Update code/add_alignment.py

code/add_alignment.py

@@ -9,7 +9,7 @@ from Bio.pairwise2 import format_alignment
 def do_alignment(identifier, uniprotSequence, pdbSequence, alignment_path):
     print(f'Aligning Datapoint: {identifier}')
     if len(pdbSequence) >= 1:
-        f = open(Path(alignment_path / f'{identifier}_alignment.txt'),"w")
+        #f = open(Path(alignment_path / f'{identifier}_alignment.txt'),"w")
         aligner.mode = 'local'
         aligner.substitution_matrix = substitution_matrices.load("BLOSUM62")
         aligner.open_gap_score = -11
@@ -18,9 +18,9 @@ def do_alignment(identifier, uniprotSequence, pdbSequence, alignment_path):
         alignments = (list(alignments))
         alignment_list = []
         for alignment in alignments:
-            f.write(str(alignment))
-            f.write('\n')
-            f.write('\n')
+            #f.write(str(alignment))
+            #f.write('\n')
+            #f.write('\n')
             alignment = (str(alignment).strip().split('\n'))
             alignment = [''.join(['.' if m == ' ' else m for m in x]) for x in alignment]
             alignment_list.append(alignment)