private bool Parse(string fileName)
{
var parser = new TsvFileParser(fileName);
var scan = parser.GetData("Scan").Select(s => Convert.ToInt32(s)).ToArray();
var pre = parser.GetData("Pre").Where(s => s.Length == 1).Select(p => p[0]).ToArray();
if (pre.Length != parser.NumData)
{
return(false);
}
var sequence = parser.GetData("Sequence").ToArray();
var post = parser.GetData("Post").Where(s => s.Length == 1).Select(p => p[0]).ToArray();
if (post.Length != parser.NumData)
{
return(false);
}
var mod = parser.GetData("Modifications").ToArray();
var composition = parser.GetData("Composition").Select(Composition.Parse).ToArray();
var proteinName = parser.GetData("ProteinName").ToArray();
var proteinDesc = parser.GetData("ProteinDesc").ToArray();
var proteinLength = parser.GetData("ProteinLength").Select(s => Convert.ToInt32(s)).ToArray();
var start = parser.GetData("Start").Select(s => Convert.ToInt32(s)).ToArray();
var end = parser.GetData("End").Select(s => Convert.ToInt32(s)).ToArray();
var charge = parser.GetData("Charge").Select(s => Convert.ToInt32(s)).ToArray();
var mostAbundantIsotopeMz = parser.GetData("MostAbundantIsotopeMz").Select(Convert.ToDouble).ToArray();
var mass = parser.GetData("Mass").Select(Convert.ToDouble).ToArray();
var numMatchedFragment = parser.GetData("#MatchedFragments").Select(s => Convert.ToInt32(s)).ToArray();
var qValue = parser.GetData("QValue").Select(Convert.ToDouble).ToArray();
var pepQValue = parser.GetData("PepQValue").Select(Convert.ToDouble).ToArray();
for (var i = 0; i < parser.NumData; i++)
{
var id = new MsPathFinderId(scan[i], pre[i], sequence[i], post[i], mod[i],
composition[i], proteinName[i], proteinDesc[i], proteinLength[i],
start[i], end[i], charge[i], mostAbundantIsotopeMz[i], mass[i],
numMatchedFragment[i], qValue[i], pepQValue[i])
;
_idList.Add(id);
if (!_scanNumToPrSm.ContainsKey(scan[i]))
{
_scanNumToPrSm.Add(scan[i], id);
}
}
return(true);
}
private bool Parse(string fileName)
{
var parser = new TsvFileParser(fileName);
var scan = parser.GetData("Scan").Select(s => Convert.ToInt32(s)).ToArray();
var pre = parser.GetData("Pre").Where(s => s.Length == 1).Select(p => p[0]).ToArray();
if (pre.Length != parser.NumData) return false;
var sequence = parser.GetData("Sequence").ToArray();
var post = parser.GetData("Post").Where(s => s.Length == 1).Select(p => p[0]).ToArray();
if (post.Length != parser.NumData) return false;
var mod = parser.GetData("Modifications").ToArray();
var composition = parser.GetData("Composition").Select(Composition.Parse).ToArray();
var proteinName = parser.GetData("ProteinName").ToArray();
var proteinDesc = parser.GetData("ProteinDesc").ToArray();
var proteinLength = parser.GetData("ProteinLength").Select(s => Convert.ToInt32(s)).ToArray();
var start = parser.GetData("Start").Select(s => Convert.ToInt32(s)).ToArray();
var end = parser.GetData("End").Select(s => Convert.ToInt32(s)).ToArray();
var charge = parser.GetData("Charge").Select(s => Convert.ToInt32(s)).ToArray();
var mostAbundantIsotopeMz = parser.GetData("MostAbundantIsotopeMz").Select(Convert.ToDouble).ToArray();
var mass = parser.GetData("Mass").Select(Convert.ToDouble).ToArray();
var numMatchedFragment = parser.GetData("#MatchedFragments").Select(s => Convert.ToInt32(s)).ToArray();
var qValue = parser.GetData("QValue").Select(Convert.ToDouble).ToArray();
var pepQValue = parser.GetData("PepQValue").Select(Convert.ToDouble).ToArray();
for (var i = 0; i < parser.NumData; i++)
{
var id = new MsPathFinderId(scan[i], pre[i], sequence[i], post[i], mod[i],
composition[i], proteinName[i], proteinDesc[i], proteinLength[i],
start[i], end[i], charge[i], mostAbundantIsotopeMz[i], mass[i],
numMatchedFragment[i], qValue[i], pepQValue[i])
;
_idList.Add(id);
if(!_scanNumToPrSm.ContainsKey(scan[i])) _scanNumToPrSm.Add(scan[i], id);
}
return true;
}
