Optarrow

solveCobraLPOptArrow(LPproblem, problemTypeParams, solverParams)

Solve a COBRA LP problem through the OptArrow backend

This helper keeps the OptArrow integration downstream from the generic COBRA solver interface. It supports:

• a CLI-backed local Python path

• an HTTP path through the generic OptArrow MATLAB client

USAGE:

result = solveCobraLPOptArrow (LPproblem, problemTypeParams, solverParams)

INPUTS:

• LPproblem – COBRA LP problem structure with fields:

  • .A - m x n linear constraint matrix (used when present, otherwise .S is used instead)

  • .S - (optional) m x n stoichiometric matrix, used as .A when .A is absent

  • .b - (optional) m x 1 right hand side vector for constraint A*x = b (default all zero)

  • .c - n x 1 linear objective coefficient vector

  • .lb - (optional) n x 1 lower bound vector for lb <= x (default all zero)

  • .ub - (optional) n x 1 upper bound vector for x <= ub (default all 1e6)

  • .csense - (optional) m x 1 character array of constraint senses, one for each row in A (default all ‘E’)

  • .osense - (optional) scalar objective sense (-1 = maximise, 1 = minimise; default -1)

• problemTypeParams – Structure of problem-type parameters with fields:

  • .printLevel - verbosity level; the OptArrow status is printed to the command window when printLevel > 1

• solverParams – Structure of solver parameters with fields:

  • .endpoint - (optional) HTTP endpoint URL; when present, the request is routed through the OptArrow HTTP client instead of the CLI path

  • .timeoutSec - (optional) HTTP request timeout in seconds (default 120), used only on the HTTP path

  • .optArrowMatlabRoot - (optional) path to the OptArrow MATLAB client sources, added to the MATLAB path on the HTTP path

OUTPUT:

result – Structure with fields compatible with the solveCobraLP solver dispatch:

• .x - primal solution vector

• .f - objective value

• .w - reduced costs

• .y - dual values

• .stat - COBRA-style solver status

• .origStat - original OptArrow/backend status

• .origStatText - original status text

• .lpmethod - name/identifier of the method used

• .basis - warm-start basis (currently always empty for this backend)

• .raw - raw response returned by the backend

solveCobraQPOptArrow(QPproblem, problemTypeParams, solverParams)

Solve a COBRA QP problem through the OptArrow backend

USAGE:

result = solveCobraQPOptArrow (QPproblem, problemTypeParams, solverParams)

INPUTS:

• QPproblem – COBRA QP problem structure with fields:

  • .F - n x n positive semidefinite matrix for the quadratic objective term

  • .c - n x 1 linear objective coefficient vector

  • .lb - n x 1 lower bound vector for lb <= x

  • .ub - n x 1 upper bound vector for x <= ub

  • .A - (optional) m x n linear constraint matrix

  • .b - (optional) m x 1 right hand side vector for constraint A*x = b, used when .A is present

  • .csense - (optional) m x 1 character array of constraint senses, one for each row in A

  • .osense - (optional) scalar objective sense (-1 = maximise, 1 = minimise; default 1)

• problemTypeParams – Structure of problem-type parameters (currently unused by this backend, accepted for interface compatibility with solveCobraQP)

• solverParams – Structure of solver parameters, with fields:

  • .pythonExecutable, .python_executable, .optarrowPython - (optional) path to the Python executable used to run the OptArrow CLI; stripped from the parameters sent to the CLI

OUTPUT:

result – Structure with fields compatible with the solveCobraQP solver dispatch:

• .x - primal solution vector

• .w - reduced costs

• .y - dual values

• .s - slack values

• .stat - COBRA-style solver status

• .origStat - original OptArrow/backend status

• .origStatText - original status text

• .qpmethod - name/identifier of the method used

• .raw - raw response returned by the backend

testOptArrowBackend()

testOptArrowBackend Minimal MATLAB smoke test for the COBRA OptArrow LP backend.

USAGE:

testOptArrowBackend()

testOptArrowEcoliCoreFBA()

testOptArrowEcoliCoreFBA End-to-end COBRA FBA test on ecoli_core using OptArrow.

USAGE:

testOptArrowEcoliCoreFBA()

testOptArrowEcoliCoreHttpFBA(endpoint)

End-to-end COBRA FBA test on ecoli_core via OptArrow HTTP

USAGE:

• testOptArrowEcoliCoreHttpFBA()

• testOptArrowEcoliCoreHttpFBA (endpoint)

OPTIONAL INPUTS:

endpoint – HTTP endpoint URL for the OptArrow compute service (default: ‘http://127.0.0.1:8000/compute’)

testOptArrowQPBackend()

testOptArrowQPBackend Minimal MATLAB smoke test for the COBRA OptArrow QP backend.

USAGE:

testOptArrowQPBackend()