#!/usr/bin/python
from IMP.npctransport import *
import sys
import barak_basic_configuration
IMP.npctransport.make_parser.add_option(
"-n",
"--nonspecifics",
action="store_true",
dest="nonspecifics_on",
help="Whether to use non-specific interactions")
(options, args) = IMP.npctransport.make_parser.parse_args()
config = barak_basic_configuration.get_basic_config()
config.simulation_time_ns = 5000
config.dump_interval_ns = 500
config.statistics_interval_ns = 0.1
config.maximal_number_of_frames = 400000000
config.time_step_factor.lower = 2.5
fg = IMP.npctransport.add_fg_type(config,
number_of_beads=12,
number=12,
radius=8,
interactions=1)
kap = IMP.npctransport.add_float_type(config,
number=10,
radius=20,
interactions=12)
if options.nonspecifics_on:
nonspecifics = IMP.npctransport.add_float_type(config,
#!/usr/bin/env python
from IMP.npctransport import *
import sys
import barak_basic_configuration
config= barak_basic_configuration.get_basic_config()
config.dump_interval=25000
config.number_of_frames=50000000
fg= IMP.npctransport.add_fg_type(config,
number_of_beads=8,
number=24,
radius=8,
interactions=1)
kap= IMP.npctransport.add_float_type(config,
number=10,
radius=20,
interactions=12)
nonspecifics= IMP.npctransport.add_float_type(config,
number=10,
radius=20,
interactions=0)
interactionFG_KAP= IMP.npctransport.add_interaction(config,
name0="fg0",
name1="kap",
interaction_k=30,
interaction_range=5)
interactionFG_CRAP= IMP.npctransport.add_interaction(config,
name0="fg0",
