public override IEnumerable <string> Process()
{
var result = new List <string>();
if (File.Exists(options.CountFile))
{
Progress.SetMessage("Reading count table from " + options.CountFile + " ...");
}
var map = options.GetCountMap();
var dic = new Dictionary <int, CountItem>();
DoProcess(m => m.SeqString.Length >= options.MinimumReadLength, map, options.OutputFile, dic);
using (var sw = new StreamWriter(options.SummaryFile))
{
sw.WriteLine("Length\tReadsNotNTA\tReadsCC\tReadsCCA\tReadsCCAA");
var lens = dic.Keys.OrderBy(m => m).ToArray();
foreach (var len in lens)
{
sw.WriteLine("{0}\t{1}\t{2}\t{3}\t{4}", len, dic[len].notNTA, dic[len].CC, dic[len].CCA, dic[len].CCAA);
}
}
Progress.End();
return(result);
}
