Feat: set `OptSolvX` as default LP backend; add SBML-FBC→LP bridge prototype#90

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Feat: set `OptSolvX` as default LP backend; add SBML-FBC→LP bridge prototype#90

Feat: set `OptSolvX` as default LP backend; add SBML-FBC→LP bridge prototype#90
xts-Michi wants to merge 22 commits intodraeger-lab:masterfrom
xts-Michi:feat/optsolvx-default

Commits on Aug 6, 2025

feat(optsolvx): add OptSolvXAdapter with model validation and debug logging

Commits on Aug 10, 2025

feat(optsolvx): add working demo

test(optsolvx): add JUnit test for OptSolvXSolverAdapter (build check + simple LP)

Updated README with OptSolvX User Guide

test: added more tests

feat: added better error handling and a timer to track the time while logging

Commits on Aug 19, 2025

feat: add SBML to OptSolvX bridge skeleton (FbaToOptSolvX)

Commits on Aug 20, 2025

feat(sbscl): harden OptSolvXSolverAdapter (final + null-check + 1-arg ctor) and changed the pom OptSolvX verison to java 8

feat(sbscl-bridge): add FbaToOptSolvX to map SBML/FBC (reactions, bounds, S·v=0, objective) into OptSolvX

feat(sbscl): add OptSolvX bridge skeleton (FbaToOptSolvX) + smoke/objective tests using jdk 8 artifact

docs(README): add “Using OptSolvX” section (demo, debug flag) and note FbaToOptSolvX preview

Commits on Aug 21, 2025

feat(fba): switch default LP backend to OptSolvX (FBA only)

Commits on Aug 23, 2025

build(pom), docs(readme): exclude legacy XML parsers & add troubleshooting note (JDK ≥17)

Commits on Aug 25, 2025

refactor(fba): remove unused epsilon field and accessors

Commits on Aug 26, 2025

perf(sbscl-bridge): cache SBML lists/ids and pre-size maps to avoid repeated getters

fix(sbscl): add Commons Math 2.x dependency for legacy ODE API

fix(fba): restore getActiveObjective() for API/test compatibility

test(optsolvx): add BridgeConstraintTests for S·v=0 (counts, signs/values), ignore boundary/no-participation species, and multi-species cases with minimal SBML builders

refactor(fba): remove legacy SCPSolver/GLPK backend (NewGLPKSolver + refs) — OptSolvX is now the sole LP solver

Commits on Aug 27, 2025

docs(README): Updated a small fix

Commits on Aug 29, 2025

style: reformat codebase for consistency (no functional changes)

refactor(demo): use OptSolvXConfig for backend resolution; drop hardcoded CommonsMath in OptSolvXDemo

Feat: set `OptSolvX` as default LP backend; add SBML-FBC→LP bridge prototype#90xts-Michi wants to merge 22 commits intodraeger-lab:masterdraeger-lab/SBSCL:masterfrom xts-Michi:feat/optsolvx-defaultxts-Michi/SBSCL-clone:feat/optsolvx-defaultCopy head branch name to clipboard

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Commits on Aug 6, 2025

Commits on Aug 10, 2025

Commits on Aug 19, 2025

Commits on Aug 20, 2025

Commits on Aug 21, 2025

Commits on Aug 23, 2025

Commits on Aug 25, 2025

Commits on Aug 26, 2025

Commits on Aug 27, 2025

Commits on Aug 29, 2025

Feat: set `OptSolvX` as default LP backend; add SBML-FBC→LP bridge prototype#90
xts-Michi wants to merge 22 commits intodraeger-lab:masterfrom
xts-Michi:feat/optsolvx-default