public override void WriteToFile(string filename, List <IIdentifiedSpectrum> t)
{
using (var sw = new StreamWriter(filename))
{
sw.WriteLine(PeptideFormat.GetHeader());
foreach (IIdentifiedSpectrum mph in t)
{
sw.WriteLine(PeptideFormat.GetString(mph));
}
if (!NotExportSummary)
{
sw.WriteLine();
sw.WriteLine("----- summary -----");
var totalCount = IdentifiedSpectrumUtils.GetSpectrumCount(t);
var totalUniqueCount = IdentifiedSpectrumUtils.GetUniquePeptideCount(t);
sw.WriteLine("Total spectra: " + totalCount);
sw.WriteLine("Total peptides: " + totalUniqueCount);
var tags = (from s in t
select s.Tag).Distinct().ToList();
if (tags.Count > 1)
{
tags.Sort();
sw.WriteLine();
sw.WriteLine("Tag\tSpectra\tPeptides");
sw.WriteLine("All\t{0}\t{1}", totalCount, totalUniqueCount);
foreach (var tag in tags)
{
var tagspectra = from s in t
where s.Tag == tag
select s;
sw.WriteLine("{0}\t{1}\t{2}", tag, IdentifiedSpectrumUtils.GetSpectrumCount(tagspectra), IdentifiedSpectrumUtils.GetUniquePeptideCount(tagspectra));
}
}
}
}
string enzymeFile = filename + ".enzyme";
new ProteaseFile().Write(enzymeFile, t);
}
public void WriteToFile(string filename, List <IIdentifiedSpectrum> spectra)
{
using (var sw = new StreamWriter(filename))
{
sw.WriteLine(PeptideFormat.GetHeader());
foreach (IIdentifiedSpectrum pep in spectra)
{
sw.WriteLine(PeptideFormat.GetString(pep));
}
}
using (var sw = new StreamWriter(filename + ".summary"))
{
WriteSummary(sw, IdentifiedSpectrumUtils.GetSpectrumCount(spectra), IdentifiedSpectrumUtils.GetUniquePeptideCount(spectra));
}
string enzymeFile = filename + ".enzyme";
new ProteaseFile().Write(enzymeFile, spectra);
}