from gfa_core.gene_family_scope import reference_search_roots


def test_reference_search_roots_reads_configured_root(monkeypatch, tmp_path) -> None:
    reference_root = tmp_path / "references"
    reference_root.mkdir()
    monkeypatch.setenv("PLANTAI_REF_DATA_ROOT", str(reference_root))

    roots = reference_search_roots(tmp_path / "input")

    assert reference_root.resolve() in roots