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2020-07-08Averaged Galilean PSATD (#869)Gravatar Olga Shapoval 1-0/+4
* Read Galilean velocity * Prepare structures for Galilean solver * Started implementing Galilean equations * Analytical limits for X1, X2, X3, X4 coefficients added * Slight changes added * Added Galilean position pusher * Scale galilean velocity * Remove unneeded Abort * Fix Galilean pusher * Allocate Theta2 array * Fix definition of coefficients * Increase guard cells for Galilean * Add guard cell in particle exchange * Added modifications for PICSAR galilean branch * Averaged coefficients added * Type corrected * v_gal added to warpx_current_deposition * v_gal added to WarpXParticleContainer.H * Bug fixed - update particle x-position over one time step * Fix issues with merge from dev * Averaged fileds allocated on fine patch (Ex) * Preparation for merging dev into galilean. * remove TABs by hand * Removed a tab. * Redeclared v_galilean as a vector & related changed * Added an automated test * Moved v_galilean inside WarpX constructor * Added analysis script for the automated test * Changed name of the automated test to galilean_psatd * Added InitializeSpectralCoefficients method * Removed temporary comments * Averaged fields added to FiledGather * Added infinite order k[i] * Setting kx_mod( kz_mod) = 0 for index = nx/2(-nz/2) * Adding galilean shift * Implemented galilean shift * Changed method's name from GalileanShift to ShiftGalileanBoundary * Added doxygen string for ShiftGalileanBoundary * Removed never used method LowerCornerWithCentering * Removed temporary comments * Removed dt as a variable from DepositCharge method and its dependencies * Changing type of v_galilean from amrex::Vector to amrex::Array * Changed back ng_fft to be equal nox_fft * Changed v_galilean's type from amrex::vector to amrex::array * Removed type * Removed temporary comments * Added flag 'do_time_averaging' to swith from unaveraged to averaged Galilean PSATD * Updated doxygen * Small fix on using 'do_time_averaging' flag * Remove some commented Print statements * [skip ci] Further cleanup * Fix compilation * Guard cells update of the averaged E,B fields * Corrected included header file accordingly * Removed EOL * Removed EOL * Corrected path of the included header file * Updated choice of the spectral solver. * Cleanup. * use amrex::exp instead of std::exp * no backward FFT for avg fields if avg is off * Need to shift avg fields in MoveWindow * Further cleaning * Added 2D automated test for averaged PSATD * Added automated 2D and 3D tests for averaged PSATD * Removed comments * Added specifications for averaged Galilean PSATD tests. * Bug fixed - do FillBoundary of the averaged fields only if averaged is activated * Do shiftMF of the averaged fields only if fft_do_time_averaging=true * Add checksum json benchmarks for averaged Galilean PSATD * Add missing indentation * Add missing indentation * Updated automated analysis script * Updated diags period * Fixed bug: no backtransform of the averaged fields when WARPX_DIM_RZ is set * Fixed an uninitialized variable * Clean-up * Changed permissions for analysis_avg_*d.py * Compactified variables initialization via conditional assignment * Initialized averaged E_avg, B_avg fields * Updated automated test for 2D averaged galilean PSATD * Updated benchmark for 2D averaged galilean PSATD * Updated automated 2D averaged PSATD test & benchmark * Updated automated 3D averaged PSATD test & benchmark * Fixed typo * Updated benchmark averaged_galilean_3d_psatd * Initialize the averaged fields only if the averaged Galilean PSATD algorithm is enabled * Encreased time step for automated 3D averaged Galilean PSATD (to be equal c*dt=dz while dz/dx=3) * Updated 3D automated test: specified standard deviations `.ux_th, .uy_th, .uz_th` along each direction * Typo from the previous commit: enabled the averaged algorithm * Trying out another input parameters for 3D averaged automated test with v_gal = v_plasma * Update benchmark for previously added 3D averaged automated test * Update 2D averaged automated test and corresponding benchmark * Revert "Updated diags period" This reverts commit 7334729b05e96589e020c981efdb430ca095991d. * Cleanup: removed unwanted comment. * Added descriptions of the 2D and 3D automated tests for the averaged Galilean PSATD. * Updated value calculated via standard Galilean PSATD. * Encreased relative error tolerance for 3D automated test for the averaged Galilean PSATD. * Removed to avoid duplication since it already specified in the corresponding 2D/3D input scripts. * Removed unwanted empty lines * Added spaces after function's names * Removed unwanted empty line * Removed * Fixed indentation * Cleanup: removed #include <math.h> * Cleanup: removed empty lines and fixed indentation * Added 'AvgGalileanAlgorithm.cpp' to 'CMakeLists.txt' Co-authored-by: Remi Lehe <remi.lehe@normalesup.org> Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
2020-06-22Remove persistent E+B (#1050)Gravatar Andrew Myers 1-52/+105
* add functor for doing the tmp particles copy for the back-transformed diagnosti * merge the particle push options into one kernel * EOL * fix assertion * add a FieldGatherandPushPX method to PhysicalParticleContainer * handle offset in copyAttribs * allow this functor to be constructed even it we aren't doing the back transformed diagnostics * EOL * update the overloads of PushPX for the Photon and RigidInjected ParticleContainers * function for dispatching the right field gather * init this val to 0.0 * fix some typos * handle scaling the fields for rigid injection * EOL * don't need to get pointers to E and B arrays in PushPX any more. * actually I can't remove these yet * EOL * variable order bug * move the QED stuff to the proper place * EOL * make sure we don't build these functors unless the runtime options are toggled * EOL * perform the field gather prior to the photon particle push * remove E and B components and FieldGather methods. Reimplement PushP for rigid injected and physical particles * update ionization to do field gather inline * remove E and B from the particle diagnostics * don't write E or B in these tests for particles * add missing files * remove EB from the Regtest ini file too * no need to do this twice * important typo * also do the gather inline for the QED processes that need to * move these sources inside ifdef for QED * fix bug in RZ * remove some fields from the Python tests. * remove all particle E and B comps from json benchmarks * don't assert that Ey is the langmuir output * remove uy from this output * update test * restore the mesh fields I turned off by mistake * turn off field IO for a few python tests I missed * fix typo * reset Langmuir_multi benchmark * update Langmuir_multi_nodal benchmark * update single precision langmuir bench * update psatd single precision languir one too * also do ionization_lab * finally, ionizaiton_boost * update benchmarks_json/Langmuir_multi_psatd.json * update benchmarks_json/Langmuir_multi_psatd_current_correction.json * update benchmarks_json/Langmuir_multi_psatd_momentum_conserving.json * update benchmarks_json/Langmuir_multi_psatd_nodal.json * remove the particle E and B from the choices in the docs * fix offset bug * also add the Gather subdirectory * Update Source/WarpX.H Co-authored-by: MaxThevenet <mthevenet@lbl.gov> * add docstring for LowerCornerWithGalilean * add new source files to CMakeLists.txt * also need to update the GPU regression tests * update the name of the output file for this python test * remove field gather call from FieldDiagnostics * fix typo in docstring * init fields to 0 * add docstring to the CopyParticleAttribs constructor * some explicit amrex::namepace Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
2020-05-25Merge particle push (#1036)Gravatar Andrew Myers 1-4/+5
* add functor for doing the tmp particles copy for the back-transformed diagnosti * merge the particle push options into one kernel * EOL * fix assertion * allow this functor to be constructed even it we aren't doing the back transformed diagnostics * EOL * init this val to 0.0 * put the push type selection in a device function so it can be reused * EOL * add docstring for the pusher selector function * EOL
2020-05-22minor bugfix for photon push (#1042)Gravatar Andrew Myers 1-2/+2
2020-03-30Remove compiler warnings (#843)Gravatar Edoardo Zoni 1-6/+0
* 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
2020-03-17Add QED particle creaction routines (#698)Gravatar Luca Fedeli 1-1/+8
* Initial work to add back QED particle generation * Work in progress: port old QED routines * Add two distinct CopyFuncs * modified getMFItInfo and CopyFunc (not working) * bugfixing & work to add back QED particle creation routines * bugfixing * added back quantum photon emission * bugfixing * bugfixing * added back pair generation (still some bugs in photon emission) * removed unwanted check * bugfixing * bugfixing * bugfixing * Moved QED folder * added comments + some refactoring * added comments * remove some virtual functions to make lgtm happy * updated tests * added PhysicalParticleType * bugfixing * added copyright * improved comments * improved comments * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * moved inclusion of QEDInternals folder * moved some inclusion directives between Make files * moved some inclusion directives between Make files (forgot to add a file) * Update Source/Particles/PhysicalParticleContainer.H 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.H 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.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/MultiParticleContainer.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * corrected alignment * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja> * removed some unnecessary amrex:: * add missing comment * Replaced BL_PROFILE with WARPX_PROFILE * bugfixing and making some variables const * removed some moves * removed some moves * started to change tau into optical_depth_BW or optical_depth_QSR * Using initialization policy to initialize optical depth * bugfixing * forgot to add a file * fixed bug * Revert "fixed bug" This reverts commit a3fb98d10cc30327635aeaa71451a05ca2229ff4. * Update Source/Particles/ElementaryProcess/QEDPairGeneration.H Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Added doQEDEvents to OneStep_sub1 * add a bunch of const * add _rt suffix * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * added path to included files * Introduced a templated AmIA<something> function using physical_species * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * added paths to included headers * updated documentation * updated examples * bugfixing * bugfixing * fixing examples * fixed example * fixed example * correct a misprint in error message * fixed issue related to 1./mass for photons * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/MultiParticleContainer.cpp Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * Update Source/Particles/ElementaryProcess/QEDPhotonEmission.H Co-Authored-By: MaxThevenet <mthevenet@lbl.gov> * make the use of energy_threshold more transparent * remove unnecessary checks * bigfixing * added comment * separate checks for QED processes * added a CheckIonizationProductSpecies for consistency * bugfixing * now using a new variable for photon energy creation threshold * removed unwanted comment * added option to set a user-defined threshold for photon creation * bugfixing * updated documentation * updated example to include new option * updated doc * fixed merge conflict * correct bug in example * reorganized function Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
2020-02-29replace tau by optical_depth_QSR and optical_depth_BW (#742)Gravatar MaxThevenet 1-5/+5
* replace tau by optical_depth_QSR and optical_depth_BW * update python analysis scripts accordingly * fix bug for BW
2020-02-27Comment/Remove Unused Parameters (#749)Gravatar Axel Huebl 1-2/+2
Use the `clang-tidy` pass `misc-unused-parameters` to remove unused parameter warnings. https://clang.llvm.org/extra/clang-tidy/checks/misc-unused-parameters.html) Committed as generic user so git does not credit the many lines to me: ```bash GIT_AUTHOR_NAME="Tools" GIT_AUTHOR_EMAIL="warpx@lbl.gov" \ git commit ```
2020-02-25Includes: Clean Up (#743)Gravatar Axel Huebl 1-11/+11
- Use `""` for WarpX-local includes - Order: WarpX `""`, AMReX `<>`, other third party includes `<>` - Add dir prefixes for WarpX Add order to includes by including from `Source/` onward and keeping directory prefixes of non-local includes for clarity.
2020-02-06Do not include 'WarpX_f.H' when not necessary.Gravatar Edoardo Zoni 1-1/+0
2020-01-31Merge branch 'dev' into soa_to_aosGravatar Andrew Myers 1-0/+7
2020-01-29rename get/set particle position functorsGravatar Andrew Myers 1-4/+4
2020-01-29Real -> ParticleRealGravatar Andrew Myers 1-1/+1
2020-01-28fix EOL whitespaceGravatar Andrew Myers 1-1/+1
2020-01-28handle rigid injection and particle splittingGravatar Andrew Myers 1-3/+0
2020-01-28switch deposition, gather, and pushers to use the get / set position functorGravatar Andrew Myers 1-4/+9
2020-01-27fix EOL whitespaceGravatar Andrew Myers 1-1/+1
2020-01-27remove the copies between soa and aos for the particle positionsGravatar Andrew Myers 1-11/+7
2020-01-27Automatically add copyright header with update_copyright.shGravatar Tools 1-0/+7
2019-11-15cleaningGravatar Luca Fedeli 1-4/+1
2019-11-13Merge remote-tracking branch 'upstream/dev' into qed_evolve_optical_depthGravatar Luca Fedeli 1-3/+3
2019-11-11Cuda -> Gpu according to AMReX changeGravatar Weiqun Zhang 1-3/+3
2019-11-06Revert "fixed bug"Gravatar Luca Fedeli 1-4/+4
This reverts commit 7220ab302e9a62116f52f0345018d48d5884bca4.
2019-11-06fixed bugGravatar Luca Fedeli 1-4/+4
2019-10-31Moved evolution of optical depth in a dedicated functionGravatar Luca Fedeli 1-11/+9
2019-10-31Allow initialization tests without QEDGravatar Luca Fedeli 1-1/+5
2019-10-31removed QED from PushPGravatar Luca Fedeli 1-122/+2
2019-10-30fixed some bugs due to mergingGravatar Luca Fedeli 1-2/+2
2019-10-30fixed merge conflictGravatar Luca Fedeli 1-3/+3
2019-10-30refactoring to comply with new style guidelinesGravatar Luca Fedeli 1-3/+3
2019-10-29simplificationGravatar Luca Fedeli 1-3/+12
2019-10-29fixed conflict due to mergingGravatar Luca Fedeli 1-6/+6
2019-10-29Merge remote-tracking branch 'upstream/dev' into qed_evolve_optical_depthGravatar Luca Fedeli 1-1/+1
2019-10-25replace 'boosted frame diags' with 'back-transformed diags'Gravatar MaxThevenet 1-1/+1
2019-10-25Merge branch 'qed_bw_qs_factory_class' into qed_evolve_optical_depthGravatar Luca Fedeli 1-3/+2
2019-10-25fix bug related to photon initializationGravatar Luca Fedeli 1-3/+2
2019-10-24Checks if has_breit_wheeler() before calling DoBreitWheelerPtiGravatar Luca Fedeli 1-1/+1
2019-10-24Add initial value (false) for test_quantum_syncGravatar Luca Fedeli 1-1/+1
2019-10-23Added optical depth evolution for photonsGravatar Luca Fedeli 1-2/+156
2019-10-21correct bugGravatar Luca Fedeli 1-1/+1
2019-10-11Moved tau initialization in AddPlasma for both photons and physical particlesGravatar Luca Fedeli 1-28/+0
2019-10-08Heavy refactoringGravatar Luca Fedeli 1-1/+4
2019-09-30Merge remote-tracking branch 'upstream/dev' into qed_phys_part_with_lambdaGravatar Luca Fedeli 1-24/+24
2019-09-26fix types, amrex::Real and amrex::ParticleRealGravatar Weiqun Zhang 1-15/+15
2019-09-19do not store old attribs in second particle push when subcyclingGravatar MaxThevenet 1-9/+9
2019-09-16Added test for unphysical QED processes in PhotonParticleContainer.cppGravatar Luca Fedeli 1-0/+8
2019-09-14Merge branch 'dev' into qed_phys_part_with_lambdaGravatar MaxThevenet 1-2/+0
2019-09-13Removed m_giv which was being set but not used.Gravatar Dave Grote 1-2/+0
2019-09-12remove outdated commentGravatar MaxThevenet 1-2/+0
2019-09-12fix merge conflicts with devGravatar MaxThevenet 1-2/+0
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