Update code/add_alignment.py

code/add_alignment.py

@@ -7,24 +7,24 @@ from Bio.pairwise2 import format_alignment
 
 
 def do_alignment(identifier, uniprotSequence, pdbSequence, alignment_path):
-    print(f'Aligning Datapoint: {identifier}')
-    print(pdbSequence)
-    print('uniprot Seq')
-    print(uniprotSequence)
+    st.write(f'Aligning Datapoint: {identifier}')
+    st.write(pdbSequence)
+    st.write('uniprot Seq')
+    st.write(uniprotSequence)
     #if len(pdbSequence) >= 1:
     #f = open(Path(alignment_path / f'{identifier}_alignment.txt'),"w")
     aligner.mode = 'local'
-    print('1')
+    st.write('1')
     aligner.substitution_matrix = substitution_matrices.load("BLOSUM62")
-    print('2')
+    st.write('2')
     aligner.open_gap_score = -11
-    print('3')
+    st.write('3')
     aligner.extend_gap_score = -1
-    print('4')
-    print(aligner.align(uniprotSequence, pdbSequence))
-    alignments = aligner.align(uniprotSequence, pdbSequence)
-    print('Alignments')
-    print(alignments)
+    st.write('4')
+    st.write(aligner.align(uniprotSequence, pdbSequence)[0])
+    alignments = aligner.align(uniprotSequence, pdbSequence)[0]
+    st.write('Alignments')
+    st.write(alignments)
     """
     alignments = (list(alignments))
     alignment_list = []