IMP  2.1.0
The Integrative Modeling Platform
CoarseConvolution.h
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1 /**
2  * \file IMP/em/CoarseConvolution.h
3  * \brief Convolutes two grids
4  *
5  * Copyright 2007-2013 IMP Inventors. All rights reserved.
6  *
7  */
8 
9 #ifndef IMPEM_COARSE_CONVOLUTION_H
10 #define IMPEM_COARSE_CONVOLUTION_H
11 
12 #include <IMP/em/em_config.h>
13 #include "exp.h"
14 #include "DensityMap.h"
15 #include "SampledDensityMap.h"
16 #include "def.h"
17 #include <vector>
18 
19 IMPEM_BEGIN_NAMESPACE
20 
21 //! Convolutes two grids
22 /** The pixels involved are derived from the positions of N particles.
23  */
24 class IMPEMEXPORT CoarseConvolution
25 {
26 
27 public:
28 #if 0
29  //! Evaluates the convolution between two density grids
30  /**
31  f*g(n)=f(m)g(n-m); m runs between -inf to inf
32  \param[in] f A densityMap. note:
33  correct RMSD and mean MUST be in the header!
34  \param[in] g a sampled density map of particles
35  \param[in] g_ps particles data (location, radii, weight)
36  \param[in] dvx vector to contain the xpartial derivatives for g_access_p
37  \param[in] dvy vector to contain the y partial derivatives for g_access_p
38  \param[in] dvz vector to contain the z partial derivatives for g_access_p
39  \param[in] scalefactor scale factor to apply to the value of the cross
40  correlation term
41  \param[in] lderiv if true, the derivatives of the term are computed
42  \return the value of the cross correlation term: scalefac*(1-ccc)
43  */
44  /*
45  static float evaluate(DensityMap &f, SampledDensityMap &g,
46  const kernel::Particles &g_ps,
47  std::vector<float> &dvx, std::vector<float>&dvy,
48  std::vector<float>&dvz, float scalefac, bool lderiv);
49  */
50  /*
51  static void calc_derivatives(const DensityMap &comp1,
52  SampledDensityMap &comp2,
53  const kernel::Particles &ps_comp2,
54  const float &scalefac,
55  std::vector<float> &dvx, std::vector<float>&dvy,
56  std::vector<float>&dvz);
57 */
58 #endif
59 
60  /** Cross correlation coefficient between the em density and the density of a
61  model. moddens threshold can be specified that is checked in moddens to
62  reduce elements of summation
63  \note This is not the local CC function
64  \param[in] em_map the target map (experimentally determined)
65  \param[in] model_map the sampled density map of the model
66  \param[in] voxel_data_threshold voxels with value lower than threshold
67  in model_map are not summed (avoid calculating correlation on
68  voxels below the threshold)
69  \param[in] recalc_ccnormfac Ignored. The purpose is to determines wheather
70  the model_map should be
71  normalized prior to the correlation calculation. false is
72  faster, but potentially innacurate
73  \return the convolution value between two density maps
74 
75  \note recalc_ccnormfac is ignored.
76  */
77  static float convolution(const DensityMap *em_map,DensityMap *model_map,
78  float voxel_data_threshold,
79  bool recalc_ccnormfac = true);
80 };
81 
82 IMPEM_END_NAMESPACE
83 
84 #endif /* IMPEM_COARSE_CONVOLUTION_H */
Definitions for EMBED.
An approximation of the exponential function.
Class for handling density maps.
Class for handling density maps.
Definition: DensityMap.h:98
Sampled density map.
Convolutes two grids.