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* Clang-tidy: add more misc-* checks to clang-tidy CI test
* address issues found with clang-tidy
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* pyAMReX: Build System
* CI Updates (Changed Options)
* Callback modernization (#4)
* refactor callbacks.py
* added binding code in `pyWarpX.cpp` to add or remove keys from the callback dictionary
* minor PR cleanups
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Added Python level reference to fetch the multifabs (#3)
* pyAMReX: Build System
* Added Python level reference to Ex_aux
* Now uses the multifab map
* Fix typo
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Add initialization and finalize routines (#5)
A basic PICMI input file will now run to completion.
* Regression Tests: WarpX_PYTHON=ON
* Update Imports to nD pyAMReX
* IPO/LTO Control
Although pybind11 relies heavily on IPO/LTO to create low-latency,
small-binary bindings, some compilers will have troubles with that.
Thus, we add a compile-time option to optionally disable it when
needed.
* Fix: Link Legacy WarpXWrappers.cpp
* Wrap WarpX instance and start multi particle container
* Fix test Python_pass_mpi_comm
* Start wrapper for multiparticle container
* Add return policy
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Update fields to use MultiFabs directly
Remove EOL white space
Removed old routines accessing MultiFabs
Update to use "node_centered"
* Fix compilation with Python
* Update fields.py to use modified MultiFab tag names
* Remove incorrect, unused code
* Add function to extract the WarpX MultiParticleContainer
* Complete class WarpXParticleContainer
* Wrap functions getNprocs / getMyProc
* restore `install___` callback API - could remove later if we want but should maintain backward compatibility for now
* add `gett_new` and `getistep` functions wrappers; fix typos in `callbacks.py`; avoid error in getting `rho` from `fields.py`
* Update callback call and `getNproc`/`getMyProc` function
* Replace function add_n_particles
* Fix setitem in fields.py for 1d and 2d
* also update `gett_new()` in `_libwarpx.py` in case we want to keep that API
* added binding for `WarpXParIter` - needed to port `libwarpx.depositChargeDensity()` which is an ongoing effort
* Wrap function num_real_comp
* added binding for `TotalNumberOfParticles` and continue progress on enabling 1d MCC test to run
* add `SyncRho()` binding and create helper function in `libwarpx.depositChargeDensity` to manage scope of the particle iter
* Clean up issues in fields.py
* update bindings for `get_particle_structs`
* Fix setitem in fields.py
* switch order of initialization for particle container and particle iterator
* switch deposit_charge loop to C++ code; bind `ApplyInverseVolumeScalingToChargeDensity`
* move `WarpXParticleContainer.cpp` and `MultiParticleContainer.cpp` to new Particles folder
* added binding for `ParticleBoundaryBuffer`
* More fixes for fields.py
* Fix: Backtraces from Python
Add the Python executable name with an absolute path, so backtraces
in AMReX work. See linked AMReX issue for details.
* Cleaning
* [pre-commit.ci] auto fixes from pre-commit.com hooks
for more information, see https://pre-commit.ci
* Fix: Backtraces from Python Part II
Do not add Python script name - it confuses the AMReX ParmParser to
build its table.
* Fix: CMake Dependencies for Wheel
This fixes a racecondition during `pip_install`: it was possible
that not all dimensions where yet build from pybind before we
start packing them in the wheel for pip install.
* MCC Test: Install Callbacks before Run
Otherwise hangs in aquiring the gil during shutdown.
* addition of `Python/pywarpx/particle_containers.py` and various associated bindings
* Fix: CMake Superbuild w/ Shared AMReX
We MUST build AMReX as a shared (so/dll/dylib) library, otherwise
all the global state in it will cause split-brain situations, where
our Python modules operate on different stacks.
* add `clear_all()` to callbacks in order to remove all callbacks at finalize
* add `-DWarpX_PYTHON=ON` to CI tests that failed to build
* add `get_comp_index` and continue to port particle data bindings
* Add AMReX Module as `libwarpx_so.amr`
Attribute to pass through the already loaded AMReX module with the
matching dimensionality to the simulation.
* Fix for fields accounting for guard cells
* Fix handling of ghost cells in fields
* Update & Test: Particle Boundary Scraping
* [pre-commit.ci] auto fixes from pre-commit.com hooks
for more information, see https://pre-commit.ci
* CI: Python Updates
- modernize Python setups
- drop CUDA 11.0 for good and go 11.3+ as documented already
```
Error #3246: Internal Compiler Error (codegen): "there was an error in verifying the lgenfe output!"
```
* CI: Python Updates (chmod)
* Add support for cupy in fields.py
* Add MultiFab reduction routines
* CI: CUDA 11.3 is <= Ubuntu 20.04
* changed `AddNParticles` to take `amrex::Vector` arguments
* setup.py: WarpX_PYTHON=ON
* update various 2d and rz tests with new APIs
* add `-DWarpX_PYTHON_IPO=OFF` to compile string for 2d and 3d Python CI tests to speed up linking
* CI: -DpyAMReX_IPO=OFF
* CI: -DpyAMReX_IPO=OFF
actually adding `=OFF`
* CI: Intel Python
* CI: macOS Python Executable
Ensure we always use the same `python3` executable, as specified
by the `PATH` priority.
* CMake: Python Multi-Config Build
Add support for multi-config generators, especially on Windows.
* __init__.py: Windows DLL Support
Python 3.8+ on Windows: DLL search paths for dependent
shared libraries
Refs.:
- https://github.com/python/cpython/issues/80266
- https://docs.python.org/3.8/library/os.html#os.add_dll_directory
* CI: pywarpx Update
our setup.py cannot install pyamrex yet as a dependency.
* ABLASTR: `ablastr/export.H`
Add a new header to export public globals that are not covered by
`WINDOWS_EXPORT_ALL_SYMBOLS`.
https://stackoverflow.com/questions/54560832/cmake-windows-export-all-symbols-does-not-cover-global-variables/54568678#54568678
* WarpX: EXPORT Globals in `.dll` files
WarpX still uses a lot of globals:
- `static` member variables
- `extern` global variables
These globals cannot be auto-exported with CMake's
`WINDOWS_EXPORT_ALL_SYMBOLS` helper and thus we need to mark them
manually for DLL export (and import) via the new ABLASTR
`ablastr/export.H` helper macros.
This starts to export symbols in the:
- WarpX and particle container classes
- callback hook database map
- ES solver
* CI: pywarpx Clang CXXFLAGS Down
Move CXXFLAGS (`-Werror ...`) down until deps are installed.
* GNUmake: Generate `ablastr/export.H`
* CMake: More Symbol Exports for Windows
* `WarpX-tests.ini`: Simplify Python no-IPO
Also avoids subtle differences in compilation that increase
compile time.
* Update PICMI_inputs_EB_API.py for embedded_boundary_python_API CI test
* Fix Python_magnetostatic_eb_3d
* Update: Python_restart_runtime_components
New Python APIs
* Windows: no dllimport for now
* CI: Skip `PYINSTALLOPTIONS` For Now
* CMake: Dependency Bump Min-Versions
for external packages picked up by `find_package`.
* Fix F and G_fp names in fields.py
* Tests: Disable `Python_pass_mpi_comm`
* Wrappers: Cleanup
* pyWarpX: Include Cleaning
* [pre-commit.ci] auto fixes from pre-commit.com hooks
for more information, see https://pre-commit.ci
* fields.py: Fix F and G Wrappers
Correct MultiFab names (w/o components).
* Remove unused in fields.py
* Windows: New Export Headers
- ABLASTR: `ablastr/export.H`
- WarpX: `Utils/export.H`
* removed `WarpInterface.py` since that functionality is now in `particle_containers.py`; removed parts of `WarpXWrappers.cpp` that have been ported to pyamrex
* CMake: Link OBJECT Target PRIVATE
* CMake: Remove OBJECT Target
Simplify and make `app` link `lib` (default: static). Remove OBJECT
target.
* Fix in fields.py for the components index
* Update get_particle_id/cpu
As implemented in pyAMReX with
https://github.com/AMReX-Codes/pyamrex/pull/165
* WarpX: Update for Private Constructor
* Import AMReX Before pyd DLL Call
Importing AMReX will add the `add_dll_directory` to a potentially
shared amrex DLL on Windows.
* Windows CI: Set PATH to amrex_Nd.dll
* CMake: AMReX_INSTALL After Python
In superbuild, Python can modify `AMReX_BUILD_SHARED_LIBS`.
* Clang Win CI: Manually Install requirements
Sporadic error is:
```
...
Installing collected packages: pyparsing, numpy, scipy, periodictable, picmistandard
ERROR: Could not install packages due to an OSError: [WinError 32] The process cannot access the file because it is being used by another process: 'C:\\hostedtoolcache\\windows\\Python\\3.11.4\\x64\\Lib\\site-packages\\numpy\\polynomial\\__init__.py'
Consider using the `--user` option or check the permissions.
```
* Hopefully final fixes to fields.py
* Update getProbLo/getProbHi
* Set plasma length strength
Co-authored-by: Remi Lehe <remi.lehe@normalesup.org>
* Fix fields method to remove CodeQL notice
* Update Comments & Some Finalize
* Move: set_plasma_lens_strength
to MPC
---------
Co-authored-by: Roelof Groenewald <40245517+roelof-groenewald@users.noreply.github.com>
Co-authored-by: David Grote <dpgrote@lbl.gov>
Co-authored-by: Remi Lehe <remi.lehe@normalesup.org>
Co-authored-by: Dave Grote <grote1@llnl.gov>
Co-authored-by: Roelof Groenewald <regroenewald@gmail.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
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* init some variables at declaration
* make code more readable
* avoid lossy function result cast
* Update Source/Initialization/WarpXInitData.cpp
Co-authored-by: Weiqun Zhang <WeiqunZhang@lbl.gov>
* replace with equality
* Revert "replace with equality"
This reverts commit e3164f9e053d345b153d770ae107a7f68c4bb260.
* Update Source/Diagnostics/ComputeDiagFunctors/ParticleReductionFunctor.cpp
Co-authored-by: Weiqun Zhang <WeiqunZhang@lbl.gov>
---------
Co-authored-by: Weiqun Zhang <WeiqunZhang@lbl.gov>
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* Multi-Dim Buildsystem Support
* Docs
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* Use gemm on GPU for Hankel transform
* Add stream synchronization
* Add `amrex`
* blas::gemm call: add `queue` with device id
* CMake: BLAS++ Missing Deps
* Update installation instructions for Summit
* CMake: BLAS++ should not need curand
* Add paths to blaspp/lapackpp
* Move Queue Constructor to Constructor
* [pre-commit.ci] auto fixes from pre-commit.com hooks
for more information, see https://pre-commit.ci
* Correct name of profiled area
* Use gemm for inverse Hankel transform
* Add missing comma
* Clean up the code so that it compiles for CPU
* Clean up code ; update documentation
* Update Comment
Co-authored-by: Remi Lehe <remi.lehe@normalesup.org>
* Update Tools/machines/summit-olcf/summit_warpx.profile.example
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Add stream synchronization
* Switch to streamsynchronize
* Update comments
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
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amrex::Array4 is a 4D array that can be accessed with three spatial indices
plus an optional component index. We must always provide all three spatial
indices even in 2D.
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* initial work to add msg formatter
* wip
* replace AMREX_ALWAYS_ASSERT_WITH_MESSAGE with WarpX equivalent
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* initial tests with IWYU
* added a couple of forward declarations
* used iwyu on more files
* progress
* used iwyu on more files
* progress with iwyu
* progress with iwyu
* fixed bug
* progress with iwyu
* progress with IWYU
* progress with IWYU
* fixed bug
* fixed bug
* progress with IWYU
* progress with IWYU + use forward declarations in WarpX.H
* first try with .def files
* fix bugs
* progress with IWYU
* progress with IWYU
* progress with iwyu
* correct copyright
* fixed bug
* fixed bugs
* fix missing include
* fixed bug
* fix bug
* fix bug introduced during last bugfix
* use iwyu on newly added files
* add space
* fix bug
* fix missing include
* fix missing include
* fix missing include
* fixed bugs
* fixed bug
* attempt at fixing issue with math functions
* added missing include
* fixed missing include
* using _fwd.H
* fixed bug
* progress with iwyu
* update AMReX branch
* enforce alphabetic order
* progress with iwyu
* use right version of amrex
* use right version of amrex for tests
* fixed bug
* fix another bug
* fix missing include
* fix missing include
* fix missing include
* updated amrex
* initial work to document new include strategy
* updated documentation
* Fix rst & private includes
* Remove accidentially added files
* Fix rst code blocks
* one more rst block
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
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* PSATD+RZ: Fix Warnings
Fix a couple of warnings in PSATD + RZ.
* BesselRoots: Missing Include & using
* Kernel & Util: Unused Code & Var
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* replace wherever possible .reset(new with = make_unique
* fixed bug
* fixed bug
* revert WarpXOpenPMD.cpp to the original version
* removed another .reset(new
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* Fix warnings for 2D/3D PSATD builds
* Fix warnings for RZ PSATD builds
* Update FIXME comment: no known bug
* Fix remaining warning for RZ PSATD builds
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* Implemented fft_periodic_single_box for RZ spectral
For RZ psatd, simplified copy for forward transform
* Apply review's suggestions and clean up
* Add few comments, fix warnings, apply style conventions
Co-authored-by: Dave Grote <dpgrote@lbl.gov>
Co-authored-by: Edoardo Zoni <ezoni@lbl.gov>
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* Added k-space filter for RZ spectral solver
* Added SpectralBinomialFilter files for RZ spectral solver
* Added RZspectral binomial filter to CMakeLists.txt
* Update Docs/source/running_cpp/parameters.rst
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* Update Docs/source/running_cpp/parameters.rst
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* Update Source/FieldSolver/SpectralSolver/SpectralBinomialFilter.H
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* Update Source/FieldSolver/SpectralSolver/SpectralBinomialFilter.cpp
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* Update Source/FieldSolver/SpectralSolver/SpectralFieldDataRZ.H
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* Fixed literals in SpectralBinomialFilter.cpp
* For RZ spectral, apply filter to rho old and new
* Added SpectralBinomialFilter::InitFilterArray
* For SpectralBinomialFilter, combine R and Z into one routine
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* For SpectralBinomialFilter, combine R and Z into one routine, part 2
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* For SpectralBinomialFilter, combine R and Z into one routine, part 3
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
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* [skip travis] CMake: Add CMake Scripts
This add CMake scripts for the CMake build system generator.
* CUDA Support Achieved
Fastest compile via:
cmake .. -DENABLE_CUDA=ON -DCUDA_ARCH=6.0
* CMake: openPMD & QED
* CMake: Dimension Support
WarpX_DIMS=2,3,RZ
* CCache & Out-of-Source
Enable CCache when found and prevent in-root builds (in-source okay-ish).
* CMake: CUDA C++ Language Minimum
* Add new Files
* CI: Migrate macOS to CMake
* Fortran: Enable Because Transitive
... for now :)
* CI: Migrate Linux ICC to CMake
* CI: Verbose Make
* CMake: Add Missing PSATD Sources
* CMake: PSATD, Compute, Precision, Clean
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* For diagnostics, added RZ modes of scalars, allowed different centerings
* For RZ, generalized the centering of the inverse volume scaling of J and rho
* Fixed spacing in ConstructTotalRZScalarField
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Added Python wrapper of charge density arrays
* Add assert ensuring that Jr is never node-centered
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Small fixes to Python to better handle particle weights
* Implementation of the RZ spectral solver
* Removed k-space filtering code
* Removed more k-space filter code from RZ spectral solver
* For RZ spectral, added _rt for literals and cleaned up namespace use
* In RZ spectral solver, cleaned up some member names
* Update Docs/source/building/rzgeometry.rst
Small fix for clarity.
Co-Authored-By: Remi Lehe <remi.lehe@normalesup.org>
* Update Source/Evolve/WarpXEvolve.cpp
Fix macro indentation
Co-Authored-By: Remi Lehe <remi.lehe@normalesup.org>
* Update Source/Evolve/WarpXEvolve.cpp
Fix more macro indentation
Co-Authored-By: Remi Lehe <remi.lehe@normalesup.org>
* Update Source/Evolve/WarpXEvolve.cpp
Fix another macro indentation
Co-Authored-By: Remi Lehe <remi.lehe@normalesup.org>
* New diagnostics support RZ (#836)
* Start implementation of new averaging with staggering:
- face-to-cell-center and edge-to-cell-center replaced so far;
- TODO: node-to-cell-center and 1D behavior (AMREX_SPACEDIM=1).
* first implementation of Diags base classes
* add example, temporarily
* Continue implementation of new averaging with staggering:
- new function takes reference to single MultiFab (no vector);
- TODO: node-to-cell-center still in progress.
* Fix small bug and clean up
* Fix bug in loop over n=0,...,ncomp-1 and clean up
* add more functions
* Add Doxygen documentation and clean up
* Small clean-up in Doxygen documentation
* Compile in single precision: add _rt suffix to avoid unnecessary conversions
* Avoid accessing staggering index directly from IntVect in innermost loops
* Replace do-while loop with for loop (default ncomp=1)
* Remove temporary pointer and pass reference to MultiFab (instead of MultiFab*)
* Replace AMREX_LAUNCH_HOST_DEVICE_LAMBDA with ParallelFor
* cleaning and initialize output mf
* use general average routine
* move flush in new class, and implemented the Plotfile derived class
* add comments
* eol
* free memory in destructor
* typo
* typo
* no need to clear MF pointers there
* though shalt not break existing tests
* FlushRaw doesnt have to be virtual for now
* The importance of being constant
* Capability to select fields in output files
* EOL
* revert to old inputs
* const in right place
* avoid brace initializer there
* oops, fix logic error in is_in
* user can choose flush interval, same behavior as plot_int
* Add option to plot raw fields
* eol
* replace ter flush with dump to avoid confusion
* add options
* Diagnostics stores a vector of functors to compute diags on the fly
* eol
* Field gather from diags to sync particle quantities
* New diagnostics handle RZ with same behavior as old ones
* cleaning and doc
* const ref for string
* smarter for loop from Axel and typo fix from Reva
* simplify code following Dave's comments
* rename mode_avg to convertRZmodes2cartesian
* Update CellCenterFunctor.H
* fill varnames and vector of functors at the same time
* WarpX instance not needed here
* add const
Co-authored-by: Edoardo Zoni <ezoni@lbl.gov>
* Add load balance options documentation (#842)
* Add load balance options documentation
* Add load balance options documentations
* EOL
* Replace tilebox by growntilebox (#849)
* Updated Profiling information in running_cpp (#776)
* Fixed link that was pointing to 404 error page
* Added motivation for profiling and TINYPROFILERS explanation
* Moved section on NERSC profiling to developers Docs
* Update Docs/source/running_cpp/profiling.rst
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Update tiny profilers suggestion Docs/source/running_cpp/profiling.rst
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Fix typo Docs/source/running_cpp/profiling.rst
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* Add a few additional diags (divE etc.) (#844)
* Start implementation of new averaging with staggering:
- face-to-cell-center and edge-to-cell-center replaced so far;
- TODO: node-to-cell-center and 1D behavior (AMREX_SPACEDIM=1).
* first implementation of Diags base classes
* add example, temporarily
* Continue implementation of new averaging with staggering:
- new function takes reference to single MultiFab (no vector);
- TODO: node-to-cell-center still in progress.
* Fix small bug and clean up
* Fix bug in loop over n=0,...,ncomp-1 and clean up
* add more functions
* Add Doxygen documentation and clean up
* Small clean-up in Doxygen documentation
* Compile in single precision: add _rt suffix to avoid unnecessary conversions
* Avoid accessing staggering index directly from IntVect in innermost loops
* Replace do-while loop with for loop (default ncomp=1)
* Remove temporary pointer and pass reference to MultiFab (instead of MultiFab*)
* Replace AMREX_LAUNCH_HOST_DEVICE_LAMBDA with ParallelFor
* cleaning and initialize output mf
* use general average routine
* move flush in new class, and implemented the Plotfile derived class
* add comments
* eol
* free memory in destructor
* typo
* typo
* no need to clear MF pointers there
* though shalt not break existing tests
* FlushRaw doesnt have to be virtual for now
* The importance of being constant
* Capability to select fields in output files
* EOL
* revert to old inputs
* const in right place
* avoid brace initializer there
* oops, fix logic error in is_in
* user can choose flush interval, same behavior as plot_int
* Add option to plot raw fields
* eol
* replace ter flush with dump to avoid confusion
* add options
* Diagnostics stores a vector of functors to compute diags on the fly
* eol
* Field gather from diags to sync particle quantities
* New diagnostics handle RZ with same behavior as old ones
* cleaning and doc
* const ref for string
* smarter for loop from Axel and typo fix from Reva
* Functors to compute some fields
* simplify code following Dave's comments
* Create subfolders and add more output options (divE etc.)
* eol
* rename mode_avg to convertRZmodes2cartesian
* Update CellCenterFunctor.H
* fill varnames and vector of functors at the same time
* output rho_new, not rho_old
* WarpX instance not needed here
* add const
* little bit more of reorganization
* Apply suggestions from code review
Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>
* add a bunch of const
* make derived classes final
Co-authored-by: Edoardo Zoni <ezoni@lbl.gov>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Add Initial Distribution Test (#735)
* Add Histogram
* Add normalization
* Add doc
* Minor
* Minor
* Fix a bug
* Add gaussian distribution test
* Fix alert and change amr.plot_int
* Add maxwell-boltzmann distribution test
* Add maxwell-boltzmann distribution test
* Add maxwell-boltzmann distribution test
* Add maxwell-juttner
* Minor
* Typo
* Minor
* Minor
* Add const
* Apply suggestions from code review
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Modify based on suggestions.
* Add histogram name
* Add bin values
* Don't add histogram name
* Modify read_raw_data.py
* Add doc
* Change ux,uy,uz units
* Change ux,uy,uz units
* Change if format
* Save some variables
* Change more
* Minor
* Fix a bug on GPU
* Fix a bug on GPU
* Add wrong species name abort
* Minor doc
* Change #include format
* Apply suggestions from code review
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Add const
* Change to member variables
* revert
* Change units based on changes of PR#727
* merge
* Add Gaussian position distribution test
* Minor
* Change based on suggestions
* Use read_raw_data.py
* Minor
* Change to no normalization
* Add more in doc
* doc
* doc
* Use relative error
* Don't divide by bin_size
* Change based on suggestions
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* Tests: Fix Bool Switch Typo OMP (#854)
useOMP is 0 (False) or 1 (True)
* Costs vector of (pointer to) vector (#829)
* [WIP] costs mf --> costs vector
* [WIP] costs vector
* [WIP] vector costs
* formatting
* makefile
* [WIP] costs vector
* [WIP] *= costs
* wts do not need to divide by num cells
* Tiling safety on CPU
* Add tests
* EOL
* Remove unneeded input
* Update Source/WarpX.H costs documentation
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Update timers with times only if user Timers update
* warpx.-->WarpX::
* warpx.-->WarpX::
* warpx.-->WarpX::
* warpx.-->WarpX::
* warpx.-->WarpX::
* add dev synch
* Update Regression/WarpX-tests.ini
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Delete inputs_loadbalance_costs_heuristic
* Update and rename inputs_loadbalancecosts_timers to inputs_loadbalancecosts
* Update WarpX-tests.ini
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* [mini-PR] Read species distribution from OPMD file (#847)
* Added <species>.profile=external_file and .profile_file
* Added description of input parameters to Docs
* Changed from profile to injection option for external file
* Fix typo in amrex abort message (due to copy paste)
* Added the OpenPMD use amrex abort message
* Minor fix - not sure how to remove EOL issue
* Tried to add AddExternalFileBeam functon to PhysicalParticleContainer
* Trued to fix EOL white space issue
* Added read/print species name from OPMD file
* Update Source/Initialization/PlasmaInjector.cpp
Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>
* Update Source/Particles/PhysicalParticleContainer.cpp
Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>
* Update Source/Particles/PhysicalParticleContainer.cpp
Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>
* Update Source/Particles/PhysicalParticleContainer.H
Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>
* Update Source/Particles/PhysicalParticleContainer.cpp
Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>
* No need to include openPMD header yet
* Fix EOL according to @ax3l's recommendation in #845
* Remove commented out AbortMessage
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Removed commented out part initialization (used only in branch for next PR)
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Added warning that this is WIP
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Changed function name to AddPlasmaFromFile
* Removed AMReX warning from loop
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* Ignore python build/dist and egg folders (#850)
* Travis CI: set max numprocs=2 and do not overwrite (#860)
* [mini-PR] Fix bug in Breit-Wheeler engine (#852)
* fixed bug in BW engine
* fixed bug
* fixed bug
* fixed bug
* fixed bug
* fixed bug
* eliminate useless variable
* updated test
* updated inputfile
* Updated tests
* increase tolerance from .04 to .07 in QED 3D BW test
* do plot pos_bw and ele_bw
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* Documentation update - towards full SI (#301)
* Added blank line after list. Changed characters in link to Q. H. Liu paper so hyoerlink works with sphinx-build 2.1.2.
* Added line cut unintentionally.
* Removed line added unintentionally.
* Same as before.
* Same as before, but hopefully successfully
* Same as before, but hopefully successfully
* Minor changes to description of PWFA example run
* Revert "Minor changes to description of PWFA example run"
This reverts commit a4d7fa969c906959b018efe683a3e585cbd741f9.
* Revert "Profiler wrapper to allow for cudaDeviceSynchronize (#738)"
This reverts commit bbefc3dad687f4370afd5bc85386d983201cb321.
* Revert "Revert "Minor changes to description of PWFA example run""
This reverts commit 965982d35361ff54d0ad10101ffc31605117e5ac.
* Revert "Minor changes to description of PWFA example run"
This reverts commit a4d7fa969c906959b018efe683a3e585cbd741f9.
* I am making a huge mess with merging
* Minor changes to description of PWFA example run
* Added explanation PWFA simulation section
* Re-structuring. Adding sections for each choice.
* Minor fix to note
* Minor changes to text
* Time step description + fixed line length
* Added FDTD and CKC selection
* Added max time step calculations
* Trying to fix EOL issue
* Added mesh refinement and moving window
* Fixed minor issues
* Fix EOL issues again
* Fixed typo - auxiliary
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
Co-authored-by: Diana Amorim <diana@henrivincenti.dhcp.lbl.gov>
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* Remove compiler warnings (#843)
* Fix compiler warnings with DIM=2
* Fix compiler warnings with USE_RZ=TRUE
* Fix compiler warnings with USE_PSATD=TRUE and DIM=2
* Fix compiler warnings with USE_PSATD=TRUE and DIM=3
* Fix bug: discard only return value when calling DefineAndReturnParticleTile
* Remove unused variables not triggering warnings
* [mini-PR] Fix energy calculation for photons in reduced diagnostics (#861)
* fix energy calculation for photons
* fixed typo and mada calculation clearer
* added photon particles in reduced diags test
* Update Source/Diagnostics/ReducedDiags/ParticleEnergy.cpp
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Update Source/Diagnostics/ReducedDiags/ParticleEnergy.cpp
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* Port rigid injection to the gpu (#862)
* port rigid injection to the gpu
* eol
* Apply suggestions from code review
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* define csqi
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* Added blocking factor to 2d and RZ geometries (#864)
* doc: fix formatting for ascent yaml examples (#865)
* [mini-PR] Clarifying ionizable particle charge (#863)
* Added documentation note on ionization particle charge
* Added correct charge of ion to be ionized
* Corrected multiplication symbol
Co-Authored-By: MaxThevenet <mthevenet@lbl.gov>
* Testing doxygen issue
* Charge correction only to ionizable species
* Trying to fix doxygen url fetch issue
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* In HankelTransform, added explicit matrix multiply for GPU
* In RZ spectral solver, update setval to be on device
* Removed CEXE_headers from FieldSolver/SpectralSolver/Make.package
* In HankelTransform, added check of the Bessel root finder
* Updated includes to RZ spectral solver
* Added comments on how Hankel transform matrix is calculated
* Added more comments to Hankel transform calculation
* For RZ spectral solver, cleaned up naming and add subdirectory for Hankel transform files
* Cleaned up code in PsatdAlgorithmRZ.cpp
* Updated comment for fields in SpectralFieldDataRZ.cpp
* Changed HankelTransformer to MultiSpectralHankelTransformer
* Updates comments in RZ spectral solver
* Removed code for k-space filtering that will be added in a later PR
* For RZ spectral solver, passed lev in
* Fixed comment in SpectralFieldDataRZ.cpp
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
Co-authored-by: Remi Lehe <remi.lehe@normalesup.org>
Co-authored-by: Edoardo Zoni <ezoni@lbl.gov>
Co-authored-by: Michael E Rowan <38045958+mrowan137@users.noreply.github.com>
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
Co-authored-by: L. Diana Amorim <LDianaAmorim@lbl.gov>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
Co-authored-by: Yinjian Zhao <yinjianzhao@lbl.gov>
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
Co-authored-by: Luca Fedeli <luca.fedeli@cea.fr>
Co-authored-by: Diana Amorim <diana@henrivincenti.dhcp.lbl.gov>
Co-authored-by: Andrew Myers <atmyers@lbl.gov>
Co-authored-by: Cyrus Harrison <cyrush@llnl.gov>
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Luca Fedeli
Axel Huebl
Remi Lehe
Weiqun Zhang
Edoardo Zoni
David Grote
