EMAN2
Public Member Functions | Static Public Member Functions | Static Public Attributes | List of all members
EMAN::FourierInserter3DMode2 Class Reference

FourierPixelInserter3DMode2 - encapsulates "method 2" for inserting a 2D Fourier slice into a 3D volume See comments in FourierPixelInserter3D for explanations. More...

#include <reconstructor_tools.h>

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Public Member Functions

 FourierInserter3DMode2 ()
 
virtual ~FourierInserter3DMode2 ()
 
virtual bool insert_pixel (const float &xx, const float &yy, const float &zz, const std::complex< float > dt, const float &weight=1.0)
 Insert a complex pixel [dt[0]+dt[1]i] at (float) coordinate [xx,yy,zz] with weighting into a discrete 3D volume. More...
 
virtual string get_name () const
 Get the unique name of this class (especially for factory based instantiation access) More...
 
virtual string get_desc () const
 Get a clear, concise description of this class. More...
 
 FourierInserter3DMode2 (const FourierInserter3DMode2 &)
 
FourierInserter3DMode2operator= (const FourierInserter3DMode2 &)
 
- Public Member Functions inherited from EMAN::FourierPixelInserter3D
 FourierPixelInserter3D ()
 Construct a FourierPixelInserter3D. More...
 
virtual ~FourierPixelInserter3D ()
 Desctruct a FourierPixelInserter3D. More...
 
TypeDict get_param_types () const
 
virtual void init ()
 
- Public Member Functions inherited from EMAN::FactoryBase
 FactoryBase ()
 
virtual ~FactoryBase ()
 
Dict get_params () const
 get a copy of the parameters of this class More...
 
void set_params (const Dict &new_params)
 Set new parameters. More...
 
void set_param (const string key, const EMObject val)
 
void insert_params (const Dict &new_params)
 Insert parameters. More...
 
Dict copy_relevant_params (const FactoryBase *const that) const
 

Static Public Member Functions

static FourierPixelInserter3DNEW ()
 

Static Public Attributes

static const string NAME = "gauss_2"
 

Additional Inherited Members

- Protected Attributes inherited from EMAN::FourierPixelInserter3D
float * norm
 A pointer to the constructor argument normalize_values. More...
 
EMDatadata
 A pointer to the constructor argument real_data. More...
 
int nx
 Image volume data sizes a convenience variable used here and there. More...
 
int ny
 
int nz
 
int nxyz
 
int nx2
 
int ny2
 
int nz2
 
int subx0
 
int suby0
 
int subz0
 
int fullnx
 
int fullny
 
int fullnz
 
- Protected Attributes inherited from EMAN::FactoryBase
Dict params
 This is the dictionary the stores the parameters of the object. More...
 

Detailed Description

FourierPixelInserter3DMode2 - encapsulates "method 2" for inserting a 2D Fourier slice into a 3D volume See comments in FourierPixelInserter3D for explanations.

Definition at line 193 of file reconstructor_tools.h.

Constructor & Destructor Documentation

◆ FourierInserter3DMode2() [1/2]

EMAN::FourierInserter3DMode2::FourierInserter3DMode2 ( )
inline

Definition at line 196 of file reconstructor_tools.h.

196{}

Referenced by NEW().

◆ ~FourierInserter3DMode2()

virtual EMAN::FourierInserter3DMode2::~FourierInserter3DMode2 ( )
inlinevirtual

Definition at line 197 of file reconstructor_tools.h.

197{}

◆ FourierInserter3DMode2() [2/2]

EMAN::FourierInserter3DMode2::FourierInserter3DMode2 ( const FourierInserter3DMode2 )

Member Function Documentation

◆ get_desc()

virtual string EMAN::FourierInserter3DMode2::get_desc ( ) const
inlinevirtual

Get a clear, concise description of this class.

Returns
a clear, concise description of this class

Implements EMAN::FactoryBase.

Definition at line 211 of file reconstructor_tools.h.

212 {
213 return "Fourier pixel insertion using interpolation and the nearest 8 voxels";
214 }

◆ get_name()

virtual string EMAN::FourierInserter3DMode2::get_name ( ) const
inlinevirtual

Get the unique name of this class (especially for factory based instantiation access)

Returns
the unique name of this class

Implements EMAN::FactoryBase.

Definition at line 206 of file reconstructor_tools.h.

207 {
208 return NAME;
209 }

References NAME.

◆ insert_pixel()

bool FourierInserter3DMode2::insert_pixel ( const float &  xx,
const float &  yy,
const float &  zz,
const std::complex< float >  dt,
const float &  weight = 1.0 
)
virtual

Insert a complex pixel [dt[0]+dt[1]i] at (float) coordinate [xx,yy,zz] with weighting into a discrete 3D volume.

Parameters
xxthe floating point x coordinate
yythe floating point y coordinate
zzthe floating point z coordinate
dtthe complex pixel value (dt[0] is real, dt[1] is imaginary)
weightthe weight to given to this complex pixel
Returns
A boolean that indicates the pixel has been inserted (or not)

Implements EMAN::FourierPixelInserter3D.

Definition at line 128 of file reconstructor_tools.cpp.

129{
130 int x0 = (int) floor(xx);
131 int y0 = (int) floor(yy);
132 int z0 = (int) floor(zz);
133
134 // note that subnx differs in the inserters. In the reconstructors it subx0 is 0 for the full volume. Here it is -1
135 if (subx0<0) { // normal full reconstruction
136 if (x0<-nx2-1 || y0<-ny2-1 || z0<-nz2-1 || x0>nx2 || y0>ny2 || z0>nz2 ) return false;
137
138 int x1=x0+1;
139 int y1=y0+1;
140 int z1=z0+1;
141// if (x0<-nx2) x0=-nx2;
142// if (x1>nx2) x1=nx2;
143// if (y0<-ny2) y0=-ny2;
144// if (y1>ny2) y1=ny2;
145// if (z0<-nz2) z0=-nz2;
146// if (z1>nz2) z1=nz2;
147
148// float h=2.0/((1.0+pow(Util::hypot3sq(xx,yy,zz),.5))*EMConsts::I2G);
149 float h=1.0f/EMConsts::I2G;
150 //size_t idx;
151 float r, gg;
152// int pc=0;
153 for (int k = z0 ; k <= z1; k++) {
154 for (int j = y0 ; j <= y1; j++) {
155 for (int i = x0; i <= x1; i ++) {
156 r = Util::hypot3sq((float) i - xx, j - yy, k - zz);
157 gg = Util::fast_exp(-r *h)*weight;
158
159 size_t off;
160 off=data->add_complex_at_fast(i,j,k,dt*gg);
161 if (off!=nxyz) norm[off/2]+=gg;
162// if (off!=nxyz) norm[off/2]+=weight; // experiment 6/1/20, use true Gaussian kernel, not just weight
163 }
164 }
165 }
166 return true;
167 }
168 else { // for subvolumes, not optimized yet
169 //size_t idx;
170 float r, gg;
171 int pc=0;
172 for (int k = z0 ; k <= z0 + 1; k++) {
173 for (int j = y0 ; j <= y0 + 1; j++) {
174 for (int i = x0; i <= x0 + 1; i ++) {
175 r = Util::hypot3sq((float) i - xx, j - yy, k - zz);
176 gg = Util::fast_exp(-r / EMConsts::I2G)*weight;
177
178 size_t off;
179 if (subx0<0) off=data->add_complex_at(i,j,k,dt*gg);
180 else off=data->add_complex_at(i,j,k,subx0,suby0,subz0,fullnx,fullny,fullnz,dt*gg);
181 if (static_cast<int>(off)!=nxyz) { norm[off/2]+=gg; pc+=1; }
182 }
183 }
184 }
185
186 if (pc>0) return true;
187 return false;
188 }
189}
static const float I2G
Definition: emobject.h:72
EMData * data
A pointer to the constructor argument real_data.
float * norm
A pointer to the constructor argument normalize_values.
static int hypot3sq(int x, int y, int z)
Euclidean distance function squared in 3D: f(x,y,z) = (x*x + y*y + z*z);.
Definition: util.h:805
static float fast_exp(const float &f)
Returns an approximate of exp(x) using a cached table uses actual exp(x) outside the cached range.
Definition: util.cpp:788

References EMAN::FourierPixelInserter3D::data, EMAN::Util::fast_exp(), EMAN::FourierPixelInserter3D::fullnx, EMAN::FourierPixelInserter3D::fullny, EMAN::FourierPixelInserter3D::fullnz, EMAN::Util::hypot3sq(), EMAN::EMConsts::I2G, EMAN::FourierPixelInserter3D::norm, EMAN::FourierPixelInserter3D::nx2, EMAN::FourierPixelInserter3D::nxyz, EMAN::FourierPixelInserter3D::ny2, EMAN::FourierPixelInserter3D::nz2, EMAN::FourierPixelInserter3D::subx0, EMAN::FourierPixelInserter3D::suby0, and EMAN::FourierPixelInserter3D::subz0.

◆ NEW()

static FourierPixelInserter3D * EMAN::FourierInserter3DMode2::NEW ( )
inlinestatic

Definition at line 201 of file reconstructor_tools.h.

202 {
203 return new FourierInserter3DMode2();
204 }

References FourierInserter3DMode2().

◆ operator=()

FourierInserter3DMode2 & EMAN::FourierInserter3DMode2::operator= ( const FourierInserter3DMode2 )

Member Data Documentation

◆ NAME

const string FourierInserter3DMode2::NAME = "gauss_2"
static

Definition at line 216 of file reconstructor_tools.h.

Referenced by get_name().


The documentation for this class was generated from the following files: