Age | Commit message (Collapse) | Author | Files | Lines |
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* fixed unused variable warning
* fixed unwanted copy
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* [Draft] Doc: Lassen (LLNL)
Document installation and usage on Lassen (LLNL).
* [Draft] Doc: Quartz (LLNL)
Document installation and usage on Quartz (LLNL).
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* Use fewer guard cells for deposition
* Update some CI benchmarks
* Revert "Update some CI benchmarks"
This reverts commit 2f40062557d75e3f6b2d3ba284332b8a92a0d404.
* Check if shapes and guard cells are compatible only for rho
* Do not allocate one extra guard cell for J
* Add more relaxed check on shapes and guard cells for J
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* Increase size of sigma_star by 1 in nodal mode
* Add do_nodal to FabFactory<SigmaBox>
* Add ifdef WARPX_USE_PSATD directives
* Increase size of sigma_star arrays by one regardless of nodal state
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Since our CI is cloud-based, we can get various kinds of
CPUs in different runs. For machine-precision tests, I got
the feeling that some tests that rely heavily on exact numbers
are overly strict with respect to guarantees between various
CPU generations, esp. since we rely on fastmath.
This will output the CPU type at the beginning of runs, so we
can find out more when tests fail with "checksum" (output data
fingerprint) errors.
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* Update inputs_3d
* Apply suggestions from code review
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
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* apply style conventions to LaserParticleContainer
* fix bug
* apply style convention to another variable
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(#1385)
* Add option to only resample cells with high enough number of macroparticles
* Apply suggestions from code review
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
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* Checksum: Add laser-ion acc.
* Laser-Ion Acceleration Example
Add a new example for laser-ion acceleration.
* Load Balancing: Add Best Practices
Add newly found best practices for load balancing.
M. Rowan et al., submitted to SC20, 2020 :)
Co-authored-by: Michael E Rowan <38045958+mrowan137@users.noreply.github.com>
* Laser-Ion Acceleration Example Update
New blocking factor needs new reduced extends.
* Checksum: Update laser-ion acc.
* Finalize Reference Densities
Co-authored-by: Tools <warpx@lbl.gov>
Co-authored-by: Michael E Rowan <38045958+mrowan137@users.noreply.github.com>
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* Add MaxField reduced diagnostic
* Add test of the MaxField reduced diag
* Minor modifications
* Fix test input file
* Use read_raw_data.py module in test
* Merge FieldEnergy and MaxField reduced diags
* Add specific error message if old syntax is used
* Fix column header numbers
* Update copyright
* Change name of diag in input file from Field to FieldReduced
* Add comment when allocating MultiFAB
* Add BackwardCompatibility () function
* Update Source/Diagnostics/ReducedDiags/MultiReducedDiags.cpp
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
* Add FieldReduced.cpp in CMakeLists.txt
* Apply suggestions from code review
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Remove magic numbers and update MFIter construct
* Apply suggestions from code review
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Fix typo
* Do a reduction on the fly instead of allocating a MultiFAB
* Interpolate fields to cell center before computing maximum value of |E| and |B|
* Reseparate FieldReduced into FieldEnergy and MaxField
* Fix few typos
* Replace MaxField with FieldMaximum
Co-authored-by: MaxThevenet <mthevenet@lbl.gov>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
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Thread multiple support is not the default on Cori.
One needs to set this with an environment variable.
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* Use amrex::ParallelForRNG for random number generation
In order to support RNG on non-Nvidia GPUs, we need to use
amrex::ParallelForRNG for kernels with calls to AMReX random number
generation functions.
* missing a RandomEngine argument
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* First working version of tests
* Add comments to test
* Add test in WarpX-test.ini and initial checksum json file
* Add resampling to input parameters doc
* Uncomment lines about checksum in analysis script + Fix minor typos
* Add momentum in plotfiles (for checksum) + Fix minor typoes
* Remove particle_theta from checksum json file
* Remove rho from checksum json file
* Fix syntax error in checksum json file
* Add benchmark values
* Update Docs/source/running_cpp/parameters.rst
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Have one Resampling object per species
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
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* Added stub for current correction in RZ spectral solver
* Fixed comments in RZ spectral for current correction stub
* Modified automated test for Galilean PSATD (#1033)
* Impemented current correction in RZ spectral
* Implementation Galilean version of RZ spectral solver
* For RZ spectral, do forward and backward transform with current correction
* Big fix in DivEFunctor.cpp for RZ spectral
* Added RZ rho diagnostic for saving the modes
* Implemented fft_periodic_single_box for RZ spectral
* Moved routines from SpectralSolverRZ.H to .cpp
* Added hook for VayDeposition in GalileanPsatdAlgorithmRZ
* Bug fix in DivEFunctor
* Fixes and cleanup for GalileanPsatdAlgorithmRZ
* Fix line spacing in SpectralSolverRZ.H
* Fix factor 1/2 in update of Ep_m
* Fix factor 1/2 in update of Em_m
* Fix sign error in current correction in GalileanPsatdAlgorithmRZ.cpp
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* Add Langmuir RZ PSATD test with current correction
* Add Galilean tests with/without current correction
* For RZ psatd, simplified copy for forward transform
* Added GalileanPsatdAlgorithmRZ.cpp to CMakeLists
* Minor cleanup in RZ spectral solver
* In GalileanPsatdAlgorithmRZ.cpp use member initialization for m_v_galilean
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* Added some _rt to GalileanPsatdAlgorithmRZ.cpp
Co-authored-by: Olga Shapoval <30510597+oshapoval@users.noreply.github.com>
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
Co-authored-by: Edoardo Zoni <ezoni@lbl.gov>
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This provide another two user-managed software modules:
BlasPP and LapackPP.
This saves us and our users from manually installing them when
building WarpX with PSATD support in RZ geometry.
Tested with:
```
cmake .. -DWarpX_OPENPMD=ON -DWarpX_PSATD=ON -DWarpX_DIMS=RZ
make -j 16
```
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* option to have absorbing BC for particles, regarless of field BC
* document input parameter particles.absorbing_bc
* minor, just add a small comment
* clarify doc and use better input parameter
* clarify documentation
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Request C++17 in GNUmake for DPC++ builds. This is now required since
we use MKL headers that are in C++17 and since SYCL 2020 and later
rely on C++17 or newer.
(In fact, `dpcpp` beta07 and newer already defaulted to C++17.)
This updates the explicit GNUmake flag (request exactly one standard).
The CMake flags in WarpX are "request C++14 or newer" and AMReX
CMake files push those up to "request C++17 or newer" for DPC++.
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* Add strings rho_<species_name> to m_varnames
* Initialize rho functor for each species
* Get charge density per species
* Correct selection of species to dump rho
* Clear vector of string used to parse input
* Add missing Doxygen parameter
* Update documentation
* Fix bug introduced in RZ geometry
* Add includes
* Rename variables as species_variables
* Replace 0 with 0u (unsigned)
* Simplify using range-based loops
* Use range-checked .at() to access vector elements
* Improve comments
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* fixed non portable embedding of a directive within macro arguments
* removed unused variables
* Update Source/Particles/ParticleCreation/FilterCreateTransformFromFAB.H
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/ParticleCreation/FilterCreateTransformFromFAB.H
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/ParticleCreation/FilterCreateTransformFromFAB.H
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* fixed style
* Update Source/Particles/ParticleCreation/FilterCreateTransformFromFAB.H
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* Update Source/Particles/ParticleCreation/FilterCreateTransformFromFAB.H
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
* code cleaning
* fixed bug
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
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* removed extra ;
* fixed unused variable
* changed variable name to avoid shadowing
* fixed bug
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Add single precision build instructions for GNUmake as well.
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We have a pilot project on Summit that allows us (me?) to
deploy user-managed software. We now deploy ZPF 0.5.5,
ADIOS 2.6.0 (both not yet on the official modules) as well
as openPMD-api 0.12.0 (yay!).
```
module load ums
module load ums-aph114
module load openpmd-api/0.12.0
```
Happy computing :rocket:
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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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PICSAR table generation builds with Boost 1.66.0 or newer.
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* Initial version of use_damp_in_z_guard option
* Fix typo in WarpX.H
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
* Changed use_damp_in_z_guard to use_damp_fields_in_z_guard
* Added documentatin for use_damp_fields_in_z_guard
* Clean up for use_damp_fields_in_z_guard
* Added use_damp_fields_in_z_guard to picmi interface, and moved it to the psatd input group
* For RZ spectral, damping of the fields is on by default when not periodic
* Updated documentation for use_damp_fields_in_z_guard
Co-authored-by: Edoardo Zoni <59625522+EZoni@users.noreply.github.com>
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Adding a simple spack environment to install all dependencies to
build the documentation locally. This is just an alternative to the
already provided (pip) `requirements.txt` file (prequisite: have
doxygen installed).
Activating and installing this environment will provide *all*
dependencies (incl. Doxygen) that are needed to build the whole
documentation locally. Spack manual link:
https//spack.readthedocs.io/en/latest/environments.html#anonymous-environments
Inside WarpX' `Docs/` directory:
```
spack env activate -d .
spack install # only needed the first time
```
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Update more docs with the new location of the QED routines in
PICSAR (mainline development branch).
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Transition to Azure pipelines since they have:
- >50min time limit (up to 360min)
- more parallely running jobs (5->10)
We should still try to keep our build times low and potentially split
our build jobs even further.
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Update the CMake flags to build BlasPP/LapackPP in Travis-CI for RZ
builds. They changed upstream.
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Development package of MKL is now `intel-oneapi-mkl-devel`
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MKL problem post-merge
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Signal to the I/O backend that no further information will be written
to a step.
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* Move the diagnostic coordinates during initialization to account for moving window at restart
* fix eol
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Re-enable CI for Intel DPC++/SYCL in beta09.
The apt package name changed and we had to apply a new work-around
for the beta08+ treatment of C++ user literals in AMReX:
`-mlong-double-64 -Xclang -mlong-double-64`.
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Document the HDF5 environment hint when building dependencies
manually.
Also fix some broken links.
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* Initial work to couple improved QED module to WarpX
* WIP to couple with WarpX the new QED library
* Continuing work to couple the new version of the QED library with WarpX
* progress towards completing coupling with new version of QED library
* WarpX coupled with new version of QED library
* default behavior is to display table generation progress
* some host device functions are now device only
* fixed bug
* bugfixing
* updating tests
* updated test
* updated test
* added initial version of tests (not working)
* added check and updated a comment
* fixed bug
* added inputfiles and analysis script for new BW tests
* test for BW process are ready
* modified test
* make lgtm happy
* removed TABs
* initial work to add QS tests (not working)
* removed old tests
* fixed bug in script
* changed position of evolution of optical depth
* progress with QSR tests
* improved test
* very low energy photons are always eliminated
* added tests to regression suite
* improved test
* improved tests
* removed redundant parameter
* removed trailing white space
* updated documentation
* fix lgtm warnings
* fixed missing check on chi parameter
* fixed missing check on chi parameter & bugfixing
* improved comments
* increased tolerance in tests
* updated units in test
* now test succeds if the error is extremely small
* updated checksums
* fixed bug
* fixed some unused or uninitialized variables warnings
* now using ignore_unused instead of commenting out some variables
* fixed warnings
* partial fix of a test
* fixed test
* fixed test
* added checksums
* fixed tests
* fixed benchmark for qed_schwinger2
* removed checksums for tests which do no exist anymore
* fixed checksums for several qed tests
* fixed checksums for several qed tests
* fixed checksums
* removed unwanted checksum
* fixed checksum
* removed files which should have been deleted
* add some const
* [skip ci] added some docstrings and some const
* Update Source/Particles/ElementaryProcess/QEDInternals/BreitWheelerEngineWrapper.H
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/ElementaryProcess/QEDInternals/BreitWheelerEngineWrapper.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/ElementaryProcess/QEDInternals/QuantumSyncEngineWrapper.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* added some docstrings and some const
* replaced ManagedVectors with DeviceVectors
* Update Source/Particles/ElementaryProcess/QEDInternals/QedWrapperCommons.H
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* added some const
* removed unwanted assert
* updated comment
* changed position of GPU synchronization directive
* Update Docs/source/running_cpp/parameters.rst
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Examples/Modules/qed/quantum_synchrotron/analysis.py
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Examples/Modules/qed/quantum_synchrotron/analysis.py
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Examples/Modules/qed/breit_wheeler/analysis.py
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Examples/Modules/qed/breit_wheeler/analysis.py
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* add do_plot option to some analysis scripts
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* uncomment a line
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* simplified input scripts for BW tests
* simplified input scripts for QS tests
* removed unwanted files
* simplified analysis script
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* reverted modification to schwinger analysis script
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* remove outdated comment
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Source/Particles/MultiParticleContainer.cpp
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* fix warnings
* made test more robust
* reset benchmark for qed_breit_wheeler_2d
* fixed bug in test
* make test more robust
* made test more robust
* Update Examples/Modules/qed/quantum_synchrotron/analysis.py
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update Examples/Modules/qed/quantum_synchrotron/analysis.py
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
* Update run_test.sh
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
Co-authored-by: Tools <warpx@lbl.gov>
Co-authored-by: NeilZaim <49716072+NeilZaim@users.noreply.github.com>
Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
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Simplify MPI init options to be independent of PSATD selection. Our
use of FFTD only uses the non-threaded FFTW routines.
Thread multiple is currently only needed for async I/O with AMReX
plotfiles.
Some MPI implementations allow to set the requested thread level with
`mpiexec` and/or pre-compiled variants of the lib and/or through an
environment variable, according to the standard. For example,
`MPICH_THREADLEVEL_DEFAULT` in MPICH (and derivatives have similar
names). This is done through an intricate upgrade/downgrade logic for
the provided argument (sec. 12.4.3). We print a warning if the
requested support level is not provided and a note if a stricter
support level is provided.
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Adding the location of switched-to directories to the
`run_test.sh` script, making it easier to follow its
individual steps when debugging something locally.
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* picmi - convert True/False to 1/0
* picmi - update picmi input files to use True/False for booleans
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