private static IList<PeakData> ImportFile(TextReader peakViewReader)
{
var peakDatas = new List<PeakData>();
var msFileNames = new List<string>();
var fileReader = new DsvFileReader(peakViewReader, TextUtil.SEPARATOR_TSV);
Debug.Assert(Equals(fileReader.GetFieldIndex(PROTEIN), 0));
Debug.Assert(Equals(fileReader.GetFieldIndex(PEPTIDE), 1));
Debug.Assert(Equals(fileReader.GetFieldIndex(LABEL), 2));
Debug.Assert(Equals(fileReader.GetFieldIndex(PRECURSOR), 3));
Debug.Assert(Equals(fileReader.GetFieldIndex(CHARGE), 4));
Debug.Assert(Equals(fileReader.GetFieldIndex(RT), 5));
Debug.Assert(Equals(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;
var hasDecoyValue = bool.TryParse(decoyString, out decoy);
Debug.Assert(hasDecoyValue);
foreach (var msFileName in msFileNames)
{
string dataFieldString = fileReader.GetFieldByName(msFileName);
double dataField;
var hasDataFieldValue = double.TryParse(dataFieldString, out dataField);
Debug.Assert(hasDataFieldValue);
var peakData = new PeakData(dataField, modifiedSequence, msFileName, decoy);
peakDatas.Add(peakData);
}
}
return peakDatas;
}
private static IList <PeakData> ImportFile(TextReader peakViewReader)
{
var peakDatas = new List <PeakData>();
var msFileNames = new List <string>();
var fileReader = new DsvFileReader(peakViewReader, TextUtil.SEPARATOR_TSV);
Debug.Assert(Equals(fileReader.GetFieldIndex(PROTEIN), 0));
Debug.Assert(Equals(fileReader.GetFieldIndex(PEPTIDE), 1));
Debug.Assert(Equals(fileReader.GetFieldIndex(LABEL), 2));
Debug.Assert(Equals(fileReader.GetFieldIndex(PRECURSOR), 3));
Debug.Assert(Equals(fileReader.GetFieldIndex(CHARGE), 4));
Debug.Assert(Equals(fileReader.GetFieldIndex(RT), 5));
Debug.Assert(Equals(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;
var hasDecoyValue = bool.TryParse(decoyString, out decoy);
Debug.Assert(hasDecoyValue);
foreach (var msFileName in msFileNames)
{
string dataFieldString = fileReader.GetFieldByName(msFileName);
double dataField;
var hasDataFieldValue = double.TryParse(dataFieldString, out dataField);
Debug.Assert(hasDataFieldValue);
var peakData = new PeakData(dataField, modifiedSequence, msFileName, decoy);
peakDatas.Add(peakData);
}
}
return(peakDatas);
}
