Coerce int values

edilytics · Feb 16, 2022 · e5afa47 · e5afa47
1 parent ede7d85
commit e5afa47
Showing 1 changed file with 8 additions and 0 deletions.
diff --git a/CRISPResso2/CRISPRessoBatchCORE.py b/CRISPResso2/CRISPRessoBatchCORE.py
@@ -175,6 +175,14 @@ def main():
 #        batch_params=pd.read_csv(args.batch_settings,sep=None,engine='python',error_bad_lines=False)
         batch_params.columns = batch_params.columns.str.strip(' -\xd0')
 
+        int_columns = ['default_min_aln_score', 'min_average_read_quality', 'min_single_bp_quality',
+                       'min_bp_quality_or_N',
+                       'quantification_window_size', 'quantification_window_center', 'exclude_bp_from_left',
+                       'exclude_bp_from_right',
+                       'plot_window_size', 'max_rows_alleles_around_cut_to_plot']
+        for int_col in int_columns:
+            batch_params[int_col] = batch_params[int_col].astype(int)
+
         #rename column "a" to "amplicon_seq", etc
         batch_params.rename(index=str, columns=CRISPRessoShared.get_crispresso_options_lookup(), inplace=True)
         batch_count = batch_params.shape[0]