Serializer_mzXML_Test.cpp File Reference

#include "Serializer_mzXML.hpp"
#include "Serializer_mzML.hpp"
#include "Diff.hpp"
#include "TextWriter.hpp"
#include "examples.hpp"
#include "pwiz/utility/misc/unit.hpp"
#include "boost/iostreams/positioning.hpp"
#include "pwiz/utility/misc/Std.hpp"
#include <cstring>

Go to the source code of this file.

Functions
void	testWriteRead (const MSData &msd, const Serializer_mzXML::Config &config)
void	testWriteRead ()
int	main (int argc, char *argv[])

Variables
ostream *	os_ = 0

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Function Documentation

void testWriteRead	(	const MSData &	msd,
		const Serializer_mzXML::Config &	config
	)

Definition at line 44 of file Serializer_mzXML_Test.cpp.

References diff(), pwiz::msdata::DiffConfig::ignoreChromatograms, pwiz::msdata::DiffConfig::ignoreMetadata, os_, pwiz::msdata::Serializer_mzXML::read(), unit_assert, pwiz::msdata::Serializer_mzXML::write(), pwiz::msdata::Serializer_mzML::write(), and write().

{
    if (os_) *os_ << "testWriteRead() " << config << endl;

    Serializer_mzXML mzxmlSerializer(config);

    ostringstream oss;
    mzxmlSerializer.write(oss, msd);

    if (os_) *os_ << "oss:\n" << oss.str() << endl; 

    shared_ptr<istringstream> iss(new istringstream(oss.str()));
    MSData msd2;
    mzxmlSerializer.read(iss, msd2);

    DiffConfig diffConfig;
    diffConfig.ignoreMetadata = true;
    diffConfig.ignoreChromatograms = true;

    Diff<MSData, DiffConfig> diff(msd, msd2, diffConfig);
    if (os_ && diff) *os_ << diff << endl; 
    unit_assert(!diff);

    if (os_)
    {
        *os_ << "msd2:\n";
        Serializer_mzML mzmlSerializer;
        mzmlSerializer.write(*os_, msd2);
        *os_ << endl;

        *os_ << "msd2::";
        TextWriter write(*os_);
        write(msd2);
        
        *os_ << endl;
    }
}

void testWriteRead

(

)

Definition at line 83 of file Serializer_mzXML_Test.cpp.

References pwiz::msdata::Serializer_mzXML::Config::binaryDataEncoderConfig, pwiz::msdata::Serializer_mzXML::Config::indexed, pwiz::identdata::examples::initializeTiny(), pwiz::msdata::BinaryDataEncoder::Config::precision, pwiz::msdata::MSData::run, pwiz::msdata::Run::spectrumListPtr, testWriteRead(), and unit_assert.

{
    MSData msd;
    examples::initializeTiny(msd);

    // remove s22 since it is not written to mzXML
    static_cast<SpectrumListSimple&>(*msd.run.spectrumListPtr).spectra.pop_back();

    Serializer_mzXML::Config config;
    unit_assert(config.binaryDataEncoderConfig.precision == BinaryDataEncoder::Precision_64);
    testWriteRead(msd, config);

    config.binaryDataEncoderConfig.precision = BinaryDataEncoder::Precision_32;
    testWriteRead(msd, config);

    config.indexed = false;
    testWriteRead(msd, config);
}

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

Definition at line 103 of file Serializer_mzXML_Test.cpp.

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

{
    TEST_PROLOG(argc, argv)

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

    TEST_EPILOG
}

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Variable Documentation

ostream* os_ = 0

Definition at line 41 of file Serializer_mzXML_Test.cpp.