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analyzer.cpp File Reference

#include <ctime>
#include <memory>
#include "emdata.h"
#include "analyzer.h"
#include "sparx/analyzer_sparx.h"
#include "util.h"
#include "cmp.h"
#include "sparx/lapackblas.h"
#include "sparx/varimax.h"

Include dependency graph for analyzer.cpp:

Include dependency graph

Go to the source code of this file.

Namespaces

namespace  EMAN

Defines

#define covmat(i, j)   covmat[ ((j)-1)*nx + (i)-1 ]
#define imgdata(i)   imgdata[ (i)-1 ]
#define eigvec(i, j)   eigvec[(j)*ncov + (i)]
#define qmat(i, j)   qmat[((j)-1)*kstep + (i) -1]
#define diag(i)   diag[(i)-1]
#define rdata(i)   rdata[(i)-1]
#define eigvec(i, j)   eigvec[((j)-1)*ncov + (i)-1]
#define eigval(i)   eigval[(i)-1]
#define TOL   1e-7
#define V(i, j)   V[((j)-1)*imgsize + (i) - 1]
#define v0(i)   v0[(i)-1]
#define Av(i)   Av[(i)-1]
#define subdiag(i)   subdiag[(i)-1]
#define diag(i)   diag[(i)-1]
#define hvec(i)   hvec[(i)-1]
#define eigvec(i, j)   eigvec[(j)*ncov + (i)]


Define Documentation

#define Av  )     Av[(i)-1]
 

Definition at line 493 of file analyzer.cpp.

Referenced by EMAN::PCA::Lanczos(), EMAN::PCAlarge::Lanczos(), and EMAN::PCA::Lanczos_ooc().

#define covmat i,
 )     covmat[ ((j)-1)*nx + (i)-1 ]
 

Definition at line 246 of file analyzer.cpp.

Referenced by EMAN::Util::coveig(), and EMAN::Util::coveig_for_py().

#define diag  )     diag[(i)-1]
 

Definition at line 495 of file analyzer.cpp.

#define diag  )     diag[(i)-1]
 

Definition at line 495 of file analyzer.cpp.

Referenced by EMAN::PCAlarge::analyze(), EMAN::PCA::dopca_lan(), EMAN::PCA::dopca_ooc(), EMAN::PCA::Lanczos(), EMAN::PCAlarge::Lanczos(), EMAN::PCA::Lanczos_ooc(), strmm_(), and strmv_().

#define eigval  )     eigval[(i)-1]
 

Definition at line 388 of file analyzer.cpp.

Referenced by EMAN::Util::coveig(), and EMAN::Util::coveig_for_py().

#define eigvec i,
 )     eigvec[(j)*ncov + (i)]
 

Definition at line 752 of file analyzer.cpp.

#define eigvec i,
 )     eigvec[((j)-1)*ncov + (i)-1]
 

Definition at line 752 of file analyzer.cpp.

#define eigvec i,
 )     eigvec[(j)*ncov + (i)]
 

Definition at line 752 of file analyzer.cpp.

Referenced by EMAN::PCAlarge::analyze(), EMAN::PCAsmall::analyze(), EMAN::Util::coveig(), EMAN::Util::coveig_for_py(), EMAN::PCA::dopca_lan(), and EMAN::PCA::dopca_ooc().

#define hvec  )     hvec[(i)-1]
 

Definition at line 496 of file analyzer.cpp.

Referenced by EMAN::PCA::Lanczos(), and EMAN::PCAlarge::Lanczos().

#define imgdata  )     imgdata[ (i)-1 ]
 

Definition at line 247 of file analyzer.cpp.

Referenced by EMAN::varimax::analyze(), CleanStack(), CleanStack_Cart(), EMAN::PCAlarge::insert_image(), EMAN::PCAsmall::insert_image(), EMAN::PCA::Lanczos(), EMAN::PCAlarge::Lanczos(), EMAN::PCA::Lanczos_ooc(), ReadStackandDist(), ReadStackandDist_Cart(), and unified().

#define qmat i,
 )     qmat[((j)-1)*kstep + (i) -1]
 

Definition at line 384 of file analyzer.cpp.

Referenced by EMAN::PCAlarge::analyze(), EMAN::PCA::dopca_lan(), and EMAN::PCA::dopca_ooc().

#define rdata  )     rdata[(i)-1]
 

Definition at line 386 of file analyzer.cpp.

Referenced by EMAN::MeanShrinkProcessor::accrue_mean(), EMAN::MedianShrinkProcessor::accrue_median(), add_complex_at_fast(), EMAN::PCAlarge::analyze(), EMAN::PCAsmall::analyze(), EMAN::TestUtil::dump_emdata(), EMAN::EMData::EMData(), EMAN::Phase180Processor::fourier_phaseshift180(), EMAN::EMData::get_complex_at(), get_value_at_index(), EMAN::GaussFFTProjector::interp_ft_3d(), EMAN::ReconstructorVolumeData::normalize_threed(), EMAN::WienerFourierReconstructor::pixel_at(), EMAN::FourierReconstructor::pixel_at(), EMAN::AddRandomNoiseProcessor::process_inplace(), EMAN::PhaseToCenterProcessor::process_inplace(), EMAN::PhaseToCornerProcessor::process_inplace(), EMAN::FourierToCenterProcessor::process_inplace(), EMAN::FourierToCornerProcessor::process_inplace(), EMAN::RotationalSubstractProcessor::process_inplace(), EMAN::RotationalAverageProcessor::process_inplace(), EMAN::NormalizeRowProcessor::process_inplace(), set_data(), set_value_at_index(), EMAN::Phase180Processor::swap_central_slices_180(), and EMAN::Phase180Processor::swap_corners_180().

#define subdiag  )     subdiag[(i)-1]
 

Definition at line 494 of file analyzer.cpp.

Referenced by EMAN::PCAlarge::analyze(), EMAN::PCA::dopca_lan(), EMAN::PCA::dopca_ooc(), EMAN::PCA::Lanczos(), EMAN::PCAlarge::Lanczos(), and EMAN::PCA::Lanczos_ooc().

#define TOL   1e-7
 

Definition at line 490 of file analyzer.cpp.

#define V i,
 )     V[((j)-1)*imgsize + (i) - 1]
 

Definition at line 491 of file analyzer.cpp.

Referenced by EMAN::SVDAnalyzer::analyze(), EMAN::Util::getBaldwinGridWeights(), EMAN::BoxSVDClassifier::go(), EMAN::PCA::Lanczos(), EMAN::PCAlarge::Lanczos(), EMAN::Transform::orthogonalize(), EMAN::GradientPlaneRemoverProcessor::process_inplace(), svd(), EMAN::Util::svdcmp(), tikhonov(), and tsvd().

#define v0  )     v0[(i)-1]
 

Definition at line 492 of file analyzer.cpp.

Referenced by EMAN::Transform::invert(), EMAN::PCA::Lanczos(), EMAN::PCAlarge::Lanczos(), and EMAN::DiffBlockProcessor::process_inplace().


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