/usr/include/mia-2.2/mia/template/mi.hh is in libmia-2.2-dev 2.2.2-1+b1.
This file is owned by root:root, with mode 0o644.
The actual contents of the file can be viewed below.
1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 64 65 66 67 68 69 70 71 72 73 74 75 76 77 78 79 80 81 82 83 84 85 86 87 88 89 90 91 92 93 94 95 96 97 98 99 100 101 102 103 104 105 106 107 108 109 110 111 112 113 114 115 116 117 118 119 120 121 122 123 124 125 126 127 128 129 130 131 132 133 134 135 136 137 138 139 140 141 142 143 144 145 146 147 148 149 150 151 152 153 154 155 156 157 158 159 160 161 162 163 164 165 166 167 168 169 170 171 172 173 174 175 176 177 178 179 180 181 182 183 184 185 186 187 188 189 190 191 | /* -*- mia-c++ -*-
*
* This file is part of MIA - a toolbox for medical image analysis
* Copyright (c) Leipzig, Madrid 1999-2014 Gert Wollny
*
* MIA is free software; you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation; either version 3 of the License, or
* (at your option) any later version.
*
* This program is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with MIA; if not, see <http://www.gnu.org/licenses/>.
*
*/
#include <mia/core/filter.hh>
#include <mia/core/msgstream.hh>
#include <mia/core/parameter.hh>
#include <mia/core/splineparzenmi.hh>
#include <mia/core/property_flags.hh>
#include <numeric>
#include <limits>
NS_BEGIN(NS)
/// @cond DOC_PLUGINS
template <typename T>
class TMIImageCost: public T {
public:
typedef typename T::Data Data;
typedef typename T::Force Force;
TMIImageCost(size_t fbins, mia::PSplineKernel fkernel, size_t rbins, mia::PSplineKernel rkernel, double cut);
private:
virtual double do_value(const Data& a, const Data& b) const;
virtual double do_evaluate_force(const Data& a, const Data& b, Force& force) const;
virtual void post_set_reference(const Data& ref);
mutable mia::CSplineParzenMI m_parzen_mi;
};
struct FEvalMI : public mia::TFilter<double> {
FEvalMI( mia::CSplineParzenMI& parzen_mi):
m_parzen_mi(parzen_mi)
{}
template <typename T, typename R>
FEvalMI::result_type operator () (const T& a, const R& b) const {
m_parzen_mi.fill(a.begin(), a.end(), b.begin(), b.end());
return m_parzen_mi.value();
}
mia::CSplineParzenMI& m_parzen_mi;
};
template <typename T>
TMIImageCost<T>::TMIImageCost(size_t rbins, mia::PSplineKernel rkernel, size_t mbins,
mia::PSplineKernel mkernel, double cut):
m_parzen_mi(rbins, rkernel, mbins, mkernel, cut)
{
this->add(::mia::property_gradient);
}
template <typename T>
double TMIImageCost<T>::do_value(const Data& a, const Data& b) const
{
FEvalMI essd(m_parzen_mi);
return filter(essd, a, b);
}
template <typename Force>
struct FEvalForce: public mia::TFilter<float> {
FEvalForce(Force& force, mia::CSplineParzenMI& parzen_mi):
m_force(force),
m_parzen_mi(parzen_mi)
{
}
template <typename T, typename R>
float operator ()( const T& a, const R& b) const {
Force gradient = get_gradient(a);
m_parzen_mi.fill(a.begin(), a.end(), b.begin(), b.end());
typename T::const_iterator ai = a.begin();
typename R::const_iterator bi = b.begin();
for (size_t i = 0; i < a.size(); ++i, ++ai, ++bi) {
float delta = -m_parzen_mi.get_gradient_slow(*ai, *bi);
m_force[i] = gradient[i] * delta;
}
return m_parzen_mi.value();
}
private:
Force& m_force;
mia::CSplineParzenMI& m_parzen_mi;
};
/**
This is the force evaluation routine of the cost function
*/
template <typename T>
double TMIImageCost<T>::do_evaluate_force(const Data& a, const Data& b, Force& force) const
{
assert(a.get_size() == b.get_size());
assert(a.get_size() == force.get_size());
FEvalForce<Force> ef(force, m_parzen_mi);
return filter(ef, a, b);
}
template <typename T>
void TMIImageCost<T>::post_set_reference(const Data& MIA_PARAM_UNUSED(ref))
{
m_parzen_mi.reset();
}
/**
This is the plug-in declaration - the actual plugin needs to define the
cost plugin type and the data type (this could be unified)
do_test and do_get_descr need to be implemented
*/
template <typename CP, typename C>
class TMIImageCostPlugin: public CP {
public:
TMIImageCostPlugin();
C *do_create()const;
private:
const std::string do_get_descr() const;
unsigned int m_rbins;
unsigned int m_mbins;
mia::PSplineKernel m_mkernel;
mia::PSplineKernel m_rkernel;
float m_histogram_cut;
};
/**
This plugin will alwasy be "ssd"
*/
template <typename CP, typename C>
TMIImageCostPlugin<CP,C>::TMIImageCostPlugin():
CP("mi"),
m_rbins(64),
m_mbins(64),
m_histogram_cut(0.0)
{
TRACE("TMIImageCostPlugin<CP,C>::TMIImageCostPlugin()");
this->add_property(::mia::property_gradient);
this->add_parameter("rbins", new mia::CUIntParameter(m_rbins, 1, 256, false,
"Number of histogram bins used for the reference image"));
this->add_parameter("mbins", new mia::CUIntParameter(m_mbins, 1, 256, false,
"Number of histogram bins used for the moving image"));
this->add_parameter("rkernel", mia::make_param(m_rkernel, "bspline:d=0", false,
"Spline kernel for reference image parzen hinstogram"));
this->add_parameter("mkernel", mia::make_param(m_mkernel, "bspline:d=3", false,
"Spline kernel for moving image parzen hinstogram"));
this->add_parameter("cut", new mia::CFloatParameter(m_histogram_cut, 0.0f, 40.0f, false,
"Percentage of pixels to cut at high and low "
"intensities to remove outliers"));
}
/**
The creator routine is also generic
*/
template <typename CP, typename C>
C *TMIImageCostPlugin<CP,C>::do_create() const
{
return new TMIImageCost<C>(m_rbins, m_rkernel, m_mbins, m_mkernel, m_histogram_cut);
}
template <typename CP, typename C>
const std::string TMIImageCostPlugin<CP,C>::do_get_descr() const
{
return "Spline parzen based mutual information.";
}
/// @endcond
NS_END
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