sybilccFBA (version 3.0.1)

initialize-methods: Initialize Problem Object

Description

Initialize ccFBA Problem.

Usage

# S4 method for sysBiolAlg_ccFBA
initialize(.Object, model, LHS, rlb, rub, rtype, lb, ub, obj,
                 lpdir, cnames = NULL, rnames = NULL, pname = NULL,
                 scaling = NULL, writeProbToFileName = NULL, ...)

Arguments

.Object

Problem object

model

An object of class '>modelorg.

lpdir

Single character string containing the direction of optimization. Can be set to "min" or "max". Default: "max".

LHS

constraint matrix, consists of S matrix and ccFBA constraints

rlb,rub

bounds for constraints (i.e rows)

lb,ub

bounds for variables (i.e columns)

rtype

row constraint type

obj

index of objective

cnames

A character vector giving the variable names. If set to NULL, the reaction id's of model are used. Default: NULL.

rnames

A character vector giving the constraint names. If set to NULL, the metabolite id's of model are used. Default: NULL.

pname

A single character string containing a name for the problem object. Default: NULL.

scaling

Scaling options used to scale the constraint matrix. If set to NULL, no scaling will be performed (see scaleProb). Default: NULL.

writeProbToFileName

A single character string containing a file name to which the problem object will be written in LP file format. Default: NULL.

...

Further arguments passed to the initialize method of '>sysBiolAlg. They are solver, method and solverParm.

See Also

Constructor function sysBiolAlg and superclass '>sysBiolAlg.