The dynamic properties of these networks are given by their model structure, kinetic parameters, initial values of the involved species, and externally specified input functions.
OptQuest runs a series of simulations while varying specified input parameters and seeking to find combinations of these input parameters that most closely reflect specified objectives.
In summary, Putnam picks an arbitrary physical system with physically specified inputs and outputs and then matches it to an arbitrary finite automaton whose abstractly specified inputs and outputs map onto the physically specified inputs and outputs.
They can just treat it as a black box that will convert specified inputs into specified outputs if installed correctly.
The circuit is simulated using our SAT formulation in the fault-free and drug-free model for a specified primary input value, and the resulting primary output value for the true response is saved as Z.
You can specify input files in a few different formats.
To get the stellar surface for the case of a star which is under-filling its Roche lobe, one specifies an input value of (F<1).
Weights are initialized and are multiplied by input values specified by eachneuron.
For every parameter of each operation, a set of valid input values (values in the parameter domain specified by the benchmark user) is generated randomly.
According to the authors, it is necessary to use critical values, system dependent, values between the minimum and maximum bounds, and input values that are outside of the specified domain.
First (step 1 in Fig. 1), a series of input values required to set the simulation (e.g. number of runs), outcome, genetic and/or environmental determinant parameters are specified.
