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IndependenceTest.cpp
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IndependenceTest.cpp
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/*
* Copyright (c) The Shogun Machine Learning Toolbox
* Written (w) 2012-2013 Heiko Strathmann
* Written (w) 2014 Soumyajit De
* All rights reserved.
*
* Redistribution and use in source and binary forms, with or without
* modification, are permitted provided that the following conditions are met:
*
* 1. Redistributions of source code must retain the above copyright notice, this
* list of conditions and the following disclaimer.
* 2. 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.
*
* 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 THE COPYRIGHT OWNER OR CONTRIBUTORS 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.
*
* The views and conclusions contained in the software and documentation are those
* of the authors and should not be interpreted as representing official policies,
* either expressed or implied, of the Shogun Development Team.
*/
#include <shogun/statistics/IndependenceTest.h>
#include <shogun/features/Features.h>
using namespace shogun;
CIndependenceTest::CIndependenceTest() : CHypothesisTest()
{
init();
}
CIndependenceTest::CIndependenceTest(CFeatures* p, CFeatures* q)
: CHypothesisTest()
{
init();
SG_REF(p);
SG_REF(q);
m_p=p;
m_q=q;
}
CIndependenceTest::~CIndependenceTest()
{
SG_UNREF(m_p);
SG_UNREF(m_q);
}
void CIndependenceTest::init()
{
SG_ADD((CSGObject**)&m_p, "p", "Samples from p", MS_NOT_AVAILABLE);
SG_ADD((CSGObject**)&m_q, "q", "Samples from q", MS_NOT_AVAILABLE);
m_p=NULL;
m_q=NULL;
}
SGVector<float64_t> CIndependenceTest::sample_null()
{
SG_DEBUG("entering!\n")
REQUIRE(m_p, "No features p!\n");
REQUIRE(m_q, "No features q!\n");
/* compute sample statistics for null distribution */
SGVector<float64_t> results(m_num_null_samples);
/* memory for index permutations. Adding of subset has to happen
* inside the loop since it may be copied if there already is one set.
*
* subset for selecting samples from p. In this case we want to
* shuffle only samples from p while keeping samples from q fixed */
SGVector<index_t> ind_permutation(m_p->get_num_vectors());
ind_permutation.range_fill();
for (index_t i=0; i<m_num_null_samples; ++i)
{
/* idea: shuffle samples from p while keeping samples from q fixed
* and compute statistic. This is done using subsets here */
/* create index permutation and add as subset to features from p */
CMath::permute(ind_permutation);
/* compute statistic for this permutation of mixed samples */
m_p->add_subset(ind_permutation);
results[i]=compute_statistic();
m_p->remove_subset();
}
SG_DEBUG("leaving!\n")
return results;
}
void CIndependenceTest::set_p(CFeatures* p)
{
/* ref before unref to avoid problems when instances are equal */
SG_REF(p);
SG_UNREF(m_p);
m_p=p;
}
void CIndependenceTest::set_q(CFeatures* q)
{
/* ref before unref to avoid problems when instances are equal */
SG_REF(q);
SG_UNREF(m_q);
m_q=q;
}
CFeatures* CIndependenceTest::get_p()
{
SG_REF(m_p);
return m_p;
}
CFeatures* CIndependenceTest::get_q()
{
SG_REF(m_q);
return m_q;
}