Production rate of resource (units are resource mass/time)
productionFuncDefault(
strainName,
groupName,
pathName,
varName,
all.substrates,
keyResName,
stoichiom,
products,
bio.products,
uptake,
growthRate,
yield,
parms,
water
)Name of the strain that is being looped through in the ODE solver
Name of microbial group that is being looped through in the ODE solver
Name of metabolic path (e.g. path1) that is being looped through in the ODE solver
(string). Calculate production of this variable
Vector of strings giving the names of the all the substrates used on this pathway
(string). Name of the key resource on this pathway
Named vector (names are resourceNames) giving the mass of each resource in the stoichiometry i.e. molar mass of resource multiplied by the number of moles in the stoichiometry
Vector of strings giving the names of the all the metabolic products created on this pathway
Vector of strings giving the names of the all the microbial products created on this pathway
Vector with names given by resourceNames which given mass uptake of each resource per unit time
(scalar) microbial growth rate (mass per unit time) on the given pathway
Named vector (names are resourceNames) giving the mass yield of biomass on each resource (mass microbe/mass resource)
List containing all system parameters
Name of resource with Rtype 'Sw' - i.e resource could be called 'water' or 'H2O' etc
(scalar) production rate of given resource (units are resource mass/time)