public virtual void ConvertTo(BuildSummaryOptions result)
{
result.ApplicationTitle = this.ApplicationTitle;
result.MergeResult = this.MergeResult;
result.KeepTopPeptideFromSameEngineButDifferentSearchParameters = this.MergeResultFromSameEngineButDifferentSearchParameters;
result.Classification.ClassifyByCharge = this.ClassifyByCharge;
result.Classification.ClassifyByMissCleavage = this.ClassifyByMissCleavage;
result.Classification.ClassifyByModification = this.ClassifyByModification;
result.Classification.ClassifyByNumProteaseTermini = this.ClassifyByNumProteaseTermini;
result.Classification.ModifiedAminoacids = this.ModifiedAminoacids;
result.Classification.ClassifyByProteinTag = this.ClassifyByProteinTag;
result.Classification.ProteinTag = this.ProteinTag;
result.FalseDiscoveryRate.FilterByFdr = this.FilterByFdr;
result.FalseDiscoveryRate.FdrLevel = this.FdrLevel;
result.FalseDiscoveryRate.FdrType = this.FdrType;
result.FalseDiscoveryRate.FdrValue = this.FdrValue;
result.FalseDiscoveryRate.FdrPeptideCount = this.FdrPeptideCount;
result.FalseDiscoveryRate.MaxPeptideFdr = this.MaxPeptideFdr;
result.FalseDiscoveryRate.TargetDecoyConflictType = this.TargetDecoyConflictType;
result.Database = new DatabaseOptions(this.Database);
result.PeptideFilter.FilterBySequenceLength = this.FilterBySequenceLength;
result.PeptideFilter.MinSequenceLength = this.MinSequenceLength;
var dics = from s in this.PathNameBin
group s.Key by s.Value;
result.DatasetList.Clear();
foreach (var tag in dics)
{
var ds = DatasetListOptions.GetDatasetOption(this.SearchEngine);
ds.Name = tag.Key;
ds.Parent = result;
ds.PathNames = (from t in tag
select t).ToList();
ds.FilterByPrecursor = this.FilterByPrecursor;
ds.FilterByPrecursorIsotopic = this.FilterByPrecursorSecondIsotopic;
ds.FilterByPrecursorDynamicTolerance = this.FilterByPrecursorDynamicTolerance;
ds.PrecursorPPMTolerance = this.PrecursorPPMTolerance;
result.DatasetList.Add(ds);
}
}
public void Test()
{
var options = new DatasetListOptions();
options.Add(new MascotDatasetOptions()
{
PathNames = new string[] { "111", "222" }.ToList(),
FilterByPrecursor = true,
PrecursorPPMTolerance = 0.5,
FilterByExpectValue = true,
FilterByScore = true,
MinScore = 25,
MaxExpectValue = 0.01
});
options.Add(new SequestDatasetOptions()
{
MinDeltaCn = 0.1,
FilterByDeltaCn = true,
FilterByPrecursor = true,
FilterBySpRank = true,
FilterByXcorr = true,
PathNames = new string[] { "333", "444" }.ToList(),
PrecursorPPMTolerance = 0.5,
MaxSpRank = 4,
MinXcorr1 = 1.9,
MinXcorr2 = 2.2,
MinXcorr3 = 3.75,
SkipSamePeptideButDifferentModificationSite = true,
MaxModificationDeltaCn = 0.08
});
XElement root = new XElement("Root");
options.Save(root);
Console.WriteLine(root);
var target = new DatasetListOptions();
target.Load(root);
Assert.AreEqual(options[0].SearchEngine, target[0].SearchEngine);
Assert.AreEqual(options[1].SearchEngine, target[1].SearchEngine);
}
public void Test()
{
var options = new DatasetListOptions();
options.Add(new MascotDatasetOptions()
{
PathNames = new string[] { "111", "222" }.ToList(),
FilterByPrecursor = true,
PrecursorPPMTolerance = 0.5,
FilterByExpectValue = true,
FilterByScore = true,
MinScore = 25,
MaxExpectValue = 0.01
});
options.Add(new SequestDatasetOptions()
{
MinDeltaCn = 0.1,
FilterByDeltaCn = true,
FilterByPrecursor = true,
FilterBySpRank = true,
FilterByXcorr = true,
PathNames = new string[] { "333", "444" }.ToList(),
PrecursorPPMTolerance = 0.5,
MaxSpRank = 4,
MinXcorr1 = 1.9,
MinXcorr2 = 2.2,
MinXcorr3 = 3.75,
SkipSamePeptideButDifferentModificationSite = true,
MaxModificationDeltaCn = 0.08
});
XElement root = new XElement("Root");
options.Save(root);
Console.WriteLine(root);
var target = new DatasetListOptions();
target.Load(root);
Assert.AreEqual(options[0].SearchEngine, target[0].SearchEngine);
Assert.AreEqual(options[1].SearchEngine, target[1].SearchEngine);
}
