public void ClearNTerminusMod()
{
ChemicalFormula formula = new ChemicalFormula("Fe");
_mockPeptideEveryAminoAcid.SetModification(formula, Terminus.N);
_mockPeptideEveryAminoAcid.ClearModifications(Terminus.N);
Assert.IsNull(_mockPeptideEveryAminoAcid.NTerminusModification);
}
public void ClearModificationsBySites()
{
var peptide = new Peptide("AC[Fe]DEFGHIKLMNP[Fe]QRSTV[Fe]WY");
peptide.ClearModifications(ModificationSites.C | ModificationSites.V);
Assert.AreEqual("ACDEFGHIKLMNP[Fe]QRSTVWY", peptide.ToString());
}
public void ClearModificationsBySites()
{
var peptide = new Peptide("AC[Fe]DEFGHIKLMNP[Fe]QRSTV[Fe]WY");
peptide.ClearModifications(ModificationSites.C | ModificationSites.V);
Assert.AreEqual("ACDEFGHIKLMNP[Fe]QRSTVWY", peptide.ToString());
}
public void TestClearModifications()
{
Peptide a = new Peptide("ACDEFGHIKLMNPQRSTVWY");
a.AddModification(new OldSchoolChemicalFormulaModification(ChemicalFormula.ParseFormula("O"), ModificationSites.D));
a.AddModification(new OldSchoolChemicalFormulaModification(ChemicalFormula.ParseFormula("H"), ModificationSites.E));
Assert.AreEqual(2, a.ModificationCount());
a.ClearModifications();
Assert.AreEqual(0, a.ModificationCount());
a.AddModification(new OldSchoolChemicalFormulaModification(ChemicalFormula.ParseFormula("O"), ModificationSites.NTerminus));
a.AddModification(new OldSchoolModification(1), ModificationSites.TerminusC);
Assert.AreEqual(2, a.ModificationCount());
a.Fragment(FragmentTypes.y);
Peptide peptide = new Peptide("[C2H3NO]-LLL-[C2H3NO]");
ModificationSites ff = ModificationSites.NPep | ModificationSites.PepC;
peptide.ClearModifications(ff);
Assert.AreEqual("LLL", peptide.GetSequenceWithModifications());
}
public void ClearMods()
{
Peptide pepA = new Peptide("DE[Al]R[Fe]EK");
pepA.ClearModifications(new OldSchoolChemicalFormulaModification(ChemicalFormula.ParseFormula("Al")));
Assert.AreEqual("DER[Fe]EK", pepA.ToString());
pepA.ClearModifications(new OldSchoolChemicalFormulaModification(ChemicalFormula.ParseFormula("C")));
Assert.AreEqual("DER[Fe]EK", pepA.ToString());
pepA.ClearModifications();
Assert.AreEqual("DEREK", pepA.ToString());
pepA.ClearModifications();
Assert.AreEqual("DEREK", pepA.ToString());
pepA.ClearModifications(ModificationSites.Any);
Assert.AreEqual("DEREK", pepA.ToString());
pepA.ClearModifications(Terminus.C);
Assert.AreEqual("DEREK", pepA.ToString());
}