chore: appease linter

PharmGKB · Nov 13, 2024 · f14210d · f14210d
1 parent 16e2d61
commit f14210d
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Showing 2 changed files with 2 additions and 3 deletions.
diff --git a/preprocessor/preprocessor/utilities.py b/preprocessor/preprocessor/utilities.py
@@ -42,6 +42,7 @@
 }
 _missing_pgx_var_suffix = '.missing_pgx_var'
 
+
 def get_pgx_regions(regions_file: Path):
     if regions_file.name.endswith(".bed"):
         df_regions = pd.read_csv(regions_file, sep="\t", header=None)
@@ -705,8 +706,6 @@ def create_regions_file(regions_file: Path, pharmcat_positions_vcf: Path, verbos
             f.write(data['chr'] + "\t" + str(data['start'] - 200) + "\t" + str(data['end'] + 200) + "\t" + px + "\n")
 
 
-
-
 def _is_valid_chr(vcf_file: Path) -> bool:
     """
     Quick check to see if CHROM column uses our expected chr format.

diff --git a/preprocessor/tests/test_preprocess.py b/preprocessor/tests/test_preprocess.py
@@ -19,7 +19,7 @@ def test_preprocess():
         shutil.copyfile(vcf_file, tmp_vcf)
 
         basename = 'preprocess'
-        results = preprocess(helpers.pharmcat_positions_file, reference_fasta, pgx_regions,False,
+        results = preprocess(helpers.pharmcat_positions_file, reference_fasta, pgx_regions, False,
                              [tmp_vcf], None, basename, tmp_dir, basename, verbose=1)
         print(tmp_dir)
         files = os.listdir(tmp_dir)