/* This file is part of libDAI - http://www.libdai.org/
*
* libDAI is licensed under the terms of the GNU General Public License version
* 2, or (at your option) any later version. libDAI is distributed without any
* warranty. See the file COPYING for more details.
*
* Copyright (C) 2006-2009 Joris Mooij [joris dot mooij at libdai dot org]
* Copyright (C) 2006-2007 Radboud University Nijmegen, The Netherlands
*/
/// \file
/// \brief Defines abstract base class InfAlg, its descendant DAIAlg<>, the specializations DAIAlgFG and DAIAlgRG and some generic inference methods.
#ifndef __defined_libdai_daialg_h
#define __defined_libdai_daialg_h
#include
#include
#include
#include
#include
#include
namespace dai {
/// InfAlg is an abstract base class, defining the common interface of all inference algorithms in libDAI.
/** \todo General marginalization functions like calcMarginal() now copy a complete InfAlg object. Instead,
* it would make more sense that they construct a new object without copying the FactorGraph or RegionGraph.
* Or they can simply be made methods of the general InfAlg class.
* \idea Use a PropertySet as output of an InfAlg, instead of functions like maxDiff() and Iterations().
*/
class InfAlg {
public:
/// \name Constructors/destructors
//@{
/// Virtual destructor (needed because this class contains virtual functions)
virtual ~InfAlg() {}
/// Returns a pointer to a new, cloned copy of \c *this (i.e., virtual copy constructor)
virtual InfAlg* clone() const = 0;
//@}
/// \name Queries
//@{
/// Identifies itself for logging purposes
virtual std::string identify() const = 0;
/// Returns reference to underlying FactorGraph.
virtual FactorGraph &fg() = 0;
/// Returns constant reference to underlying FactorGraph.
virtual const FactorGraph &fg() const = 0;
//@}
/// \name Inference interface
//@{
/// Initializes all data structures of the approximate inference algorithm.
/** \note This method should be called at least once before run() is called.
*/
virtual void init() = 0;
/// Initializes all data structures corresponding to some set of variables.
/** This method can be used to do a partial initialization after a part of the factor graph has changed.
* Instead of initializing all data structures, it only initializes those involving the variables in \a vs.
*/
virtual void init( const VarSet &vs ) = 0;
/// Runs the approximate inference algorithm.
/** \note Before run() is called the first time, init() should have been called.
*/
virtual Real run() = 0;
/// Returns the (approximate) marginal probability distribution of a variable.
/** \note Before this method is called, run() should have been called.
*/
virtual Factor belief( const Var &v ) const = 0;
/// Returns the (approximate) marginal probability distribution of a set of variables.
/** \note Before this method is called, run() should have been called.
*/
virtual Factor belief( const VarSet &vs ) const = 0;
/// Returns the (approximate) marginal probability distribution of the variable with index \a i.
/** For some approximate inference algorithms, using beliefV() is preferred to belief() for performance reasons.
* \note Before this method is called, run() should have been called.
*/
virtual Factor beliefV( size_t i ) const { return belief( fg().var(i) ); }
/// Returns the (approximate) marginal probability distribution of the variables on which factor \a I depends.
/** For some approximate inference algorithms, using beliefF() is preferred to belief() for performance reasons.
* \note Before this method is called, run() should have been called.
*/
virtual Factor beliefF( size_t I ) const { return belief( fg().factor(I).vars() ); }
/// Returns all beliefs (approximate marginal probability distributions) calculated by the algorithm.
/** \note Before this method is called, run() should have been called.
*/
virtual std::vector beliefs() const = 0;
/// Returns the logarithm of the (approximated) partition sum (normalizing constant of the factor graph).
/** \note Before this method is called, run() should have been called.
* \throw NOT_IMPLEMENTED if not implemented/supported
*/
virtual Real logZ() const = 0;
/// Returns maximum difference between single variable beliefs in the last iteration.
/** \throw NOT_IMPLEMENTED if not implemented/supported
*/
virtual Real maxDiff() const = 0;
/// Returns number of iterations done (one iteration passes over the complete factorgraph).
/** \throw NOT_IMPLEMENTED if not implemented/supported
*/
virtual size_t Iterations() const = 0;
//@}
/// \name Changing the factor graph
//@{
/// Clamp variable with index \a i to value \a x (i.e. multiply with a Kronecker delta \f$\delta_{x_i, x}\f$)
/** If \a backup == \c true, make a backup of all factors that are changed.
*/
virtual void clamp( size_t i, size_t x, bool backup = false ) = 0;
// OBSOLETE
/// Clamp variable \a v to value \a x (i.e. multiply with a Kronecker delta \f$\delta_{v, x}\f$)
/** \deprecated Please use dai::InfAlg::clamp(size_t,size_t,bool) instead
*/
virtual void clamp( const Var &v, size_t x, bool backup = false ) = 0;
/// Sets all factors interacting with variable with index \a i to one.
/** If \a backup == \c true, make a backup of all factors that are changed.
*/
virtual void makeCavity( size_t i, bool backup = false ) = 0;
//@}
/// \name Backup/restore mechanism for factors
//@{
/// Make a backup copy of factor \a I
virtual void backupFactor( size_t I ) = 0;
/// Make backup copies of all factors involving the variables in \a vs
virtual void backupFactors( const VarSet &vs ) = 0;
/// Restore factor \a I from its backup copy
virtual void restoreFactor( size_t I ) = 0;
/// Restore the factors involving the variables in \a vs from their backup copies
virtual void restoreFactors( const VarSet &vs ) = 0;
//@}
/// \name Managing parameters
//@{
/// Set parameters of this inference algorithm.
/** The parameters are set according to the PropertySet \a opts.
* The values can be stored either as std::string or as the type of the corresponding MF::props member.
*/
virtual void setProperties( const PropertySet &opts ) = 0;
/// Returns parameters of this inference algorithm converted into a PropertySet.
virtual PropertySet getProperties() const = 0;
/// Returns parameters of this inference algorithm formatted as a string in the format "[key1=val1,key2=val2,...,keyn=valn]".
virtual std::string printProperties() const = 0;
//@}
};
/// Combines the abstract base class InfAlg with a graphical model (e.g., a FactorGraph or RegionGraph).
/** Inference algorithms in libDAI directly inherit from a DAIAlg, currently either
* from a DAIAlg or from a DAIAlg.
*
* \tparam GRM Should be castable to FactorGraph
* \todo A DAIAlg should not inherit from a FactorGraph or RegionGraph, but should
* store a reference to the graphical model object. This prevents needless copying
* of (possibly large) data structures. Disadvantage: the caller must not change
* the graphical model between calls to the inference algorithm (maybe a smart_ptr
* or some locking mechanism would help here?).
*/
template
class DAIAlg : public InfAlg, public GRM {
public:
/// \name Constructors/destructors
//@{
/// Default constructor
DAIAlg() : InfAlg(), GRM() {}
/// Construct from GRM
DAIAlg( const GRM &grm ) : InfAlg(), GRM(grm) {}
//@}
/// \name Queries
//@{
/// Returns reference to underlying FactorGraph.
FactorGraph &fg() { return (FactorGraph &)(*this); }
/// Returns constant reference to underlying FactorGraph.
const FactorGraph &fg() const { return (const FactorGraph &)(*this); }
//@}
/// \name Changing the factor graph
//@{
/// Clamp variable with index \a i to value \a x (i.e. multiply with a Kronecker delta \f$\delta_{x_i, x}\f$)
/** If \a backup == \c true, make a backup of all factors that are changed.
*/
void clamp( size_t i, size_t x, bool backup = false ) { GRM::clamp( i, x, backup ); }
// OBSOLETE
/// Clamp variable \a v to value \a x (i.e. multiply with a Kronecker delta \f$\delta_{v, x}\f$)
/** \deprecated Please use dai::DAIAlg<>::clamp(size_t,size_t,bool) instead
*/
void clamp( const Var &v, size_t x, bool backup = false ) {
GRM::clamp( v, x, backup );
std::cerr << "Warning: this DAIAlg<...>::clamp(const Var&,...) interface is obsolete!" << std::endl;
}
/// Sets all factors interacting with variable with index \a i to one.
/** If \a backup == \c true, make a backup of all factors that are changed.
*/
void makeCavity( size_t i, bool backup = false ) { GRM::makeCavity( i, backup ); }
//@}
/// \name Backup/restore mechanism for factors
//@{
/// Make a backup copy of factor \a I
void backupFactor( size_t I ) { GRM::backupFactor( I ); }
/// Make backup copies of all factors involving the variables in \a vs
void backupFactors( const VarSet &vs ) { GRM::backupFactors( vs ); }
/// Restore factor \a I from its backup copy
void restoreFactor( size_t I ) { GRM::restoreFactor( I ); }
/// Restore the factors involving the variables in \a vs from their backup copies
void restoreFactors( const VarSet &vs ) { GRM::restoreFactors( vs ); }
//@}
};
/// Base class for inference algorithms that operate on a FactorGraph
typedef DAIAlg DAIAlgFG;
/// Base class for inference algorithms that operate on a RegionGraph
typedef DAIAlg DAIAlgRG;
/// Calculates the marginal probability distribution for \a vs using inference algorithm \a obj.
/** calcMarginal() works by clamping all variables in \a vs and calculating the partition sum for each clamped state.
* Therefore, it can be used in combination with any inference algorithm that can calculate/approximate partition sums.
* \param obj instance of inference algorithm to be used
* \param vs variables for which the marginal should be calculated
* \param reInit should be set to \c true if at least one of the possible clamped states would be invalid (leading to a factor graph with zero partition sum).
*/
Factor calcMarginal( const InfAlg& obj, const VarSet& vs, bool reInit );
/// Calculates beliefs for all pairs of variables in \a vs using inference algorithm \a obj.
/** calcPairBeliefs() works by
* - clamping single variables in \a vs and calculating the partition sum and the single variable beliefs for each clamped state, if \a accurate == \c false;
* - clamping pairs of variables in \a vs and calculating the partition sum for each clamped state, if \a accurate == \c true.
*
* Therefore, it can be used in combination with any inference algorithm that can calculate/approximate partition sums (and single variable beliefs, if
* \a accurate == \c true).
* \param obj instance of inference algorithm to be used
* \param vs variables for which the pair beliefs should be calculated
* \param reInit should be set to \c true if at least one of the possible clamped states would be invalid (leading to a factor graph with zero partition sum).
* \param accurate if \c true, uses a slower but more accurate approximation algorithm
*/
std::vector calcPairBeliefs( const InfAlg& obj, const VarSet& vs, bool reInit, bool accurate=false );
// OBSOLETE
/// Calculates beliefs for all pairs of variables in \a vs using inference algorithm \a obj.
/** \deprecated Please use dai::calcPairBeliefs() instead with \a accurate == \c true
*/
std::vector calcPairBeliefsNew( const InfAlg& obj, const VarSet& vs, bool reInit );
// OBSOLETE
/// Calculates marginal probability distribution for \a vs up to second order interactions using inference algorithm \a obj
/** \deprecated Functionality is not widely used
*/
Factor calcMarginal2ndO( const InfAlg& obj, const VarSet& vs, bool reInit );
} // end of namespace dai
#endif