STIR
6.2.0
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This class contains the implementation of the FBP3DRP algorithm. More...
#include "stir/analytic/FBP3DRP/FBP3DRPReconstruction.h"
Public Member Functions | |
FBP3DRPReconstruction () | |
Default constructor (calls set_defaults()) | |
FBP3DRPReconstruction (const std::string ¶meter_filename) | |
Constructor, initialises everything from parameter file, or (when parameter_filename == "") by calling ask_parameters(). | |
std::string | method_info () const override |
This method returns the type of the reconstruction algorithm during the reconstruction, here it is FBP3DRP. | |
Succeeded | set_up (shared_ptr< DiscretisedDensity< 3, float >> const &target_image_sptr) override |
virtual void | do_process_viewgrams (RelatedViewgrams< float > &viewgrams, int rmin, int rmax, int orig_min_ring, int orig_max_ring) |
void | ask_parameters () |
Public Member Functions inherited from stir::RegisteredParsingObject< FBP3DRPReconstruction, Reconstruction< DiscretisedDensity< 3, float > >, AnalyticReconstruction > | |
std::string | get_registered_name () const override |
Returns Derived::registered_name. | |
std::string | parameter_info () override |
Returns a string with all parameters and their values, in a form suitable for parsing again. | |
Public Member Functions inherited from stir::AnalyticReconstruction | |
virtual DiscretisedDensity< 3, float > * | construct_target_image_ptr () const |
construct an image from parameters set (e.g. during parsing) | |
Succeeded | reconstruct () override |
reconstruct and write to file More... | |
Succeeded | reconstruct (shared_ptr< TargetT > const &target_image_sptr) override |
executes the reconstruction storing result in target_image_sptr More... | |
void | set_input_data (const shared_ptr< ExamData > &) override |
set input data | |
const ProjData & | get_input_data () const override |
get input data More... | |
int | get_output_image_size_xy () const |
void | set_output_image_size_xy (int) |
int | get_output_image_size_z () const |
void | set_output_image_size_z (int) |
float | get_zoom_xy () const |
void | set_zoom_xy (float) |
float | get_zoom_z () const |
void | set_zoom_z (float) |
const CartesianCoordinate3D< float > & | get_offset () const |
void | set_offset (const CartesianCoordinate3D< float > &) |
Public Member Functions inherited from stir::Reconstruction< DiscretisedDensity< 3, float > > | |
Reconstruction () | |
default constructor (calls set_defaults()) | |
~Reconstruction () override | |
virtual destructor | |
virtual Succeeded | set_up (shared_ptr< DiscretisedDensity< 3, float > > const &target_data_sptr) |
operations prior to the reconstruction More... | |
void | set_disable_output (bool _val) |
set_disable_output More... | |
shared_ptr< DiscretisedDensity< 3, float > > | get_target_image () |
get_reconstructed_image More... | |
void | set_output_filename_prefix (const std::string &) |
file name for output reconstructed images | |
void | set_output_file_format_ptr (const shared_ptr< OutputFileFormat< DiscretisedDensity< 3, float > >> &) |
defines the format of the output files | |
void | set_post_processor_sptr (const shared_ptr< DataProcessor< DiscretisedDensity< 3, float > >> &) |
post-filter | |
Public Member Functions inherited from stir::ParsingObject | |
ParsingObject (const ParsingObject &) | |
ParsingObject & | operator= (const ParsingObject &) |
void | ask_parameters () |
bool | parse (std::istream &f) |
bool | parse (const char *const filename) |
Public Member Functions inherited from stir::TimedObject | |
void | reset_timers () |
reset all timers kept by this object | |
void | stop_timers () const |
stop all timers kept by this object More... | |
void | start_timers (bool do_reset=false) const |
start all timers kept by this object More... | |
double | get_CPU_timer_value () const |
get current value of the CPU timer (since first use or last reset) | |
double | get_wall_clock_timer_value () const |
get current value of the wall-clock timer (since first use or last reset) | |
Static Public Attributes | |
static const char *const | registered_name = "FBP3DRP" |
Name which will be used when parsing a ProjectorByBinPair object. | |
Protected Member Functions | |
Succeeded | actual_reconstruct (shared_ptr< DiscretisedDensity< 3, float >> const &) override |
Implementation of the reconstruction. More... | |
void | do_best_fit (const Sinogram< float > &sino_measured, const Sinogram< float > &sino_calculated) |
Best fit of forward projected sinograms. | |
void | do_2D_reconstruction () |
2D FBP implementation. | |
void | do_save_img (const char *file, const VoxelsOnCartesianGrid< float > &data) const |
Save image data. | |
void | do_read_image2D () |
Read image estimated from 2D FBP. | |
void | do_3D_Reconstruction (VoxelsOnCartesianGrid< float > &image) |
3D reconstruction implementation. | |
void | do_arc_correction (RelatedViewgrams< float > &viewgrams) const |
Arc-correction viewgrams. | |
void | do_grow3D_viewgram (RelatedViewgrams< float > &viewgrams, int rmin, int rmax) |
Growing 8 viewgrams in both ring and bin directions. | |
void | do_forward_project_view (RelatedViewgrams< float > &viewgrams, int rmin, int rmax, int orig_min_ring, int orig_max_ring) const |
3D forward projection implentation by view. | |
void | do_colsher_filter_view (RelatedViewgrams< float > &viewgrams) |
Apply Colsher filter to 8 viewgrams. | |
void | do_3D_backprojection_view (RelatedViewgrams< float > const &viewgrams, int rmin, int rmax) |
3D backprojection implentation for 8 viewgrams. | |
void | do_log_file (const VoxelsOnCartesianGrid< float > &image) |
Saving CPU timing and values of reconstruction parameters into a log file. | |
virtual void | do_byview_initialise (const VoxelsOnCartesianGrid< float > &image) const |
virtual void | do_byview_finalise (VoxelsOnCartesianGrid< float > &image) |
Protected Member Functions inherited from stir::AnalyticReconstruction | |
virtual Succeeded | actual_reconstruct (shared_ptr< TargetT > const &target_image_sptr)=0 |
executes the reconstruction storing result in target_image_sptr More... | |
bool | post_processing () override |
used to check acceptable parameter ranges, etc... | |
void | set_defaults () override |
Set defaults before parsing. | |
void | initialise_keymap () override |
Initialise all keywords. | |
Protected Member Functions inherited from stir::Reconstruction< DiscretisedDensity< 3, float > > | |
virtual void | check (DiscretisedDensity< 3, float > const &target_data) const |
do consistency checks More... | |
void | initialise (const std::string ¶meter_filename) |
This function initialises all parameters, either via parsing, or by calling ask_parameters() (when parameter_filename is the empty string). More... | |
void | set_defaults () override |
Set defaults before parsing. | |
void | initialise_keymap () override |
Initialise all keywords. | |
bool | post_processing () override |
used to check acceptable parameters after parsing More... | |
Protected Member Functions inherited from stir::ParsingObject | |
virtual void | set_key_values () |
This will be called before parsing or parameter_info is called. More... | |
Protected Attributes | |
int | display_level |
Switch to display intermediate images, 0,1,2. | |
int | save_intermediate_files |
Switch to save files after each segment, 0 or 1. | |
std::string | image_for_reprojection_filename |
Filename of image used in the reprojection step (default is empty) More... | |
int | num_segments_to_combine |
Number of segments to combine with SSRB before calling FBP. More... | |
int | PadS |
Transaxial extension for FFT. | |
int | PadZ |
Axial extension for FFT. | |
double | alpha_ramp |
Ramp filter: Alpha value. | |
double | fc_ramp |
Ramp filter: Cut off frequency. | |
double | alpha_colsher_axial |
Alpha parameter for Colsher filter in axial direction. | |
double | fc_colsher_axial |
Cut-off frequency for Colsher filter in axial direction. | |
double | alpha_colsher_planar |
Alpha parameter for Colsher filter in planar direction. | |
double | fc_colsher_planar |
Cut-off frequency for Colsher filter in planar direction. | |
int | colsher_stretch_factor_axial |
Define Colsher at larger size than used for filtering, axial direction. | |
int | colsher_stretch_factor_planar |
Define Colsher at larger size than used for filtering, planar direction. | |
int | fit_projections |
=1 => apply additional fitting procedure to forward projected data (DISABLED) | |
Protected Attributes inherited from stir::AnalyticReconstruction | |
std::string | input_filename |
the input projection data file name | |
int | max_segment_num_to_process |
the maximum absolute ring difference number to use in the reconstruction More... | |
shared_ptr< ProjData > | proj_data_ptr |
points to the object for the total input projection data | |
ParseAndCreateFrom< TargetT, ProjData > | target_parameter_parser |
Protected Attributes inherited from stir::Reconstruction< DiscretisedDensity< 3, float > > | |
std::string | output_filename_prefix |
file name for output reconstructed images | |
shared_ptr< OutputFileFormat< DiscretisedDensity< 3, float > > > | output_file_format_ptr |
defines the format of the output files | |
shared_ptr< DataProcessor< DiscretisedDensity< 3, float > > > | post_filter_sptr |
post-filter | |
bool | _already_set_up |
shared_ptr< DiscretisedDensity< 3, float > > | target_data_sptr |
target_data_sptr | |
bool | _disable_output |
_disable_output More... | |
int | _verbosity |
Verbosity level. | |
Protected Attributes inherited from stir::ParsingObject | |
KeyParser | parser |
Additional Inherited Members | |
Public Types inherited from stir::AnalyticReconstruction | |
typedef DiscretisedDensity< 3, float > | TargetT |
Static Public Member Functions inherited from stir::RegisteredParsingObject< FBP3DRPReconstruction, Reconstruction< DiscretisedDensity< 3, float > >, AnalyticReconstruction > | |
static Reconstruction< DiscretisedDensity< 3, float > > * | read_from_stream (std::istream *) |
Construct a new object (of type Derived) by parsing the istream. More... | |
Static Public Member Functions inherited from stir::RegisteredObject< Reconstruction< DiscretisedDensity< 3, float > > > | |
static Reconstruction< DiscretisedDensity< 3, float > > * | read_registered_object (std::istream *in, const std::string ®istered_name) |
Construct a new object (of a type derived from Root, its actual type determined by the registered_name parameter) by parsing the istream. More... | |
static Reconstruction< DiscretisedDensity< 3, float > > * | ask_type_and_parameters () |
ask the user for the type, and then calls read_registered_object(0, type) More... | |
static void | list_registered_names (std::ostream &stream) |
List all possible registered names to the stream. More... | |
Protected Types inherited from stir::RegisteredObject< Reconstruction< DiscretisedDensity< 3, float > > > | |
typedef Reconstruction< DiscretisedDensity< 3, float > > *(* | RootFactory) (std::istream *) |
The type of a root factory is a function, taking an istream* as argument, and returning a Root*. | |
typedef FactoryRegistry< std::string, RootFactory, interfile_less > | RegistryType |
The type of the registry. | |
Static Protected Member Functions inherited from stir::RegisteredObject< Reconstruction< DiscretisedDensity< 3, float > > > | |
static RegistryType & | registry () |
Static function returning the registry. More... | |
This class contains the implementation of the FBP3DRP algorithm.
This class implements the 3DRP algorithm (Kinahan and Rogers) as a specific case of a 3D FBP reconstruction algorithm.
Some care is taken to achieve a fairly general implementation. For instance, the number of sinograms in the oblique segments is arbitrary (i.e. does not have to be related to what you would get from a cylindrical PET scanner). Also, scale factors are inserted such that the reconstructed image has (almost) the same scale independent of the number of segments that is used.
Nevertheless, this is an analytic algorithm, and it implements a discrete version of a continuous inversion formula. This will work best (but of course slowest) when the number of segments is large.
This implementation is specific for data using sampling corresponding to cylindrical PET scanners. This dependency essentially only occurs in the backprojection where a Jacobian is necessary in this case, and where the number of ring differences in each segment is taken into account. It would be not too difficult to make a version that works on e.g. spherical sampling.
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Implementation of the reconstruction.
This method implements the reconstruction by giving as input the emission sinogram data corrected for attenuation, scatter, dead time, and returns the output reconstructed image
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Filename of image used in the reprojection step (default is empty)
If the filename is empty, FBP is used (with filter parameters as specified further).
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Number of segments to combine with SSRB before calling FBP.
default -1 will use SSRB only when the data are not yet axially compressed