try an extra filter

Author: bpblanken

v03_pipeline/lib/misc/family_entries.py

@@ -106,6 +106,7 @@ def remove_family_guids(
     ht = ht.annotate(
         family_entries=family_indexes_to_keep.map(lambda i: ht.family_entries[i]),
     )
+    ht = ht.filter(hl.any(ht.family_entries.map(hl.is_defined)))
     return ht.annotate_globals(
         family_guids=ht.family_guids.filter(
             lambda f: ~family_guids.contains(f),

v03_pipeline/lib/misc/family_entries_test.py

@@ -273,13 +273,6 @@ def test_remove_family_guids(self) -> None:
                         ],
                     ],
                 ),
-                hl.Struct(
-                    id=1,
-                    filters={'HIGH_SR_BACKGROUND'},
-                    family_entries=[
-                        None,
-                    ],
-                ),
             ],
         )