public Region(string _name, string typename) : base()
{
BlastHit = null;
RegionTypeName = typename;
RegionName = _name;
RegElements = new Dictionary <string, List <MiscElement> > ();
FragPerKiloMil = new Dictionary <string, List <FKPM> > ();
}
public Region(string _name, string typename, int _start, int _end)
: base(_start, _end, Sense.None)
{
BlastHit = null;
RegionTypeName = typename;
RegionName = _name;
RegElements = new Dictionary <string, List <MiscElement> > ();
FragPerKiloMil = new Dictionary <string, List <FKPM> > ();
}
public void LoadOutFmt6(string fileName)
{
MainData.LoadedBlasts = 0;
Dictionary <string, BlastHit> bhits = new Dictionary <string, BlastHit> ();
string line = "";
using (StreamReader sr = new StreamReader(fileName)) {
while ((line = sr.ReadLine()) != null)
{
string[] spstr = line.Split('\t');
string[] spstr2 = spstr [0].Split('|');
bool parseSuccess = true;
double ev; double pid;
if (!double.TryParse(spstr [2], out pid))
{
parseSuccess = false;
}
if (!double.TryParse(spstr [10], out ev))
{
parseSuccess = false;
}
if (parseSuccess)
{
BlastHit next = new BlastHit(spstr [1], pid, ev);
if (!bhits.ContainsKey(spstr2 [0]))
{
bhits.Add(spstr2 [0], next);
}
}
}
}
foreach (KeyValuePair <string, BlastHit> kvp in bhits)
{
if (MainData.GeneToScaffDict.ContainsKey(kvp.Key))
{
if (Scaffolds [MainData.GeneToScaffDict [kvp.Key]].Genes.ContainsKey(kvp.Key))
{
Scaffolds [MainData.GeneToScaffDict [kvp.Key]].Genes [kvp.Key].BlastHit = kvp.Value;
MainData.LoadedBlasts++;
}
}
if (MainData.RegionToScaffDict.ContainsKey(kvp.Key))
{
if (Scaffolds [MainData.RegionToScaffDict [kvp.Key]].Regions.ContainsKey(kvp.Key))
{
Scaffolds [MainData.RegionToScaffDict [kvp.Key]].Regions [kvp.Key].BlastHit = kvp.Value;
MainData.LoadedBlasts++;
}
}
}
}