view allpy/config.py @ 713:7ef0081ffd9c
structure.AlignmentMixin: add method blocks_to_homology()
This method can be used to convert list of blocks (for example,
blocks of pair cores, but blocks are not required to be paired)
to file with classes of homology
see #58
| author |
boris <bnagaev@gmail.com> |
| date |
Thu, 07 Jul 2011 22:33:21 +0200 |
| parents |
52f311cae778 a89409bb4653 |
| children |
3cc7ef543da5 |
line source
1 delta = 2.0 # for geometrical core building
2 minsize = 20 # min size of returning cores
3 maxabsent = 0.15 # deprecated?
5 # defaults for set_pdb_chain
6 min_continuous_match = 5
12 # pdb download url (XXXX is pdb code place)
13 pdb_url = 'http://www.pdb.org/pdb/files/%s.pdb'
14 pdb_path = '/tmp/%s.pdb'
15 timeout = 10 # time in sec. for BRON-KERBOSH algorithm
18 # min part or new atoms in new alternative core
21 # max number of cores (including main core)
26 timeout_2 = 10 # bron-kerbosh for blocks
