add ambiguous variant to test data and fix row_nr

nebfield · nebfield · commit d101b40a82e9 · 2024-08-05T12:09:03.000+01:00
diff --git a/pgscatalog.match/tests/data/duplicated_scorefile.txt b/pgscatalog.match/tests/data/duplicated_scorefile.txt
@@ -1,5 +1,6 @@
 chr_name	chr_position	effect_allele	other_allele	effect_weight	effect_type	is_duplicated	accession	row_nr
 11	69331418	C	T	0.210422987	additive	FALSE	test	0
-11	69331418	T	C	0.210422987	additive	FALSE	test2	1
-11	69379161	A	C	0.018723614	additive	FALSE	test2	2
-5	1279790	T	C	-0.005213567	additive	FALSE	test3	4
+11	69331418	T	C	0.210422987	additive	FALSE	test2	0
+11	69379161	A	C	0.018723614	additive	FALSE	test2	1
+5	1279790	T	C	-0.005213567	additive	FALSE	test3	0
+18	24337424	C	G	-0.1	additive	FALSE	test3	1
diff --git a/pgscatalog.match/tests/test_match_cli.py b/pgscatalog.match/tests/test_match_cli.py
@@ -110,7 +110,7 @@ def test_duplicated(tmp_path_factory, good_variants, duplicated_scorefile):
             "--outdir",
             str(outdir),
             "--min_overlap",
-            "0.75",
+            "0.5",
         )
     ]
     flargs = list(itertools.chain(*args))

Original file line number	Diff line number	Diff line change
`@@ -110,7 +110,7 @@ def test_duplicated(tmp_path_factory, good_variants, duplicated_scorefile):`
`110`	`110`	`"--outdir",`
`111`	`111`	`str(outdir),`
`112`	`112`	`"--min_overlap",`
`113`		`- "0.75",`
	`113`	`+ "0.5",`
`114`	`114`	`)`
`115`	`115`	`]`
`116`	`116`	`flargs = list(itertools.chain(*args))`