test_genotype_filters.py 文件源码

def test_Xlinked_Norine_BMX(self):
        """This gene has no X-linked variant"""
        db = 'lgueneau'
        ss = samples_selection_factory(db=db,
            groups = {'affected': ['09818','09819'], 'not_affected':['09960','09961']})
        qs = Variant.objects.using(db).filter(gene_symbol__in=['BMX'], chrom='chrX')
        # Using GenotypesFilterXLinked.apply()
        variants = variants_collection_factory(db=db, qs=qs)
        var = GenotypesFilterXLinked(ss).apply(variants).variants
        self.assertEqual(len(var), 0)
        # Using FilterCollection.apply()
        fc = FiltersCollection([GenotypesFilterXLinked(ss)])
        var = fc.apply(initqs=qs, db=db).variants
        self.assertEqual(len(var), 0)


############################
#       COMPOUND HET       #
############################

#@unittest.skip('')