Consensus-Sequence-Block:sequence length #66
Description
For every consensus-sequence-block node, the child sequence node must have a length of (end - start).
This is a problem with the validator. Start and end attributes come from CSB nodes, and I currently compare them directly with the length of the CSB:sequence. Variants (esp. insert and delete) are disregarded, but shouldn’t be. Corresponds to rule #4.2.3.e.
Solution: This will take some programming. Variants are complicated, but it's important to get it right, so recipients know exactly what the indices are pointing to. How should I calculate expected CSB:sequence length? I suppose I can determine what variants are insertions/deletions based on comparisons with reference/alternate bases. Don’t care about substitutions.
Expected consensus-sequence-block length = (CSB:end – CSB:start) - “deletions” + “insertions”