public void TestFilter()
{
var pro1 = new IdentifiedProtein("P1");
pro1.Peptides.Add(new IdentifiedPeptide(new IdentifiedSpectrum() { Charge = 1 }));
pro1.Peptides.Add(new IdentifiedPeptide(new IdentifiedSpectrum() { Charge = 2 }));
var pro2 = new IdentifiedProtein("P2");
pro2.Peptides.Add(new IdentifiedPeptide(new IdentifiedSpectrum() { Charge = 3 }));
var g1 = new IdentifiedProteinGroup();
g1.Add(pro1);
var g2 = new IdentifiedProteinGroup();
g2.Add(pro2);
IdentifiedResult ir = new IdentifiedResult();
ir.Add(g1);
ir.Add(g2);
Assert.AreEqual(2, ir.Count);
Assert.AreEqual(3, ir.GetSpectra().Count);
ir.Filter(m => { return m.Spectrum.Query.Charge > 1; });
Assert.AreEqual(2, ir.Count);
Assert.AreEqual(2, ir.GetSpectra().Count);
ir.GetSpectra().All(m => { return m.Charge > 1; });
ir.Filter(m => { return m.Spectrum.Query.Charge > 2; });
Assert.AreEqual(1, ir.Count);
Assert.AreEqual(1, ir.GetSpectra().Count);
ir.GetSpectra().All(m => { return m.Charge > 2; });
Assert.AreEqual("P2", ir[0][0].Name);
}
public void TestKeepDistinctPeptideOnly()
{
var spectrum1 = new IdentifiedSpectrum();
var pep1 = spectrum1.NewPeptide();
var spectrum2 = new IdentifiedSpectrum();
var pep2 = spectrum2.NewPeptide();
var spectrum3 = new IdentifiedSpectrum();
var pep3 = spectrum3.NewPeptide();
var spectrum4 = new IdentifiedSpectrum();
var pep4 = spectrum4.NewPeptide();
var protein1 = new IdentifiedProtein();
protein1.Peptides.Add(pep1);
protein1.Peptides.Add(pep2);
var protein2 = new IdentifiedProtein();
protein2.Peptides.Add(pep1);
protein2.Peptides.Add(pep3);
var protein3 = new IdentifiedProtein();
protein3.Peptides.Add(pep2);
protein3.Peptides.Add(pep4);
var g1 = new IdentifiedProteinGroup();
g1.Add(protein1);
var g2 = new IdentifiedProteinGroup();
g2.Add(protein2);
var g3 = new IdentifiedProteinGroup();
g3.Add(protein3);
IIdentifiedResult ir = new IdentifiedResult();
ir.Add(g1);
ir.Add(g2);
ir.Add(g3);
new DistinctResultDistiller().KeepDistinctPeptideOnly(ir);
Assert.AreEqual(2, ir.Count);
Assert.AreEqual(g2, ir[0]);
Assert.AreEqual(g3, ir[1]);
Assert.AreEqual(1, ir[0].GetPeptides().Count);
Assert.AreEqual(spectrum3, ir[0].GetPeptides()[0]);
Assert.AreEqual(1, ir[1].GetPeptides().Count);
Assert.AreEqual(spectrum4, ir[1].GetPeptides()[0]);
}
public void TestKeepDistinctPeptideOnly()
{
var spectrum1 = new IdentifiedSpectrum();
var pep1 = spectrum1.NewPeptide();
var spectrum2 = new IdentifiedSpectrum();
var pep2 = spectrum2.NewPeptide();
var spectrum3 = new IdentifiedSpectrum();
var pep3 = spectrum3.NewPeptide();
var spectrum4 = new IdentifiedSpectrum();
var pep4 = spectrum4.NewPeptide();
var protein1 = new IdentifiedProtein();
protein1.Peptides.Add(pep1);
protein1.Peptides.Add(pep2);
var protein2 = new IdentifiedProtein();
protein2.Peptides.Add(pep1);
protein2.Peptides.Add(pep3);
var protein3 = new IdentifiedProtein();
protein3.Peptides.Add(pep2);
protein3.Peptides.Add(pep4);
var g1 = new IdentifiedProteinGroup();
g1.Add(protein1);
var g2 = new IdentifiedProteinGroup();
g2.Add(protein2);
var g3 = new IdentifiedProteinGroup();
g3.Add(protein3);
IIdentifiedResult ir = new IdentifiedResult();
ir.Add(g1);
ir.Add(g2);
ir.Add(g3);
new DistinctResultDistiller().KeepDistinctPeptideOnly(ir);
Assert.AreEqual(2, ir.Count);
Assert.AreEqual(g2, ir[0]);
Assert.AreEqual(g3, ir[1]);
Assert.AreEqual(1, ir[0].GetPeptides().Count);
Assert.AreEqual(spectrum3, ir[0].GetPeptides()[0]);
Assert.AreEqual(1, ir[1].GetPeptides().Count);
Assert.AreEqual(spectrum4, ir[1].GetPeptides()[0]);
}
public void TestFilter2()
{
var spectrum = new IdentifiedSpectrum();
spectrum.Query.FileScan.LongFileName = "ABDCDD.12.123.2.dat";
var pro1 = new IdentifiedProtein("P1");
pro1.Peptides.Add(new IdentifiedPeptide(spectrum) { Sequence = "AAAAAAA" });
var pro2 = new IdentifiedProtein("P2");
pro2.Peptides.Add(new IdentifiedPeptide(spectrum) { Sequence = "BBBBBBB" });
var g1 = new IdentifiedProteinGroup();
g1.Add(pro1);
g1.Add(pro2);
IdentifiedResult ir = new IdentifiedResult();
ir.Add(g1);
Assert.AreEqual(1, ir.Count);
Assert.AreEqual(2, ir[0].Count);
Assert.AreEqual(1, ir.GetSpectra().Count);
ir.Filter(m =>
{
return m.Sequence.Contains('A');
});
Assert.AreEqual(1, ir.Count);
Assert.AreEqual(1, ir[0].Count);
Assert.AreEqual(1, ir.GetSpectra().Count);
Assert.AreSame(pro1, ir[0][0]);
ir.Filter(m =>
{
return m.Sequence.Contains('C');
});
Assert.AreEqual(0, ir.Count);
}
