Python SteppableRegistry.registerSteppable示例

示例#1

文件： TypeChangeWatcherExample.py 项目： JulianoGianlupi/CompuCell3D-NanoHub

#sim.getPotts().getTypeTransition().registerTypeChangeWatcher(typeChangeWatcher)

CompuCellSetup.initializeSimulationObjects(sim, simthread)

dim = sim.getPotts().getCellFieldG().getDim()

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry

steppableRegistry = SteppableRegistry()

from PySteppablesExamples import ContactLocalFlexPrinter

clfdPrinter = ContactLocalFlexPrinter()
steppableRegistry.registerSteppable(clfdPrinter)

CompuCellSetup.mainLoop(sim, simthread, steppableRegistry)

#def mainfcn():
#import sys
#from os import environ
#import string
#sys.path.append(environ["PYTHON_MODULE_PATH"])

#import SystemUtils
#SystemUtils.setSwigPaths()
#SystemUtils.initializeSystemResources()

#import CompuCell
#import CompuCell

示例#2

sys.path.append(environ["PYTHON_MODULE_PATH"])
sys.path.append(environ["SWIG_LIB_INSTALL_DIR"])

import CompuCellSetup

sim, simthread = CompuCellSetup.getCoreSimulationObjects()
CompuCellSetup.initializeSimulationObjects(sim, simthread)
import CompuCell  #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry = SteppableRegistry()

from steppableBasedMitosisSteppables import DifferentiationSteppable
differentiationSteppable = DifferentiationSteppable(sim, 1)
steppableRegistry.registerSteppable(differentiationSteppable)

from steppableBasedMitosisSteppables import MitosisSteppable
mitosisSteppable = MitosisSteppable(sim, 1)
steppableRegistry.registerSteppable(mitosisSteppable)

from ContactSteeringSteppable import ContactSteering
contactSteetingSteppable = ContactSteering(sim, 10)
steppableRegistry.registerSteppable(contactSteetingSteppable)

from steppableBasedMitosisSteppables import IdFieldVisualizationSteppable
idFieldSteppable = IdFieldVisualizationSteppable(sim, 10)
steppableRegistry.registerSteppable(idFieldSteppable)

CompuCellSetup.mainLoop(sim, simthread, steppableRegistry)

示例#3

文件： diffusion_2D_extra_player_field.py 项目： JulianoGianlupi/CompuCell3D-NanoHub

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])

import CompuCellSetup

sim, simthread = CompuCellSetup.getCoreSimulationObjects()

import CompuCell  #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

CompuCellSetup.initializeSimulationObjects(sim, simthread)

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry = SteppableRegistry()

from diffusion_2D_steppables_player import ExtraFieldVisualizationSteppable
extraFieldVisualizationSteppable = ExtraFieldVisualizationSteppable(
    _simulator=sim, _frequency=10)
steppableRegistry.registerSteppable(extraFieldVisualizationSteppable)

CompuCellSetup.mainLoop(sim, simthread, steppableRegistry)

示例#4

文件： BlHet.py 项目： kkwinner/BlHet

#### CC3D crashes when changeWatcherRegistry in one of these lines is not commented out;
# changeWatcherRegistry=CompuCellSetup.getChangeWatcherRegistry(sim)
steppableRegistry=SteppableRegistry()


############################################### STEPPABLES


################################# DRUG DYNAMICS
# from steppablesBlHet import DiffusionSolverFESteeringCisplatinIV
# diffusionSolverFESteeringCisplatinIV=DiffusionSolverFESteeringCisplatinIV(sim)
# steppableRegistry.registerSteppable(diffusionSolverFESteeringCisplatinIV)

from steppablesBlHet import DiffusionSolverFESteeringGemcitabineIV
diffusionSolverFESteeringGemcitabineIV=DiffusionSolverFESteeringGemcitabineIV(sim)
steppableRegistry.registerSteppable(diffusionSolverFESteeringGemcitabineIV)

from steppablesBlHet import SecretionSteppableCisplatin
secretionSteppableCisplatin=SecretionSteppableCisplatin(sim)
steppableRegistry.registerSteppable(secretionSteppableCisplatin)

from steppablesBlHet import SecretionSteppableGemcitabine
secretionSteppableGemcitabine=SecretionSteppableGemcitabine(sim)
steppableRegistry.registerSteppable(secretionSteppableGemcitabine)

from steppablesBlHet import ChangeAtGemIC50Steppable
changeAtGemIC50Steppable=ChangeAtGemIC50Steppable(sim)
steppableRegistry.registerSteppable(changeAtGemIC50Steppable)

from steppablesBlHet import ChangeAtCisIC50Steppable
changeAtCisIC50Steppable=ChangeAtCisIC50Steppable(sim)

示例#5

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])

import CompuCellSetup
sim,simthread = CompuCellSetup.getCoreSimulationObjects()


import CompuCell #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

#Create extra player fields here or add attributes
CompuCellSetup.initializeSimulationObjects(sim,simthread)
                                                                
#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from SecretionSteadyStateSteppables import DiffusionFieldSteppable
instanceOfDiffusionFieldSteppable=DiffusionFieldSteppable(_simulator=sim,_frequency=1)
steppableRegistry.registerSteppable(instanceOfDiffusionFieldSteppable)

CompuCellSetup.mainLoop(sim,simthread,steppableRegistry)

示例#6

文件： mouseOvarianDevelopment.py 项目： OvarianDev/CC3D

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])

import CompuCellSetup

sim, simthread = CompuCellSetup.getCoreSimulationObjects()
CompuCellSetup.initializeSimulationObjects(sim, simthread)
import CompuCell  #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

# add extra attributes here
# Definitions of additional Python-managed fields go here
#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry = SteppableRegistry()

from mouseOvarianDevelopmentSteppables import VolumeParamSteppable
volumeParamSteppable = VolumeParamSteppable(sim, 10)
steppableRegistry.registerSteppable(volumeParamSteppable)

from mouseOvarianDevelopmentSteppables import MitosisSteppable
mitosisSteppable = MitosisSteppable(sim, 10)
steppableRegistry.registerSteppable(mitosisSteppable)

CompuCellSetup.mainLoop(sim, simthread, steppableRegistry)

示例#7

文件： CellManipulation.py 项目： zafarali/CompuCell3D

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])

import CompuCellSetup

sim, simthread = CompuCellSetup.getCoreSimulationObjects()
CompuCellSetup.initializeSimulationObjects(sim, simthread)
import CompuCell  #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry = SteppableRegistry()

from CellManipulationSteppables import CellManipulationSteppable
cellManipulationSteppable = CellManipulationSteppable(sim, 10)
steppableRegistry.registerSteppable(cellManipulationSteppable)

# # # from CellManipulationSteppables import CellManipulationSteppableExplained
# # # cellManipulationSteppableExplained=CellManipulationSteppableExplained(sim,10)
# # # steppableRegistry.registerSteppable(cellManipulationSteppableExplained)

CompuCellSetup.mainLoop(sim, simthread, steppableRegistry)

示例#8

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
#### changeWatcherREgistry is also initialized at start of lattice monitors
#### CC3D crashes when changeWatcherRegistry in one of these lines is not commented out;
# changeWatcherRegistry=CompuCellSetup.getChangeWatcherRegistry(sim)
steppableRegistry = SteppableRegistry()

############################################### STEPPABLES

################################# DRUG DYNAMICS
from steppablesBlHet import DiffusionSolverFESteeringCisplatinIV

diffusionSolverFESteeringCisplatinIV = DiffusionSolverFESteeringCisplatinIV(
    sim)
steppableRegistry.registerSteppable(diffusionSolverFESteeringCisplatinIV)

from steppablesBlHet import DiffusionSolverFESteeringGemcitabineIV

diffusionSolverFESteeringGemcitabineIV = DiffusionSolverFESteeringGemcitabineIV(
    sim)
steppableRegistry.registerSteppable(diffusionSolverFESteeringGemcitabineIV)

from steppablesBlHet import SecretionSteppableCisplatin

secretionSteppableCisplatin = SecretionSteppableCisplatin(sim)
steppableRegistry.registerSteppable(secretionSteppableCisplatin)

from steppablesBlHet import SecretionSteppableGemcitabine

secretionSteppableGemcitabine = SecretionSteppableGemcitabine(sim)

示例#9

文件： TypeChangeWatcherExample.py 项目： AngeloTorelli/CompuCell3D

#sim.getPotts().getTypeTransition().registerTypeChangeWatcher(typeChangeWatcher)



CompuCellSetup.initializeSimulationObjects(sim,simthread)

dim=sim.getPotts().getCellFieldG().getDim()


#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from PySteppablesExamples import ContactLocalFlexPrinter
clfdPrinter=ContactLocalFlexPrinter()
steppableRegistry.registerSteppable(clfdPrinter)


CompuCellSetup.mainLoop(sim,simthread,steppableRegistry)



#def mainfcn():
   #import sys
   #from os import environ
   #import string
   #sys.path.append(environ["PYTHON_MODULE_PATH"])

   #import SystemUtils
   #SystemUtils.setSwigPaths()
   #SystemUtils.initializeSystemResources()

示例#10

文件： FieldSecretion.py 项目： JulianoGianlupi/CompuCell3D-NanoHub

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])

import CompuCellSetup
sim,simthread = CompuCellSetup.getCoreSimulationObjects()

import CompuCell #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

#Create extra player fields here or add attributes
CompuCellSetup.initializeSimulationObjects(sim,simthread)

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from FieldSecretionSteppables import FieldSecretionSteppable
fieldSecretionSteppable=FieldSecretionSteppable(_simulator=sim,_frequency=10)
steppableRegistry.registerSteppable(fieldSecretionSteppable)

CompuCellSetup.mainLoop(sim,simthread,steppableRegistry)

示例#11

文件： diffusion_2D_extra_player_field.py 项目： adrs0049/CompuCell3D

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])


import CompuCellSetup

sim, simthread = CompuCellSetup.getCoreSimulationObjects()


import CompuCell  # notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()


CompuCellSetup.initializeSimulationObjects(sim, simthread)

# Add Python steppables here
from PySteppablesExamples import SteppableRegistry

steppableRegistry = SteppableRegistry()

from diffusion_2D_steppables_player import ExtraFieldVisualizationSteppable

extraFieldVisualizationSteppable = ExtraFieldVisualizationSteppable(_simulator=sim, _frequency=10)
steppableRegistry.registerSteppable(extraFieldVisualizationSteppable)

CompuCellSetup.mainLoop(sim, simthread, steppableRegistry)

示例#12

文件： vasculo_steppableBasedMitosis_control.py 项目： amyrbrown/assets

CompuCellSetup.setSimulationXMLFileName("2D_vasculogenesis_control.xml")

sim,simthread = CompuCellSetup.getCoreSimulationObjects()
CompuCellSetup.initializeSimulationObjects(sim,simthread)
import CompuCell #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

pyAttributeAdder,listAdder=CompuCellSetup.attachListToCells(sim)          ####Assigns a list to each cell in the cellList inventory. List elements are later attached to each cell.
pyAttributeAdderDict,dictAdder=CompuCellSetup.attachDictionaryToCells(sim)      ####Assigns a dictionary to each cell in the cellList inventory. Dictionary elements are later attached to each cell.

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from steppableBasedMitosisSteppables_control import VolumeParamSteppable
volumeParamSteppable=VolumeParamSteppable(sim,10)
steppableRegistry.registerSteppable(volumeParamSteppable)

from steppableBasedMitosisSteppables_control import MitosisSteppable
mitosisSteppable=MitosisSteppable(sim,10)
steppableRegistry.registerSteppable(mitosisSteppable)

# from steppableBasedMitosisSteppables import ProteinExpression
# proteinExpression=ProteinExpression(sim,10)
# steppableRegistry.registerSteppable(proteinExpression)

from steppableBasedMitosisSteppables_control import SecretionCellSteppable
secretionCellSteppable=SecretionCellSteppable(sim,10)
steppableRegistry.registerSteppable(secretionCellSteppable)


CompuCellSetup.mainLoop(sim,simthread,steppableRegistry)

示例#13

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])


import CompuCellSetup


sim,simthread = CompuCellSetup.getCoreSimulationObjects()
import CompuCell

#Create extra player fields here or add attributes
CompuCellSetup.initializeSimulationObjects(sim,simthread)


#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from diffusion_2D_steppables import ConcentrationFieldDumperSteppable
concentrationFieldDumperSteppable=ConcentrationFieldDumperSteppable(_simulator=sim,_frequency=100)
steppableRegistry.registerSteppable(concentrationFieldDumperSteppable)

CompuCellSetup.mainLoop(sim,simthread,steppableRegistry)

示例#14

文件： CellManipulation.py 项目： AngeloTorelli/CompuCell3D

from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])


import CompuCellSetup

sim,simthread = CompuCellSetup.getCoreSimulationObjects()
CompuCellSetup.initializeSimulationObjects(sim,simthread)
import CompuCell #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from CellManipulationSteppables import CellManipulationSteppable
cellManipulationSteppable=CellManipulationSteppable(sim,10)
steppableRegistry.registerSteppable(cellManipulationSteppable)

# # # from CellManipulationSteppables import CellManipulationSteppableExplained 
# # # cellManipulationSteppableExplained=CellManipulationSteppableExplained(sim,10)
# # # steppableRegistry.registerSteppable(cellManipulationSteppableExplained)


CompuCellSetup.mainLoop(sim,simthread,steppableRegistry)

示例#15

changeWatcherRegistry=CompuCellSetup.getChangeWatcherRegistry(sim)
stepperRegistry=CompuCellSetup.getStepperRegistry(sim)


#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
#### changeWatcherREgistry is also initialized at start of lattice monitors
#### CC3D crashes when changeWatcherRegistry in one of these lines is not commented out;
# changeWatcherRegistry=CompuCellSetup.getChangeWatcherRegistry(sim)
steppableRegistry=SteppableRegistry()



from steppables_drugspheroid import CispIC50VisualizationSteppable
cispIC50VisualizationSteppable=CispIC50VisualizationSteppable (sim)
steppableRegistry.registerSteppable(cispIC50VisualizationSteppable)

# from steppables_drugspheroid import VolumeParamSteppable
# volumeParamSteppable=VolumeParamSteppable(sim)
# steppableRegistry.registerSteppable(volumeParamSteppable)

from steppables_drugspheroid import SetCellDictionaries
setCellDictionaries=SetCellDictionaries(sim)
steppableRegistry.registerSteppable(setCellDictionaries)

from steppables_drugspheroid import DiffusionSolverFESteeringCisplatinIV
diffusionSolverFESteeringCisplatinIV=DiffusionSolverFESteeringCisplatinIV(sim)
steppableRegistry.registerSteppable(diffusionSolverFESteeringCisplatinIV)

# from steppables_drugspheroid import DiffusionSolverFESteeringCisplatinIP
# diffusionSolverFESteeringCisplatinIP=DiffusionSolverFESteeringCisplatinIP(sim)

示例#16

文件： wetFoamDrainage.py 项目： JulianoGianlupi/CompuCell3D-NanoHub

sys.path.append(environ["PYTHON_MODULE_PATH"])

import CompuCellSetup

sim, simthread = CompuCellSetup.getCoreSimulationObjects()
import CompuCell

#Create extra player fields here or add attributes
CompuCellSetup.initializeSimulationObjects(sim, simthread)

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry

steppableRegistry = SteppableRegistry()

from wetFoamDrainageSteppables import FlexCellInitializer

fci = FlexCellInitializer(_simulator=sim, _frequency=1)
fci.addCellTypeParameters(_type=1,
                          _count=80,
                          _targetVolume=25,
                          _lambdaVolume=10.0)
fci.addCellTypeParameters(_type=2,
                          _count=0,
                          _targetVolume=5,
                          _lambdaVolume=2.0)
fci.setFractionOfWater(0.25)
steppableRegistry.registerSteppable(fci)

CompuCellSetup.mainLoop(sim, simthread, steppableRegistry)

示例#17

文件： wetFoamDrainage.py 项目： AngeloTorelli/CompuCell3D

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])


import CompuCellSetup

sim,simthread = CompuCellSetup.getCoreSimulationObjects()
import CompuCell

#Create extra player fields here or add attributes
CompuCellSetup.initializeSimulationObjects(sim,simthread)


#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from wetFoamDrainageSteppables import FlexCellInitializer
fci=FlexCellInitializer(_simulator=sim,_frequency=1)
fci.addCellTypeParameters(_type=1,_count=80,_targetVolume=25,_lambdaVolume=10.0)
fci.addCellTypeParameters(_type=2,_count=0,_targetVolume=5,_lambdaVolume=2.0)
fci.setFractionOfWater(0.25)
steppableRegistry.registerSteppable(fci)

CompuCellSetup.mainLoop(sim,simthread,steppableRegistry)

示例#18

文件： clusterMitosis.py 项目： AngeloTorelli/CompuCell3D

import sys
from os import environ
from os import getcwd
import string

sys.path.append(environ["PYTHON_MODULE_PATH"])


import CompuCellSetup

sim,simthread = CompuCellSetup.getCoreSimulationObjects()
CompuCellSetup.initializeSimulationObjects(sim,simthread)
import CompuCell #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from clusterMitosisSteppables import VolumeParamSteppable
volumeParamSteppable=VolumeParamSteppable(sim,10)
steppableRegistry.registerSteppable(volumeParamSteppable)

from clusterMitosisSteppables import MitosisSteppableClusters
mitosisSteppable=MitosisSteppableClusters(sim,10)
steppableRegistry.registerSteppable(mitosisSteppable)

CompuCellSetup.mainLoop(sim,simthread,steppableRegistry)

示例#19

文件： ExtraFields.py 项目： JulianoGianlupi/CompuCell3D-NanoHub

sim,simthread = CompuCellSetup.getCoreSimulationObjects()


import CompuCell #notice importing CompuCell to main script has to be done after call to getCoreSimulationObjects()

#Create extra player fields here or add attributes
CompuCellSetup.initializeSimulationObjects(sim,simthread)

                                                                
#Add Python steppables here
from PySteppablesExamples import SteppableRegistry
steppableRegistry=SteppableRegistry()

from ExtraFieldsSteppables import ExtraFieldVisualizationSteppable
extraFieldVisualizationSteppable=ExtraFieldVisualizationSteppable(_simulator=sim,_frequency=10)
steppableRegistry.registerSteppable(extraFieldVisualizationSteppable)


from ExtraFieldsSteppables import IdFieldVisualizationSteppable
idFieldVisualizationSteppable=IdFieldVisualizationSteppable(_simulator=sim,_frequency=10)
steppableRegistry.registerSteppable(idFieldVisualizationSteppable)

from ExtraFieldsSteppables import VectorFieldVisualizationSteppable
vectorFieldVisualizationSteppable=VectorFieldVisualizationSteppable(_simulator=sim,_frequency=10)
steppableRegistry.registerSteppable(vectorFieldVisualizationSteppable)

from ExtraFieldsSteppables import VectorFieldCellLevelVisualizationSteppable
vectorFieldCellLevelVisualizationSteppable=VectorFieldCellLevelVisualizationSteppable(_simulator=sim,_frequency=10)
steppableRegistry.registerSteppable(vectorFieldCellLevelVisualizationSteppable)