From 7ed975c7ce5688901a60667f34e42d4b60dde738 Mon Sep 17 00:00:00 2001
From: coolneng <akasroua@gmail.com>
Date: Wed, 22 Dec 2021 18:36:32 +0100
Subject: [PATCH] Refactor regex parenthesis removal into a function

---
 parser.py | 6 ++++--
 1 file changed, 4 insertions(+), 2 deletions(-)

diff --git a/parser.py b/parser.py
index ea46e90..447e43a 100644
--- a/parser.py
+++ b/parser.py
@@ -6,6 +6,9 @@ from re import sub
 from pandas import DataFrame, read_html, Series
 
 
+def remove_parenthesis(identifier):
+    sequence_str = "".join(map(str, identifier))
+    return sub(r"[()]", "", sequence_str)
 
 
 def extract_adapters(files) -> Tuple[Series, List]:
@@ -33,8 +36,7 @@ def preprocess_dataframe(adapters) -> Series:
 def save_to_file(filename, adapters) -> None:
     with open(filename, "w") as f:
         for index, value in adapters.iteritems():
-            sequence_str = "".join(map(str, index))
-            sequence_id = sub(r"[()]", "", sequence_str)
+            sequence_id = remove_parenthesis(index)
             fasta_entry = f">{sequence_id}\n{value}\n"
             f.write(fasta_entry)