Bump Submodules/PelePhysics from 327aadb to f54b084
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Bumps [Submodules/PelePhysics](https://github.com/AMReX-Combustion/PelePhysics) from `327aadb` to `f54b084`. - [Release notes](https://github.com/AMReX-Combustion/PelePhysics/releases) - [Commits](AMReX-Combustion/PelePhysics@327aadb...f54b084) --- updated-dependencies: - dependency-name: Submodules/PelePhysics dependency-type: direct:production ... Signed-off-by: dependabot[bot] <support@github.com>
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* DivU constraint with arbitrary sources (AMReX-Combustion#428) * Included additional terms in divu constraint to account for external forces on density. * Updated Docs to include external source terms in model equations and divergence constraint. * Formatting * fix a bug in divu calc * Update deriviation of divu in Docs * Restored code to development * Reverted text in line 168 * Minor fix in Docs * Comment in divu about extRho --------- Co-authored-by: Bruce Perry <bruce.perry@nrel.gov> * "ODE" quantities and user defined external sources (AMReX-Combustion#427) * Initial commit. Needs debugging for source terms. * Added ode_var to typical values. Still debugging initialization and source. * Minor edit in set_ode_names function. * Fixed misalignment in plotting. IC's appear to be correct now for multiple ode vars. Still working on source terms. * Fix indexing. * Updated problem_modify_ext_sources. Works with local case definition. * Comment arguments in problem_modify_ext_sources in Source code. * Added compilation variable USE_MODIFIED_SOURCES to avoid unnecessary loops through levels. * Tested plotting for Efield and Spray. Tested all args of ProblemSpecificFunctions. * Added ode_srcstrength to test case, fixed minor bugs. * Changed flag for user defined external sources. Added future flag for including external sources in SDC loop. * Set peleLM.user_defined_ext_sources to true in input file. * Added Euler step for advancing the ODE quantities in time. * Changed name of advanceODEQty() to predictODEQty() for consistency with SDC iterations. * Updated input.2d for validation * Added .cpp file for ProblemSpecificFunctions to avoid need for static functions. * Added convergence test for ODE Qty. * Updated the test case to include 3 odes with increasing stiffness. * Renamed case * Combined all external forces in single function call to clean up PeleLMeX_Advance.cpp * Update README for case. * Update README for case. * Update README.md * Removed NUM_AUX for now. * Cleaning up * Documentation for ode quantities. * Clang-format * Remove validation tests from case directory. * Minor fix for soot and spray * Spelling and unused variable handling. * Unused variable handling * Formatting * Removed unwanted print statements, renamed some files/vars for consistency. * Added case to CI * Add USE_EB to EB_ODEQty/CmakeLists.txt * Add EB_ODEQty to RegTests/CMakeLists.txt * CI fix * More CI * Add ODEQty.cpp to cmake * More CI... * Only define predictODEQty if NUM_ODE > 0 * Updated CMake to handle user defined EB's and ProblemSpecificFunctions * Now passes in MultiFabs for state_old and state_new. This provides access to state_old.Factory() etc. * Update PeleLMeX_ProblemSpecificFunctions.cpp * Removed lev argument in problem_modify_ext_sources * Update comment --------- Co-authored-by: Bruce Perry <Bruce.Perry@nrel.gov> * pin intel-oneapi version in CI (AMReX-Combustion#434) * Bump Submodules/AMReX-Hydro from `3ab9864` to `3788361` (AMReX-Combustion#433) Bumps [Submodules/AMReX-Hydro](https://github.com/AMReX-Fluids/AMReX-Hydro) from `3ab9864` to `3788361`. - [Commits](AMReX-Fluids/AMReX-Hydro@3ab9864...3788361) --- updated-dependencies: - dependency-name: Submodules/AMReX-Hydro dependency-type: direct:production ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Bruce Perry <Bruce.Perry@nrel.gov> * Add full manifold model capability (AMReX-Combustion#415) * basics of having eos_parm in PeleLMeX * add eosparm to PeleLMeX_K functions * more eosparm: now everywhere except Efield & BCs * eosparm in BC stuff * re-order functions for template * remove manifold-specfic changes, will go in later PR * gnu make changes for manifold * create manifold version of adjust fluxes function * Add abort for Closed Chamber + Manifold * Better setup chackes for Manifold + wbar, closed chamber, mixfrac/prog * advection of rho corrections for manifold models * manifold-specific transport, derives, divu * remove divide by zero * go to templated EOS functions to use cellData * fix oops in pelephysics * fix compile errors for Manifold derives * fix compile condition for transparm initialization * fix missing RY2RRinvY conversion * use PelePhysics that free manfunc shared pointer * clang-formatting * fux derives for manifold * add flamesheet test case for manifold * remove extraneous changes in file * Update Source/PeleLMeX_Setup.cpp Co-authored-by: Marc T. Henry de Frahan <marchdf@gmail.com> * address Marc HdF's comments with minor formatting * remove copied line * update PP for merged RY2R stuff --------- Co-authored-by: Marc T. Henry de Frahan <marchdf@gmail.com> * Update PelePhysics and add path to new utility (AMReX-Combustion#435) * Update PelePhysics and add new utility to Make.PeleLMeX * Add PelePhysics utilities to CMake * Test PelePhysics:tidy against clang-tidy. * Update PelePhysics submodule * Bump Submodules/AMReX-Hydro from `3ab9864` to `3788361` (AMReX-Combustion#438) Bumps [Submodules/AMReX-Hydro](https://github.com/AMReX-Fluids/AMReX-Hydro) from `3ab9864` to `3788361`. - [Commits](AMReX-Fluids/AMReX-Hydro@3ab9864...3788361) --- updated-dependencies: - dependency-name: Submodules/AMReX-Hydro dependency-type: direct:production ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> * Bump Submodules/PelePhysics from `327aadb` to `f54b084` (AMReX-Combustion#439) Bumps [Submodules/PelePhysics](https://github.com/AMReX-Combustion/PelePhysics) from `327aadb` to `f54b084`. - [Release notes](https://github.com/AMReX-Combustion/PelePhysics/releases) - [Commits](AMReX-Combustion/PelePhysics@327aadb...f54b084) --- updated-dependencies: - dependency-name: Submodules/PelePhysics dependency-type: direct:production ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> --------- Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: Dave Montgomery <David.Montgomery@nrel.gov> Co-authored-by: Bruce Perry <bruce.perry@nrel.gov> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Marc T. Henry de Frahan <marchdf@gmail.com>
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Bumps Submodules/PelePhysics from
327aadbtof54b084.Commits
f54b084Update CI to ubuntu-24.04 (#546)Dependabot will resolve any conflicts with this PR as long as you don't alter it yourself. You can also trigger a rebase manually by commenting
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