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/*
* This file is part of the FORS Data Reduction Pipeline
* Copyright (C) 2002-2010 European Southern Observatory
*
* This program 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 2 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 this program; if not, write to the Free Software
* Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA
*/
/*
* spectrum.cpp
*
* Created on: 2014 3 28
* Author: cgarcia
*/
#include <spectrum.h>
#include <cmath>
#include <stdexcept>
mosca::spectrum::spectrum(const cpl_image * spec, double start_wave,
double step_wave) :
m_gsl_acc(NULL), m_gsl_interp(NULL)
{
if(cpl_image_get_size_y(spec) != 1)
throw std::invalid_argument("Only images with NY=1 supported");
cpl_image * spec_double = cpl_image_cast(spec, CPL_TYPE_DOUBLE);
cpl_size spec_size = cpl_image_get_size_x(spec);
m_flux.insert(m_flux.end(), cpl_image_get_data_double(spec_double),
cpl_image_get_data_double(spec_double) + spec_size);
for(size_t i = 0; i< m_flux.size(); ++i)
m_wave.push_back(start_wave + i * step_wave);
cpl_image_delete(spec_double);
}
mosca::spectrum::spectrum(std::vector<double>& flux_vec,
std::vector<double>& wave_vec) :
m_flux(flux_vec), m_wave(wave_vec), m_gsl_acc(NULL), m_gsl_interp(NULL)
{
if(flux_vec.size() != wave_vec.size())
throw std::invalid_argument("Vectors do not have the same size");
}
mosca::spectrum::spectrum(const spectrum& other) :
m_flux(other.m_flux), m_wave(other.m_wave), m_gsl_acc(NULL), m_gsl_interp(NULL)
{
}
//TODO: Create a copy operator (destructor is not trivial)
mosca::spectrum::spectrum() :
m_flux(), m_wave(), m_gsl_acc(NULL), m_gsl_interp(NULL)
{
}
mosca::spectrum::~spectrum()
{
if(m_gsl_interp != NULL)
{
gsl_interp_free (m_gsl_interp);
gsl_interp_accel_free (m_gsl_acc);
}
}
std::vector<double> mosca::spectrum::flux() const
{
return m_flux;
}
std::vector<double> mosca::spectrum::wave() const
{
return m_wave;
}
double mosca::spectrum::integrate
(double start_wave, double end_wave, bool ignore_neg_flux,
float ignore_threshold) const
{
//Get only the positive flux if requested (and not done before)
if(ignore_neg_flux && m_wave_nonzero.size() == 0)
m_create_filtered_flux();
//Get the pointers
cpl_size npts;
const double * wave_p;
const double * flux_p;
if(ignore_neg_flux)
{
wave_p = &(m_wave_nonzero[0]);
flux_p = &(m_flux_nonzero[0]);
npts = m_flux_nonzero.size();
}
else
{
wave_p = &(m_wave[0]);
flux_p = &(m_flux[0]);
npts = m_flux.size();
}
//Get the integration limits
double start_int = std::max(start_wave, wave_p[0]);
double end_int = std::min(end_wave, wave_p[npts-1]);
if(start_int >= end_int)
return 0;
//If the final integration range is less than ignore_threshold then ignore it
if(ignore_neg_flux)
if((end_int - start_int)/ (end_wave - start_wave) < ignore_threshold)
return 0;
if(m_gsl_interp == NULL)
{
m_gsl_acc
= gsl_interp_accel_alloc ();
m_gsl_interp
= gsl_interp_alloc (gsl_interp_linear, npts);
gsl_interp_init (m_gsl_interp, wave_p, flux_p, npts);
}
double integrated_flux =
gsl_interp_eval_integ(m_gsl_interp, wave_p, flux_p,
start_int, end_int, m_gsl_acc);
//Correct for the integration interval
if(ignore_neg_flux)
integrated_flux *= (end_wave - start_wave) / (end_int - start_int);
return integrated_flux;
}
void mosca::spectrum::m_create_filtered_flux() const
{
m_wave_nonzero.resize(m_wave.size());
m_flux_nonzero.resize(m_wave.size());
size_t i_nonzero = 0;
for(size_t i_bin = 0; i_bin < m_wave.size(); ++i_bin)
{
if(m_flux[i_bin] > 0)
{
m_wave_nonzero[i_nonzero] = m_wave[i_bin];
m_flux_nonzero[i_nonzero] = m_flux[i_bin];
i_nonzero++;
}
}
m_wave_nonzero.resize(i_nonzero);
m_flux_nonzero.resize(i_nonzero);
}
mosca::spectrum mosca::spectrum::rebin
(double start_wave, double end_wave, double step_wave)
{
//create regular step in wavelength
std::vector<double> wave_rebinned;
size_t nwave = std::floor((end_wave - start_wave) / step_wave);
for(size_t i = 0; i< nwave; ++i)
wave_rebinned.push_back(start_wave + i * step_wave);
//TODO: This has to be fixed
std::vector<double> flux_rebinned(m_flux);
spectrum spec_rebinned(flux_rebinned, wave_rebinned);
return spec_rebinned;
}
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