GEnergies.cpp
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/***************************************************************************
* GEnergies.cpp - Energy container class *
* ----------------------------------------------------------------------- *
* copyright (C) 2013-2020 by Juergen Knoedlseder *
* ----------------------------------------------------------------------- *
* *
* 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 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 this program. If not, see <http://www.gnu.org/licenses/>. *
* *
***************************************************************************/
/**
* @file GEnergies.cpp
* @brief Energy container class implementation
* @author Juergen Knoedlseder
*/
/* __ Includes ___________________________________________________________ */
#ifdef HAVE_CONFIG_H
#include <config.h>
#endif
#include "GTools.hpp"
#include "GException.hpp"
#include "GFilename.hpp"
#include "GEnergies.hpp"
#include "GEbounds.hpp"
#include "GFits.hpp"
#include "GFitsTable.hpp"
#include "GFitsBinTable.hpp"
#include "GFitsTableCol.hpp"
#include "GFitsTableDoubleCol.hpp"
/* __ Method name definitions ____________________________________________ */
#define G_AT "GEnergies::at(int&)"
#define G_INSERT "GEnergies::insert(int&, GEnergy&)"
#define G_REMOVE "GEnergies::remove(int&)"
#define G_SET "GEnergies::set(int&, GEnergy&, GEnergy&, std::string&, "\
"double&)"
#define G_SET_LIN "GEnergies::set_lin(int&, GEnergy&, GEnergy&)"
#define G_SET_LOG "GEnergies::set_log(int&, GEnergy&, GEnergy&)"
#define G_SET_POW "GEnergies::set_pow(int&, GEnergy&, GEnergy&, double&)"
/* __ Macros _____________________________________________________________ */
/* __ Coding definitions _________________________________________________ */
/* __ Debug definitions __________________________________________________ */
/*==========================================================================
= =
= Constructors/destructors =
= =
==========================================================================*/
/***********************************************************************//**
* @brief Void constructor
*
* Constructs empty energy container.
***************************************************************************/
GEnergies::GEnergies(void)
{
// Initialise members
init_members();
// Return
return;
}
/***********************************************************************//**
* @brief FITS file constructor
*
* @param[in] filename FITS file name.
*
* Constructs energy container from a FITS file.
***************************************************************************/
GEnergies::GEnergies(const GFilename& filename)
{
// Initialise members
init_members();
// Load energies
load(filename);
// Return
return;
}
/***********************************************************************//**
* @brief Energy boundaries constructor
*
* @param[in] ebounds Energy boundaries.
*
* Constructs energy container from energy boundaries.
***************************************************************************/
GEnergies::GEnergies(const GEbounds& ebounds)
{
// Initialise members
init_members();
// Set energies from energy boundaries
set(ebounds);
// Return
return;
}
/***********************************************************************//**
* @brief Copy constructor
*
* @param[in] energies Energy container.
*
* Construct energy container by copying from another energy container.
***************************************************************************/
GEnergies::GEnergies(const GEnergies& energies)
{
// Initialise members
init_members();
// Copy members
copy_members(energies);
// Return
return;
}
/***********************************************************************//**
* @brief Interval constructor
*
* @param[in] num Number of energies.
* @param[in] emin Minimum energy.
* @param[in] emax Maximum energy.
* @param[in] method Energy spacing method (one of "LIN", "LOG" or "POW").
* @param[in] gamma Power law index for @p POW method.
*
* Constructs energy container by defining @p num energies between @p emin
* and @p emax. The @p method parameter controls the energy spacing of the
* energies. See the set() method for more information.
***************************************************************************/
GEnergies::GEnergies(const int& num,
const GEnergy& emin,
const GEnergy& emax,
const std::string& method,
const double& gamma)
{
// Initialise members
init_members();
// Set intervals
set(num, emin, emax, method, gamma);
// Return
return;
}
/***********************************************************************//**
* @brief Destructor
***************************************************************************/
GEnergies::~GEnergies(void)
{
// Free members
free_members();
// Return
return;
}
/*==========================================================================
= =
= Operators =
= =
==========================================================================*/
/***********************************************************************//**
* @brief Assignment operator
*
* @param[in] energies Energy container.
* @return Energy container.
***************************************************************************/
GEnergies& GEnergies::operator=(const GEnergies& energies)
{
// Execute only if object is not identical
if (this != &energies) {
// Free members
free_members();
// Initialise members
init_members();
// Copy members
copy_members(energies);
} // endif: object was not identical
// Return this object
return *this;
}
/*==========================================================================
= =
= Public methods =
= =
==========================================================================*/
/***********************************************************************//**
* @brief Clear energy container
*
* Removes all energies from the container.
***************************************************************************/
void GEnergies::clear(void)
{
// Free members
free_members();
// Initialise members
init_members();
// Return
return;
}
/***********************************************************************//**
* @brief Clone energy container
*
* @return Pointer to deep copy of energy container
*
* Makes a deep copy of the energy container instance.
***************************************************************************/
GEnergies* GEnergies::clone(void) const
{
return new GEnergies(*this);
}
/***********************************************************************//**
* @brief Return reference to energy
*
* @param[in] index Energy index [0,...,size()-1].
*
* @exception GException::out_of_range
* Energy index is out of range.
*
* Returns a reference to the energy with the specified @p index.
***************************************************************************/
GEnergy& GEnergies::at(const int& index)
{
// Raise exception if index is out of range
if (index < 0 || index >= size()) {
throw GException::out_of_range(G_AT, index, 0, size()-1);
}
// Return reference
return m_energies[index];
}
/***********************************************************************//**
* @brief Return reference to energy (const version)
*
* @param[in] index Energy index [0,...,size()-1].
*
* @exception GException::out_of_range
* Energy index is out of range.
*
* Returns a reference to the energy with the specified @p index.
***************************************************************************/
const GEnergy& GEnergies::at(const int& index) const
{
// Raise exception if index is out of range
if (index < 0 || index >= size()) {
throw GException::out_of_range(G_AT, index, 0, size()-1);
}
// Return reference
return m_energies[index];
}
/***********************************************************************//**
* @brief Append energy to container
*
* @param[in] energy Energy.
* @return Reference to appended energy.
*
* Appends energy to the container by making a deep copy of the energy.
***************************************************************************/
GEnergy& GEnergies::append(const GEnergy& energy)
{
// Append energy to list
m_energies.push_back(energy);
// Return reference
return m_energies[size()-1];
}
/***********************************************************************//**
* @brief Insert energy into container
*
* @param[in] index Energy index (0,...,size()-1).
* @param[in] energy Energy.
*
* @exception GException::out_of_range
* Energy index is out of range.
*
* Inserts an @p energy into the container before the energy with the
* specified @p index.
***************************************************************************/
GEnergy& GEnergies::insert(const int& index, const GEnergy& energy)
{
// Compile option: raise exception if index is out of range
#if defined(G_RANGE_CHECK)
if (is_empty()) {
if (index > 0) {
throw GException::out_of_range(G_INSERT, index, 0, size()-1);
}
}
else {
if (index < 0 || index >= size()) {
throw GException::out_of_range(G_INSERT, index, 0, size()-1);
}
}
#endif
// Inserts energy
m_energies.insert(m_energies.begin()+index, energy);
// Return reference
return m_energies[index];
}
/***********************************************************************//**
* @brief Remove energy from container
*
* @param[in] index Energy index (0,...,size()-1).
*
* @exception GException::out_of_range
* Energy index is out of range.
*
* Remove energy of specified @p index from container.
***************************************************************************/
void GEnergies::remove(const int& index)
{
// Compile option: raise exception if index is out of range
#if defined(G_RANGE_CHECK)
if (index < 0 || index >= size()) {
throw GException::out_of_range(G_REMOVE, index, 0, size()-1);
}
#endif
// Erase energy from container
m_energies.erase(m_energies.begin() + index);
// Return
return;
}
/***********************************************************************//**
* @brief Append energy container
*
* @param[in] energies Energy container.
*
* Append energy container to the container.
***************************************************************************/
void GEnergies::extend(const GEnergies& energies)
{
// Do nothing if energy container is empty
if (!energies.is_empty()) {
// Get size. Note that we extract the size first to avoid an
// endless loop that arises when a container is appended to
// itself.
int num = energies.size();
// Reserve enough space
reserve(size() + num);
// Loop over all elements and append them to container
for (int i = 0; i < num; ++i) {
m_energies.push_back(energies[i]);
}
} // endif: energy container was not empty
// Return
return;
}
/***********************************************************************//**
* @brief Set energies from energy boundaries
*
* @param[in] ebounds Energy boundaries.
*
* Sets the energies from energy boundaries. Each unique minimum and maximum
* energy boundary will be appended as energy to the container.
***************************************************************************/
void GEnergies::set(const GEbounds& ebounds)
{
// Initialise members
clear();
// Get number of energy boundaries
int num = ebounds.size();
// Append energy boundaries
for (int i = 0; i < num; ++i) {
// Loop over minimum and maximum boundaries
for (int j = 0; j < 2; ++j) {
// Get energy
GEnergy energy = (j == 0) ? ebounds.emin(i) : ebounds.emax(i);
// Append energy if it does not yet exist in the container
bool not_found = true;
for (int k = 0; k < m_energies.size(); ++k) {
if (energy == m_energies[k]) {
not_found = false;
break;
}
}
if (not_found) {
m_energies.push_back(energy);
}
} // endfor: looped over minimum and maximum boundaries
} // endfor: looped over energy boundaries
// Return
return;
}
/***********************************************************************//**
* @brief Set energies
*
* @param[in] num Number of energies.
* @param[in] emin Minimum energy.
* @param[in] emax Maximum energy.
* @param[in] method Energy spacing method (one of "LIN", "LOG" or "POW").
* @param[in] gamma Power law index for @p POW method.
*
* @exception GException::invalid_argument
* Invalid number of energies, energy interval or energy spacing
* method specified.
*
* Sets energies by defining @p num successive energies between @p emin and
* @p emax. The @p method parameter controls the energy spacing. See the
* set_lin(), set_log() and set_pow() methods for more information.
***************************************************************************/
void GEnergies::set(const int& num,
const GEnergy& emin,
const GEnergy& emax,
const std::string& method,
const double& gamma)
{
// Check validity of number of energies
if (num < 0) {
std::string msg = "Negative number of energies "+gammalib::str(num)+
" specified. Please specify a non-negative number "
"of energies.";
throw GException::invalid_argument(G_SET, msg);
}
// Check validity of energies
if (emin > emax) {
std::string msg = "Minimum energy "+emin.print()+" is larger than "
"maximum energy "+emax.print()+". Please specify "
"a minimum energy that does not exceed the "
"maximum energy.";
throw GException::invalid_argument(G_SET, msg);
}
// If one energy is requested then check that emin and emax are equal
if (num == 1) {
// Check that emin and emax are equal
if (emin != emax) {
std::string msg = "Single energy is requested but the minimum "
"energy "+emin.print()+" differs from the "
"maximum energy "+emax.print()+". Please "
"specify identical energies.";
throw GException::invalid_argument(G_SET, msg);
}
}
// Convert method to upper-case string
std::string umethod = gammalib::toupper(method);
// Dispatch to corresponding set methos
if (umethod == "LIN") {
set_lin(num, emin, emax);
}
else if (umethod == "LOG") {
set_log(num, emin, emax);
}
else if (umethod == "POW") {
set_pow(num, emin, emax, gamma);
}
else {
std::string msg = "Invalid energy spacing method \""+umethod+"\" "
"specified. Please provide one of \"LIN\", \"LOG\""
", or \"POW\".";
throw GException::invalid_argument(G_SET, msg);
}
// Return
return;
}
/***********************************************************************//**
* @brief Load energies from FITS file
*
* @param[in] filename FITS file name.
*
* Loads the energies from FITS file.
*
* If no extension name is provided, the energies are loaded from the
* `ENERGIES` extension.
***************************************************************************/
void GEnergies::load(const GFilename& filename)
{
// Open FITS file
GFits fits(filename);
// Get energies table
const GFitsTable& table = *fits.table(filename.extname(gammalib::extname_energies));
// Read energies from table
read(table);
// Close FITS file
fits.close();
// Return
return;
}
/***********************************************************************//**
* @brief Save energies into FITS file
*
* @param[in] filename FITS filename.
* @param[in] clobber Overwrite an existing energies extension?
*
* Saves energies into a FITS file. If a file with the given @p filename
* does not yet exist it will be created, otherwise the method opens the
* existing file. Energies can only be appended to an existing file if the
* @p clobber flag is set to `true` (otherwise an exception is thrown).
*
* The method will append a binary FITS table containing the energies to the
* FITS file. The extension name can be specified as part of the
* @p filename. For example the @p filename
*
* myfile.fits[ENERGY VALUES]
*
* will save the energies in the `ENERGY VALUES` extension of the
* `myfile.fits` file. If the extension exists already in the file it will be
* replaced, otherwise a new extension will be created. If no extension name
* is provided, the method will use `ENERGIES` as the default extension name
* for energies.
***************************************************************************/
void GEnergies::save(const GFilename& filename, const bool& clobber) const
{
// Open or create FITS file (without extension name since the requested
// extension may not yet exist in the file)
GFits fits(filename.url(), true);
// Write energies to FITS file
write(fits, filename.extname(gammalib::extname_energies));
// Save to file
fits.save(clobber);
// Return
return;
}
/***********************************************************************//**
* @brief Read energies from FITS table
*
* @param[in] table FITS table.
*
* Reads the energies from a FITS table.
***************************************************************************/
void GEnergies::read(const GFitsTable& table)
{
// Free members
free_members();
// Initialise attributes
init_members();
// Extract number of energy bins in FITS file
int num = table.integer("NAXIS2");
// Continue only if there are energy bins
if (num > 0) {
// Get the unit of the energies. If no TUNIT1 header keyword is
// found then use MeV
std::string unit = "MeV";
if (table.has_card("TUNIT1")) {
unit = table.string("TUNIT1");
}
// Get the column with the name "Energy"
const GFitsTableCol* col_energy = table["Energy"];
// Set energies
for (int i = 0; i < num; ++i) {
append(GEnergy(col_energy->real(i), unit));
}
} // endif: there were energy bins
// Return
return;
}
/***********************************************************************//**
* @brief Write energies into FITS object
*
* @param[in] fits FITS file.
* @param[in] extname Energy extension name.
*
* Writes energies into FITS object.
***************************************************************************/
void GEnergies::write(GFits& fits, const std::string& extname) const
{
// Set number of energies
int num = m_energies.size();
// Create Energy column
GFitsTableDoubleCol col_energy("Energy", num);
// Fill energy column in units of MeV
for (int i = 0; i < num; ++i) {
col_energy(i) = (*this)[i].MeV();
}
col_energy.unit("MeV");
// Create energies table
GFitsBinTable table(num);
table.append(col_energy);
table.extname(extname);
// If the FITS object contains already an extension with the same
// name then remove now this extension
if (fits.contains(extname)) {
fits.remove(extname);
}
// Append energies table to FITS file
fits.append(table);
// Return
return;
}
/***********************************************************************//**
* @brief Print energy container information
*
* @param[in] chatter Chattiness.
* @return String containing energy container information.
***************************************************************************/
std::string GEnergies::print(const GChatter& chatter) const
{
// Initialise result string
std::string result;
// Continue only if chatter is not silent
if (chatter != SILENT) {
// Append header
result.append("=== GEnergies ===");
// Append energy container information
result.append("\n"+gammalib::parformat("Number of energies"));
result.append(gammalib::str(size()));
// EXPLICIT: Append energies
if (chatter >= EXPLICIT) {
for (int i = 0; i < size(); ++i) {
result.append("\n");
result.append(gammalib::parformat("Energy "+gammalib::str(i)));
result.append(m_energies[i].print(chatter));
}
}
} // endif: chatter was not silent
// Return result
return result;
}
/*==========================================================================
= =
= Private methods =
= =
==========================================================================*/
/***********************************************************************//**
* @brief Initialise class members
***************************************************************************/
void GEnergies::init_members(void)
{
// Initialise members
m_energies.clear();
// Return
return;
}
/***********************************************************************//**
* @brief Copy class members
*
* @param[in] energies Energy container.
***************************************************************************/
void GEnergies::copy_members(const GEnergies& energies)
{
// Copy attributes
m_energies = energies.m_energies;
// Return
return;
}
/***********************************************************************//**
* @brief Delete class members
***************************************************************************/
void GEnergies::free_members(void)
{
// Return
return;
}
/***********************************************************************//**
* @brief Set linearly spaced energies
*
* @param[in] num Number of energies (>0).
* @param[in] emin Minimum energy.
* @param[in] emax Maximum energy.
*
* Creates \f$N\f$ linearly spaced energy boundaries running from
* \f$E_{\rm min}\f$ to \f$E_{\rm max}\f$ defined by
*
* \f[
* E_i = E_{\rm min} + \frac{E_{\rm max} - E_{\rm min}}{N-1}
* \times i
* \f]
*
* The method does not check the validity of the @p num, @p emin and @p emax
* arguments.
***************************************************************************/
void GEnergies::set_lin(const int& num,
const GEnergy& emin,
const GEnergy& emax)
{
// Initialise members
clear();
// If a single energy is requested then just append the minimum energy
if (num == 1) {
append(emin);
}
// ... otherwise append linearly spaced energies
else if (num > 1) {
// Compute bin width
GEnergy ebin = (emax - emin)/double(num-1);
// Append energies
GEnergy energy = emin;
for (int i = 0; i < num; ++i) {
append(energy);
energy += ebin;
}
}
// Return
return;
}
/***********************************************************************//**
* @brief Set logarithmically spaced energies
*
* @param[in] num Number of energies (>0).
* @param[in] emin Minimum energy.
* @param[in] emax Maximum energy.
*
* @exception GException::invalid_argument
* Minimum or maximum energy are not positive.
*
* Creates \f$N\f$ logarithmically spaced energy boundaries running from
* \f$E_{\rm min}\f$ to \f$E_{\rm max}\f$ defined by
*
* \f[
* E_i = 10^{\log_{10} E_{\rm min} +
* \frac{\log_{10} E_{\rm max} - \log_{10} E_{\rm min}}{N-1}
* \times i}
* \f]
*
* The method does not check the validity of the @p num, @p emin and @p emax
* arguments except for the positivity of @p emin and @p emax.
***************************************************************************/
void GEnergies::set_log(const int& num,
const GEnergy& emin,
const GEnergy& emax)
{
// Initialise members
clear();
// Throw an exception if the minimum or maximum energy is not positive
if (emin.MeV() <= 0.0) {
std::string msg = "Non-positive minimum energy "+emin.print()+
" specified. Please provide a positive minimum "
"energy value.";
throw GException::invalid_argument(G_SET_LOG, msg);
}
if (emax.MeV() <= 0.0) {
std::string msg = "Non-positive maximum energy "+emax.print()+
" specified. Please provide a positive minimum "
"energy value.";
throw GException::invalid_argument(G_SET_LOG, msg);
}
// If a single energy is requested then just append the minimum energy
if (num == 1) {
append(emin);
}
// ... otherwise append logarithmically spaced energies
else if (num > 1) {
// Compute bin width
double elogmin = std::log10(emin.MeV());
double elogmax = std::log10(emax.MeV());
double elogbin = (elogmax - elogmin)/double(num-1);
// Append energies
GEnergy energy;
for (int i = 0; i < num; ++i) {
energy.MeV(std::pow(10.0, double(i)*elogbin + elogmin));
append(energy);
}
}
// Return
return;
}
/***********************************************************************//**
* @brief Set power-law spaced energy intervals
*
* @param[in] num Number of energy intervals (>0).
* @param[in] emin Minimum energy of first interval.
* @param[in] emax Maximum energy of last interval.
* @param[in] gamma Power law index.
*
* @exception GException::invalid_argument
* Minimum or maximum energy are not positive.
*
* Creates \f$N\f$ power-law spaced energy boundaries running from
* \f$E_{\rm min}\f$ to \f$E_{\rm max}\f$ defined by
*
* \f[
* E_i = \left \{
* \begin{array}{l l}
* \exp \left( \frac{\log E_{\rm max} - \log E_{\rm min}}{N-1} +
* \log E_{i-1} \right)
* & \mbox{if $a = 0$} \\
* \\
* \exp \left( \frac{\log \left(\frac{E_{\rm max}^a - E_{\rm min}^a}{N-1} \right) +
* E_{i-1}^{a}}{a} \right)
* & \mbox{else}
* \end{array}
* \right .
* \f]
*
* where \f$i>0\f$, \f$a=1-\gamma\f$ and \f$E_0=E_{\rm min}\f$.
*
* The method does not check the validity of the @p num, @p emin and @p emax
* arguments except for the positivity of @p emin and @p emax.
***************************************************************************/
void GEnergies::set_pow(const int& num,
const GEnergy& emin,
const GEnergy& emax,
const double& gamma)
{
// Initialise members
clear();
// Throw an exception if the minimum or maximum energy is not positive
if (emin.MeV() <= 0.0) {
std::string msg = "Non-positive minimum energy "+emin.print()+
" specified. Please provide a positive minimum "
"energy value.";
throw GException::invalid_argument(G_SET_POW, msg);
}
if (emax.MeV() <= 0.0) {
std::string msg = "Non-positive maximum energy "+emax.print()+
" specified. Please provide a positive minimum "
"energy value.";
throw GException::invalid_argument(G_SET_POW, msg);
}
// If a single energy is requested then just append the minimum energy
if (num == 1) {
append(emin);
}
// ... otherwise append logarithmically spaced energies
else if (num > 1) {
// Append first energy
append(emin);
// Precomputation (we work in MeV from now on)
double a = 1.0 - gamma;
double c = (a == 0.0) ? 1.0 / (std::log(emax.MeV()) - std::log(emin.MeV()))
: a / (std::pow(emax.MeV(),a) - std::pow(emin.MeV(),a));
double b = double(c*(num-1.0));
// Initialse first energy
double e = emin.MeV();
// Loop over energies
for (int i = 0; i < num-1; ++i) {
// Compute next energy
double log_e_next = (a == 0.0)
? 1.0/b + std::log(e)
: std::log(a/b + std::pow(e,a)) / a;
double e_next = std::exp(log_e_next);
// Append next energy
append(GEnergy(e_next, "MeV"));
// Set next energy as starting energy for next iteration
e = e_next;
} // endfor: looped over energies
} // endif: number of energies was positive
// Return
return;
}