public void TestConvertNumericToMultiNumeric()
{
var mBase = PerseusFactory.CreateMatrixData();
mBase.AddStringColumn("Id", "", new [] { "n1;n2", "n3" });
var mdata = PerseusFactory.CreateMatrixData(new[, ] {
{ 0.0 }, { 1.0 }, { 2.0 }
});
mdata.AddStringColumn("Id", "", new [] { "n1", "n2", "n3" });
var match = new MatchingRowsByName();
var errString = string.Empty;
var param = match.GetParameters(new [] { mBase, mdata }, ref errString);
param.GetParam <int[]>("Copy main columns").Value = new[] { 0 };
param.GetParam <int>("Combine copied main values").Value = 5;
IMatrixData[] supplTables = null;
IDocumentData[] documents = null;
var result = match.ProcessData(new[] { mBase, mdata }, param, ref supplTables, ref documents,
BaseTest.CreateProcessInfo());
Assert.AreEqual(result.MultiNumericColumnCount, 1);
CollectionAssert.AreEqual(new [] { 0.0, 1.0 }, result.MultiNumericColumns[0][0]);
CollectionAssert.AreEqual(new [] { 2.0 }, result.MultiNumericColumns[0][1]);
}
public void TestInitialize()
{
var peptidesValues = new[, ] {
{ 9.0f }
};
peptides = PerseusFactory.CreateMatrixData(peptidesValues, new List <string> {
"pep_MS/MS Count"
});
peptides.AddNumericColumn("pep_Intensity", "", new [] { 0.0 });
peptides.AddStringColumn("pep_id", "", new [] { "35" });
peptides.AddStringColumn("pep_Protein group IDs", "", new [] { "13;21" });
peptides.Quality.Init(1, 1);
peptides.Quality.Set(0, 0, 1);
var multiNum = new ExpandMultiNumeric();
var errorString = string.Empty;
var parameters2 = multiNum.GetParameters(peptides, ref errorString);
parameters2.GetParam <int[]>("Text columns").Value = new[] { 1 };
IMatrixData[] suppl = null;
IDocumentData[] docs = null;
multiNum.ProcessData(peptides, parameters2, ref suppl, ref docs, CreateProcessInfo());
var proteinMainValues = new[, ]
{
{ 166250000.0f },
{ 8346000.0f }
};
proteinMain = PerseusFactory.CreateMatrixData(proteinMainValues, new List <string> {
"prot_LFQ intensity"
});
proteinMain.Name = "protein main";
proteinMain.AddStringColumn("prot_id", "", new [] { "13", "21" });
proteinMain.AddStringColumn("prot_gene name", "", new [] { "geneA", "geneB" });
var expandValues = new[, ]
{
{ 9.0f },
{ 9.0f }
};
expand = PerseusFactory.CreateMatrixData(expandValues, new List <string> {
"pep_MS/MS Count"
});
expand.Name = "expand";
expand.AddNumericColumn("pep_Intensity", "", new [] { 0.0, 0.0 });
expand.AddStringColumn("pep_id", "", new [] { "35", "35" });
expand.AddStringColumn("pep_Protein group IDs", "", new [] { "13", "21" });
matching = new MatchingRowsByName();
var err = string.Empty;
parameters = matching.GetParameters(new[] { expand, proteinMain }, ref err);
}
public void TestConvertNumericToMultiNumeric()
{
var mBase = PerseusFactory.CreateMatrixData();
mBase.AddStringColumn("Id", "", new [] { "n1;n2", "n3", "n5" });
Assert.IsTrue(mBase.IsConsistent(out var mBaseConsistent), mBaseConsistent);
var mdata = PerseusFactory.CreateMatrixData(new[, ] {
{ 0.0 }, { 1.0 }, { 2.0 }, { 3.0 }
});
mdata.AddStringColumn("Id", "", new [] { "n1", "n2", "n3", "n4" });
Assert.IsTrue(mdata.IsConsistent(out var mdataConsistent), mdataConsistent);
var match = new MatchingRowsByName();
var errString = string.Empty;
var param = match.GetParameters(new [] { mBase, mdata }, ref errString);
param.GetParam <int[]>("Copy main columns").Value = new[] { 0 };
param.GetParam <int>("Combine copied main values").Value = 5;
param.GetParam <int>("Join style").Value = 1;
param.GetParam <bool>("Add indicator").Value = true;
param.GetParam <bool>("Add original row numbers").Value = true;
IMatrixData[] supplTables = null;
IDocumentData[] documents = null;
var result = match.ProcessData(new[] { mBase, mdata }, param, ref supplTables, ref documents, BaseTest.CreateProcessInfo());
var indicator = result.GetCategoryColumnAt(0).Select(cats => cats.SingleOrDefault() ?? "");
CollectionAssert.AreEqual(new [] { "+", "+", "", "+" }, indicator);
CollectionAssert.AreEqual(new [] { "n1;n2", "n3", "n5", "n4" }, result.GetStringColumn("Id"));
CollectionAssert.AreEqual(new [] { "Original row numbers", "Column 1" }, result.MultiNumericColumnNames);
CollectionAssert.AreEqual(new [] { 0.0, 1.0 }, result.MultiNumericColumns[0][0]);
CollectionAssert.AreEqual(new [] { 2.0 }, result.MultiNumericColumns[0][1]);
CollectionAssert.AreEqual(new double[0], result.MultiNumericColumns[0][2]);
CollectionAssert.AreEqual(new [] { 3.0 }, result.MultiNumericColumns[0][3]);
CollectionAssert.AreEqual(new [] { 0.0, 1.0 }, result.MultiNumericColumns[1][0]);
CollectionAssert.AreEqual(new [] { 2.0 }, result.MultiNumericColumns[1][1]);
CollectionAssert.AreEqual(new double[0], result.MultiNumericColumns[1][2]);
CollectionAssert.AreEqual(new [] { 3.0 }, result.MultiNumericColumns[1][3]);
}
public void TestMatchingCaseInSensitive()
{
var mBase = PerseusFactory.CreateMatrixData();
mBase.AddStringColumn("Name", "", new [] { "A", "a", "B", "b", "C", "c" });
Assert.IsTrue(mBase.IsConsistent(out var mBaseConsistent), mBaseConsistent);
var mdata = PerseusFactory.CreateMatrixData();
mdata.AddStringColumn("Name", "", new [] { "a", "B" });
Assert.IsTrue(mdata.IsConsistent(out var mdataConsistent), mdataConsistent);
var match = new MatchingRowsByName();
var errString = string.Empty;
var param = match.GetParameters(new [] { mBase, mdata }, ref errString);
param.GetParam <bool>("Add indicator").Value = true;
param.GetParam <bool>("Ignore case").Value = true;
IMatrixData[] supplTables = null;
IDocumentData[] documents = null;
var result = match.ProcessData(new[] { mBase, mdata }, param, ref supplTables, ref documents, BaseTest.CreateProcessInfo());
var indicator = result.GetCategoryColumnAt(0).Select(cats => cats.SingleOrDefault() ?? "").ToArray();
CollectionAssert.AreEqual(new [] { "+", "+", "+", "+", "", "" }, indicator);
}