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2021-11-191D3V Cartesian Support (#2307)Gravatar Prabhat Kumar 1-1/+0
* Build System: Add 1D Geometry * test PR * test PR * 1D cartesian yee algorithm * fixed typo * Fixes for PML * 1D support related multiple changes * Fix compilation * change 1D to 1D_Z * 1D Field Gather and typo fix * 1D Charge Deposition * Particle Pusher * multiple changes related to 1D * 1D diagnostics and initialization * PlasmaInjector and PEC fixes for 1D * clean-up delete diags file * mobility 1D laser particle and bilinear filter * deleted diags files * update laser particle weight formula * delete diags files * Azure: Add 1D Cartesian Runner * 1D fixes for FieldProbe * Update Docs/source/developers/dimensionality.rst Co-authored-by: Remi Lehe <remi.lehe@normalesup.org> * 1d laser injection and langmuir test input files * 1d tests * clean up : delete print statements * analyse simulation result for laser injection and Langmuir tests * EOL * delete input files for which there are no automated tests * delete input files for which there are no automated tests * add ignore_unused to remove warnings * remove space * Fix compilation issues * fix error : macro name must be an identifier * Small bug fix * cleanup Python script for analysis * bug fix * bug fix * Update ParticleProbe: Check 1D in-domain * Update Source/Make.WarpX * Update .azure-pipelines.yml * Add USE_OPENPMD=FALSE to .azure-pipeline.yml * resolve conflict * resolve conflict * fix typo * Correct out-of-bound access * Fix Particle BC in WarpXParticleContainer and correct path to checksumAPI in python analysis scripts * EOL * Fix bug : accessing out of bound index of cell in 1D * remove 1d test for cartesian3d * Fix CI check * Slight style change * Address review comments * Fix GPU compilation Filter.cpp * Fix CI * Fix Indentation * Address review comments * More consistent ifdef for dimension bigger than 1 * Update Examples/Tests/Langmuir/analysis_langmuir_multi_1d.py Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update GNUmakefile Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Regression/prepare_file_ci.py Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/FieldSolver/FiniteDifferenceSolver/FiniteDifferenceAlgorithms/CartesianCKCAlgorithm.H Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/FieldSolver/FiniteDifferenceSolver/FiniteDifferenceAlgorithms/CartesianNodalAlgorithm.H Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Filter/Filter.cpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Filter/Filter.cpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Filter/Filter.cpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Filter/Filter.cpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Initialization/PlasmaInjector.cpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Initialization/PlasmaInjector.cpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * add comment inline to explain twice push_back * Add amrex::Abort for NCIGodfreyFilter Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> Co-authored-by: Prabhat Kumar <prabhatkumar@kraken.dhcp.lbl.gov> Co-authored-by: Remi Lehe <remi.lehe@normalesup.org> Co-authored-by: Remi Lehe <rlehe@lbl.gov>
2021-08-30ECT conformal solver (#1923)Gravatar Lorenzo Giacomel 1-4/+21
* adding base implementation of the conformal solver * adding some preprocessor directives * qualifying the isnan's correctly * getting rid of some unused fields * computing S_stab on the fly * using empty in length check * Source/FieldSolver/FiniteDifferenceSolver/EvolveB.cpp * replaced a looponcpu with a parallelfor * trying to not pass lending/borrowing info by reference in evolveB * passing data using dataPtr * converting inds into a device vector * simplifying some += * extracting the inds BaseFabs as DataPtr * Revert "extracting the inds BaseFabs as DataPtr" This reverts commit bc709d2fcaa347c119514de79a3f57169a05af65. * implementing new way ogf handling cell extensions (gpu compatible) * fixing some white spaces * removed a typo * made a function static * tidying up * tidying up * getting rid of the rho vector * moving the rho update to evolveE * refectoring the cell extension * small chenge in input parameters * updating WarpX.H * bug fix * fixing another bug * rotating the cube * updated gitignore * using the conformal soler in the cube test * fixing the signature of a function * trying to fix the setVal problem * Revert "trying to fix the setVal problem" This reverts commit c7d0e5e3709b730ff570183b2a6df5f587ca4640. * trying to fix the setVal problem * cleaning some comments * removing an abort in device code * Including geometric information in the external field initializer * cleaned up the test * moving the geometric data initialization before the external fields initialization * changing way of saving info about intruded cells * fixed some white spaces * Using S_mod instead of S_red and S_enl * substituting a std::vector with amrex::Array1D * bug fix in the uint8_t -> coords maps * Condensed ect cell info into one single MultiFab * fixing some includes * fixing some more includes * fixed a typo * making some functions available in gpu code * using tilebox instead of validbox for the geometry initialization * communicating the geometric info in the guard cells * fixing the guard cells initialization for ect * fixing an unused parameter * fixing an unused parameter * ignored some unused variables when EB is not supported * cleaning up * cleaning up * ignored some unused variables when EB is not supported * evolving rho just for ect * handling some more unused variables * removing some white spaces * adding the rotated cube test * removed some white spaces * change cells into faces * small fix in unused parameters * fixed a comment * for safety for now just initialize the geometric data when lev==maxLevel * adding some preprocessor directives to isolate EB code * updating Makefile stuff * Improving the rotated cube test * bug fix in mesh refinement * fixing boundary conditions in rotated cube test * deactivating MPI in rotated cube test * activating mpi in test * improving outputs of cells extension * improved the documentation * Update Source/EmbeddedBoundary/WarpXInitEB.cpp Co-authored-by: Weiqun Zhang <WeiqunZhang@lbl.gov> * Update Source/EmbeddedBoundary/WarpXInitEB.cpp Co-authored-by: Weiqun Zhang <WeiqunZhang@lbl.gov> * Removed some obsolete isnan's * undone change to gitignore * adding some missing AMREX_GPU_DEVICEs * Changing some amrex::Real(0) into 0. Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * Making some variables const Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * Adding amrex:: to some ignore_unused Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * Enhancing readability of some parallelfor's Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * Removed some unecessary includes * Fixing some tags Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * Fixing the function CountExtFaces * added a comment for Rhofield * Fixed a typo in CountExtCells * trying to remove accesses to private members in ComputeEdgeLengths * making some functions public * undoing some useless changes * undoing some useless changes * adding some AMREX_GPU_DEVICEs * adding some unused variables * adding some AMREX_GPU_DEVICEs to fix warnings * fixing relative error * Making several variables const Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * Fixed a comment Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * changing some double to amrex::Real * removing commented lines * changing some double to amrex::Real * removing commented lines * inizialing nelems_x,y,z to avoid a warning * Fixing number of cells * Adding missing analysis routine in rotated cube test Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> * Making some variables constexpr Co-authored-by: Weiqun Zhang <WeiqunZhang@lbl.gov> * Improving some reduce operations Co-authored-by: Weiqun Zhang <WeiqunZhang@lbl.gov> * reading time directly from the output * fixed a few data types * fixing another int * Replacing or->||, and->&&, not->! * Adding license info * Adding a white space Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * removed some unused imports * Moving the doxygen documentation * Including AMReX_LayoutData.H * removing some useless parameters * adding ect solver to the doc * Removing some useless reductions * Small change for consistency * Handling the resizing of arrays * Handling correctly the resing of arrays * Fixing some whitespaces * Fixing an indentation * Improving a comment * Removed a useless initialization * Renamed Rhofield to ECTRhofield * Renamed Rhofield to ECTRhofield * Added some if conditions to isolate some EB related code * Improved some comments Co-authored-by: Remi Lehe <remi.lehe@normalesup.org> * Made some functions not member of WarpX anymore * Isolated some EB-only code * Isolated some EB-only code * Using the square brackets to access vectors * Ignoring some unused variables * Bug fix in initialization * Removed a redundant if * Using enumeration for connectivity and improved names * Added a comment * added a few comments * Removed some useless template parameters * Printing some info only in verbose mode * Revert "Removed some useless template parameters" This reverts commit 2c527980e6872c0212767c27f00e2b53ecbcfd0a. * Fixed a bug with the neighbours enumeration * Initializing geom data alsoo in the ghost cells Co-authored-by: Weiqun Zhang <WeiqunZhang@lbl.gov> Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com> Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> Co-authored-by: Remi Lehe <remi.lehe@normalesup.org>
2021-07-06fix unused variables (#2054)Gravatar Luca Fedeli 1-2/+1
2021-06-24Use "Include What You Use" on WarpX (#1947)Gravatar Luca Fedeli 1-9/+29
* 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>
2021-04-28Fix Two Warnings for Builds Without EB (#1920)Gravatar Edoardo Zoni 1-0/+4
2021-04-27Staircased embedded boundaries in the YEE solver (#1881)Gravatar Lorenzo Giacomel 1-3/+23
* Added staircased embedded boundaris to the YEE solver * adding spherical resonating cavity test * adding functions for fields initialization * style adjustments * fixing tabs * fixed name of analysis script * fixed name of analysis script * fixed a few wrong preprocessor directives * workaround for missing boost * Revert "workaround for missing boost" This reverts commit 601f9eb2ec6f8c2100304379b2bea1c6cf9d1851. * another workaround for missing boost * getting rid of boost by depending on c++17 * Removed a few unused variables * adding USE_EB to addToCompileString for EB testing * removed tabs * fixing the inputs name for EB sphere test * shortened the test * zero padding the names of the images * adjusted two for loops * removed some unused variables * improving the fields initialization * removed the sphere test and implemented the cube test * fixed edges lengths computation and added comments * Fixed the case of all_regular geometries * fixing a bug that was breaking some tests * adding test folder * fixed the default values for the EB cube test * simplified the analysis script * fixed cubic resonator default results * inputting the plot file name from command line * fixing the diag name * Fixed a bug in edges initialization Co-authored-by: Remi Lehe <remi.lehe@normalesup.org> * Adding comments to the staircased yee solver (thanks Remi) Co-authored-by: Remi Lehe <remi.lehe@normalesup.org> * fixed the cube resonator test * removed an unused import Co-authored-by: Remi Lehe <remi.lehe@normalesup.org>
2021-03-16Add timers in routines that depend on cell-related work (#1692)Gravatar Michael E Rowan 1-7/+33
* Add timers * eol * AtomicAdd * lev argument for getCosts * style * style * wip * eol * .ipynb * passing down lev * eol * passing lev * eol * Update Source/Particles/Collision/PairWiseCoulombCollision.cpp Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * Add for QED and ionization routines * eol * remove unneeded * mfi-->pti * move cost * eol Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
2021-01-21Define: _OPENMP -> AMREX_USE_OMP (#1520)Gravatar Axel Huebl 1-2/+2
* Define: _OPENMP -> AMREX_USE_OMP Replace the define check of `_OPENMP` with the explicit backend control of `AMREX_USE_OMP` for parallel constructs. Doing so avoids that we accidentially turn on OpenMP, e.g. if a dependency pulls it in for linear algebra, I/O, etc. This can led to confusion if the user explicitly requested a serial build. Also, we might want to use OpenMP functionality here and there for auxiliary functions w/o having to use the AMReX OpenMP backend, i.e. because we compile for GPUs. * Add missing amrex::Gpu::notInLaunchRegion
2020-12-11PSATD Runtime Control (#1300)Gravatar Axel Huebl 1-1/+1
* Docs: PSATD Runtime Option * Tests: PSATD Runtime Option Add new runtime option to PSATD regression test matrix. * PICMI: PSATD runtime option * Source: PSATD Runtime Option
2020-09-18fix warnings in RZ (#1349)Gravatar Luca Fedeli 1-6/+6
2020-04-06replace ixType().ixType() with ixType().toIntVect() for clarity (#895)Gravatar MaxThevenet 1-6/+6
2020-03-13Fixed FDTD coefficients of E push from F (#804)Gravatar David Grote 1-13/+13
2020-03-02EvolveE: Update Includes (#761)Gravatar Axel Huebl 1-2/+3
Generalize includes to base path.
2020-02-26Use C++ templates in `EvolveE` function (#676)Gravatar Remi Lehe 1-0/+345
* Prepare EvolveE * Cartesian equations without current * Implement Cartesian EvolveE * Progress towards cylindrical solver * Correct typo * Implement cylindrical solver (without on-axis condition) * Fix compilation errors * Add regularization for RZ solver * Added correction term for F * Remove file for nodal stencil * Apply stylistic changes to EvolveE * Fix compilation errors * Correction to avoid out of bound * Remove references to old file * Correct bug in EvolveB * Implement correction on axis for Et * Remove previous field update functions * Remove unused code
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