public static ISAMFile GetReader(string filename, bool skipHeaders = false, string rangeInBedFile = null)
{
ISAMFile result = null;
if (SAMUtils.IsBAMFile(filename) && !SystemUtils.IsLinux)
{
result = new BAMWindowReader(filename);
}
else
{
result = new SAMLinuxReader("samtools", filename, rangeInBedFile);
}
if (skipHeaders)
{
result.ReadHeaders();
}
return(result);
}
public override bool NeedProcess(string filename)
{
return(SAMUtils.IsBAMFile(filename));
}