From 08a27b65b91cec12ec2a44945090ca8b9fabd8dd Mon Sep 17 00:00:00 2001
From: Frederick Muriuki Muriithi
Date: Fri, 11 Mar 2022 12:09:22 +0300
Subject: Fix typing errors

---
 gn3/computations/partial_correlations.py | 2 +-
 gn3/db/genotypes.py                      | 4 ++--
 mypy.ini                                 | 3 +++
 3 files changed, 6 insertions(+), 3 deletions(-)

diff --git a/gn3/computations/partial_correlations.py b/gn3/computations/partial_correlations.py
index 1a37838..5017796 100644
--- a/gn3/computations/partial_correlations.py
+++ b/gn3/computations/partial_correlations.py
@@ -60,7 +60,7 @@ def control_samples(controls: Sequence[dict], sampleslist: Sequence[str]):
             __process_sample__, sampleslist, (tuple(), tuple(), tuple()))
 
     return reduce(
-        lambda acc, item: (
+        lambda acc, item: (# type: ignore[arg-type, return-value]
             acc[0] + (item[0],),
             acc[1] + (item[1],),
             acc[2] + (item[2],),
diff --git a/gn3/db/genotypes.py b/gn3/db/genotypes.py
index 0e19a5f..6f867c7 100644
--- a/gn3/db/genotypes.py
+++ b/gn3/db/genotypes.py
@@ -50,8 +50,8 @@ def __load_genotype_samples_from_geno(genotype_filename: str):
 
     gzipped_filename = f"{genotype_filename}.gz"
     if os.path.isfile(gzipped_filename):
-        with gzip.open(gzipped_filename) as genofile:
-            rows = __remove_comments_and_empty_lines__(genofile.readlines())
+        with gzip.open(gzipped_filename) as gz_genofile:
+            rows = __remove_comments_and_empty_lines__(gz_genofile.readlines())
     else:
         with open(genotype_filename, encoding="utf8") as genofile:
             rows = __remove_comments_and_empty_lines__(genofile.readlines())
diff --git a/mypy.ini b/mypy.ini
index ef93008..9efa803 100644
--- a/mypy.ini
+++ b/mypy.ini
@@ -31,4 +31,7 @@ ignore_missing_imports = True
 ignore_missing_imports = True
 
 [mypy-pandas.*]
+ignore_missing_imports = True
+
+[mypy-pytest.*]
 ignore_missing_imports = True
\ No newline at end of file
-- 
cgit v1.2.3