stirEnv: Function for stirring/mixing the complete evironment
In BacArena: Modeling Framework for Cellular Communities in their Environments

Description Usage Arguments Details Value See Also Examples

The generic function stirEnv simulates the event of mixing all substrates and organisms in the environment.

stirEnv(object, sublb)

## S4 method for signature 'Arena'
stirEnv(object, sublb)

`object`	An object of class Arena.
`sublb`	A matrix with the substrate concentration for every individual in the environment based on their x and y position.

The stirring is implemented as a random permutation of organism positions and the equalization of of all substrate concentrations.

Returns the substrate concentration for every individual in the environment with substrates as well as x and y positions as columns and rows for each organism.

Arena-class and getSublb

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
sublb <- getSublb(arena)
stirEnv(arena,sublb)