public virtual void MapReadToFeatureAndRemoveFromMap(List <FeatureLocation> allFeatures, Dictionary <string, Dictionary <char, List <SAMAlignedLocation> > > chrStrandReadMap)
{
var features = allFeatures.Where(l => Accept(l)).ToList();
Progress.SetMessage("Mapping reads to {0} {1} entries.", features.Count, MapperName);
if (features.Count > 0)
{
MapReadToFeature(features, chrStrandReadMap);
var reads = SmallRNAUtils.GetMappedReads(features);
Progress.SetMessage("There are {0} SAM entries mapped to {1} entries.", reads.Count, MapperName);
SmallRNAUtils.RemoveReadsFromMap(chrStrandReadMap, reads);
}
else
{
Progress.SetMessage("There are 0 SAM entries mapped to {0} entries.", MapperName);
}
}
