allpy
annotate allpy/rna.py @ 518:449bd8ebeb30
graph.py: refactoring
use two-dimensional dict (adjacency matrix) instead of set of edges
| author | boris (kodomo) <bnagaev@gmail.com> |
|---|---|
| date | Thu, 24 Feb 2011 23:51:52 +0300 |
| parents | 5639138f619a |
| children | 6e87dcc73d8b |
| rev | line source |
|---|---|
| bnagaev@240 | 1 import base |
| me@353 | 2 import data.codes |
| me@281 | 3 |
| dendik@382 | 4 import rna |
| dendik@382 | 5 |
| me@328 | 6 class Monomer(base.Monomer): |
| me@328 | 7 """RNA monomers: nucleotides.""" |
| me@328 | 8 type = 'rna' |
| dendik@382 | 9 types = rna |
| me@281 | 10 by_code1 = {} |
| me@281 | 11 by_code3 = {} |
| me@281 | 12 by_name = {} |
| me@353 | 13 Monomer._initialize(data.codes.rna) |
| bnagaev@240 | 14 |
| bnagaev@240 | 15 class Sequence(base.Sequence): |
| dendik@382 | 16 types = rna |
| bnagaev@240 | 17 |
| me@341 | 18 class Block(Alignment, base.Block): |
| me@341 | 19 pass |
| me@341 | 20 |
| dendik@379 | 21 class Alignment(base.Alignment): |
| dendik@382 | 22 types = rna |
| dendik@379 | 23 |
| me@281 | 24 # vim: set ts=4 sts=4 sw=4 et: |