AMReX-Codes/amrex: AMReX 26.05

What's Changed

• Fix DistributionMapping::SFC_Threshold by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5250
• DistributionMapping: Fix comments by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5249
• ParallelAdd: Buffer unpacking should respect the deterministic flag by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5247
• FabArray::copyTo(FAB): Fix a memory leak by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5246
• SumBoundary: Add assertion on number of destination ghost cells by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5245
• FABio_8bit reader: Fix overflow by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5244
• SUNDIALS: Use ParallelContext's communicator by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5237
• SUNDIALS: Fix N_VInvTest_MultiFab by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5236
• Robustify AMREX_ASSUME by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5254
• AMREX_ENUM: Allow non-decimal base by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5251
• AmrMesh: Recompute roundoff domain for fine Geometry objects by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5248
• Doxygen LinearSolvers by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5233
• Doxygen HDF5 by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5231
• Doxygen SUNDIALS by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5230
• Doxygen Parser by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5229
• Add version of ParticleTile using runtime-only 2D array by @AlexanderSinn in https://github.com/AMReX-Codes/amrex/pull/4404
• Add unset capability for ParmParse by @baperry2 in https://github.com/AMReX-Codes/amrex/pull/5263
• Update to new rocsparse by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5207
• GNU Make: Update ifx options by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5242
• Add CI checking release numbers in CHANGES.md by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5271
• Remove un-needed streamSynchronize from unpackRemotes by @atmyers in https://github.com/AMReX-Codes/amrex/pull/5260
• Fix HIP CI on HPSF GitLab by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5273
• Fix PolymorphicArenaWrapper Use-After-Free by @ax3l in https://github.com/AMReX-Codes/amrex/pull/5270
• Tests: Narrowing Warning in Advection by @ax3l in https://github.com/AMReX-Codes/amrex/pull/5275
• Reduce memory usage in ReduceToPlaneMF2Patchy by @BenWibking in https://github.com/AMReX-Codes/amrex/pull/5258
• avoid duplicate find_package(Conduit) by @charlesgwaldman in https://github.com/AMReX-Codes/amrex/pull/5281
• Create symbolic link during install by @nischild in https://github.com/AMReX-Codes/amrex/pull/5277
• TrackedVector by @ax3l in https://github.com/AMReX-Codes/amrex/pull/5253
• Fix out-of-bounds access in amrex::bisect by @AlexanderSinn in https://github.com/AMReX-Codes/amrex/pull/5284
• CMake: Smoke Test w/ Prefix & Stage by @ax3l in https://github.com/AMReX-Codes/amrex/pull/5283
• Fix Wrong noexcept Placements by @ax3l in https://github.com/AMReX-Codes/amrex/pull/5222
• Add an implementation of ParticleCopyPlan::doHandShake that uses one-sided communication from MPI-3 by @atmyers in https://github.com/AMReX-Codes/amrex/pull/5227
• AmrMesh: Fix max_grid_size and blocking_factor checks by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5286
• Fix type in BndryDataT::setValue by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5285
• PhysBCFunct: Fix box index type by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5298
• Gpu::Buffer: Add comments about GPU launch region by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5297
• EB: Fix index bug in eb_interp_centroid2facecent_y by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5296
• StateData::restart: Need to initialize DistribuionMapping and Factory by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5295
• AsyncArray: Add a warning by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5294
• Robustify AmrLevel::get_data in case old_time == new_time by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5293
• Amr::Finalize: Clear state_small_plot_vars by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5292
• Amr::regrid used wrong n_cycle index for new levels by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5291
• EdgeFluxRegister: Fix comments by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5290
• Fix bug in InterpCrseFineBndryEMfield by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5289
• MFInterp quadratic slope: Fix index bugs by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5287
• Doxygen EB by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5210
• Fix comments for PreBuildDirectorHierarchy by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5299
• SUNDIALS: Fix bug in N_VConstrMask_MultiFab by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5302
• SUNDIALS: Fix bug in N_VMaxNorm_MultiFab by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5301
• FillPatchNLevels: Fix component bugs by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5288
• PlotFileData: Add refRatioVect by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5300
• Comments: Add warnings on MPI collectives by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5303
• Update AGENTS.md by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5304
• Refactor AmrMesh::MakeNewGrids by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5269
• EB: Fix typo in assertion by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5306
• Guard flag-dependent tests in CTest setup by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5305
• RealBox: Robustify operator>> by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5309
• Gpu::Buffer: Remove some noexcept's to allow for exceptions by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5307
• Remove deprecated GNU Make option: GPU_ERROR_CHECK by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5315
• Fix Hypre bug in 2D by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5314
• Hypre 3D: Fix index bug by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5313
• Add comments to prefetch functions by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5311
• Hypre 1D bug: Forgot to initialized diag_inv. by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5312
• Fix bug in AMREX_GPU_LAUNCH_DEVICE_LAMBDA_RANGE_3 by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5316
• SYCL: Fix potential resource leak in the large kernel path by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5317
• Linear Solver Tests: Loosen convergence tolerance for single precision by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5319
• AmrMesh::checkInput: No need to check blocking factor for single level by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5320
• Fix noexcept warnings by Coverity by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5321
• Robustify IntVect and RealVect read by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5310
• Fix CPU implementation of Reduce::MinMax(n, ptr) by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5322
• Fix bug in Tests/ParmParse by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5324
• Align Arena allocations to 256 bytes by @AlexanderSinn in https://github.com/AMReX-Codes/amrex/pull/5278
• RK: Add comments clarifying what callback should do by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5327
• Tests: Fix AMREX_HOME in some tests' gnu make file by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5325
• Add assertion to MultiFab and iMultiFab Copy by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5332
• RK2: pass time+dt as stage 2 time to the RHS function by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5326
• MFIter Tiling: Set a default tile size in MFItInfo::SetTiling(bool) by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5334
• SmallMatrix: Omega by @ax3l in https://github.com/AMReX-Codes/amrex/pull/5330
• EdgeFluxRegister: add plus() member function by @BenWibking in https://github.com/AMReX-Codes/amrex/pull/5329
• Fix comments by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5341
• Fix typo in amrex_avgdown_edges by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5340
• Edge cases for boundary normal vector in coarsen_from_fine by @eebasso in https://github.com/AMReX-Codes/amrex/pull/5352
• Add option to fill ghost cells in average_cellcenter_to_face by @BenDavisonPetch in https://github.com/AMReX-Codes/amrex/pull/5345
• Remove noexcept from Vector's operator[] to allow for exception by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5356
• Remove amrex::IsStdVector by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5355
• Parser: Disallow setConstant and registerVariables after being compiled. by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5359
• Parser: Strip CR (\r) by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5357
• Parser: Add check for empty expression by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5358
• Fix in 2D set_eb_data that gave incorrect vcent and vfrac for anisotropic cells (dx =/= dy) by @eebasso in https://github.com/AMReX-Codes/amrex/pull/5353
• Table::copy: add assertion by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5350
• Table: Fix missing template parameter by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5349
• Scan: Handle empty range by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5348
• Reimplement IsConvertible with std::conjunctionstd::is_convertible by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5360
• TagParallelFor: Return early in case the number of warps is 0 by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5351
• FaceDivFree interpolater: Fix component by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5361
• C++20 is now the minimum required version by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5265
• Merge RedistributeCPU and RedistributeGPU into one implementation by @atmyers in https://github.com/AMReX-Codes/amrex/pull/5268
• Curl Curl: Add support for variable alpha by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5276
• ParticleContainer: take plotfile filters by const reference by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5374
• Clang-Tidy: readability-container-contains by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5366
• Support neighbor particle tiling on the GPU by @atmyers in https://github.com/AMReX-Codes/amrex/pull/5373
• Long in numParticlesOutOfRange by @ax3l in https://github.com/AMReX-Codes/amrex/pull/5379
• Print: str() -> view() by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5377
• Clang-Tidy: modernize-use-starts-ends-with by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5367
• Add CUDA 12.2 CI test by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5381
• Fix eb_add_divergence_from_flow for anisotropic cells by @eebasso in https://github.com/AMReX-Codes/amrex/pull/5385
• Call HYPRE_DeviceInitialize after HYPRE_Init if using GPUs by @jrood-nrel in https://github.com/AMReX-Codes/amrex/pull/5336
• Align capacity to 256 bytes in ParticleTileRT by @AlexanderSinn in https://github.com/AMReX-Codes/amrex/pull/5335
• Add in-class AMREX enum registration macro AMREX_ENUM_IN_CLASS by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5387
• Avoid stream string copies with view() by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5388
• HIP: Add amrex:: to robustify the AMREX_LAUNCH_KERNEL macro by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5328
• Fix MLABecLaplacian::setBCoeffs(int,Vector) by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5382
• Support pure SoA for Neighbor particles by @atmyers in https://github.com/AMReX-Codes/amrex/pull/5376
• Fix OMP issue in BoxArray by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5403
• Use std::atomic instead omp flush by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5406
• Fix for race condition when using getConstParticleTileData in threaded region. by @atmyers in https://github.com/AMReX-Codes/amrex/pull/5404
• Update CHANGES.md for 26.05 by @WeiqunZhang in https://github.com/AMReX-Codes/amrex/pull/5416

New Contributors

• @nischild made their first contribution in https://github.com/AMReX-Codes/amrex/pull/5277
• @BenDavisonPetch made their first contribution in https://github.com/AMReX-Codes/amrex/pull/5345

Full Changelog: https://github.com/AMReX-Codes/amrex/compare/26.04...26.05