private void AddReadList(PacBioRead newRead)
{
var newReadList = new List <PacBioRead>();
newReadList.Add(newRead);
this.Results.Add(newReadList);
}
private void AddReadToResults(PacBioRead newRead)
{
if (this.Results.Count == 0)
{
AddReadList(newRead);
}
else
{
var currentReadList = this.Results[this.Results.Count - 1];
var firstItem = currentReadList[0];
if (firstItem.ReadNumber == newRead.ReadNumber)
{
currentReadList.Add(newRead);
}
else
{
AddReadList(newRead);
}
}
}
private void ParseFile(string fileToRead)
{
try
{
using (StreamReader sr = File.OpenText(fileToRead))
{
int skipCount = 0;
int lineCount = 0;
string s;
List <string> linesToParse = new List <string>();
while ((s = sr.ReadLine()) != null)
{
if (skipCount < 9)
{
skipCount++;
continue;
}
if (lineCount % 4 != 3)
{
linesToParse.Add(s);
}
else
{
PacBioRead newRead = new PacBioRead(linesToParse);
AddReadToResults(newRead);
linesToParse.Clear();
}
lineCount++;
}
}
}
catch
{
Console.WriteLine("An error occured while trying to read " + fileToRead);
Environment.Exit(1);
}
}
