public bool IsComplete()
{
var completePair = Read1 != null && Read2 != null;
if (!completePair)
{
return(false);
}
var expectedSupplementary = (Read1.HasSupplementaryAlignment() ? Read1.GetSupplementaryAlignments().Count : 0) + (Read2.HasSupplementaryAlignment() ? Read2.GetSupplementaryAlignments().Count : 0);
var supplementariesCollected = expectedSupplementary <= (Read1SupplementaryAlignments.Count + Read2SupplementaryAlignments.Count); // TODO can you have multiple supplementary?
return(supplementariesCollected);
}
public bool IsComplete(bool requireSupplementaryForCompletion = true)
{
var completePair = Read1 != null && Read2 != null;
if (!completePair)
{
return(false);
}
if (requireSupplementaryForCompletion)
{
var r1SupplementariesCollected = !Read1.HasSupplementaryAlignment() || Read1.GetSupplementaryAlignments().Count <= (Read1SupplementaryAlignments?.Count ?? 0);
var r2SupplementariesCollected = !Read2.HasSupplementaryAlignment() || Read2.GetSupplementaryAlignments().Count <= (Read2SupplementaryAlignments?.Count ?? 0);
return(r1SupplementariesCollected && r2SupplementariesCollected);
}
return(true);
}