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Feature 2327 constraints#2339

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dweindl wants to merge 23 commits intoAMICI-dev:masterAMICI-dev/AMICI:masterfrom dweindl:feature_2327_constraintsdweindl/AMICI:feature_2327_constraintsCopy head branch name to clipboard

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Commits on Feb 26, 2024

• GHA: only try to publish docker image if secrets are set (AMICI-dev#2310)

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• Refactor DEExporter/DEModel/csc_matrix (AMICI-dev#2311)

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• Don't eliminate parameters that are initial assignment targets (pt1) (AMICI-dev#2304)

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• Refactor de_export.py, extract sympy_utils.py (AMICI-dev#2307)

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• Refactor de_export.py, extract template functions (AMICI-dev#2314)

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• Refactor: smoother conversion from SUNMatrixWrapper to SUNMatrix (AMICI-dev#2317)

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• Cache remote files for tests (AMICI-dev#2313)

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• CMake: update BLAS detection (AMICI-dev#2318)

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• Refactor de_export.py, extract model compilation (AMICI-dev#2315)

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• Upgrade to SuiteSparse 7.6 (AMICI-dev#2316)

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Commits on Feb 27, 2024

• Don't eliminate parameters that are initial assignment targets (pt2) (AMICI-dev#2305)

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• Refactor DEModel, remove SbmlImporter dependency (AMICI-dev#2312)

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• Split expressions into static and dynamic (AMICI-dev#2303)

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• Refactor: Move amici.de_model to amici.de_model_components (AMICI-dev#2323)

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• Refactor de_export.py, extract C++ function info to cxx_functions.py (AMICI-dev#2321)

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• Deterministic ordering of source files in generated CMakeLists.txt (AMICI-dev#2322)

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Commits on Feb 28, 2024

• Refactor de_export.py, extract _codegen.model_class (AMICI-dev#2319)

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• Refactor de_export, extract DEModel (AMICI-dev#2324)

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Commits on Mar 4, 2024

• Allow setting MaxConvFails and MaxNonlinIters on solvers (AMICI-dev#2335)

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• Fix size check in Model::setStateIsNonNegative (AMICI-dev#2332)

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• GHA: use dateutil from pypi (AMICI-dev#2337)

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• Fix uncaught C++ exception in runAmiciSimulation (AMICI-dev#2338)

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• Enable setting constraints on state variables

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