DiffTest.cpp File Reference

#include "Diff.hpp"
#include "pwiz/utility/misc/unit.hpp"
#include "pwiz/utility/misc/Std.hpp"
#include <cstring>

Go to the source code of this file.

Functions
void	testContact ()
void	testInstrument ()
void	testConfiguration ()
void	testPrediction ()
void	testValidation ()
void	testEvidence ()
void	testRetentionTime ()
void	testProtein ()
void	testModification ()
void	testPeptide ()
void	testCompound ()
void	testTransition ()
void	testTarget ()
void	testSoftware ()
void	testTraData ()
void	test ()
int	main (int argc, char *argv[])

Variables
ostream *	os_ = 0

---

Function Documentation

void testContact

(

)

Definition at line 37 of file DiffTest.cpp.

References pwiz::data::ParamContainer::cvParams, diff(), pwiz::tradata::Contact::id, MS_m_z, os_, unit_assert, and pwiz::data::ParamContainer::userParams.

{
    if (os_) *os_ << "testContact()\n";

    Contact a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);

    a.id = b.id = "foo";
   
    Diff<Contact, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.id = "bar";

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testInstrument

(

)

Definition at line 60 of file DiffTest.cpp.

References pwiz::data::ParamContainer::cvParams, diff(), pwiz::tradata::Instrument::id, MS_m_z, os_, unit_assert, and pwiz::data::ParamContainer::userParams.

Referenced by test().

{
    if (os_) *os_ << "testInstrument()\n";

    Instrument a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);

    a.id = b.id = "foo";
   
    Diff<Instrument, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.id = "bar";

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testConfiguration

(

)

Definition at line 83 of file DiffTest.cpp.

References pwiz::tradata::Configuration::contactPtr, pwiz::data::ParamContainer::cvParams, diff(), pwiz::tradata::Configuration::instrumentPtr, MS_m_z, os_, unit_assert, and pwiz::data::ParamContainer::userParams.

{
    if (os_) *os_ << "testConfiguration()\n";

    Configuration a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);
    a.instrumentPtr = InstrumentPtr(new Instrument("common"));
    b.instrumentPtr = InstrumentPtr(new Instrument("common"));
    a.contactPtr = ContactPtr(new Contact("common"));
    b.contactPtr = ContactPtr(new Contact("common"));
   
    Diff<Configuration, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.instrumentPtr->id = "different";

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testPrediction

(

)

Definition at line 108 of file DiffTest.cpp.

References pwiz::tradata::Prediction::contactPtr, pwiz::data::ParamContainer::cvParams, diff(), MS_m_z, os_, pwiz::tradata::Prediction::softwarePtr, unit_assert, and pwiz::data::ParamContainer::userParams.

Referenced by test().

{
    if (os_) *os_ << "testPrediction()\n";

    Prediction a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);
    a.contactPtr = ContactPtr(new Contact("common"));
    b.contactPtr = ContactPtr(new Contact("common"));

    Diff<Prediction, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.softwarePtr = SoftwarePtr(new Software("different"));

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testValidation

(

)

Definition at line 131 of file DiffTest.cpp.

References pwiz::data::ParamContainer::cvParams, diff(), MS_m_z, MS_peak_intensity, os_, pwiz::data::ParamContainer::set(), unit_assert, and pwiz::data::ParamContainer::userParams.

Referenced by test().

{
    if (os_) *os_ << "testValidation()\n";

    Validation a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);
   
    Diff<Validation, DiffConfig> diff(a, b);
    unit_assert(!diff);

    b.set(MS_peak_intensity, 42);

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testEvidence

(

)

Definition at line 152 of file DiffTest.cpp.

References pwiz::data::ParamContainer::cvParams, diff(), MS_m_z, MS_peak_intensity, os_, pwiz::data::ParamContainer::set(), unit_assert, and pwiz::data::ParamContainer::userParams.

Referenced by test().

{
    if (os_) *os_ << "testEvidence()\n";

    Evidence a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);
   
    Diff<Evidence, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.set(MS_peak_intensity, 42);

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testRetentionTime

(

)

Definition at line 173 of file DiffTest.cpp.

References pwiz::data::ParamContainer::cvParams, diff(), MS_m_z, MS_peak_intensity, os_, pwiz::data::ParamContainer::set(), unit_assert, and pwiz::data::ParamContainer::userParams.

Referenced by test().

{
    if (os_) *os_ << "testRetentionTime()\n";

    RetentionTime a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);
   
    Diff<RetentionTime, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.set(MS_peak_intensity, 42);

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testProtein

(

)

Definition at line 194 of file DiffTest.cpp.

References diff(), pwiz::proteome::Protein::id, MS_m_z, os_, pwiz::proteome::Peptide::sequence(), and unit_assert.

Referenced by test().

{
    if (os_) *os_ << "testProtein()\n";

    Protein a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);
    a.sequence = b.sequence = "ABCD";
    a.id = b.id = "foo";
   
    Diff<Protein, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.sequence = "DCBA";

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testModification

(

)

Definition at line 217 of file DiffTest.cpp.

References diff(), os_, and unit_assert.

{
    if (os_) *os_ << "testModification()\n";

    Modification a, b;
    a.location = b.location = 7;
    a.monoisotopicMassDelta = b.monoisotopicMassDelta = 42;
    a.averageMassDelta = b.averageMassDelta = 42;

    Diff<Modification, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.monoisotopicMassDelta = 84;

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testPeptide

(

)

Definition at line 237 of file DiffTest.cpp.

References diff(), MS_m_z, MS_peak_intensity, os_, pwiz::proteome::Peptide::sequence(), and unit_assert.

{
    if (os_) *os_ << "testPeptide()\n";

    Peptide a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);
    a.evidence.set(MS_peak_intensity, 42);
    b.evidence.set(MS_peak_intensity, 42);
    a.sequence = b.sequence = "ABCD";
    a.id = b.id = "foo";
   
    Diff<Peptide, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.sequence = "DCBA";

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testCompound

(

)

Definition at line 262 of file DiffTest.cpp.

References pwiz::data::ParamContainer::cvParams, diff(), pwiz::tradata::Compound::id, MS_m_z, os_, pwiz::tradata::Compound::retentionTimes, unit_assert, and pwiz::data::ParamContainer::userParams.

Referenced by test().

{
    if (os_) *os_ << "testCompound()\n";

    Compound a, b;
    a.userParams.push_back(UserParam("common"));
    b.userParams.push_back(UserParam("common"));
    a.cvParams.push_back(MS_m_z);
    b.cvParams.push_back(MS_m_z);
    a.id = b.id = "foo";
   
    Diff<Compound, DiffConfig> diff(a, b);
    unit_assert(!diff);

    b.retentionTimes.push_back(RetentionTime());

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testTransition

(

)

Definition at line 284 of file DiffTest.cpp.

References pwiz::tradata::Transition::configurationList, diff(), pwiz::tradata::Transition::id, MS_peak_intensity, MS_selected_ion_m_z, os_, pwiz::tradata::Transition::peptidePtr, pwiz::tradata::Transition::precursor, pwiz::tradata::Transition::product, pwiz::data::ParamContainer::set(), unit_assert, and pwiz::tradata::Configuration::validations.

Referenced by test().

{
    if (os_) *os_ << "testTransition()\n";

    Transition a, b;
    a.id = b.id = "T1";
    a.precursor.set(MS_selected_ion_m_z, 123.45);
    b.precursor.set(MS_selected_ion_m_z, 123.45);
    a.product.set(MS_selected_ion_m_z, 456.78);
    b.product.set(MS_selected_ion_m_z, 456.78);
    Validation v; v.set(MS_peak_intensity, 42);
    Configuration c; c.validations.push_back(v);
    a.configurationList.push_back(c);
    b.configurationList.push_back(c);
    a.peptidePtr = PeptidePtr(new Peptide("common"));
    b.peptidePtr = PeptidePtr(new Peptide("common"));
   
    Diff<Transition, DiffConfig> diff(a, b);
    unit_assert(!diff);

    b.peptidePtr->sequence = "different";

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testTarget

(

)

Definition at line 311 of file DiffTest.cpp.

References pwiz::tradata::Target::configurationList, diff(), pwiz::tradata::Target::id, MS_peak_intensity, MS_selected_ion_m_z, os_, pwiz::tradata::Target::peptidePtr, pwiz::tradata::Target::precursor, pwiz::data::ParamContainer::set(), unit_assert, and pwiz::tradata::Configuration::validations.

Referenced by test().

{
    if (os_) *os_ << "testTarget()\n";

    Target a, b;
    a.id = b.id = "T1";
    a.precursor.set(MS_selected_ion_m_z, 123.45);
    b.precursor.set(MS_selected_ion_m_z, 123.45);
    Validation v; v.set(MS_peak_intensity, 42);
    Configuration c; c.validations.push_back(v);
    a.configurationList.push_back(c);
    b.configurationList.push_back(c);
    a.peptidePtr = PeptidePtr(new Peptide("common"));
    b.peptidePtr = PeptidePtr(new Peptide("common"));
   
    Diff<Target, DiffConfig> diff(a, b);
    unit_assert(!diff);

    b.peptidePtr->sequence = "different";

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testSoftware

(

)

Definition at line 337 of file DiffTest.cpp.

References diff(), pwiz::tradata::Software::id, MS_ionization_type, os_, pwiz::data::ParamContainer::set(), unit_assert, and pwiz::tradata::Software::version.

{
    if (os_) *os_ << "testSoftware()\n";

    Software a, b;

    a.id = "msdata";
    a.version = "4.20";
    a.set(MS_ionization_type);
    b = a;

    Diff<Software, DiffConfig> diff(a, b);
    unit_assert(!diff);

    b.version = "4.21";

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);
}

void testTraData

(

)

Definition at line 411 of file DiffTest.cpp.

References pwiz::data::Diff< object_type, config_type, object_result_type >::a_b, pwiz::data::Diff< object_type, config_type, object_result_type >::b_a, pwiz::tradata::TraData::cvs, diff(), pwiz::tradata::Publication::id, os_, pwiz::tradata::TraData::publications, pwiz::data::ParamContainer::set(), pwiz::tradata::TraData::softwarePtrs, unit_assert, and UO_dalton.

Referenced by test().

{
    if (os_) *os_ << "testTraData()\n";

    TraData a, b;

    Diff<TraData, DiffConfig> diff(a, b);
    unit_assert(!diff);

    a.cvs.push_back(CV());
    b.softwarePtrs.push_back(SoftwarePtr(new Software("software")));

    Publication pub;
    pub.id = "PUBMED1";
    pub.set(UO_dalton, 123);
    a.publications.push_back(pub);
    b.publications.push_back(pub);

    diff(a, b);
    if (os_) *os_ << diff << endl;
    unit_assert(diff);

    unit_assert(diff.a_b.cvs.size() == 1);
    unit_assert(diff.b_a.cvs.empty());

    unit_assert(diff.a_b.softwarePtrs.empty());
    unit_assert(!diff.b_a.softwarePtrs.empty());

    unit_assert(diff.a_b.publications.empty());
    unit_assert(diff.b_a.publications.empty());
}

void test

(

)

Definition at line 444 of file DiffTest.cpp.

References testCompound(), testConfiguration(), testContact(), testEvidence(), testInstrument(), testModification(), testPeptide(), testPrediction(), testProtein(), testRetentionTime(), testSoftware(), testTarget(), testTraData(), testTransition(), and testValidation().

{
    testContact();
    testInstrument();
    testSoftware();
    testConfiguration();
    testPrediction();
    testValidation();
    testEvidence();
    testRetentionTime();
    testProtein();
    testModification();
    testPeptide();
    testCompound();
    testTransition();
    testTarget();
    //testPrecursor();
    //testProduct();
    testTraData();
}

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

Definition at line 466 of file DiffTest.cpp.

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

{
    TEST_PROLOG_EX(argc, argv, "_TraData")

    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 34 of file DiffTest.cpp.