public void TestGetReversedSequence()
{
var options = new ReversedDatabaseBuilderOptions()
{
DecoyKey = "REVERSED",
};
var builder = new ReversedDatabaseBuilder(options);
var seq = new Sequence("sp|Q12345 sp protein", "ABCDE");
options.DecoyType = DecoyType.Start;
Assert.AreEqual("REVERSED_sp|Q12345", builder.GetReversedSequence(1, seq).Name);
options.DecoyType = DecoyType.Middle;
Assert.AreEqual("sp|REVERSED_Q12345", builder.GetReversedSequence(1, seq).Name);
}
protected override IProcessor GetProcessor()
{
var options = new ReversedDatabaseBuilderOptions()
{
ReversedOnly = reversedOnly.Checked,
IsPseudoAminoacid = isPseudoAminoacid.Checked,
PseudoAminoacids = pseudoAminoacids.Text,
IsPseudoForward = isPseudoForward.SelectedIndex == 0,
ContaminantFile = includeContaminantProteins.Checked ? contaminantFile.FullName : string.Empty,
InputFile = sourceDatabase.FullName,
DecoyType = decoyTypes.SelectedItem
};
if (!options.PrepareOptions())
{
throw new ArgumentException(options.ParsingErrors.Merge("\n"));
}
else
{
return(new ReversedDatabaseBuilder(options));
}
}
public ReversedDatabaseBuilder(ReversedDatabaseBuilderOptions options)
{
this.options = options;
}