PolarResamplingParameters.h

Go to the documentation of this file.

/**
 *  \file IMP/em2d/PolarResamplingParameters.h
 *  \brief Functions related with rotations in em2d
 *  Copyright 2007-2014 IMP Inventors. All rights reserved.
*/

#ifndef IMPEM2D_POLAR_RESAMPLING_PARAMETERS_H
#define IMPEM2D_POLAR_RESAMPLING_PARAMETERS_H

#include "IMP/em2d/em2d_config.h"
#include "IMP/em2d/opencv_interface.h"
#include "IMP/algebra/constants.h"
#include "IMP/base/exception.h"
#include "IMP/base/log.h"
#include "IMP/base/log_macros.h"
#include <IMP/constants.h>

IMPEM2D_BEGIN_NAMESPACE

//! Class to manage the parameters required for the polar resampling in the
//! rotational_alignment function
class IMPEM2DEXPORT PolarResamplingParameters {

 public:
  PolarResamplingParameters() {
    parameters_set_ = false;
  };

  //! Compute the parameters for a polar resampling from the dimensions of
  //! a matrix
  PolarResamplingParameters(unsigned int rows, unsigned int cols) {
    setup(rows, cols);
  }

  //! Compute the parameters for a polar resampling getting the dimensions from
  //! the matrix
  /*!
      \param[in] m Matrix that is going to be resampled
  */
  PolarResamplingParameters(const cv::Mat &m) { setup(m.rows, m.cols); }

  ~PolarResamplingParameters() {};

  //! Initialize the internal parameters to generate all the values
  //! The class uses a number of radius values for resampling that is
  //! optimal to perform  FFT during the rotational alignment. The first guess
  //! is  half the rows and columns
  void setup(unsigned int rows, unsigned int cols) {
    starting_radius_ = 5.0;
    n_angles_ = 0;
    matrix_rows_ = rows;
    matrix_cols_ = cols;
    ending_radius_ =
        std::min(rows / 2., cols / 2.);  // maximum radius, half the size
    n_rings_ = cv::getOptimalDFTSize((int)ending_radius_);
    radius_step_ =
        (ending_radius_ - starting_radius_) / (static_cast<double>(n_rings_));
    parameters_set_ = true;
    IMP_LOG_VERBOSE("PolarResamplingParameters setup. Input matrix: "
                    << rows << " x " << cols << " Starting radius= "
                    << starting_radius_ << " Ending radius= " << ending_radius_
                    << " Rings= " << n_rings_ << std::endl);
  }

  //! Gets the initial radius of the resampling
  double get_starting_radius() const {
    get_is_setup();
    return starting_radius_;
  }

  //! Gets the largest radius
  double get_ending_radius() const {
    get_is_setup();
    return ending_radius_;
  }

  //! Gets the current radius employed for the ring in consideration)
  double get_radius(unsigned int n_ring) const {
    get_is_setup();
    IMP_USAGE_CHECK(n_ring <= n_rings_,
                    "PolarResamplingParameters: Requested ring is above the "
                    "maximum number");
    return starting_radius_ + n_ring * radius_step_;
  }

  //! Get the number of rings (that is, the number of radius values considered)
  unsigned int get_number_of_rings() const {
    get_is_setup();
    return n_rings_;
  }

  //! You give an approximated number of values that you want to
  //! use for the resampling, and the function computes the optimal number
  //! for an FFT based on this approximated number
  void set_estimated_number_of_angles(unsigned int aprox_value) {
    n_angles_ = cv::getOptimalDFTSize(aprox_value);
    angle_step_ = (2 * PI) / static_cast<double>(n_angles_);
  }

  //! Gets the number of points that are sampled for the angles
  //! remember that this number is usually different to the approximated value
  //! that you provide to the function set_estimated_number_of_angles()
  unsigned int get_number_of_angles() const { return n_angles_; }

  //! get the angular step used
  double get_angle_step() const { return angle_step_; }

  //! Get the step for the radius coordinate
  double get_radius_step() const {
    if (get_is_setup() == false) {
      IMP_THROW("trying to get radius_step before initializing",
                IMP::base::ValueException);
    }
    return radius_step_;
  }

  //! After the number of radius and angles values are set, this function
  //! Builds a map of resampling coordinates. This map is very useful for
  void create_maps_for_resampling() {
    if (n_angles_ == 0) {
      IMP_THROW("Number of sampling points for the angle is zero",
                IMP::base::ValueException);
    }
    // create the appropriate map
    polar_map_.create(n_rings_, n_angles_, CV_32FC2);  // 2 channels, floats
    // Build a map to use with the OpenCV the cv::remap
    //  function for polar resampling
    cv::Vec2d v;
    for (unsigned int i = 0; i < n_rings_; ++i) {
      for (unsigned int j = 0; j < n_angles_; ++j) {
        double r = get_radius(i);
        double theta = j * angle_step_;
        // row and col of input to use
        double row = static_cast<double>(matrix_rows_) / 2.0 + r * sin(theta);
        double col = static_cast<double>(matrix_cols_) / 2.0 + r * cos(theta);
        polar_map_.at<cv::Vec2f>(i, j)[0] = static_cast<float>(row);
        polar_map_.at<cv::Vec2f>(i, j)[1] = static_cast<float>(col);
      }
    }
    // Convert to fast maps
    cv::Mat empty;
    cv::convertMaps(polar_map_, empty, map_16SC2_, map_16UC1_, CV_16SC2);
  }

  //! Get the samplings maps of type CV_16SC2 and CV_16UC1
  //! (this map combination is faster for remapping. See OpenCV help for remap()
  void get_resampling_maps(cv::Mat &m1, cv::Mat &m2) const {
    m1 = map_16SC2_;
    m2 = map_16UC1_;
  }

  //! Obtain the resampling map of type CV_32FC2 (floats, slower that those
  //! obtained with   get_resampling_maps()
  void get_resampling_map(cv::Mat &m1) const {
    IMP_LOG_VERBOSE("returning resampling map "
                    << polar_map_.rows << "x" << polar_map_.cols << " depth "
                    << polar_map_.depth() << " type " << polar_map_.type()
                    << std::endl);
    m1 = polar_map_;
  }

  void show(std::ostream &out) const {
    out << "starting_radius = " << starting_radius_ << std::endl;
    out << "ending_radius = " << ending_radius_ << std::endl;
    out << "n_rings = " << n_rings_ << std::endl;
  }

  bool get_is_setup() const {
    if (parameters_set_) return true;
    return false;
  }

 protected:
  cv::Mat polar_map_;       // CV_23CF, map in floats.
  cv::Mat map_16SC2_;       // Map for speed up resampling (see OpenCV help for
                            // remap)
  cv::Mat map_16UC1_;       // Map for speed up resampling (see OpenCV help for
                            // remap)
  double starting_radius_;  // starting radius for the polar resampling
  double ending_radius_;    // ending radius for the polar resampling
  // Number of sampling points for radius and angles
  unsigned int n_rings_, n_angles_, matrix_rows_, matrix_cols_;
  bool parameters_set_;
  double radius_step_, angle_step_;
};

IMP_VALUES(PolarResamplingParameters, PolarResamplingParametersList);

IMPEM2D_END_NAMESPACE

#endif /* IMPEM2D_POLAR_RESAMPLING_PARAMETERS_H */