allpy: ccee8a6023f4 allpy/config.py

allpy

sbbs_2009 created. test_homology.py contains function that writes classes of homology to file.

author	Boris Burkov <BurkovBA@gmail.com>
date	Sat, 09 Jul 2011 16:30:28 +0400
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

7 min_match = 20

8 max_waste_in_pdb = 5

10 min_core_size = 10

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

19 ac_new_atoms = 0.5

21 # max number of cores (including main core)

22 ac_count = 5

24 # blocks3d

25 min_width = 4

26 timeout_2 = 10 # bron-kerbosh for blocks