From 9b2d791569ecf05489edd3402f5d1b75cd9b949c Mon Sep 17 00:00:00 2001
From: Samuel Mondal <mondal0000@>
Date: Tue, 15 Nov 2022 10:25:46 +0100
Subject: [PATCH] restructuring the function
---
sequence_extractor/exon_concatenation.py | 10 ++++++++--
1 file changed, 8 insertions(+), 2 deletions(-)
diff --git a/sequence_extractor/exon_concatenation.py b/sequence_extractor/exon_concatenation.py
index c5348ac..ccc0103 100644
--- a/sequence_extractor/exon_concatenation.py
+++ b/sequence_extractor/exon_concatenation.py
@@ -1,6 +1,7 @@
-def exon_concatenation:
- fa = open("fasta.fa",'r')
+def exon_concatenation(filename):
+ fa = open(filename,'r')
lines = fa.readlines()
+ to_write_to_file = []
for x in range(int(len(lines)/2)):
if x == 0:
annotation = lines[0]
@@ -9,5 +10,10 @@ def exon_concatenation:
if lines[2*x] == lines[2*(x-1)]:
read+= lines[(2*x)+1]
else:
+ to_write_to_file.append(annotation)
+ to_write_to_file.append(read)
annotation = lines[2*x]
read = lines[(2*x)+1]
+ to_write_to_file.append(annotation)
+ to_write_to_file.append(read)
+ return to_write_to_file
\ No newline at end of file
--
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