Add test case for LPL field already present

Author: Will-Tyler

tests/data/vcf/local_alleles.vcf.gz

@@ -449,6 +449,8 @@ def test_call_LAA(self, ds):
             [[1, 2, 3], [2, 3, -2]],
             [[1, -2, -2], [1, -2, -2]],
             [[2, -2, -2], [1, -2, -2]],
+            [[1, -2, -2], [-1, -2, -2]],
+            [[2, -2, -2], [2, -2, -2]],
         ]
         nt.assert_array_equal(ds.call_LAA.values, call_LAA)
 
@@ -478,6 +480,14 @@ def test_call_LPL(self, ds):
                 [0, 30, -2, -2, -2, -2, -2, -2, -2, -2],
                 [0, 0, -2, -2, -2, -2, -2, -2, -2, -2],
             ],
+            [
+                [30, 30, 30, -2, -2, -2, -2, -2, -2, -2],
+                [30, 30, 30, -2, -2, -2, -2, -2, -2, -2],
+            ],
+            [
+                [10, 40, 60, -2, -2, -2, -2, -2, -2, -2],
+                [10, 40, 60, -2, -2, -2, -2, -2, -2, -2],
+            ],
         ]
         nt.assert_array_equal(ds.call_LPL.values, call_LPL)