Remove unused errors

ravwojdyla · Sep 23, 2020 · d99aa7e · d99aa7e
1 parent 999f56b
commit d99aa7e
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Showing 5 changed files with 7 additions and 7 deletions.
diff --git a/sgkit/display.py b/sgkit/display.py
@@ -179,7 +179,7 @@ def display_genotypes(
     ds_abbr = truncate(
         ds_calls, max_sizes={"variants": max_variants, "samples": max_samples}
     )
-    df = ds_abbr.to_dataframe().unstack(level="ploidy")  # type: ignore[no-untyped-call]
+    df = ds_abbr.to_dataframe().unstack(level="ploidy")
 
     # Convert each genotype to a string representation
     def calls_to_str(r: pd.DataFrame) -> str:

diff --git a/sgkit/stats/utils.py b/sgkit/stats/utils.py
@@ -43,7 +43,7 @@ def concat_2d(ds: Dataset, dims: Tuple[Hashable, Hashable]) -> DataArray:
             # Add concatenation axis
             arr = arr.expand_dims(dim=dims[1], axis=1)
         arrs.append(arr)
-    return xr.concat(arrs, dim=dims[1])  # type: ignore[no-any-return,no-untyped-call]
+    return xr.concat(arrs, dim=dims[1])
 
 
 def r2_score(YP: ArrayLike, YT: ArrayLike) -> ArrayLike:

diff --git a/sgkit/tests/test_association.py b/sgkit/tests/test_association.py
@@ -132,7 +132,7 @@ def _get_statistics(
         )
         res = _sm_statistics(ds, i, add_intercept)
         df_pred.append(
-            dsr.to_dataframe()  # type: ignore[no-untyped-call]
+            dsr.to_dataframe()
             .rename(columns=lambda c: c.replace("variant_", ""))
             .iloc[i]
             .to_dict()
@@ -183,9 +183,9 @@ def run(traits: Sequence[str]) -> Dataset:
 
     traits = [f"trait_{i}" for i in range(ds.attrs["n_trait"])]
     # Run regressions on individual traits and concatenate resulting statistics
-    dfr_single = xr.concat([run([t]) for t in traits], dim="traits").to_dataframe()  # type: ignore[no-untyped-call]
+    dfr_single = xr.concat([run([t]) for t in traits], dim="traits").to_dataframe()
     # Run regressions on all traits simulatenously
-    dfr_multi: DataFrame = run(traits).to_dataframe()  # type: ignore[no-untyped-call]
+    dfr_multi: DataFrame = run(traits).to_dataframe()
     pd.testing.assert_frame_equal(dfr_single, dfr_multi)
 
 

diff --git a/sgkit/tests/test_hwe.py b/sgkit/tests/test_hwe.py
@@ -137,7 +137,7 @@ def test_hwep_dataset__precomputed_counts(ds_neq: Dataset) -> None:
     ds = ds_neq
     ac = ds["call_genotype"].sum(dim="ploidy")
     cts = [1, 0, 2]  # arg order: hets, hom1, hom2
-    gtc = xr.concat([(ac == ct).sum(dim="samples") for ct in cts], dim="counts").T  # type: ignore[no-untyped-call]
+    gtc = xr.concat([(ac == ct).sum(dim="samples") for ct in cts], dim="counts").T
     ds = ds.assign(**{"variant_genotype_counts": gtc})
     p = hwep_test(ds, genotype_counts="variant_genotype_counts", merge=False)
     assert np.all(p < 1e-8)

diff --git a/sgkit/tests/test_regenie.py b/sgkit/tests/test_regenie.py
@@ -187,7 +187,7 @@ def prepare_stage_3_sgkit_results(
     )
     dsr = dsr.merge(ds[["variant_id"]])
     dsr = dsr.assign(outcome=xr.DataArray(df_trait.columns, dims=("outcomes")))
-    df = dsr.to_dataframe().reset_index(drop=True)  # type: ignore[no-untyped-call]
+    df = dsr.to_dataframe().reset_index(drop=True)
     return df