protected override IProcessor GetProcessor()
{
string dbFile;
if (peptideFile.Exists)
{
dbFile = peptideFile.FullName;
}
else
{
dbFile = outputFile.FullName;
}
var options = new MS3LibraryBuilderOptions()
{
PrecursorPPMTolerance = this.precursorPPM.Value,
FragmentPPMTolerance = this.fragmentPPM.Value,
MaxFragmentPeakCount = this.maxFragmentPeakCount.Value,
PeptideFile = this.peptideFile.FullName,
RawFiles = this.rawFiles.FileNames,
OutputFile = this.outputFile.FullName,
MinIdentifiedSpectraPerPeptide = this.minSpectraPerPeptide.Value,
MaxTerminalLossLength = maxTerminalLoss.Value,
MinSequenceLength = minSequenceLength.Value,
Modification = txtModification.Text
};
return(new MS3LibraryBuilder(options));
}
public MS3LibraryBuilder(MS3LibraryBuilderOptions options)
{
this.options = options;
}