Adir1 and Amin1 fail ```test_diplotype_clustering.py``` - no ```sex_call data```

[tristanpwdennis]

Sex calls weren't calculated for Amin1 and Adir1 due to fragmented assembly and difficulty finding the sex chromosome contigs.

The test for diplotype clustering fails accordingly

fixture = <tests.anoph.conftest.Adir1Simulator object at 0x156944c70>, api = <malariagen_data.anoph.dipclust.AnophelesDipClustAnalysis object at 0x1684fdc60>, distance_metric = 'cityblock'

    @pytest.mark.parametrize("distance_metric", ["cityblock", "euclidean"])
    @parametrize_with_cases("fixture,api", cases=".")
    def test_plot_diplotype_clustering(
        fixture, api: AnophelesDipClustAnalysis, distance_metric
    ):
        # Set up test parameters.
        all_sample_sets = api.sample_sets()["sample_set"].to_list()
        linkage_methods = (
            "single",
            "complete",
            "average",
            "weighted",
            "centroid",
            "median",
            "ward",
        )
        sample_queries = (None, "sex_call == 'F'")
        dipclust_params = dict(
            region=fixture.random_region_str(region_size=5000),
            sample_sets=[random.choice(all_sample_sets)],
            linkage_method=random.choice(linkage_methods),
            distance_metric=distance_metric,
            sample_query=random.choice(sample_queries),
            show=False,
        )

Amin1 hasn't been pushed yet but will fail in the same way.

Related to #795 #825

For amin1 and adir1, these tests either need to be omitted, modified, or new ones added.

[adilraza99]

Hi maintainers,

I'd like to take ownership of this issue and investigate the failing
test_diplotype_clustering case related to missing sex_call data.

I'll begin by reproducing the failure locally, analyzing the root cause,
and validating expected behavior before proposing any changes.
I'll share my findings here for feedback prior to opening a PR.

Please let me know if this approach works for you.

Thanks!

[adilraza99]

@tristanpwdennis @jonbrenas

Following the clarification about Amin1 and Adir1, I investigated the failing diplotype clustering test.

Both datasets contain only unknown (UNK) values for sex_call, since sex chromosomes cannot be reliably identified. When a sex_call filter is applied, no samples match, which leads to the clustering workflow failing.

I also observed that other tests handle this scenario using a no_sex_calls pattern.

I plan to open a PR shortly to align the diplotype clustering tests with the existing handling for datasets without sex chromosome calls. If you would prefer a different approach (for example, handling empty selections within the clustering workflow), I’m happy to adjust.

[jonbrenas]

I think you understand the issue, @adilraza99. Please proceed with your idea.