SpectrumList_MetadataFixerTest.cpp File Reference

#include "SpectrumList_MetadataFixer.hpp"
#include "pwiz/utility/misc/unit.hpp"
#include "pwiz/data/msdata/TextWriter.hpp"
#include "pwiz/utility/misc/Std.hpp"

Go to the source code of this file.

Classes
struct	TestMetadataFixer

Functions
vector< double >	parseDoubleArray (const string &doubleArray)
void	test ()
int	main (int argc, char *argv[])

Variables
ostream *	os_ = 0
TestMetadataFixer	testMetadataFixers []
const size_t	testMetadataFixersSize = sizeof(testMetadataFixers) / sizeof(TestMetadataFixer)

---

Function Documentation

vector<double> parseDoubleArray

(

const string &

doubleArray

)

Definition at line 56 of file SpectrumList_MetadataFixerTest.cpp.

{
    vector<double> doubleVector;
    vector<string> tokens;
    bal::split(tokens, doubleArray, bal::is_space());
    if (!tokens.empty() && !tokens[0].empty())
        for (size_t i=0; i < tokens.size(); ++i)
            doubleVector.push_back(lexical_cast<double>(tokens[i]));
    return doubleVector;
}

void test

(

)

Definition at line 67 of file SpectrumList_MetadataFixerTest.cpp.

References TestMetadataFixer::bpi, TestMetadataFixer::bpmz, TestMetadataFixer::inputIntensityArray, TestMetadataFixer::inputMZArray, MS_base_peak_intensity, MS_base_peak_m_z, MS_number_of_counts, MS_TIC, parseDoubleArray(), pwiz::msdata::SpectrumListSimple::spectra, testMetadataFixers, testMetadataFixersSize, TestMetadataFixer::tic, and unit_assert.

{
    for (size_t i=0; i < testMetadataFixersSize; ++i)
    {
        SpectrumListSimple* sl = new SpectrumListSimple;
        SpectrumListPtr originalList(sl);

        // test once with no metadata
        SpectrumPtr s0(new Spectrum);
        sl->spectra.push_back(s0);

        TestMetadataFixer& t = testMetadataFixers[i];

        // test again with existing metadata to be overwritten
        SpectrumPtr s1(new Spectrum);
        s1->set(MS_TIC, t.tic + 1);
        s1->set(MS_base_peak_intensity, t.bpi + 1);
        s1->set(MS_base_peak_m_z, t.bpmz + 1);
        sl->spectra.push_back(s1);

        vector<double> inputMZArray = parseDoubleArray(t.inputMZArray);
        vector<double> inputIntensityArray = parseDoubleArray(t.inputIntensityArray);
        s0->setMZIntensityArrays(inputMZArray, inputIntensityArray, MS_number_of_counts);
        s1->setMZIntensityArrays(inputMZArray, inputIntensityArray, MS_number_of_counts);

        SpectrumListPtr fixer(new SpectrumList_MetadataFixer(originalList));

        SpectrumPtr fixedSpectrum = fixer->spectrum(0, true);
        unit_assert(fixedSpectrum->cvParam(MS_TIC).valueAs<double>() == t.tic);
        unit_assert(fixedSpectrum->cvParam(MS_base_peak_intensity).valueAs<double>() == t.bpi);
        unit_assert(fixedSpectrum->cvParam(MS_base_peak_m_z).valueAs<double>() == t.bpmz);

        fixedSpectrum = fixer->spectrum(1, true);
        unit_assert(fixedSpectrum->cvParam(MS_TIC).valueAs<double>() == t.tic);
        unit_assert(fixedSpectrum->cvParam(MS_base_peak_intensity).valueAs<double>() == t.bpi);
        unit_assert(fixedSpectrum->cvParam(MS_base_peak_m_z).valueAs<double>() == t.bpmz);
    }
}

int main	(	int	argc,
		char *	argv[]
	)

Definition at line 106 of file SpectrumList_MetadataFixerTest.cpp.

References e(), os_, test(), TEST_EPILOG, TEST_FAILED, and TEST_PROLOG.

{
    TEST_PROLOG(argc, argv)

    try
    {
        if (argc>1 && !strcmp(argv[1],"-v")) os_ = &cout;
        test();
    }
    catch (exception& e)
    {
        TEST_FAILED(e.what())
    }
    catch (...)
    {
        TEST_FAILED("Caught unknown exception.")
    }

    TEST_EPILOG
}

---

Variable Documentation

ostream* os_ = 0

Definition at line 32 of file SpectrumList_MetadataFixerTest.cpp.

TestMetadataFixer testMetadataFixers[]

Initial value:

{
    { "1 2 3 4 5", "10 20 30 40 50", 150, 50, 5 },
    { "1 2 3 4 5", "50 40 30 20 10", 150, 50, 1 },
    { "1 2 3 4 5", "10 20 30 20 10", 90, 30, 3 },
    { "1", "10", 10, 10, 1 }
}

Definition at line 46 of file SpectrumList_MetadataFixerTest.cpp.

Referenced by test().

const size_t testMetadataFixersSize = sizeof(testMetadataFixers) / sizeof(TestMetadataFixer)

Definition at line 54 of file SpectrumList_MetadataFixerTest.cpp.

Referenced by test().