allpy
changeset 125:c84a7840f9b8
Backed out changeset 9f96bc38bc3d
There can be more than one GC!!
| author | boris <bnagaev@gmail.com> |
|---|---|
| date | Sat, 23 Oct 2010 23:50:50 +0400 |
| parents | 9f96bc38bc3d |
| children | 69e1650feb6b |
| files | lib/block.py |
| diffstat | 1 files changed, 2 insertions(+), 5 deletions(-) [+] |
line diff
1.1 --- a/lib/block.py Sat Oct 23 23:32:52 2010 +0400 1.2 +++ b/lib/block.py Sat Oct 23 23:50:50 2010 +0400 1.3 @@ -7,7 +7,6 @@ 1.4 import monomer 1.5 import config 1.6 from graph import Graph 1.7 -from copy import copy 1.8 1.9 class Block(object): 1.10 """ 1.11 @@ -62,8 +61,7 @@ 1.12 def geometrical_core(self, max_delta=config.delta, 1.13 timeout=config.timeout, minsize=config.minsize): 1.14 """ 1.15 - returns new block, representing geometrical core 1.16 - 1.17 + returns sorted list of positions, representing geometrical core 1.18 delta -- threshold of distance spreading 1.19 1.20 If more than one pdb chain for some sequence provided, consider all of them 1.21 @@ -90,8 +88,7 @@ 1.22 if delta <= max_delta: 1.23 lines[Graph.line(i, j)] = 1.0 / (1.0 + max_delta) 1.24 graph = Graph(nodes, lines) 1.25 - positions = graph.cliques(timeout=timeout, minsize=minsize) 1.26 - return Block(self.project, copy(self.sequences), positions) 1.27 + return graph.cliques(timeout=timeout, minsize=minsize) 1.28 1.29 def xstring(self, x): 1.30 """