Merge pull request #168 from apriha/develop

v2.7.2
apriha · Apr 20, 2023 · f5df993 · f5df993
2 parents c29785b + 17bc3bf
commit f5df993
Show file tree

Hide file tree

Showing 2 changed files with 22 additions and 20 deletions.
diff --git a/tests/__init__.py b/tests/__init__.py
@@ -545,13 +545,16 @@ def generic_snps(self):
 
     def generic_snps_vcf(self):
         df = self.generic_snps()
-        return df.append(
-            self.create_snp_df(
-                rsid=["rs" + str(i) for i in range(12, 18)],
-                chrom=["1"] * 6,
-                pos=list(range(112, 118)),
-                genotype=[np.nan] * 6,
-            )
+        return pd.concat(
+            [
+                df,
+                self.create_snp_df(
+                    rsid=["rs" + str(i) for i in range(12, 18)],
+                    chrom=["1"] * 6,
+                    pos=list(range(112, 118)),
+                    genotype=[np.nan] * 6,
+                ),
+            ]
         )
 
     def run_parsing_tests(

diff --git a/tests/test_snps.py b/tests/test_snps.py
@@ -731,12 +731,8 @@ def assert_results(self, results, expected_results):
                         check_names=True,
                     )
                 else:
-                    pd.testing.assert_index_equal(
-                        result[key],
-                        pd.Index([], name="rsid"),
-                        check_exact=True,
-                        check_names=True,
-                    )
+                    self.assertTrue(result[key].empty)
+                    self.assertEqual(result[key].name, "rsid")
 
     def test_source_snps(self):
         with tempfile.TemporaryDirectory() as tmpdir:
@@ -1029,13 +1025,16 @@ def test_appending_dfs(self):
 
     def test_merge_chrom(self):
         s1 = SNPs("tests/input/generic.csv")
-        df = s1.snps.append(
-            self.create_snp_df(
-                rsid=["rs100", "rs101", "rs102", "rs103"],
-                chrom=["Y", "Y", "Y", "Y"],
-                pos=[100, 101, 102, 103],
-                genotype=["A", np.nan, "A", "A"],
-            )
+        df = pd.concat(
+            [
+                s1.snps,
+                self.create_snp_df(
+                    rsid=["rs100", "rs101", "rs102", "rs103"],
+                    chrom=["Y", "Y", "Y", "Y"],
+                    pos=[100, 101, 102, 103],
+                    genotype=["A", np.nan, "A", "A"],
+                ),
+            ]
         )
         s1._snps = df.copy()
         s2 = SNPs()