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// --------------------------------------------------------------------------
// OpenMS -- Open-Source Mass Spectrometry
// --------------------------------------------------------------------------
// Copyright The OpenMS Team -- Eberhard Karls University Tuebingen,
// ETH Zurich, and Freie Universitaet Berlin 2002-2013.
//
// This software is released under a three-clause BSD license:
// * 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 any author or any participating institution
// may be used to endorse or promote products derived from this software
// without specific prior written permission.
// For a full list of authors, refer to the file AUTHORS.
// --------------------------------------------------------------------------
// 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 ANY OF THE AUTHORS OR THE CONTRIBUTING
// INSTITUTIONS 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.
//
// --------------------------------------------------------------------------
// $Maintainer: Mathias Walzer $
// $Authors: Andreas Bertsch $
// --------------------------------------------------------------------------
//
#include <OpenMS/CONCEPT/ClassTest.h>
///////////////////////////
#include <OpenMS/FILTERING/TRANSFORMERS/Normalizer.h>
#include <OpenMS/KERNEL/StandardTypes.h>
#include <OpenMS/FORMAT/DTAFile.h>
using namespace OpenMS;
using namespace std;
///////////////////////////
START_TEST(Normalizer, "$Id: Normalizer_test.C 11338 2013-06-05 20:48:48Z hroest $")
/////////////////////////////////////////////////////////////
Normalizer* e_ptr = 0;
Normalizer* e_nullPointer = 0;
START_SECTION((Normalizer()))
e_ptr = new Normalizer;
TEST_NOT_EQUAL(e_ptr, e_nullPointer)
END_SECTION
START_SECTION((~Normalizer()))
delete e_ptr;
END_SECTION
e_ptr = new Normalizer();
START_SECTION((Normalizer(const Normalizer& source)))
Normalizer copy(*e_ptr);
TEST_EQUAL(copy.getParameters(), e_ptr->getParameters())
TEST_EQUAL(copy.getName(), e_ptr->getName())
END_SECTION
START_SECTION((Normalizer& operator = (const Normalizer& source)))
Normalizer copy;
copy = *e_ptr;
TEST_EQUAL(copy.getParameters(), e_ptr->getParameters())
TEST_EQUAL(copy.getName(), e_ptr->getName())
END_SECTION
START_SECTION((template<typename SpectrumType> void filterSpectrum(SpectrumType& spectrum)))
DTAFile dta_file;
PeakSpectrum spec;
dta_file.load(OPENMS_GET_TEST_DATA_PATH("Transformers_tests.dta"), spec);
spec.sortByIntensity();
TEST_EQUAL(spec.rbegin()->getIntensity(), 46)
e_ptr->filterSpectrum(spec);
spec.sortByIntensity();
TEST_EQUAL(spec.rbegin()->getIntensity(), 1)
Param p(e_ptr->getParameters());
p.setValue("method", "to_TIC");
e_ptr->setParameters(p);
e_ptr->filterSpectrum(spec);
double sum(0);
for (PeakSpectrum::ConstIterator it = spec.begin(); it != spec.end(); ++it)
{
sum += it->getIntensity();
}
TEST_REAL_SIMILAR(sum, 1.0);
END_SECTION
START_SECTION((void filterPeakMap(PeakMap& exp)))
delete e_ptr;
e_ptr = new Normalizer();
DTAFile dta_file;
PeakSpectrum spec;
dta_file.load(OPENMS_GET_TEST_DATA_PATH("Transformers_tests.dta"), spec);
PeakMap pm;
pm.addSpectrum(spec);
pm.begin()->sortByIntensity();
TEST_EQUAL(pm.begin()->rbegin()->getIntensity(), 46)
e_ptr->filterPeakMap(pm);
pm.begin()->sortByIntensity();
TEST_EQUAL(pm.begin()->rbegin()->getIntensity(), 1)
Param p(e_ptr->getParameters());
p.setValue("method", "to_TIC");
e_ptr->setParameters(p);
e_ptr->filterPeakMap(pm);
double sum(0);
for (PeakMap::SpectrumType::ConstIterator it = pm.begin()->begin(); it != pm.begin()->end(); ++it)
{
sum += it->getIntensity();
}
TEST_REAL_SIMILAR(sum, 1.0);
END_SECTION
START_SECTION((void filterPeakSpectrum(PeakSpectrum& spectrum)))
delete e_ptr;
e_ptr = new Normalizer();
DTAFile dta_file;
PeakSpectrum spec;
dta_file.load(OPENMS_GET_TEST_DATA_PATH("Transformers_tests.dta"), spec);
spec.sortByIntensity();
TEST_EQUAL(spec.rbegin()->getIntensity(), 46)
e_ptr->filterPeakSpectrum(spec);
spec.sortByIntensity();
TEST_EQUAL(spec.rbegin()->getIntensity(), 1)
Param p(e_ptr->getParameters());
p.setValue("method", "to_TIC");
e_ptr->setParameters(p);
e_ptr->filterPeakSpectrum(spec);
double sum(0);
for (PeakSpectrum::ConstIterator it = spec.begin(); it != spec.end(); ++it)
{
sum += it->getIntensity();
}
TEST_REAL_SIMILAR(sum, 1.0);
END_SECTION
delete e_ptr;
/////////////////////////////////////////////////////////////
/////////////////////////////////////////////////////////////
END_TEST
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