Python programmers, who wish to extract information from O files, may
find the OdbParser module useful. The module reads both binary and
formatted O files, and is very simple to use. Try it! Simply import the
module, and use the get() method:
$ python
Python 2.3.4 (#1, Mar 10 2006, 06:12:09)
[GCC 3.4.5 20051201 (Red Hat 3.4.5-2)] on linux2
Type "help", "copyright", "credits" or "license" for more information.
>>>
>>> import odbparser
>>> db = odbparser.get("binary.o")
Now you have the O database as a Python dictionary 'db', with the
datablock names as keys. For example, print out some information on the
di-peptide from Baton:
>>> print db["di_atom_name"]
('N', 'CA', 'C', 'O', 'CB', 'N', 'CA', 'C', 'O', 'CB')
>>> print x["di_residue_type"]
('ALA', 'ALA')
Go to http://www.bioxray.dk/~mok/odbparser for information about
download, installation, etc.
Cheers,
Morten
--
Morten Kjeldgaard, Asc. professor, Ph.D.
Department of Molecular Biology, Aarhus University
Gustav Wieds Vej 10 C, DK-8000 Aarhus C, Denmark
Lab +45 89425026 * Mobile +45 51860147 * Fax +45 86123178
Home +45 86188180 * http://www.bioxray.dk/~mok
