コード例 #1
0
 public IList<PeakData> ImportFile(TextReader peakViewReader)
 {
     var peakDatas = new List<PeakData>();
     var msFileNames = new List<string>();
     var fileReader = new DsvFileReader(peakViewReader, TextUtil.SEPARATOR_TSV);
     Assert.AreEqual(fileReader.GetFieldIndex(PROTEIN), 0);
     Assert.AreEqual(fileReader.GetFieldIndex(PEPTIDE), 1);
     Assert.AreEqual(fileReader.GetFieldIndex(LABEL), 2);
     Assert.AreEqual(fileReader.GetFieldIndex(PRECURSOR), 3);
     Assert.AreEqual(fileReader.GetFieldIndex(CHARGE), 4);
     Assert.AreEqual(fileReader.GetFieldIndex(RT), 5);
     Assert.AreEqual(fileReader.GetFieldIndex(DECOY), 6);
     for (int i = 7; i < fileReader.NumberOfFields; ++i)
     {
         msFileNames.Add(fileReader.FieldNames[i]);
     }
     while (fileReader.ReadLine() != null)
     {
         string modifiedSequence = fileReader.GetFieldByName(PEPTIDE);
         string decoyString = fileReader.GetFieldByName(DECOY);
         bool decoy;
         Assert.IsTrue(bool.TryParse(decoyString, out decoy));
         foreach (var msFileName in msFileNames)
         {
             string dataFieldString = fileReader.GetFieldByName(msFileName);
             double dataField;
             Assert.IsTrue(double.TryParse(dataFieldString, out dataField));
             var peakData = new PeakData(dataField, modifiedSequence, msFileName, decoy);
             peakDatas.Add(peakData);
         }
     }
     return peakDatas;
 }
コード例 #2
0
 public static IDictionary<string, LinearFitResult> ReadExpectedResults(Type type, string resourceName)
 {
     var result = new Dictionary<string, LinearFitResult>();
     using (var reader = GetTextReaderForManifestResource(type, resourceName))
     {
         var csvReader = new DsvFileReader(reader, ',');
         while (null != csvReader.ReadLine())
         {
             string protein = csvReader.GetFieldByName("Protein");
             var linearFitResult = new LinearFitResult(Convert.ToDouble(csvReader.GetFieldByName("log2FC"), CultureInfo.InvariantCulture))
                 .SetStandardError(Convert.ToDouble(csvReader.GetFieldByName("SE"), CultureInfo.InvariantCulture))
                 .SetTValue(Convert.ToDouble(csvReader.GetFieldByName("Tvalue"), CultureInfo.InvariantCulture))
                 .SetDegreesOfFreedom(Convert.ToInt32(csvReader.GetFieldByName("DF"), CultureInfo.InvariantCulture))
                 .SetPValue(Convert.ToDouble(csvReader.GetFieldByName("pvalue"), CultureInfo.InvariantCulture));
             result.Add(protein, linearFitResult);
         }
     }
     return result;
 }