATE); +#endif + + int i, j; + gridsample_.clear(); + gridZ_.clear(); + sum_bin.clear(); + avg_bin.clear(); + errbin_sum.clear(); + errbin.clear(); + sum_bin_sq.clear(); + avg_bin_sq.clear(); + errbin_sum_sq.clear(); + errbin_sq.clear(); + + mag.resize(nBinsX_*nBinsY_); + newmag.resize(nBinsX_*nBinsY_); + mag.clear(); + newmag.clear(); + StuntDouble* sd; - reader.readFrame(istep); - currentSnapshot_ = info_->getSnapshotManager()->getCurrentSnapshot(); - - Mat3x3d hmat = currentSnapshot_->getHmat(); - + lenX_ = hmat(0,0); lenY_ = hmat(1,1); - + gridX_ = lenX_ /(nBinsX_); gridY_ = lenY_ /(nBinsY_); - + double halfBoxX_ = lenX_ / 2.0; double halfBoxY_ = lenY_ / 2.0; - + if (evaluator_.isDynamic()) { seleMan_.setSelectionSet(evaluator_.evaluate()); } @@ -203,7 +202,7 @@ namespace oopse { } } } - + for (i=0; i< nBinsX_; i++) { for(j=0; j< nBinsY_; j++) { newindex = i*nBinsY_ + j; @@ -248,11 +247,11 @@ namespace oopse { px = i + 1; py = j; newp = px*nBinsY_ + py; - if ((px < nBinsX_) && (gridsample_[newp] > 0)) { - interpsum += gridZ_[newp]; - ninterp++; - } - + if ( (px < nBinsX_ ) && ( gridsample_[newp] > 0 )) { + interpsum += gridZ_[newp]; + ninterp++; + } + value = interpsum / (double)ninterp; gridZ_[newindex] = value; @@ -268,17 +267,23 @@ namespace oopse { c_im(in[newindex]) = 0.0; } } +#ifdef HAVE_FFTW3_H + fftw_execute(p); +#else + fftwnd_one(p, in, out); +#endif - fftw_execute(p); - for (i=0; i< nBinsX_; i++) { for(j=0; j< nBinsY_; j++) { newindex = i*nBinsY_ + j; mag[newindex] = pow(c_re(out[newindex]),2) + pow(c_im(out[newindex]),2); } } - +#ifdef HAVE_FFTW3_H fftw_destroy_plan(p); +#else + fftwnd_destroy_plan(p); +#endif fftw_free(out); fftw_free(in); @@ -328,7 +333,7 @@ namespace oopse { // printf("%lf\t%lf\t%lf\t%lf\n", dx, dy, maxfreqx, maxfreqy); maxfreq = sqrt(maxfreqx*maxfreqx + maxfreqy*maxfreqy); - dfreq = maxfreq/(double)(nbins-1); + dfreq = maxfreq/(double)(nbins_-1); //printf("%lf\n", dfreq); @@ -351,7 +356,7 @@ namespace oopse { } } - for ( i = 0; i < nbins; i++) { + for ( i = 0; i < nbins_; i++) { if ( samples[i][istep] > 0) { bin[i][istep] = 4.0 * sqrt(bin[i][istep] / (double)samples[i][istep]) / (double)nMolecules; } @@ -359,29 +364,36 @@ namespace oopse { } - for (i = 0; i < nbins; i++) { - for (j = 0; j < nFrames; j++) { + for (int i = 0; i < nbins_; i++) { + for (int j = 0; j < nFrames; j++) { sum_bin[i] += bin[i][j]; sum_bin_sq[i] += bin[i][j] * bin[i][j]; } avg_bin[i] = sum_bin[i] / (double)nFrames; avg_bin_sq[i] = sum_bin_sq[i] / (double)nFrames; - for (j = 0; j < nFrames; j++) { + for (int j = 0; j < nFrames; j++) { errbin_sum[i] += pow((bin[i][j] - avg_bin[i]), 2); errbin_sum_sq[i] += pow((bin[i][j] * bin[i][j] - avg_bin_sq[i]), 2); } errbin[i] = sqrt( errbin_sum[i] / (double)nFrames ); errbin_sq[i] = sqrt( errbin_sum_sq[i] / (double)nFrames ); } - + printSpectrum(); - } +#else + sprintf(painCave.errMsg, "Hxy: FFTW support was not compiled in!\n"); + painCave.isFatal = 1; + simError(); + +#endif + +} void Hxy::printSpectrum() { std::ofstream rdfStream(outputFilename_.c_str()); if (rdfStream.is_open()) { - for (int i = 0; i < nbins; i++) { + for (int i = 0; i < nbins_; i++) { if ( avg_bin[i] > 0 ){ rdfStream << i*dfreq << "\t" <