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/* Copyright (c) 2008-2022 the MRtrix3 contributors.
*
* This Source Code Form is subject to the terms of the Mozilla Public
* License, v. 2.0. If a copy of the MPL was not distributed with this
* file, You can obtain one at http://mozilla.org/MPL/2.0/.
*
* Covered Software is provided under this License on an "as is"
* basis, without warranty of any kind, either expressed, implied, or
* statutory, including, without limitation, warranties that the
* Covered Software is free of defects, merchantable, fit for a
* particular purpose or non-infringing.
* See the Mozilla Public License v. 2.0 for more details.
*
* For more details, see http://www.mrtrix.org/.
*/
#ifndef __stats_h_
#define __stats_h_
#include "app.h"
#include "file/ofstream.h"
#include "math/median.h"
namespace MR
{
namespace Stats
{
extern const char * field_choices[];
extern const App::OptionGroup Options;
using value_type = default_type;
using complex_type = cdouble;
class Stats { NOMEMALIGN
public:
Stats (const bool is_complex = false, const bool ignorezero = false) :
mean (0.0, 0.0),
delta (0.0, 0.0),
delta2 (0.0, 0.0),
m2 (0.0, 0.0),
std (0.0, 0.0),
std_rv (0.0, 0.0),
min (INFINITY, INFINITY),
max (-INFINITY, -INFINITY),
count (0),
is_complex (is_complex),
ignore_zero (ignorezero) { }
void operator() (complex_type val) {
if (std::isfinite (val.real()) && std::isfinite (val.imag()) && !(ignore_zero && val.real() == 0.0 && val.imag() == 0.0)) {
if (min.real() > val.real()) min = complex_type (val.real(), min.imag());
if (min.imag() > val.imag()) min = complex_type (min.real(), val.imag());
if (max.real() < val.real()) max = complex_type (val.real(), max.imag());
if (max.imag() < val.imag()) max = complex_type (max.real(), val.imag());
count++;
// Welford's online algorithm for variance calculation:
delta = val - mean;
mean += cdouble(delta.real() / count, delta.imag() / count);
delta2 = val - mean;
m2 += cdouble(delta.real() * delta2.real(), delta.imag() * delta2.imag());
if (!is_complex)
values.push_back(val.real());
}
}
template <class ImageType> void print (ImageType& ima, const vector<std::string>& fields) {
if (count > 1) {
std = complex_type(sqrt (m2.real() / value_type (count - 1)), sqrt (m2.imag() / value_type (count - 1)));
std_rv = complex_type(sqrt((m2.real() + m2.imag()) / value_type (count - 1)));
std::sort (values.begin(), values.end());
}
if (fields.size()) {
if (!count) {
if (fields.size() == 1 && fields.front() == "count") {
std::cout << "0\n";
return;
} else {
throw Exception ("Cannot output statistic of interest; no values read (empty mask?)");
}
}
for (size_t n = 0; n < fields.size(); ++n) {
if (fields[n] == "mean") std::cout << str(mean) << " ";
else if (fields[n] == "median") std::cout << ( values.size() > 0 ? str(Math::median (values)) : "N/A" ) << " ";
else if (fields[n] == "std") std::cout << ( count > 1 ? str(std) : "N/A" ) << " ";
else if (fields[n] == "std_rv") std::cout << ( count > 1 ? str(std_rv) : "N/A" ) << " ";
else if (fields[n] == "min") std::cout << str(min) << " ";
else if (fields[n] == "max") std::cout << str(max) << " ";
else if (fields[n] == "count") std::cout << count << " ";
else throw Exception("stats type not supported: " + fields[n]);
}
std::cout << "\n";
}
else {
std::string s = "[ ";
if (ima.ndim() > 3)
for (size_t n = 3; n < ima.ndim(); n++)
s += str (ima.index(n)) + " ";
else
s += "0 ";
s += "]";
int width = is_complex ? 20 : 10;
std::cout << std::setw(12) << std::right << s << " ";
std::cout << std::setw(width) << std::right << ( count ? str(mean) : "N/A" );
if (!is_complex) {
std::cout << " " << std::setw(width) << std::right;
if (count)
std::cout << Math::median (values);
else
std::cout << "N/A";
}
std::cout << " " << std::setw(width) << std::right << ( count > 1 ? str(std) : "N/A" )
<< " " << std::setw(width) << std::right << ( count ? str(min) : "N/A" )
<< " " << std::setw(width) << std::right << ( count ? str(max) : "N/A" )
<< " " << std::setw(10) << std::right << count << "\n";
}
}
private:
complex_type mean, delta, delta2, m2, std, std_rv, min, max;
size_t count;
const bool is_complex, ignore_zero;
vector<float> values;
};
inline void print_header (bool is_complex)
{
int width = is_complex ? 20 : 10;
std::cout << std::setw(12) << std::right << "volume"
<< " " << std::setw(width) << std::right << "mean";
if (!is_complex)
std::cout << " " << std::setw(width) << std::right << "median";
std::cout << " " << std::setw(width) << std::right << "std"
<< " " << std::setw(width) << std::right << "min"
<< " " << std::setw(width) << std::right << "max"
<< " " << std::setw(10) << std::right << "count" << "\n";
}
}
}
#endif
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