Filter variant_summary to only include records with null allele in ge…

[VarunReddy1111]

…tAllelesByGene

When querying alleles by gene, variant_summary documents should only be returned when they have no associated allele object. This prevents duplicate variant data that is already represented through allele_summary.

[claude]

Code Review

The change looks correct. The Elasticsearch query logic is sound:

• The new BoolQueryBuilder (variantWithNullAllele) correctly combines a must on category.keyword = variant_summary with a mustNot on existsQuery("allele"), so only variant summaries without an allele field are returned.
• This nested bool query is properly placed as a should clause alongside the allele_summary term query, preserving the OR semantics (match allele summaries OR variant summaries with null allele).
• The shouldQueryBuilder only contains should clauses (no must/filter), so Elasticsearch defaults minimum_should_match to 1 — at least one branch must match. This is correct.

No issues found.