diff options
Diffstat (limited to 'io_mesh_pdb/import_pdb.py')
| -rw-r--r-- | io_mesh_pdb/import_pdb.py | 18 |
1 files changed, 9 insertions, 9 deletions
diff --git a/io_mesh_pdb/import_pdb.py b/io_mesh_pdb/import_pdb.py index 8b1eec08..a7067692 100644 --- a/io_mesh_pdb/import_pdb.py +++ b/io_mesh_pdb/import_pdb.py @@ -364,10 +364,10 @@ def read_pdb_file_sticks(filepath_pdb, use_sticks_bonds, all_atoms): split_list = line.split(' ') # Go to the first entry - if "CONECT" not in split_list[0]: + if "CONNECT" not in split_list[0]: for line in filepath_pdb_p: split_list = line.split(' ') - if "CONECT" in split_list[0]: + if "CONNECT" in split_list[0]: break Number_of_sticks = 0 @@ -379,8 +379,8 @@ def read_pdb_file_sticks(filepath_pdb, use_sticks_bonds, all_atoms): # ... which is broken here (EOF) ... if line == "": break - # ... or here, when no 'CONECT' appears anymore. - if "CONECT" not in line: + # ... or here, when no 'CONNECT' appears anymore. + if "CONNECT" not in line: break # The strings of the atom numbers do have a clear position in the file @@ -388,13 +388,13 @@ def read_pdb_file_sticks(filepath_pdb, use_sticks_bonds, all_atoms): # this. One could also use the split function but then one gets into # trouble if there are lots of atoms: For instance, it may happen that # one has - # CONECT 11111 22244444 + # CONNECT 11111 22244444 # # In Fact it means that atom No. 11111 has a connection with atom # No. 222 but also with atom No. 44444. The split function would give # me only two numbers (11111 and 22244444), which is wrong. - # Cut spaces from the right and 'CONECT' at the beginning + # Cut spaces from the right and 'CONNECT' at the beginning line = line.rstrip() line = line[6:] # Amount of loops @@ -474,7 +474,7 @@ def read_pdb_file_sticks(filepath_pdb, use_sticks_bonds, all_atoms): return all_sticks -# Function, which produces a cylinder. All is somewhat easy to undertsand. +# Function, which produces a cylinder. All is somewhat easy to understand. def build_stick(radius, length, sectors): dphi = 2.0 * pi/(float(sectors)-1) @@ -1237,7 +1237,7 @@ def import_pdb(Ball_type, # It may happen that the structure in a PDB file already has an offset # If chosen, the structure is first put into the center of the scene - # (the offset is substracted). + # (the offset is subtracted). if put_to_center == True: sum_vec = Vector((0.0,0.0,0.0)) @@ -1245,7 +1245,7 @@ def import_pdb(Ball_type, sum_vec = sum([atom.location for atom in all_atoms], sum_vec) # Then the average is taken sum_vec = sum_vec / Number_of_total_atoms - # After, for each atom the center of gravity is substracted + # After, for each atom the center of gravity is subtracted for atom in all_atoms: atom.location -= sum_vec |