Main function for simulating in parallel all processes in the environment
The generic function simEnv_par for a simple in parallel all simulation of the environment.
simEnv_par( object, time, lrw = NULL, continue = FALSE, reduce = FALSE, cluster_size = NULL, diffusion = TRUE, sec_obj = "none", cutoff = 1e-06, with_shadow = FALSE, verbose = TRUE ) ## S4 method for signature 'Arena' simEnv_par( object, time, lrw = NULL, continue = FALSE, reduce = FALSE, cluster_size = NULL, diffusion = TRUE, sec_obj = "none", cutoff = 1e-06, with_shadow = FALSE, verbose = TRUE )
object |
An object of class Arena or Eval. |
time |
A number giving the number of iterations to perform for the simulation |
lrw |
A numeric value needed by solver to estimate array size (by default lwr is estimated in the simEnv() by the function estimate_lrw()) |
continue |
A boolean indicating whether the simulation should be continued or restarted. |
reduce |
A boolean indicating if the resulting |
cluster_size |
Number of cpu cores to be used. |
diffusion |
True if diffusion should be done (default on). |
sec_obj |
character giving the secondary objective for a bi-level LP if wanted. |
cutoff |
value used to define numeric accuracy |
with_shadow |
True if shadow cost should be stores (default off). |
verbose |
Set to false if no status messages should be printed. |
The returned object itself can be used for a subsequent simulation, due to the inheritance between Eval and Arena.
Returns an object of class Eval which can be used for subsequent analysis steps.
data(Ec_core, envir = environment()) #get Escherichia coli core metabolic model
bac <- Bac(Ec_core,deathrate=0.05,
minweight=0.05,growtype="exponential") #initialize a bacterium
arena <- Arena(n=20,m=20) #initialize the environment
arena <- addOrg(arena,bac,amount=10) #add 10 organisms
arena <- addSubs(arena,40) #add all possible substances
eval <- simEnv(arena,5)Please choose more modern alternatives, such as Google Chrome or Mozilla Firefox.