def setup():
global args, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment", help="provide name for experiment", required=True)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost", help="database hostname, defaults to localhost", default="localhost")
parser.add_argument("--dbport", help="database port, defaults to 27017", default="27017")
parser.add_argument("--configuration", help="Configuration file for experiment", required=True)
parser.add_argument("--filename", help="path to file for export", required=True)
args = parser.parse_args()
simconfig = utils.TreeStructuredConfiguration(args.configuration)
if args.debug == '1':
log.basicConfig(level=log.DEBUG, format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO, format='%(asctime)s %(levelname)s: %(message)s')
log.debug("experiment name: %s", args.experiment)
#### main program ####
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
def setup():
global args, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment", help="provide name for experiment", required=True)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost", help="database hostname, defaults to localhost", default="localhost")
parser.add_argument("--dbport", help="database port, defaults to 27017", default="27017")
parser.add_argument("--configuration", help="Configuration file for experiment", required=True)
parser.add_argument("--parallelism", help="Number of concurrent processes to run", default="4")
parser.add_argument("--diagram", help="Draw a diagram when complete", default=False)
args = parser.parse_args()
simconfig = utils.AxelrodExtensibleConfiguration(args.configuration)
if args.debug == '1':
log.basicConfig(level=log.DEBUG, format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO, format='%(asctime)s %(levelname)s: %(message)s')
log.debug("experiment name: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
def setup():
global args, config, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment", required=True, help="provide name for experiment, to be used as prefix for database collections")
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost", help="database hostname, defaults to localhost", default="localhost")
parser.add_argument("--dbport", help="database port, defaults to 27017", default="27017")
parser.add_argument("--finalized", help="Only export runs which finalized after convergence", action="store_true")
parser.add_argument("--action", choices=["sample", "single", "bulk"])
parser.add_argument("--ssize", help="Sample size of graphs to export", default="100")
parser.add_argument("--id", help="Export trait graphs with this object id")
parser.add_argument("--idfile", help="Export trait graphs for ids in file")
parser.add_argument("--directory", help="Directory to which DOT files are written")
args = parser.parse_args()
if int(args.debug) == 1:
log.basicConfig(level=log.DEBUG, format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO, format='%(asctime)s %(levelname)s: %(message)s')
#### main program ####
log.info("EXPORT TRAIT GRAPHS AS DOT - Experiment: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
def setup():
global args, config, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment", required=True, help="provide name for experiment, to be used as prefix for database collections")
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost", help="database hostname, defaults to localhost", default="localhost")
parser.add_argument("--dbport", help="database port, defaults to 27017", default="27017")
parser.add_argument("--dryrun", help="Do the calculations but do not change the database (handiest with --debug 1 to see the results", action="store_true")
parser.add_argument("--configuration", help="Configuration file for experiment", required=True)
args = parser.parse_args()
simconfig = utils.TreeStructuredConfiguration(args.configuration)
if int(args.debug) == 1:
log.basicConfig(level=log.DEBUG, format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO, format='%(asctime)s %(levelname)s: %(message)s')
#### main program ####
log.info("CALCULATING GRAPH SYMMETRY STATS - Experiment: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
def setup():
global args, config, simconfig
parser = argparse.ArgumentParser()
parser.add_argument(
"--experiment",
help=
"provide name for experiment, to be used as prefix for database collections"
)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost",
help="database hostname, defaults to localhost",
default="localhost")
parser.add_argument("--dbport",
help="database port, defaults to 27017",
default="27017")
parser.add_argument("--configuration", help="Path to configuration file")
parser.add_argument("--model",
choices=['axelrod', 'extensible', 'treestructured'],
required=True)
parser.add_argument(
"--finalized",
help="Only export runs which finalized after convergence",
action="store_true")
parser.add_argument("--filename",
help="path to file for export",
required=True)
args = parser.parse_args()
simconfig = utils.TreeStructuredConfiguration(args.configuration)
if args.model == 'axelrod':
simconfig = utils.AxelrodConfiguration(args.configuration)
elif args.model == 'extensible':
simconfig = utils.AxelrodExtensibleConfiguration(args.configuration)
elif args.model == 'treestructured':
simconfig = utils.TreeStructuredConfiguration(args.configuration)
else:
log.error("This shouldn't happen - args.model = %s", args.model)
if args.debug == 1:
log.basicConfig(level=log.DEBUG,
format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO,
format='%(asctime)s %(levelname)s: %(message)s')
#### main program ####
log.info("EXPORT DATA TO CSV - Experiment: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
def setup():
global args, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment", help="provide name for experiment", required=True)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost", help="database hostname, defaults to localhost", default="localhost")
parser.add_argument("--dbport", help="database port, defaults to 27017", default="27017")
parser.add_argument("--configuration", help="Configuration file for experiment", required=True)
parser.add_argument("--popsize", help="Population size", required=True)
parser.add_argument("--maxinittraits", help="Max initial number of traits per indiv", required=True)
parser.add_argument("--additionrate", help="Rate at which traits are added during interactions", required=True)
parser.add_argument("--maxtraitvalue", help="Maximum integer token for traits in the trait space", required=True)
parser.add_argument("--periodic", help="Periodic boundary condition", choices=['1','0'], required=True)
parser.add_argument("--diagram", help="Draw a diagram of the converged model", action="store_true")
parser.add_argument("--drift_rate", help="Rate of drift")
args = parser.parse_args()
simconfig = utils.AxelrodExtensibleConfiguration(args.configuration)
if args.debug == '1':
log.basicConfig(level=log.DEBUG, format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO, format='%(asctime)s %(levelname)s: %(message)s')
log.debug("experiment name: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
if args.drift_rate:
simconfig.drift_rate = float(args.drift_rate)
simconfig.popsize = int(args.popsize)
simconfig.maxtraits = int(args.maxinittraits)
simconfig.add_rate = float(args.additionrate)
simconfig.max_trait_value = int(args.maxtraitvalue)
simconfig.sim_id = uuid.uuid4().urn
if args.periodic == '1':
simconfig.periodic = 1
elif args.periodic == '0':
simconfig.periodic = 0
def setup():
global args, config, simconfig
parser = argparse.ArgumentParser()
parser.add_argument(
"--experiment",
required=True,
help=
"provide name for experiment, to be used as prefix for database collections"
)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost",
help="database hostname, defaults to localhost",
default="localhost")
parser.add_argument("--dbport",
help="database port, defaults to 27017",
default="27017")
parser.add_argument(
"--dryrun",
help=
"Do the calculations but do not change the database (handiest with --debug 1 to see the results",
action="store_true")
parser.add_argument("--configuration",
help="Configuration file for experiment",
required=True)
args = parser.parse_args()
simconfig = utils.TreeStructuredConfiguration(args.configuration)
if int(args.debug) == 1:
log.basicConfig(level=log.DEBUG,
format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO,
format='%(asctime)s %(levelname)s: %(message)s')
#### main program ####
log.info("CALCULATING GRAPH SYMMETRY STATS - Experiment: %s",
args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
def setup():
global args, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment",
help="provide name for experiment",
required=True)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost",
help="database hostname, defaults to localhost",
default="localhost")
parser.add_argument("--dbport",
help="database port, defaults to 27017",
default="27017")
parser.add_argument("--configuration",
help="Configuration file for experiment",
required=True)
parser.add_argument("--parallelism",
help="Number of concurrent processes to run",
default="4")
parser.add_argument("--diagram",
help="Draw a diagram when complete",
default=False)
args = parser.parse_args()
simconfig = utils.AxelrodExtensibleConfiguration(args.configuration)
if args.debug == '1':
log.basicConfig(level=log.DEBUG,
format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO,
format='%(asctime)s %(levelname)s: %(message)s')
log.debug("experiment name: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
def setup():
global args, config, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment", help="provide name for experiment, to be used as prefix for database collections")
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost", help="database hostname, defaults to localhost", default="localhost")
parser.add_argument("--dbport", help="database port, defaults to 27017", default="27017")
parser.add_argument("--configuration", help="Path to configuration file")
parser.add_argument("--model", choices=['axelrod', 'extensible', 'treestructured'], required=True)
parser.add_argument("--finalized", help="Only export runs which finalized after convergence", action="store_true")
parser.add_argument("--filename", help="path to file for export", required=True)
args = parser.parse_args()
simconfig = utils.TreeStructuredConfiguration(args.configuration)
if args.model == 'axelrod':
simconfig = utils.AxelrodConfiguration(args.configuration)
elif args.model == 'extensible':
simconfig = utils.AxelrodExtensibleConfiguration(args.configuration)
elif args.model == 'treestructured':
simconfig = utils.TreeStructuredConfiguration(args.configuration)
else:
log.error("This shouldn't happen - args.model = %s", args.model)
if args.debug == 1:
log.basicConfig(level=log.DEBUG, format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO, format='%(asctime)s %(levelname)s: %(message)s')
#### main program ####
log.info("EXPORT DATA TO CSV - Experiment: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
def setup():
global args, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment", help="provide name for experiment", required=True)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost", help="database hostname, defaults to localhost", default="localhost")
parser.add_argument("--dbport", help="database port, defaults to 27017", default="27017")
parser.add_argument("--configuration", help="Configuration file for experiment", required=True)
parser.add_argument("--popsize", help="Population size", required=True)
parser.add_argument("--maxinittraits", help="Max initial number of traits per indiv", required=True)
parser.add_argument("--learningrate", help="Rate at which traits are learned during interactions", required=True)
parser.add_argument("--lossrate", help="Rate at which traits are lost randomly by individuals (0.0 turns this off)", required=True)
parser.add_argument("--innovrate", help="Rate at which innovations occur in population", required=True)
parser.add_argument("--periodic", help="Periodic boundary condition", choices=['1','0'], required=True)
parser.add_argument("--diagram", help="Draw a diagram of the converged model", action="store_true")
parser.add_argument("--swrewiring", help="Rewiring probability for Watts-Strogatz population graph", required=False)
parser.add_argument("--numtraittrees", help="Number of trait trees in the design space", required=True)
parser.add_argument("--branchingfactor", help="Value or mean for tree branching factor", required=True)
parser.add_argument("--depthfactor", help="Value or mean for tree depth factor", required=True)
parser.add_argument("--savetraitgraphs", help="Saves a snapshot of trait tree graphs", action="store_true")
parser.add_argument("--samplinginterval", help="Interval between samples, once sampling begins, defaults to 1M steps", default="1000000")
parser.add_argument("--samplingstarttime", help="Time at which sampling begins, defaults to 1M steps", default="6000000")
parser.add_argument("--simulationendtime", help="Time at which simulation and sampling end, defaults to 10000000 steps", default="10000000")
args = parser.parse_args()
simconfig = utils.TreeStructuredConfiguration(args.configuration)
if args.debug == '1':
log.basicConfig(level=log.DEBUG, format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO, format='%(asctime)s %(levelname)s: %(message)s')
log.debug("experiment name: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
if args.swrewiring:
simconfig.ws_rewiring = float(args.swrewiring)
simconfig.popsize = int(args.popsize)
simconfig.maxtraits = int(args.maxinittraits)
simconfig.learning_rate = float(args.learningrate)
simconfig.num_trees = int(args.numtraittrees)
simconfig.branching_factor = float(args.branchingfactor)
simconfig.depth_factor = float(args.depthfactor)
simconfig.loss_rate = float(args.lossrate)
simconfig.innov_rate = float(args.innovrate)
simconfig.maxtime = int(args.simulationendtime)
simconfig.script = __file__
simconfig.save_graphs = args.savetraitgraphs
simconfig.sim_id = uuid.uuid4().urn
if args.periodic == '1':
simconfig.periodic = 1
else:
simconfig.periodic = 0
def setup():
global args, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment",
help="provide name for experiment",
required=True)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost",
help="database hostname, defaults to localhost",
default="localhost")
parser.add_argument("--dbport",
help="database port, defaults to 27017",
default="27017")
parser.add_argument("--configuration",
help="Configuration file for experiment",
required=True)
parser.add_argument("--popsize", help="Population size", required=True)
parser.add_argument("--maxinittraits",
help="Max initial number of traits per indiv",
required=True)
parser.add_argument(
"--learningrate",
help="Rate at which traits are learned during interactions",
required=True)
parser.add_argument(
"--lossrate",
help=
"Rate at which traits are lost randomly by individuals (0.0 turns this off)",
required=True)
parser.add_argument("--innovrate",
help="Rate at which innovations occur in population",
required=True)
parser.add_argument("--periodic",
help="Periodic boundary condition",
choices=['1', '0'],
required=True)
parser.add_argument("--diagram",
help="Draw a diagram of the converged model",
action="store_true")
parser.add_argument(
"--swrewiring",
help="Rewiring probability for Watts-Strogatz population graph",
required=False)
parser.add_argument("--numtraittrees",
help="Number of trait trees in the design space",
required=True)
parser.add_argument("--branchingfactor",
help="Value or mean for tree branching factor",
required=True)
parser.add_argument("--depthfactor",
help="Value or mean for tree depth factor",
required=True)
parser.add_argument("--savetraitgraphs",
help="Saves a snapshot of trait tree graphs",
action="store_true")
parser.add_argument(
"--samplinginterval",
help=
"Interval between samples, once sampling begins, defaults to 250K steps",
default="250000")
parser.add_argument(
"--samplingstarttime",
help="Time at which sampling begins, defaults to 1000000 steps",
default="1000000")
args = parser.parse_args()
simconfig = utils.TreeStructuredConfiguration(args.configuration)
if args.debug == '1':
log.basicConfig(level=log.DEBUG,
format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO,
format='%(asctime)s %(levelname)s: %(message)s')
log.debug("experiment name: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
if args.swrewiring:
simconfig.ws_rewiring = float(args.swrewiring)
simconfig.popsize = int(args.popsize)
simconfig.maxtraits = int(args.maxinittraits)
simconfig.learning_rate = float(args.learningrate)
simconfig.num_trees = int(args.numtraittrees)
simconfig.branching_factor = float(args.branchingfactor)
simconfig.depth_factor = float(args.depthfactor)
simconfig.loss_rate = float(args.lossrate)
simconfig.innov_rate = float(args.innovrate)
simconfig.maxtime = simconfig.SIMULATION_CUTOFF_TIME
simconfig.script = __file__
simconfig.save_graphs = args.savetraitgraphs
simconfig.sim_id = uuid.uuid4().urn
if args.periodic == '1':
simconfig.periodic = 1
else:
simconfig.periodic = 0
def setup():
global args, simconfig
parser = argparse.ArgumentParser()
parser.add_argument("--experiment",
help="provide name for experiment",
required=True)
parser.add_argument("--debug", help="turn on debugging output")
parser.add_argument("--dbhost",
help="database hostname, defaults to localhost",
default="localhost")
parser.add_argument("--dbport",
help="database port, defaults to 27017",
default="27017")
parser.add_argument("--configuration",
help="Configuration file for experiment",
required=True)
parser.add_argument("--popsize", help="Population size", required=True)
parser.add_argument("--maxinittraits",
help="Max initial number of traits per indiv",
required=True)
parser.add_argument(
"--additionrate",
help="Rate at which traits are added during interactions",
required=True)
parser.add_argument(
"--maxtraitvalue",
help="Maximum integer token for traits in the trait space",
required=True)
parser.add_argument("--periodic",
help="Periodic boundary condition",
choices=['1', '0'],
required=True)
parser.add_argument("--diagram",
help="Draw a diagram of the converged model",
action="store_true")
parser.add_argument("--drift_rate", help="Rate of drift")
args = parser.parse_args()
simconfig = utils.AxelrodExtensibleConfiguration(args.configuration)
if args.debug == '1':
log.basicConfig(level=log.DEBUG,
format='%(asctime)s %(levelname)s: %(message)s')
else:
log.basicConfig(level=log.INFO,
format='%(asctime)s %(levelname)s: %(message)s')
log.debug("experiment name: %s", args.experiment)
data.set_experiment_name(args.experiment)
data.set_database_hostname(args.dbhost)
data.set_database_port(args.dbport)
config = data.getMingConfiguration(data.modules)
ming.configure(**config)
if args.drift_rate:
simconfig.drift_rate = float(args.drift_rate)
simconfig.popsize = int(args.popsize)
simconfig.maxtraits = int(args.maxinittraits)
simconfig.add_rate = float(args.additionrate)
simconfig.max_trait_value = int(args.maxtraitvalue)
simconfig.sim_id = uuid.uuid4().urn
if args.periodic == '1':
simconfig.periodic = 1
elif args.periodic == '0':
simconfig.periodic = 0