private void RunFastHCluster(string name, string dirName, string alignFile = null, DCDFile dcd = null)
{
DateTime cpuPart1 = DateTime.Now;
ClusterOutput clustOut = null;
DistanceMeasure distance = null;
if (dcd == null)
{
distance = CreateMeasure(name, dirName, opt.hierarchical.distance, opt.hierarchical.atoms, opt.hierarchical.reference1DjuryFast,
alignFile, opt.hierarchical.hammingProfile, opt.hierarchical.jury1DProfileFast);
}
else
{
distance = CreateMeasureForDCD(dcd, opt.hierarchical.distance, opt.hierarchical.atoms, opt.hierarchical.reference1DjuryFast,
opt.hierarchical.alignmentFileName, opt.hierarchical.hammingProfile, opt.hierarchical.jury1DProfileFast);
}
FastDendrog km;
km = new FastDendrog(distance, opt.hierarchical, dirName);
if (beginJob != null)
{
beginJob(currentProcessName, km.ToString(), dirName, distance.ToString());
}
progressDic.Add(name, km);
distance.InitMeasure();
DateTime cpuPart2 = DateTime.Now;
clType = km.ToString();
clustOut = km.Run(new List <string>(distance.structNames.Keys));
UpdateOutput(name, dirName, alignFile, clustOut, distance.ToString(), cpuPart1, cpuPart2, km);
}
private void RunFastHCluster(string name, string dirName, string alignFile=null, DCDFile dcd = null)
{
DateTime cpuPart1 = DateTime.Now;
ClusterOutput clustOut = null;
DistanceMeasure distance = null;
if(dcd==null)
distance = CreateMeasure(name,dirName,opt.hierarchical.distance, opt.hierarchical.atoms, opt.hierarchical.reference1DjuryFast,
alignFile, opt.hierarchical.hammingProfile, opt.hierarchical.jury1DProfileFast);
else
distance =CreateMeasureForDCD(dcd, opt.hierarchical.distance, opt.hierarchical.atoms, opt.hierarchical.reference1DjuryFast,
opt.hierarchical.alignmentFileName, opt.hierarchical.hammingProfile, opt.hierarchical.jury1DProfileFast);
FastDendrog km;
km = new FastDendrog(distance, opt.hierarchical,dirName);
progressDic.Add(name, km);
distance.InitMeasure();
DateTime cpuPart2 = DateTime.Now;
clType = km.ToString();
clustOut = km.Run(new List<string>(distance.structNames.Keys));
UpdateOutput(name, dirName,alignFile, clustOut, distance.ToString(), cpuPart1, cpuPart2, km);
}