allpy
view README.devel @ 896:6134ae1dfdae
fix error caused by applying secondary structure markup
This bug should be digged.
For some reason BioPython's DSSP failed to get secondary structure
information of a residue:
$ ./pair_cores/pair_cores.py -i test/aln1.fasta -y aaa -e True
...
('A', (' ', 51, ' '))
caused by dssp.__getitem__
| author | Boris Nagaev <bnagaev@gmail.com> |
|---|---|
| date | Fri, 23 Sep 2011 14:10:25 +0400 |
| parents | b87eb91bd929 |
| children |
line source
1 Using library in-place
2 ======================
4 To use the library in-place, without installing, you have to add it's
5 directory to PYTHONPATH.
7 e.g, type this in your shell::
9 export PYTHONPATH=`pwd`
11 alternatively, you can type::
13 . ./SETPATH
15 which adds the right path to PYTHONPATH and also adds 'utils' directory
16 to PATH.
18 NEWS file
19 =========
21 NEWS file contains news that are important to the library users, not to the
22 devels. It must contain a word abot every change in any interfaces. It may
23 contain a word about bugfix, if that bugfix was important and could cause users
24 some grief. It must not contain anything else.
26 The file grows upwards (like blog, so that all the most important things are at
27 the top, like)
29 Example file format::
31 1.3.1 (2011-05-01)
32 * bugfix: the Moon was going to fall
34 1.3.0 (2011-04-15)
36 * new: new feature description
37 * new: new feature description
38 * change(!): critical library interface change
39 * change: change in the library interface
40 * bugfix: short bug summary, see #ticket
41 * bugfix: important bug that could destroy the Earth but did not hit trac