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// ==========================================================================
// SeqAn - The Library for Sequence Analysis
// ==========================================================================
// Copyright (c) 2006-2013, Knut Reinert, FU Berlin
// All rights reserved.
//
// Redistribution and use in source and binary forms, with or without
// modification, are permitted provided that the following conditions are met:
//
// * Redistributions of source code must retain the above copyright
// notice, this list of conditions and the following disclaimer.
// * Redistributions in binary form must reproduce the above copyright
// notice, this list of conditions and the following disclaimer in the
// documentation and/or other materials provided with the distribution.
// * Neither the name of Knut Reinert or the FU Berlin nor the names of
// its contributors may be used to endorse or promote products derived
// from this software without specific prior written permission.
//
// THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
// AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
// IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
// ARE DISCLAIMED. IN NO EVENT SHALL KNUT REINERT OR THE FU BERLIN BE LIABLE
// FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
// DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
// SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
// CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT
// LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY
// OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH
// DAMAGE.
//
// ==========================================================================
// Author: Manuel Holtgrewe <manuel.holtgrewe@fu-berlin.de>
// ==========================================================================
// Basic definitions for the module random.
// ==========================================================================
#ifndef SEQAN_RANDOM_RANDOM_BASE_H_
#define SEQAN_RANDOM_RANDOM_BASE_H_
namespace seqan {
// ===========================================================================
// Forwards, Tags.
// ===========================================================================
// Forward to MersenneTwister, really defined in random_mt19937.h.
struct MersenneTwister;
/*!
* @class Rng
* @headerfile <seqan/random.h>
* @brief Random Number Generator
*
* @signature template <[typename TSpec]>
* class Rng;
*
* @tparam TSpec Tag for selecting the specialization. Defaults to MersenneTwister.
*
* @section Examples
*
* The following code shows how to generate random numbers and shuffle a text.
*
* @include demos/random/random.cpp
*
* @code{.console}
* pickRandomNumber(rng) == 1608637542
* pickRandomNumber(rng, uniformDouble) == 0.950714
* pickRandomNumber(rng, uniformInt) == 27
* pickRandomNumber(rng, normal) == 0.419823
* pickRandomNumber(rng, logNormal) == 1.22431
* pickRandomNumber(rng, logNormal2) == 2.78004
* pickRandomNumber(rng, logNormal3) == 0.00155248
* shuffle("Hello World!") == o!reWlloHld
* @endcode
*
* @see http://trac.seqan.de/wiki/Tutorial/Randomness
*/
/**
.Class.Rng:
..summary:Random Number Generator
..signature:Rng<>
..signature:Rng<TSpec>
..cat:Random
..param.TSpec:Random Number Generator specialization.
...default:@Spec.Mersenne Twister Rng@
..include:seqan/random.h
..wiki:Tutorial/Randomness|Tutorial: Randomness
..example
...text:The following code shows how to generate random numbers and shuffle a text.
...file:demos/random/random.cpp
...output:
pickRandomNumber(rng) == 1608637542
pickRandomNumber(rng, uniformDouble) == 0.950714
pickRandomNumber(rng, uniformInt) == 27
pickRandomNumber(rng, normal) == 0.419823
pickRandomNumber(rng, logNormal) == 1.22431
pickRandomNumber(rng, logNormal2) == 2.78004
pickRandomNumber(rng, logNormal3) == 0.00155248
shuffle("Hello World!") == o!reWlloHld
*/
template <typename TSpec = MersenneTwister>
class Rng;
/*!
* @class Pdf
* @headerfile <seqan/random.h>
* @brief Probability Density Function
*
* @signature template <typename TSpec>
* class Pdf;
*
* @tparam TSpec Tag for selecting the specialization.
*
* Also see the <a href="http://trac.seqan.de/wiki/Tutorial/Randomness">SeqAn Randomness Tutorial</a>.
*/
/**
.Class.Pdf:
..summary:ProbabilityDensityFunction
..signature:Pdf<TSpec>
..cat:Random
..param.TSpec:Specialization.
..include:seqan/random.h
..wiki:Tutorial/Randomness|Tutorial: Randomness
*/
template <typename TSpec>
class Pdf;
// ===========================================================================
// Classes
// ===========================================================================
/*!
* @fn Rng::operator()
* @brief Function all operator.
*
* @signature TValue Rng::operator()();
*
* @return TValue Random number, TValue can be retrieved with Rng#Value.
*/
/**
.Memfunc.Rng#operator()
..class:Class.Rng
..summary:Function call operator.
..signature:operator()
*/
// ===========================================================================
// Metafunctions
// ===========================================================================
/*!
* @mfn Pdf#Value
* @brief Value type of a Pdf.
*
* @signature Value<TPdf>::Type
*
* @tparam TPdf The Pdf for the value type.
*
* @return Type The value type of the Pdf.
*/
///.Metafunction.Value.param.T.type:Class.Pdf
///.Metafunction.Value.class:Class.Pdf
// specification only
/*!
* @mfn Rng#Value
* @brief Value type of a Rng.
*
* @signature Value<TRng>::Type
*
* @tparam TRng the Rng to get the value type for.
*
* @return Type the value type for the Rng.
*/
/*!
* @mfn Rng#MinValue
* @brief Smallest value that a Rng can return.
*
* @signature MinValue<TRng>::VALUE;
*
* @tparam TRng The Rng object to get the smallest value for.
*
* @return VALUE The smallest value a Rng can return.
*/
/*!
* @mfn Rng#MaxValue
* @brief Largest value that a Rng can return.
*
* @signature MaxValue<TRng>::VALUE;
*
* @tparam TRng The Rng object to get the largest value for.
*
* @return VALUE The largest value a Rng can return.
*/
///.Metafunction.Value.param.T.type:Class.Rng
///.Metafunction.Value.class:Class.Rng
///.Metafunction.MinValue.param.T.type:Class.Rng
///.Metafunction.MinValue.class:Class.Rng
///.Metafunction.MaxValue.param.T.type:Class.Rng
///.Metafunction.MaxValue.class:Class.Rng
template <typename TSpec>
struct MaxValue<Rng<TSpec> >
{
typedef typename Value<Rng<TSpec> >::Type TValue_;
static const TValue_ VALUE;
};
template <typename TSpec>
const typename Value<Rng<TSpec> >::Type MaxValue<Rng<TSpec> >::VALUE = MaxValue<typename Value<Rng<TSpec> >::Type>::VALUE;
template <typename TSpec>
struct MaxValue<Rng<TSpec> const>
{
typedef typename Value<Rng<TSpec> const>::Type TValue_;
static const TValue_ VALUE;
};
template <typename TSpec>
const typename Value<Rng<TSpec> const>::Type MaxValue<Rng<TSpec> const>::VALUE = MaxValue<typename Value<Rng<TSpec> const>::Type>::VALUE;
template <typename TSpec>
struct MinValue<Rng<TSpec> >
{
typedef typename Value<Rng<TSpec> >::Type TValue_;
static const TValue_ VALUE;
};
template <typename TSpec>
const typename Value<Rng<TSpec> >::Type MinValue<Rng<TSpec> >::VALUE = MinValue<typename Value<Rng<TSpec> >::Type>::VALUE;
template <typename TSpec>
struct MinValue<Rng<TSpec> const>
{
typedef typename Value<Rng<TSpec> const>::Type TValue_;
static const TValue_ VALUE;
};
template <typename TSpec>
const typename Value<Rng<TSpec> const>::Type MinValue<Rng<TSpec> const>::VALUE = MinValue<typename Value<Rng<TSpec> const>::Type>::VALUE;
/*!
* @mfn GetDefaultRng
* @headerfile <seqan/random.h>
* @brief Return the default Rng to use in a given class, specialization, or algorithm.
*
* @signature GetDefaultRng<T>::Type;
*
* @tparam T The type or tag to get the default Rng for.
*
* @return Type The Rng type to use.
*
* @see defaultRng
*/
/**
.Metafunction.GetDefaultRng
..cat:Random
..summary:Return the default @Class.Rng|Random Number Generator@ to use in a given class, spezialiation or algorithm.
..signature:GetDefaultRng<T>::Type
..param.T:The class or algorithm tag to get the default @Class.Rng@ for.
..returns:The type of Rng specialization to use.
..remarks:Currently, the default value is @Spec.Mersenne Twister Rng@.
..see:Function.defaultRng
*/
template <typename T>
struct GetDefaultRng
{
typedef Rng<MersenneTwister> Type;
};
// ===========================================================================
// Functions
// ===========================================================================
/*!
* @fn Rng#pickRandomNumber
* @brief Pick a random number using a random number generator, possibly using a probability density function.
*
* @signature TValue pickRandomNumber(rng[, pdf]);
*
* @param[in,out] rng The Rng to use.
* @param[in] pdf The probability density function to use.
*
* @return TValue A random number. TValue is the value type of the rng if pdf is not given. If pdf is given
* then it is of the value type of pdf.
*
* @section Remarks
*
* For more details see the <a href="http://trac.seqan.de/wiki/Tutorial/Randomness">SeqAn Tutorial on Randomness</a>.
*/
/**
.Function.pickRandomNumber
..class:Class.Rng
..class:Class.Pdf
..summary:Pick a random number using a random number generator object, possibly following the given distribution.
..cat:Random
..include:seqan/random.h
..wiki:Tutorial/Randomness|Tutorial: Randomness
..signature:pickRandomNumber(rng[, pdf])
..param.rng:Random number generator to use.
...type:Class.Rng
..param.pdf:Probability density function to use, if any.
...type:Class.Pdf
..returns:Random number as specified in pdf, if any, or rng. For more details refer to the SeqAn Tutorial.
*/
// specification only
/*!
* @fn defaultRng
* @headerfile <seqan/random.h>
* @brief Return the default random number generator object of a given type.
*
* @signature TRng defaultRng<TRng>();
*
* @tparam TRng The random number generator type to construct.
*
* @return TRng Default random number generator of the given type TRng.
*
* @section Remarks
*
* The random number generator will be default constructed, i.e. with the default seed.
*
* This function is NOT thread-safe! Also, data structures and functions using defaultRng are not thread-safe. Data
* structures using global random number generator state should use pointers. This way, the random number generator
* state to be used can be set to be thread-local.
*
* @see GetDefaultRng
*/
/**
.Function.defaultRng
..summary:Default default random number generator object of a given type.
..cat:Random
..signature:defaultRng<TRng>()
..param.TRng:Type of the @Class.Rng@ to return the global default object of.
...default:$MersenneTwister$
...type:nolink:$MersenneTwister$
..returns:Default random number generator object of the type given by $tag$.
..remarks:The random number generator will be default constructed, i.e. with the default seed.
..remarks:This function is NOT thread-safe! Also, data structures using such global state are not thread-safe! Data structures using global random number generator state should use pointers or @Class.Holder|Holder instances@. This way, the random number generator state to be used can be set to be thread-local.
..see:Metafunction.GetDefaultRng
*/
template <typename TRng>
inline TRng &
defaultRng()
{
static TRng x;
return x;
}
template <typename T>
inline typename GetDefaultRng<T>::Type &
defaultRng(T const &)
{
typedef typename GetDefaultRng<T>::Type TRng;
return defaultRng<TRng>();
}
} // namespace seqan
#endif // SEQAN_RANDOM_RANDOM_BASE_H_
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