PeleLMeX 25.04

What's Changed

• Bump Submodules/PelePhysics from b5c4c90 to 20d2df6 by @dependabot in #296
• Bump Submodules/amrex from 152fdac to be6c641 by @dependabot in #297
• JOSS paper by @esclapez in #295
• Remove curly brackets around HdF. by @esclapez in #299
• Make tests smaller but run more of them in CI by @baperry2 in #300
• Bump Submodules/AMReX-Hydro from 8c596a6 to 2b89ad7 by @dependabot in #304
• Bump Submodules/PelePhysics from 20d2df6 to 5d3058c by @dependabot in #303
• Bump Submodules/amrex from be6c641 to a7afcba by @dependabot in #302
• amrex hydro move from amrex-codes to amrex-fluids by @baperry2 in #305
• Bump Submodules/amrex from a7afcba to d364631 by @dependabot in #306
• Documentation updates/fixes by @baperry2 in #312
• Fix no EB production cases by @baperry2 in #314
• use regex to ignore headers from submodules for clang-tidy by @baperry2 in #308
• CMake EB Cases by @baperry2 in #315
• Bump Submodules/amrex from d364631 to 175b99d by @dependabot in #317
• Bump Submodules/amrex from 175b99d to 9e35dc1 by @dependabot in #318
• Bump Submodules/PelePhysics from 5d3058c to 769ae63 by @dependabot in #320
• Bump Submodules/amrex from 9e35dc1 to efd77ff by @dependabot in #319
• use submodules instead of clones in linux workflow by @baperry2 in #321
• Adding the radiation module by @wjge in #313
• Allow manual dispatch of CI by @baperry2 in #322
• Updates for PelePhysics reorganization. by @baperry2 in #325
• Adapt to PeleRad in PelePhysics by @jrood-nrel in #326
• Add triple flame test by @jrood-nrel in #330
• Update CMake for Soot, Spray, and Radiation by @jrood-nrel in #331
• Bump Submodules/PelePhysics from 0b396f4 to 771ab82 by @dependabot in #333
• Fix missing title in citation by @marchdf in #334
• Bump Submodules/PelePhysics from 771ab82 to e3f2077 by @dependabot in #339
• Bump Submodules/PelePhysics from e3f2077 to de505b3 by @dependabot in #342
• fix regrid for the radiation module by @wjge in #345
• Fix BC Types due to breaking AMReX change by @baperry2 in #343
• Abort on unused parmparse inputs in tests by @baperry2 in #348
• Incompressible fix/periodic channel/transport model consolidation by @ThomasHowarth in #350
• Force YCOrder compile option by @baperry2 in #344
• Abort on unused inputs in Linux tests by @baperry2 in #351
• Bump Submodules/PelePhysics from c125141 to c2d6577 by @dependabot in #352
• Bump Submodules/AMReX-Hydro from 2b89ad7 to 6f77e32 by @dependabot in #353
• CVODE maxstep documentation by @ThomasHowarth in #354
• Add citation by @marchdf in #355
• Bump Submodules/AMReX-Hydro from 6f77e32 to 111a42c by @dependabot in #356
• Fix doi url link by @marchdf in #357
• Bump Submodules/PelePhysics from 71fdec3 to 50b990b by @dependabot in #358
• Bump Submodules/AMReX-Hydro from 111a42c to d61ab60 by @dependabot in #359
• Bump Submodules/AMReX-Hydro from d61ab60 to 51cd822 by @dependabot in #362
• n_files input by @ThomasHowarth in #361
• Bump Submodules/PelePhysics from 50b990b to c0f30b9 by @dependabot in #365
• Turb Inflow: move support codes to PelePhysics, add documentation by @baperry2 in #366
• Fix counterflow spray case for spray changes a while back by @baperry2 in #367
• Bump Submodules/PelePhysics from 80f2cfa to 5f197f2 by @dependabot in #368
• Update ci.yml by @SreejithNREL in #372
• Bump Submodules/PelePhysics from 5f197f2 to 95ce985 by @dependabot in #374
• CI deprecation fixes by @baperry2 in #373
• Bump Submodules/PelePhysics from 95ce985 to 1bea1bf by @dependabot in #376
• Boundary patch implementation by @SreejithNREL in #369
• Update Tutorials_FlowPastCyl.rst by @baperry2 in #378
• Bump Submodules/PelePhysics from 1bea1bf to 6557148 by @dependabot in #379
• Fix codespell by @baperry2 in #381
• Bump Submodules/PelePhysics from 6557148 to 575c71f by @dependabot in #382
• Bump Submodules/PelePhysics from 575c71f to 0aee17a by @dependabot in #383
• updates needed for peleparams for PMF and transport by @baperry2 in #387
• Bump Submodules/PelePhysics from b17d6b7 to 19ccf85 by @dependabot in #388
• AMR+EB subtlety by @esclapez in #385
• Bump Submodules/AMReX-Hydro from 51cd822 to 17569e1 by @dependabot in #393
• Shallow submod by @baperry2 in #394
• do proper shallow submodule update in clonedeps by @baperry2 in #395
• Update PelePhysics: AMReX with bottom solve fix by @baperry2 in #397
• Add ctest config file by @jrood-nrel in #399
• Enable CTest earlier by @jrood-nrel in #400
• User function to patch flow variables after restart from plot file by @SreejithNREL in #398
• Reset time and nsteps by @SreejithNREL in #402
• With AMReX PRs #4039 and #4048, face_divfree_interp ensures the by @cgilet in #403
• Feature overwrite plt file by @EnnaDelfen in #406
• Bump Submodules/PelePhysics from fe882f0 to 1be18ca by @dependabot in #409
• Bump Submodules/AMReX-Hydro from 17569e1 to 681640d by @dependabot in #408
• update clang tidy action version to avoid distutils issue by @baperry2 in #411
• Spark ignition utility by @ThomasHowarth in #404
• Bump Submodules/PelePhysics from 1be18ca to 1e7eb65 by @dependabot in #412
• Print temporals in CSV format by @baperry2 in #410
• New Options for Chi Correction in MAC Projections by @baperry2 in #401
• use explicit soot cleanup call by @baperry2 in #413
• Parse for adv_redist_type and diff_redist_type by @dmontgomeryNREL in #417
• Bump Submodules/PelePhysics from 060a7ae to aaede47 by @dependabot in #419
• Bump Submodules/AMReX-Hydro from 681640d to 3ab9864 by @dependabot in #420
• Eosparm support in PeleLMeX by @baperry2 in #414
• Add warning report for docs by @jrood-nrel in #421
• Bump Submodules/PelePhysics from b703644 to e371e15 by @dependabot in #423
• update PP to get fixes for 2D compiler warnings by @baperry2 in #424
• Bump Submodules/PelePhysics from 45ae8ba to 5761481 by @dependabot in #426
• DivU constraint with arbitrary sources by @dmontgomeryNREL in #428
• "ODE" quantities and user defined external sources by @dmontgomeryNREL in #427
• pin intel-oneapi version in CI by @baperry2 in #434
• Bump Submodules/AMReX-Hydro from 3ab9864 to 3788361 by @dependabot in #433
• Add full manifold model capability by @baperry2 in #415
• Update PelePhysics and add path to new utility by @dmontgomeryNREL in #435
• Bump Submodules/AMReX-Hydro from 3ab9864 to 3788361 by @dependabot in #438
• Bump Submodules/PelePhysics from 327aadb to f54b084 by @dependabot in #439
• Use ubuntu-24.04 in CI by @jrood-nrel in #437
• Soret isothermal wall fix by @ThomasHowarth in #391
• Bump Submodules/AMReX-Hydro from 3788361 to 13141b5 by @dependabot in #442
• Bump Submodules/PelePhysics from f54b084 to 66113ee by @dependabot in #444
• use runtime specnames for manifold EOS, also add more physics checks by @baperry2 in #436
• add error check on pressure matching for Manifold EOS by @baperry2 in #448
• Bump Submodules/PelePhysics from 9625a85 to 760e2fe by @dependabot in #450
• Composition verification for external sources by @dmontgomeryNREL in #443
• fix error for divu calc for manifold when its not being used with Null mech by @baperry2 in #453
• Bump Submodules/PelePhysics from 760e2fe to b462d64 by @dependabot in #456
• fix RY2R calc in regrid for manifold by @baperry2 in #454
• run isothermal Soret channel as a test by @baperry2 in #441
• update README with link to Pele pubs page by @baperry2 in #460
• Bump Submodules/PelePhysics from b462d64 to 88b9f99 by @dependabot in #458
• Bump Submodules/AMReX-Hydro from 13141b5 to 95d6afe by @dependabot in #459
• Bump Submodules/PelePhysics from 88b9f99 to 652a64f by @dependabot in #466
• fix codespell errors by @baperry2 in #469
• Add option to plot external sources by @dmontgomeryNREL in #468
• From prior commit: fix bug with indexing in plt when LES is not active by @baperry2 in #470
• Bump Submodules/PelePhysics from 652a64f to eedcf0b by @dependabot in #471
• Counterflow Diffusion Flame Validation by @justint1997 in #461
• fix indexing in plotting by @dmontgomeryNREL in #475
• Add check during ODEQty initialization by @dmontgomeryNREL in #481
• Add option to plot state before init proj by @baperry2 in #482
• use host manfunc data on host eosparm by @baperry2 in #484
• Fix ProbParm for HITDecay case on GPU by @baperry2 in #480
• Bump Submodules/AMReX-Hydro from 95d6afe to f05ddfa by @dependabot in #487
• change macro USE_EFIELD to USE_PLASMA by @EnnaDelfen in #483
• update pelephysics by @baperry2 in #485
• instruct user to use regrid_int with AMR active in BFS tutorial by @baperry2 in #490
• Use ubuntu 24 in all CI by @jrood-nrel in #492
• Update cache cleanup by @jrood-nrel in #495
• move reset covered mask outside if to avoid undefined usage by @baperry2 in #494
• Add information about Hypre to docs by @dmontgomeryNREL in #493
• Bump Submodules/PelePhysics from 4e9548e to 8b942d4 by @dependabot in #498
• pass prob parm as pointer to user defined source term function by @baperry2 in #499
• Feature: Auxiliary scalars by @ThomasHowarth in #467
• Workarounds for bcnormal being called for walls by @baperry2 in #501

New Contributors

• @wjge made their first contribution in #313
• @SreejithNREL made their first contribution in #372
• @EnnaDelfen made their first contribution in #406
• @dmontgomeryNREL made their first contribution in #417
• @justint1997 made their first contribution in #461

Full Changelog: v23.11...v25.04