--- a/generate-putative-isp.py	Fri Jan 05 05:56:25 2024 +0000
+++ b/generate-putative-isp.py	Wed Sep 18 04:02:06 2024 +0000
@@ -5,20 +5,12 @@
 
 import argparse
 from cpt import OrfFinder
-from Bio import SeqIO
-from Bio import Seq
 import re
 from spaninFuncs import *
-import os
 
-# if __name__ == '__main__':
-# pass
-###############################################################################
 
 if __name__ == "__main__":
 
-    # Common parameters for both ISP / OSP portion of script
-
     parser = argparse.ArgumentParser(
         description="Get putative protein candidates for spanins"
     )
@@ -212,15 +204,9 @@
 
     pairs = tuple_fasta(fasta_file=args.out_isp_prot)
 
-    # print(pairs)
-
     have_tmd = []  # empty candidates list to be passed through the user input criteria
 
-    for (
-        each_pair
-    ) in (
-        pairs
-    ):  # grab transmembrane domains from spaninFuncts (queries for lysin snorkels # and a range of hydrophobic regions that could be TMDs)
+    for each_pair in pairs:
         if len(each_pair[1]) <= args.max_isp:
             try:
                 have_tmd += find_tmd(