Update code/alphafold_featureVector.py

code/alphafold_featureVector.py

@@ -553,13 +553,11 @@ def alphafold(input_set, mode, impute):
             except:
                 ValueError
                 pdbSequence = 'nan'
-            st.write('SENTIMENTAL')
             if pdbSequence != 'nan':  # The number in models we need might not be present for that protein. Preventng error.
                 pdbSequence = pdb_info.loc[(pdb_info.uniprotID == uniprotID) & (pdb_info.model_num == mod)].sequence.item()
                 alignment_list = do_alignment(uniprot_matched.at[i, 'datapoint'], uniprot_matched.at[i, 'uniprotSequence'],
                                               pdbSequence, Path(path_to_output_files / 'alignment_files'))
-                st.write('alignment_list')
-                st.write(alignment_list)
+
                 pdb_alignStatus = mutation_position_on_pdb(alignment_list, uniprot_matched.at[i, 'pos'])[0]
                 st.write('alignment_list---')
                 info_per_model[mod]['pdb_alignStatus'] = pdb_alignStatus
@@ -604,15 +602,14 @@ def alphafold(input_set, mode, impute):
                 pdbSequence = convert_non_standard_amino_acids(pdbSequence)
                 st.write(pdbSequence)
             
-                st.write('Hello I am in 3Dalignment')
-                st.write('file', file_format)
-                
+                st.write('Hello I am in 3Dalignment')                
     
                 atomSequence = ''
                 coords = []
                 resnums_for_sasa = []
                 st.write('Hello I am in 3Dalignment GZIP')
                 with gzip.open(pdb_path, mode='rb') as f:
+                    
                     for line in f:
                         line = line.decode()
                         if line[0:4].strip() == 'ATOM' and line[13:15].strip() == 'CA':