Add support for DAE models

[agarny]

Fixes #544.

[Copilot]

Pull request overview

This PR addresses #544 by extending libOpenCOR’s SED-ML ingestion so DAE models can be instantiated/run when an NLA solver is provided via legacy OpenCOR SED-ML annotations (and it also introduces parsing of a libOpenCOR nlaAlgorithm element). It adds a comprehensive set of DAE SED-ML fixtures and unit/coverage tests to validate expected solver selection and warning behavior.

Changes:

• Add SED-ML parsing for NLA solver settings from (1) libOpenCOR nlaAlgorithm elements and (2) legacy OpenCOR <annotation><nlaSolver …/></annotation> blocks.
• Add DAE SED-ML/OMEX test fixtures covering valid, missing, duplicate, and unknown NLA solver configurations.
• Add new instance and coverage tests for DAE model loading/execution and warning paths; bump version and tweak issue printing formatting.

Reviewed changes

Copilot reviewed 22 out of 24 changed files in this pull request and generated 9 comments.

Show a summary per file

File	Description
VERSION.txt	Version bump.
src/misc/utils.cpp	Print issues header now includes a newline.
src/support/sedml/sedmlfile.cpp	Parse NLA solver from libOpenCOR nlaAlgorithm and legacy annotation; integrate into simulation population.
src/support/sedml/sedmlfile_p.h	Add NlaSolverInfo and store original SED-ML file contents for XML parsing.
tests/api/sed/instancetests.cpp	Add instance tests for running DAE models from CellML/SED-ML/OMEX (legacy and non-legacy).
tests/api/sed/coveragetests.cpp	Add coverage tests for warnings/branches around NLA solver discovery (new + legacy paths).
tests/res/api/sed/dae/model.sedml	DAE SED-ML fixture using libOpenCOR nlaAlgorithm.
tests/res/api/sed/dae/model_unknown_nla_algorithm.sedml	Fixture with unknown nlaAlgorithm kisaoID to trigger fallback warning.
tests/res/api/sed/dae/model_several_nla_algorithms.sedml	Fixture with multiple nlaAlgorithm elements to trigger “first used” warning.
tests/res/api/sed/dae/model_no_nla_algorithm.sedml	Fixture missing kisaoID on nlaAlgorithm to trigger fallback warning.
tests/res/api/sed/dae/model_nla_algorithm_and_nla_algorithm.sedml	Fixture where NLA solver is set both via algorithm and nlaAlgorithm to trigger “ignored” warning.
tests/res/api/sed/dae/model_legacy.sedml	Legacy annotation-based NLA solver fixture (OpenCOR namespace).
tests/res/api/sed/dae/model_legacy_unknown_property.sedml	Legacy fixture with an unknown solver property to trigger “ignored property” warning.
tests/res/api/sed/dae/model_legacy_unknown_property_namespace.sedml	Legacy fixture with a property in an unexpected namespace (coverage path).
tests/res/api/sed/dae/model_legacy_unknown_property_element.sedml	Legacy fixture with an unexpected property element name (coverage path).
tests/res/api/sed/dae/model_legacy_unknown_nla_solver.sedml	Legacy fixture with unknown nlaSolver name to trigger fallback warning.
tests/res/api/sed/dae/model_legacy_unknown_namespace.sedml	Legacy fixture with unknown annotation namespace (coverage path).
tests/res/api/sed/dae/model_legacy_unknown_element.sedml	Legacy fixture with unknown annotation element name (coverage path).
tests/res/api/sed/dae/model_legacy_several_nla_solvers.sedml	Legacy fixture with multiple nlaSolver nodes to trigger “first used” warning.
tests/res/api/sed/dae/model_legacy_nla_algorithm_and_nla_solver.sedml	Legacy fixture specifying NLA solver both via algorithm and annotation to trigger precedence warning.

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