ChromatogramList_mz5_Test.cpp File Reference

#include "pwiz/utility/misc/unit.hpp"
#include "ChromatogramList_mz5.hpp"
#include "Serializer_mz5.hpp"
#include "examples.hpp"
#include "pwiz/utility/minimxml/XMLWriter.hpp"
#include "pwiz/utility/misc/Std.hpp"
#include "pwiz/utility/misc/Filesystem.hpp"

Go to the source code of this file.

Functions
void	test ()
int	main (int argc, char *argv[])

Variables
ostream *	os_ = 0
const char *	testFilename = "ChromatogramList_mz5_Test.mz5"

---

Function Documentation

void test

(

)

Definition at line 43 of file ChromatogramList_mz5_Test.cpp.

References pwiz::msdata::Run::chromatogramListPtr, pwiz::msdata::MSData::dataProcessingPtrs, pwiz::identdata::examples::initializeTiny(), pwiz::msdata::Serializer_mz5::read(), pwiz::msdata::MSData::run, testFilename, unit_assert, and pwiz::msdata::Serializer_mz5::write().

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

    MSDataFile::WriteConfig writeConfig;
    Serializer_mz5 serializer(writeConfig);

    IterationListenerRegistry ilr;
    serializer.write(testFilename, tiny, &ilr);

    MSData dummy;
    serializer.read(testFilename, dummy);

    // so we don't have any dangling references
    //dummy.instrumentPtrs.push_back(InstrumentPtr(new Instrument("LCQ_Deca")));
    dummy.dataProcessingPtrs.push_back(DataProcessingPtr(new DataProcessing(
            "pwiz_processing")));
    dummy.dataProcessingPtrs.push_back(DataProcessingPtr(new DataProcessing(
            "CompassXtract processing")));

    ChromatogramListPtr sl = dummy.run.chromatogramListPtr;

    // check easy functions

    unit_assert(sl.get());
    unit_assert(sl->size() == 2);
    unit_assert(sl->find("tic") == 0);
    unit_assert(sl->find("sic") == 1);

    // check tic

    ChromatogramPtr s = sl->chromatogram(0); // read without binary data
    unit_assert(s.get());
    unit_assert(s->id == "tic");
    unit_assert(s->binaryDataArrayPtrs.empty());

    unit_assert(sl->chromatogramIdentity(0).index == 0);
    unit_assert(sl->chromatogramIdentity(0).id == "tic");

    s = sl->chromatogram(0, true); // read with binary data

    vector < TimeIntensityPair > pairs;
    s->getTimeIntensityPairs(pairs);
    unit_assert(pairs.size() == 15);
    for (int i = 0; i < 15; i++)
        unit_assert(pairs[i].time == i && pairs[i].intensity == 15 - i);

    // check sic

    s = sl->chromatogram(1, true);
    unit_assert(s.get());
    unit_assert(s->id == "sic");

    unit_assert(sl->chromatogramIdentity(1).index == 1);
    unit_assert(sl->chromatogramIdentity(1).id == "sic");

    pairs.clear();
    s->getTimeIntensityPairs(pairs);
    unit_assert(pairs.size() == 10);
    for (int i = 0; i < 10; i++)
        unit_assert(pairs[i].time == i && pairs[i].intensity == (10 - i));

    }
    bfs::remove(testFilename);
}

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

Definition at line 111 of file ChromatogramList_mz5_Test.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 39 of file ChromatogramList_mz5_Test.cpp.

const char* testFilename = "ChromatogramList_mz5_Test.mz5"

Definition at line 40 of file ChromatogramList_mz5_Test.cpp.

Referenced by test().