public static void Run(Samples samples, DBOptions options)
{
//PeptidAce.Utilities.Methods.UptimizeOptions upper = new Utilities.Methods.UptimizeOptions(options, samples);
//upper.Run();
Ace ace = new Ace(options, samples);
ace.Preload(false, false);
ace.PrepareQueries();
bool keepUptimizing = true;
int bestCount = 0;
while (keepUptimizing)
{
try
{
foreach (Query query in ace.AllQueries)
{
query.psms.Clear();
query.precursor.psms_AllPossibilities.Clear();
if (query.precursor.psms != null)
{
query.precursor.psms.Clear();
}
}
Result rez = ace.LaunchSearch(ace.AllQueries);
int nbCorrectMatches = 0;
int nbTarget = 0;
foreach (Query query in rez.queries)
{
if (query.psms.Count > 0)
{
if (query.Target)
{
nbTarget++;
if (query.psms[0].Peptide.Sequence.CompareTo(query.sample.nameColumn) == 0)
{
nbCorrectMatches++;
}
}
}
}
options.ConSole.WriteLine("NbCorrectMatches : " + nbCorrectMatches + " (" + nbTarget + " targets)");//332
if (nbCorrectMatches > bestCount)
{
bestCount = nbCorrectMatches;
options.Save(options.OutputFolder + "Options_" + bestCount + ".csv");
}
options.RandomizeParams();
}
catch (Exception ex)
{
Console.WriteLine(ex.Message);
}
}
options.Save(options.OutputFolder + "UptimizedOptions.csv");
//*/
}