void CalvinCHPMultiDataFileUpdaterTest::testMultiData1()
{
CreateReferenceFile1();
vector<ColumnInfo> cols;
CalvinCHPMultiDataFileUpdater upd;
ProbeSetMultiDataGenotypeData e;
upd.Initialize(TEST1_FILE);
e.call = 11;
e.confidence = 111.0f;
upd.UpdateMultiData(GenotypeMultiDataType, 0, e);
e.call = 22;
e.confidence = 222.0f;
upd.UpdateMultiData(GenotypeMultiDataType, 2, e);
CHPMultiDataData data;
CHPMultiDataFileReader reader;
CPPUNIT_ASSERT_NO_THROW(reader.SetFilename(TEST1_FILE));
CPPUNIT_ASSERT_NO_THROW(reader.Read(data));
CPPUNIT_ASSERT(data.GetEntryCount(GenotypeMultiDataType) == 4);
data.GetGenotypeEntry(GenotypeMultiDataType, 0, e);
CPPUNIT_ASSERT(e.name == "1");
CPPUNIT_ASSERT(e.call == 11);
CPPUNIT_ASSERT_DOUBLES_EQUAL(e.confidence, 111.0f, 0.000001f);
data.GetGenotypeEntry(GenotypeMultiDataType, 1, e);
CPPUNIT_ASSERT(e.name == "2");
CPPUNIT_ASSERT(e.call == 2);
CPPUNIT_ASSERT_DOUBLES_EQUAL(e.confidence, 20.0f, 0.000001f);
data.GetGenotypeEntry(GenotypeMultiDataType, 2, e);
CPPUNIT_ASSERT(e.name == "3");
CPPUNIT_ASSERT(e.call == 22);
CPPUNIT_ASSERT_DOUBLES_EQUAL(e.confidence, 222.0f, 0.000001f);
data.GetGenotypeEntry(GenotypeMultiDataType, 3, e);
CPPUNIT_ASSERT(e.name == "4");
CPPUNIT_ASSERT(e.call == 4);
CPPUNIT_ASSERT_DOUBLES_EQUAL(e.confidence, 40.0f, 0.000001f);
}
void CalvinCHPMultiDataFileUpdaterTest::testMultiData3()
{
CreateReferenceFile3();
vector<ColumnInfo> cols;
ByteColumn bcol(L"byte");
cols.push_back(bcol);
UByteColumn ubcol(L"ubyte");
cols.push_back(ubcol);
ShortColumn scol(L"short");
cols.push_back(scol);
UShortColumn uscol(L"ushort");
cols.push_back(uscol);
IntColumn icol(L"int");
cols.push_back(icol);
UIntColumn uicol(L"uint");
cols.push_back(uicol);
FloatColumn fcol(L"float");
cols.push_back(fcol);
ASCIIColumn acol(L"ascii", 7);
cols.push_back(acol);
UnicodeColumn tcol(L"text", 10);
cols.push_back(tcol);
CalvinCHPMultiDataFileUpdater upd;
ProbeSetMultiDataCopyNumberData e;
ProbeSetMultiDataCytoRegionData c;
upd.Initialize(TEST3_FILE);
e.metrics.resize(9);
e.chr = 11;
e.position = 111;
e.metrics[0].SetValueInt8(9);
e.metrics[1].SetValueUInt8(10);
e.metrics[2].SetValueInt16(17);
e.metrics[3].SetValueUInt16(18);
e.metrics[4].SetValueInt32(33);
e.metrics[5].SetValueUInt32(34);
e.metrics[6].SetValueFloat(55.0f);
e.metrics[7].SetValueAscii("text");
e.metrics[8].SetValueText(L"ascii");
upd.UpdateMultiData(CopyNumberMultiDataType, 0, e, cols);
e.chr = 22;
e.position = 222;
e.metrics[0].SetValueInt8(10);
e.metrics[1].SetValueUInt8(11);
e.metrics[2].SetValueInt16(18);
e.metrics[3].SetValueUInt16(19);
e.metrics[4].SetValueInt32(34);
e.metrics[5].SetValueUInt32(35);
e.metrics[6].SetValueFloat(66.0f);
e.metrics[7].SetValueAscii("text2");
e.metrics[8].SetValueText(L"ascii2");
upd.UpdateMultiData(CopyNumberMultiDataType, 2, e, cols);
vector<ColumnInfo> cycols;
c.call = 11;
c.confidenceScore = 111.0f;
c.chr = 11;
c.startPosition = 11;
c.stopPosition = 22;
upd.UpdateMultiData(CytoMultiDataType, 0, c, cycols);
c.call = 2;
c.confidenceScore = 20.0f;
c.chr = 22;
c.startPosition = 22;
c.stopPosition = 33;
upd.UpdateMultiData(CytoMultiDataType, 1, c, cycols);
CHPMultiDataData data;
CHPMultiDataFileReader reader;
CPPUNIT_ASSERT_NO_THROW(reader.SetFilename(TEST3_FILE));
CPPUNIT_ASSERT_NO_THROW(reader.Read(data));
CPPUNIT_ASSERT(data.GetEntryCount(CopyNumberMultiDataType) == 4);
CPPUNIT_ASSERT(data.GetEntryCount(CytoMultiDataType) == 2);
data.GetCopyNumberEntry(CopyNumberMultiDataType, 0, e);
CPPUNIT_ASSERT(e.name == "1");
CPPUNIT_ASSERT(e.chr == 11);
CPPUNIT_ASSERT(e.position == 111);
CPPUNIT_ASSERT(e.metrics[0].GetValueInt8() == 9);
CPPUNIT_ASSERT(e.metrics[1].GetValueUInt8() == 10);
CPPUNIT_ASSERT(e.metrics[2].GetValueInt16() == 17);
CPPUNIT_ASSERT(e.metrics[3].GetValueUInt16() == 18);
CPPUNIT_ASSERT(e.metrics[4].GetValueInt32() == 33);
CPPUNIT_ASSERT(e.metrics[5].GetValueUInt32() == 34);
CPPUNIT_ASSERT_DOUBLES_EQUAL(e.metrics[6].GetValueFloat(), 55.0f, 0.00001f);
CPPUNIT_ASSERT(e.metrics[7].GetValueAscii() == "text");
CPPUNIT_ASSERT(e.metrics[8].GetValueText() == L"ascii");
data.GetCopyNumberEntry(CopyNumberMultiDataType, 1, e);
CPPUNIT_ASSERT(e.name == "2");
CPPUNIT_ASSERT(e.chr == 2);
CPPUNIT_ASSERT(e.position == 20);
CPPUNIT_ASSERT(e.metrics[0].GetValueInt8() == 8);
CPPUNIT_ASSERT(e.metrics[1].GetValueUInt8() == 8);
CPPUNIT_ASSERT(e.metrics[2].GetValueInt16() == 16);
CPPUNIT_ASSERT(e.metrics[3].GetValueUInt16() == 16);
CPPUNIT_ASSERT(e.metrics[4].GetValueInt32() == 32);
CPPUNIT_ASSERT(e.metrics[5].GetValueUInt32() == 32);
CPPUNIT_ASSERT_DOUBLES_EQUAL(e.metrics[6].GetValueFloat(), 44.0f, 0.00001f);
CPPUNIT_ASSERT(e.metrics[7].GetValueAscii() == "ascii");
CPPUNIT_ASSERT(e.metrics[8].GetValueText() == L"text");
data.GetCopyNumberEntry(CopyNumberMultiDataType, 2, e);
CPPUNIT_ASSERT(e.name == "3");
CPPUNIT_ASSERT(e.chr == 22);
CPPUNIT_ASSERT(e.position == 222);
CPPUNIT_ASSERT(e.metrics[0].GetValueInt8() == 10);
CPPUNIT_ASSERT(e.metrics[1].GetValueUInt8() == 11);
CPPUNIT_ASSERT(e.metrics[2].GetValueInt16() == 18);
CPPUNIT_ASSERT(e.metrics[3].GetValueUInt16() == 19);
CPPUNIT_ASSERT(e.metrics[4].GetValueInt32() == 34);
CPPUNIT_ASSERT(e.metrics[5].GetValueUInt32() == 35);
CPPUNIT_ASSERT_DOUBLES_EQUAL(e.metrics[6].GetValueFloat(), 66.0f, 0.00001f);
CPPUNIT_ASSERT(e.metrics[7].GetValueAscii() == "text2");
CPPUNIT_ASSERT(e.metrics[8].GetValueText() == L"ascii2");
data.GetCopyNumberEntry(CopyNumberMultiDataType, 3, e);
CPPUNIT_ASSERT(e.name == "4");
CPPUNIT_ASSERT(e.chr == 4);
CPPUNIT_ASSERT(e.position == 40);
CPPUNIT_ASSERT(e.metrics[0].GetValueInt8() == 8);
CPPUNIT_ASSERT(e.metrics[1].GetValueUInt8() == 8);
CPPUNIT_ASSERT(e.metrics[2].GetValueInt16() == 16);
CPPUNIT_ASSERT(e.metrics[3].GetValueUInt16() == 16);
CPPUNIT_ASSERT(e.metrics[4].GetValueInt32() == 32);
CPPUNIT_ASSERT(e.metrics[5].GetValueUInt32() == 32);
CPPUNIT_ASSERT_DOUBLES_EQUAL(e.metrics[6].GetValueFloat(), 44.0f, 0.00001f);
CPPUNIT_ASSERT(e.metrics[7].GetValueAscii() == "ascii");
CPPUNIT_ASSERT(e.metrics[8].GetValueText() == L"text");
data.GetCytoEntry(CytoMultiDataType, 0, c);
CPPUNIT_ASSERT(c.name == "1");
CPPUNIT_ASSERT(c.call == 11);
CPPUNIT_ASSERT(c.chr == 11);
CPPUNIT_ASSERT(c.startPosition == 11);
CPPUNIT_ASSERT(c.stopPosition == 22);
CPPUNIT_ASSERT_DOUBLES_EQUAL(c.confidenceScore, 111.0f, 0.00001f);
data.GetCytoEntry(CytoMultiDataType, 1, c);
CPPUNIT_ASSERT(c.name == "2");
CPPUNIT_ASSERT(c.chr == 22);
CPPUNIT_ASSERT(c.startPosition == 22);
CPPUNIT_ASSERT(c.stopPosition == 33);
CPPUNIT_ASSERT(c.call == 2);
CPPUNIT_ASSERT_DOUBLES_EQUAL(c.confidenceScore, 20.0f, 0.00001f);
}