Wholecell Toy Model
BOUNDS submodel
Submodel for dynamically calculating the flux bounds. The dynamically changing flux bounds are the input to the FBA model.
Description
This is a toy model for coupling models with different modeling frameworks via comp.
This file has been produced by
Matthias Koenig.
Terms of use
Copyright © 2017 Matthias Koenig
Redistribution and use of any part of this model, with or without modification, are permitted provided that the following conditions are met:
- Redistributions of this SBML file must retain the above copyright notice, this list of conditions and the following disclaimer.
- Redistributions in a different form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution.
Model : toy_bounds
CreatorMatthias, Koenig, Humboldt University Berlin, konigmatt@googlemail.com
Created: 2017-03-20 00:25
Modified: 2017-03-20 00:25
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type | FunctionDefinitions [2] | name | math | sbo | cvterm |
---|---|---|---|---|---|
FunctionDefinition | max | minimum of arguments | |||
FunctionDefinition | min | maximum of arguments |
type | UnitDefinitions [9] | name | units | sbo | cvterm |
---|---|---|---|---|---|
UnitDefinition | s | ||||
UnitDefinition | kg | ||||
UnitDefinition | m | ||||
UnitDefinition | m2 | ||||
UnitDefinition | m3 | ||||
UnitDefinition | mM | ||||
UnitDefinition | per_s | ||||
UnitDefinition | item_per_s | ||||
UnitDefinition | item_per_m3 |
type | Compartments [1] | name | size | constant | spatial dimensions | unit | derived unit | sbo | cvterm |
---|---|---|---|---|---|---|---|---|---|
Compartment | extern | external compartment | 1.0 | T | 3 | m3 |
type | Species [2] | name | compartment | boundary condition | constant | initial amount | initial concentration | substance units | derived units | sbo | cvterm |
---|---|---|---|---|---|---|---|---|---|---|---|
Species | A | A |
extern | F | F | 10.0 | item | ||||
Species | C | C |
extern | F | F | 0.0 | item |
type | Parameters [8] | name | value | unit | derived unit | constant | sbo | cvterm |
---|---|---|---|---|---|---|---|---|
Parameter | dt | 0.1 | s | T | ||||
Parameter | lb_default | -1000.0 | item_per_s | T | ||||
Parameter | ub_EX_A | 1000.0 | item_per_s | T | ||||
Parameter | lb_EX_A | -1000.0 | item_per_s | F | ||||
Parameter | ub_EX_C | 1000.0 | item_per_s | T | ||||
Parameter | lb_EX_C | -1000.0 | item_per_s | F | ||||
Parameter | ub_R1 | 1.0 | item_per_s | F | ||||
Parameter | k1 | k1 | -0.2 | per_s | F |
type | Rules [3] | assignment | derived units | sbo | cvterm | |
---|---|---|---|---|---|---|
Rule | d ub_R1/dt | = | ||||
Rule | lb_EX_A | = | ||||
Rule | lb_EX_C | = |