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HarrisSheet development merge 240124#138

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RevathiJambunathan merged 111 commits intoRevathiJambunathan:HarrisSheetinXRevathiJambunathan/WarpX:HarrisSheetinXfrom hklion:HSdevmerge_240124hklion/WarpX:HSdevmerge_240124Copy head branch name to clipboardJan 25, 2024

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Commits on Sep 8, 2023

• Lassen RHEL8 (ECP-WarpX#4278)

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• Lassen (LLNL): Numpy==1.22

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• Lassen (LLNL): New SW Directory

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• Quartz (LLNL): New Modules, Clang (ECP-WarpX#4281)

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• Lassen (LLNL): Matplotlib fix

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Commits on Sep 9, 2023

• Lassen (LLNL): yt fix

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• Lassen (LLNL): pyTorch w/ GNU

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Commits on Sep 11, 2023

• Lassen (LLNL): GNU 11.2.1 (ECP-WarpX#4283)

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• Doc: Lassen (LLNL) Cleanup

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• Quartz (LLNL): PICMI Support (ECP-WarpX#4284)

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• add collider-relevant reduced diags (ECP-WarpX#4024)

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Commits on Sep 12, 2023

• PICMI: Add warpx_intervals option to BTD (ECP-WarpX#4288)

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• AMReX/PICSAR: Weekly Update (ECP-WarpX#4293)

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• Doc: cupy on Perlmutter (NERSC) (ECP-WarpX#4289)

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Commits on Sep 13, 2023

• Revert PR4266 - lower and uppers bounds (ECP-WarpX#4294)

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• Add flag to set GPU-aware MPI from PICMI (ECP-WarpX#4298)

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• Clang tidy CI test: add misc-definitions-in-headers check (ECP-WarpX#4253)

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Commits on Sep 15, 2023

• Conda: make (ECP-WarpX#4292)

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• Doc: Conda CUDA Development (ECP-WarpX#4290)

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Commits on Sep 18, 2023

• AMReX: Weekly Update (ECP-WarpX#4309)

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Commits on Sep 20, 2023

• Prevent NaNs in Coulomb collision module (ECP-WarpX#4304)

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Commits on Sep 21, 2023

• Fix check of PML + Silver-Mueller compatibility (ECP-WarpX#4297)

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• Lassen (LLNL): Sources & Builds Off-Home (ECP-WarpX#4311)

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Commits on Sep 22, 2023

• Implement Galilean PML (ECP-WarpX#733)

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• Clang tidy CI test: add almost all misc-* checks (ECP-WarpX#4268)

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Commits on Sep 23, 2023

• Use cupy when available with the particle container wrapper (ECP-WarpX#4203)

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Commits on Sep 25, 2023

• fix distribution map initialization for particle buffers in BTD (ECP-WarpX#4318)

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• Doc: Perlmutter (NERSC) E4S 23.05 Boost & CCache (ECP-WarpX#4302)

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• Add get_charge_density to python WarpXParticleContainer (ECP-WarpX#4300)

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• AMReX: Weekly Update (ECP-WarpX#4322)

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• Particle fields diagnostic support for PICMI (ECP-WarpX#4262)

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Commits on Sep 26, 2023

• Add particle sorting parameters to pywarpx (ECP-WarpX#4323)

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Commits on Sep 27, 2023

• Glossary: CEX, SEE (ECP-WarpX#4325)

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Commits on Sep 29, 2023

• Add fluids in WarpX (ECP-WarpX#3991)

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• RZ m=0 mode support for particle field diagnostics (ECP-WarpX#4291)

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• Fix clang-tidy error [readability-simplify-boolean-expr] (ECP-WarpX#4328)

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Commits on Sep 30, 2023

• Clean-up docs for PR3991, fluids (ECP-WarpX#4330)

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Commits on Oct 2, 2023

• Bump up HDF5 version on PM to 1.12.2.7 (ECP-WarpX#4333)

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Commits on Oct 4, 2023

• Merge nodal synchronization with FillBoundary calls in PML (ECP-WarpX#3534)

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• Add SymPy notebook to derive PSATD equations in PML (ECP-WarpX#4316)

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• CI: Unbreak macOS (libomp) (ECP-WarpX#4341)

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• Close ECP-WarpX#4331 segfault when activating nuclearfusion collisions (ECP-WarpX#4338)

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Commits on Oct 5, 2023

• Momentum-conserving gather for MR ratio higher than 2 (ECP-WarpX#1650)

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• Badge: Minor RTD Link Cleanup

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• ensure that mass is specified (ECP-WarpX#4337)

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• Release 23.10 (ECP-WarpX#4344)

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Commits on Oct 9, 2023

• Add new PRL paper using WarpX (ECP-WarpX#4351)

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Commits on Oct 10, 2023

• [pre-commit.ci] pre-commit autoupdate (ECP-WarpX#4352)

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• Lassen (LLNL): TOSS3 Setup (ECP-WarpX#4346)

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• Fix issues with cupy-WarpX interoperability (ECP-WarpX#4348)

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Commits on Oct 11, 2023

• Change default behavior of picmi.FieldDiagnostic and picmi.ParticleDiagnostic & fix CI tests (ECP-WarpX#4317)

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Commits on Oct 12, 2023

• Added extended writeup to the docs for PR3991, fluids (ECP-WarpX#4365)

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Commits on Oct 13, 2023

• Electrostatic Diagnostics for j: Default to Direct Deposition (ECP-WarpX#4362)

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Commits on Oct 14, 2023

• Python: Clean Out Old Bindings (ECP-WarpX#4233)

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Commits on Oct 16, 2023

• Restore get_particle_boundary_buffer_structs functionality from before pyamrex transition (ECP-WarpX#4367)

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• Fix bug in clang-tidy configuration file (ECP-WarpX#4321)

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• Fix: CMake Python_EXECUTABLE (ECP-WarpX#4379)

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Commits on Oct 17, 2023

• Reorder WarpX.H so that public, protected, and private only appear once (ECP-WarpX#4340)

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• CMake: pip_install_nodeps Target (ECP-WarpX#4361)

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• [pre-commit.ci] pre-commit autoupdate (ECP-WarpX#4378)

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• Fix: Fails in Python Callbacks Abort (ECP-WarpX#4380)

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• AMReX/PICSAR: Weekly Update (ECP-WarpX#4363)

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Commits on Oct 18, 2023

• Add RZ support for Ohm's law solver (ECP-WarpX#4161)

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• Python: Rename Callback Files (ECP-WarpX#4381)

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Commits on Oct 19, 2023

• add instructions for leonardo hpc (ECP-WarpX#4353)

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Commits on Oct 21, 2023

• GetAndSetPosition: General Particle PIdx (ECP-WarpX#4386)

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Commits on Oct 23, 2023

• AMReX: Weekly Update (ECP-WarpX#4387)

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Commits on Oct 25, 2023

• Lassen (LLNL): h5py (ECP-WarpX#4388)

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• Machines: HDF5 & ADIOS2 Tools in PATH (ECP-WarpX#4389)

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Commits on Oct 26, 2023

• Clang tidy CI test: add some cppcoreguidelines-* checks (ECP-WarpX#4149)

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• Fix External AMReX Builds (ECP-WarpX#4390)

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Commits on Oct 27, 2023

• CI: setup-python < 3.12

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• Doc: Python Backtrace in CXX Segfaults (ECP-WarpX#4391)

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Commits on Oct 30, 2023

• AMReX/pyAMReX/PICSAR: Weekly Update (ECP-WarpX#4396)

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• Docs: Add Particles-in-PML Paper (ECP-WarpX#4398)

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Commits on Oct 31, 2023

• Doc: Fix IPAC23 DOI (ECP-WarpX#4399)

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Commits on Nov 3, 2023

• Python 3.12: Refactor out Distutils (ECP-WarpX#4392)

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• Properly flush metadata of incomplete BTD, at the end of simulation (ECP-WarpX#4372)

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• Remove call to WarpX::GetInstance from InitializeMacroMultiFabUsingParser (ECP-WarpX#4138)

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• Remove Cori from documentation (ECP-WarpX#3939)

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Commits on Nov 4, 2023

• Allow negative mean velocity with NFluxPerCell (ECP-WarpX#4397)

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Commits on Nov 7, 2023

• Bug fix: the electric field calculation for ionization had a bug if external electric field and grid electric field co-exist in the quasi-cylindrical geometry. This commit fixes this bug. (ECP-Warp…

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• add Nicks (2023) to science highlights (ECP-WarpX#4407)

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Commits on Nov 8, 2023

• In doGatherShapeN, for RZ use temporaries for Er and Etheta (ECP-WarpX#4409)

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• Release 23.11 (ECP-WarpX#4410)

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Commits on Nov 9, 2023

• AMReX/pyAMReX/PICSAR: Weekly Update (ECP-WarpX#4417)

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Commits on Nov 16, 2023

• CI: Unbreak macOS (ECP-WarpX#4427)

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Commits on Nov 17, 2023

• Update AMReX to latest commit (ECP-WarpX#4423)

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• Remove legacy references to EvolveEM which had been renamed Evolve (ECP-WarpX#4422)

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• Parallelize scraping (ECP-WarpX#4418)

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• Doc: Laser Pulse Manip. for LPI (ECP-WarpX#4414)

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• Fix unused variable with OpenPMD=OFF (ECP-WarpX#4421)

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Commits on Nov 20, 2023

• AMReX: Weekly Update (ECP-WarpX#4431)

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• Add paper using WarpX for laser-driven fusion (ECP-WarpX#4428)

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Commits on Nov 21, 2023

• [pre-commit.ci] pre-commit autoupdate (ECP-WarpX#4433)

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• Add python binding to WarpXParticleContainer::sumParticleCharge (ECP-WarpX#4406)

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Commits on Nov 22, 2023

• Refinement patch parser (ECP-WarpX#4299)

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• Make the static variable "authors" of the WarpX class a private member of the WarpX class (ECP-WarpX#4404)

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• Add gaussian_parse_momentum_function (ECP-WarpX#4400)

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Commits on Nov 23, 2023

• Make whitespace alignment more consistent (ECP-WarpX#4440)

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Commits on Nov 26, 2023

• fix minor bug in picmi ParticleDiagnostic (ECP-WarpX#4442)

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Commits on Nov 27, 2023

• Set the particle fields directly to the constant external fields (ECP-WarpX#4339)

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• Clang tidy CI test: add almost all modernize-* checks (ECP-WarpX#4319)

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• Move AnyFFT.H and FFT wrappers into ablastr (ECP-WarpX#4005)

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• AMReX/pyAMReX/PICSAR: Weekly Update (ECP-WarpX#4447)

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Commits on Nov 28, 2023

• CI: numprocs * numthreads <= 2 (ECP-WarpX#4450)

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• Doc: Fix Typo <probe>.integrate = true (ECP-WarpX#4449)

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• Maxlevel user option for external field initialization (ECP-WarpX#4326)

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• CPU CI: Always Serialize (ECP-WarpX#4451)

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• Contributing style and conventions additions (ECP-WarpX#4452)

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Commits on Jan 24, 2024

• Merge branch 'development' into HSdevmerge_240124

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