Merge pull request #2 from peterk87/patch/fix-div-by-zero-variants-dp

Patch to fix division by zero error due to variants with DP values of 0
peterk87 · Mar 29, 2021 · aeed190 · aeed190
2 parents 5988ecc + b85c29a
commit aeed190
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Showing 4 changed files with 4 additions and 3 deletions.
diff --git a/setup.cfg b/setup.cfg
@@ -1,5 +1,5 @@
 [bumpversion]
-current_version = 0.2.0
+current_version = 0.2.1
 commit = True
 tag = True
 

diff --git a/setup.py b/setup.py
@@ -58,6 +58,6 @@
     test_suite='tests',
     tests_require=test_requirements,
     url='https://github.com/peterk87/xlavir',
-    version='0.2.0',
+    version='0.2.1',
     zip_safe=False,
 )
diff --git a/xlavir/__init__.py b/xlavir/__init__.py
@@ -2,4 +2,4 @@
 
 __author__ = """Peter Kruczkiewicz"""
 __email__ = 'peter.kruczkiewicz@gmail.com'
-__version__ = '0.2.0'
+__version__ = '0.2.1'
diff --git a/xlavir/tools/variants.py b/xlavir/tools/variants.py
@@ -313,6 +313,7 @@ def parse_longshot_vcf(df: pd.DataFrame, sample_name: str = None) -> Optional[pd
     df_longshot_info.reset_index(inplace=True)
     df_merge = pd.merge(df, df_longshot_info, on='POS')
     df_merge['sample'] = sample_name
+    df_merge = df_merge[df_merge.DP > 0]
     df_merge['ALT_FREQ'] = df_merge.ALT_DP / df_merge.DP
     cols_to_keep = list({col for col, _, _ in variants_cols} & set(df_merge.columns))
     return df_merge.loc[:, cols_to_keep]