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TBG_macros.cfg
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# Copyright 2014-2018 Felix Schmitt, Axel Huebl, Richard Pausch, Heiko Burau
#
# This file is part of PIConGPU.
#
# PIConGPU is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
# the Free Software Foundation, either version 3 of the License, or
# (at your option) any later version.
#
# PIConGPU is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU General Public License for more details.
#
# You should have received a copy of the GNU General Public License
# along with PIConGPU.
# If not, see <http://www.gnu.org/licenses/>.
################################################################################
## This file describes sections and variables for PIConGPU's
## TBG batch file generator.
## These variables basically wrap PIConGPU command line flags.
## To see all flags available for your PIConGPU binary, run
## picongpu --help. The avalable flags depend on your configuration flags.
##
## Flags that target a specific species e.g. electrons (--e_png) or ions
## (--i_png) must only be used if the respective species is activated (configure flags).
##
## If not stated otherwise, variables/flags must not be used more than once!
################################################################################
################################################################################
## Section: Required Variables
## Variables in this secton are necessary for PIConGPU to work properly and should not
## be removed. However, you are free to adjust them to your needs, e.g. setting
## the number of GPUs in each dimension.
################################################################################
# Batch system walltime
TBG_wallTime="1:00:00"
# Number of GPUs in each dimension (x,y,z) to use for the simulation
TBG_gpu_x=1
TBG_gpu_y=2
TBG_gpu_z=1
# Size of the simulation grid in cells as "-g X Y Z"
# note: the number of cells needs to be an exact multiple of a supercell
# and has to be at least 3 supercells per GPU,
# the size of a supercell (in cells) is defined in `memory.param`
TBG_gridSize="-g 128 256 128"
# Number of simulation steps/iterations as "-s N"
TBG_steps="-s 100"
################################################################################
## Section: Optional Variables
## You are free to add and remove variables here as you like.
## The only exception is TBG_plugins which is used to forward your variables
## to the TBG program. This variable can be modified but should not be removed!
##
## Please add all variables you define in this section to TBG_plugins.
################################################################################
# Variables which are created by TBG (should be self-descriptive)
TBG_jobName
TBG_jobNameShort
TBG_cfgPath
TBG_cfgFile
TBG_projectPath
TBG_dstPath
# version information on startup
TBG_version="--versionOnce"
# Regex to describe the static distribution of the cells for each GPU
# default: equal distribution over all GPUs
# example for -d 2 4 1 -g 128 192 12
TBG_gridDist="--gridDist '64{2}' '64,32{2},64'"
# Specifies whether the grid is periodic (1) or not (0) in each dimension (X,Y,Z).
# Default: no periodic dimensions
TBG_periodic="--periodic 1 0 1"
# Enables moving window (sliding) in your simulation
TBG_movingWindow="-m"
################################################################################
## Placeholder for multi data plugins:
##
## placeholders must be substituted with the real data name
##
## <species> = species name e.g. e (electrons), i (ions)
## <field> = field names e.g. FieldE, FieldB, FieldJ
################################################################################
# The following flags are available for the radiation plugin.
# For a full description, see the plugins section in the online wiki.
#--<species>_radiation.period Radiation is calculated every .period steps. Currently 0 or 1
#--<species>_radiation.dump Period, after which the calculated radiation data should be dumped to the file system
#--<species>_radiation.lastRadiation If flag is set, the spectra summed between the last and the current dump-time-step are stored
#--<species>_radiation.folderLastRad Folder in which the summed spectra are stored
#--<species>_radiation.totalRadiation If flag is set, store spectra summed from simulation start till current time step
#--<species>_radiation.folderTotalRad Folder in which total radiation spectra are stored
#--<species>_radiation.start Time step to start calculating the radition
#--<species>_radiation.end Time step to stop calculating the radiation
#--<species>_radiation.omegaList If spectrum frequencies are taken from a file, this gives the path to this list
#--<species>_radiation.radPerGPU If flag is set, each GPU stores its own spectra without summing the entire simulation area
#--<species>_radiation.folderRadPerGPU Folder where the GPU specific spectras are stored
#--e_<species>_radiation.compression If flag is set, the hdf5 output will be compressed.
TBG_radiation="--<species>_radiation.period 1 --<species>_radiation.dump 2 --<species>_radiation.totalRadiation \
--<species>_radiation.lastRadiation --<species>_radiation.start 2800 --<species>_radiation.end 3000"
# Create 2D images in PNG format every .period steps.
# The slice plane is defined using .axis [yx,yz] and .slicePoint (offset from origin
# as a float within [0.0,1.0].
# The output folder can be set with .folder.
# Can be used more than once to print different images, e.g. for YZ and YX planes.
TBG_<species>_pngYZ="--<species>_png.period 10 --<species>_png.axis yz --<species>_png.slicePoint 0.5 --<species>_png.folder pngElectronsYZ"
TBG_<species>_pngYX="--<species>_png.period 10 --<species>_png.axis yx --<species>_png.slicePoint 0.5 --<species>_png.folder pngElectronsYX"
# Enable macro particle merging
TBG_<species>_merger="--<species>_merger.period 100 --<species>_merger.minParticlesToMerge 8 --<species>_merger.posSpreadThreshold 0.2 --<species>_merger.absMomSpreadThreshold 0.01"
# Notification period of position plugin (single-particle debugging)
TBG_<species>_pos_dbg="--<species>_position.period 1"
# Create a particle-energy histogram [in keV] per species for every .period steps
TBG_<species>_histogram="--<species>_energyHistogram.period 500 --<species>_energyHistogram.binCount 1024 \
--<species>_energyHistogram.minEnergy 0 --<species>_energyHistogram.maxEnergy 500000 \
--<species>_energyHistogram.filter all"
# Calculate a 2D phase space
# - requires parallel libSplash for HDF5 output
# - momentum range in m_<species> c
TBG_<species>_PSxpx="--<species>_phaseSpace.period 10 --<species>_phaseSpace.filter all --<species>_phaseSpace.space x --<species>_phaseSpace.momentum px --<species>_phaseSpace.min -1.0 --<species>_phaseSpace.max 1.0"
TBG_<species>_PSxpz="--<species>_phaseSpace.period 10 --<species>_phaseSpace.filter all --<species>_phaseSpace.space x --<species>_phaseSpace.momentum pz --<species>_phaseSpace.min -1.0 --<species>_phaseSpace.max 1.0"
TBG_<species>_PSypx="--<species>_phaseSpace.period 10 --<species>_phaseSpace.filter all --<species>_phaseSpace.space y --<species>_phaseSpace.momentum px --<species>_phaseSpace.min -1.0 --<species>_phaseSpace.max 1.0"
TBG_<species>_PSypy="--<species>_phaseSpace.period 10 --<species>_phaseSpace.filter all --<species>_phaseSpace.space y --<species>_phaseSpace.momentum py --<species>_phaseSpace.min -1.0 --<species>_phaseSpace.max 1.0"
TBG_<species>_PSypz="--<species>_phaseSpace.period 10 --<species>_phaseSpace.filter all --<species>_phaseSpace.space y --<species>_phaseSpace.momentum pz --<species>_phaseSpace.min -1.0 --<species>_phaseSpace.max 1.0"
# Write out slices of field data for every .period step
TBG_EField_slice="--E_slice.period 100 --E_slice.fileName sliceE --E_slice.plane 2 --E_slice.slicePoint 0.5"
TBG_BField_slice="--B_slice.period 100 --B_slice.fileName sliceB --B_slice.plane 2 --B_slice.slicePoint 0.5"
TBG_JField_slice="--J_slice.period 100 --J_slice.fileName sliceJ --J_slice.plane 2 --J_slice.slicePoint 0.5"
# Sum up total energy every .period steps for
# - species (--<species>_energy)
# - fields (--fields_energy)
TBG_sumEnergy="--fields_energy.period 10 --<species>_energy.period 10 --<species>_energy.filter all"
# Count the number of macro particles per species for every .period steps
TBG_macroCount="--<species>_macroParticlesCount.period 100"
# Count makro particles of a species per super cell
TBG_countPerSuper="--<species>_macroParticlesPerSuperCell.period 100 --<species>_macroParticlesPerSuperCell.period 100"
# Dump simulation data (fields and particles) to HDF5 files using libSplash.
# Data selected in .source is dumped every .period steps to the fileset .file.
TBG_hdf5="--hdf5.period 100 --hdf5.file simData --hdf5.source 'species_all,fields_all'"
# Dump simulation data (fields and particles) to ADIOS files.
# Data is dumped every .period steps to the fileset .file.
TBG_adios="--adios.period 100 --adios.file simData --adios.source 'species_all,fields_all'"
# see 'adios_config -m', e.g., for on-the-fly zlib compression
# (compile ADIOS with --with-zlib=<ZLIB_ROOT>)
# --adios.compression zlib
# for parallel large-scale parallel file-systems:
# --adios.aggregators <N * 3> --adios.ost <N>
# avoid writing meta file on massively parallel runs
# --adios.disable-meta <B>
# B = 0 is equal to false, B = 1 is true
# specify further options for the transports, see ADIOS manual
# chapter 6.1.5, e.g., 'random_offset=1;stripe_count=4'
# (FS chooses OST;user chooses striping factor)
# --adios.transport-params "semicolon_separated_list"
# select data sources for the dump
# --adios.source <comma_separated_list_of_data_sources>
# Create a checkpoint that is restartable every --checkpoint.period steps
# http://git.io/PToFYg
TBG_checkpoint="--checkpoint.period 1000"
# Select the backend for the checkpoint, available are hdf5 and adios
# --checkpoint.backend adios
# hdf5
# Restart the simulation from checkpoint created using TBG_checkpoint
TBG_restart="--checkpoint.restart"
# Select the backend for the restart (must fit the created checkpoint)
# --checkpoint.restart.backend adios
# hdf5
# By default, the last checkpoint is restarted if not specified via
# --checkpoint.restart.step 1000
# To restart in a new run directory point to the old run where to start from
# --checkpoint.restart.directory /path/to/simOutput/checkpoints
# Presentation mode: loop a simulation via restarts
# does either start from 0 again or from the checkpoint specified with
# --checkpoint.restart.step as soon as the simulation reached the last time step;
# in the example below, the simulation is run 5000 times before it shuts down
# Note: does currently not work with `Radiation` plugin
TBG_restartLoop="--checkpoint.restart.loop 5000"
# Live in situ visualization using ISAAC
# Initial period in which a image shall be rendered
# --isaac.period PERIOD
# Name of the simulation run as seen for the connected clients
# --isaac.name NAME
# URL of the server
# --isaac.url URL
# Number from 1 to 100 decribing the quality of the transceived jpeg image.
# Smaller values are faster sent, but of lower quality
# --isaac.quality QUALITY
# Resolution of the rendered image. Default is 1024x768
# --isaac.width WIDTH
# --isaac.height HEIGHT
# Pausing directly after the start of the simulation
# --isaac.directPause
# By default the ISAAC Plugin tries to reconnect if the sever is not available
# at start or the servers crashes. This can be deactivated with this option
# --isaac.reconnect false
TBG_isaac="--isaac.period 1 --isaac.name !TBG_jobName --isaac.url <server_url>"
TBG_isaac_quality="--isaac.quality 90"
TBG_isaac_resolution="--isaac.width 1024 --isaac.height 768"
TBG_isaac_pause="--isaac.directPause"
TBG_isaac_reconnect="--isaac.reconnect false"
# Print the maximum charge deviation between particles and div E to textfile 'chargeConservation.dat':
TBG_chargeConservation="--chargeConservation.period 100"
# Particle calorimeter: (virtually) propagates and collects particles to infinite distance
TBG_<species>_calorimeter="--<species>_calorimeter.period 100 --<species>_calorimeter.openingYaw 90 --<species>_calorimeter.openingPitch 30
--<species>_calorimeter.numBinsEnergy 32 --<species>_calorimeter.minEnergy 10 --<species>_calorimeter.maxEnergy 1000
--<species>_calorimeter.logScale"
# Resource log: log resource information to streams or files
# set the resources to log by --resourceLog.properties [rank, position, currentStep, particleCount, cellCount]
# set the output stream by --resourceLog.stream [stdout, stderr, file]
# set the prefix of filestream --resourceLog.prefix [prefix]
# set the output format by (pp == pretty print) --resourceLog.format jsonpp [json,jsonpp,xml,xmlpp]
# The example below logs all resources for each time step to stdout in the pretty print json format
TBG_resourceLog="--resourceLog.period 1 --resourceLog.stream stdout
--resourceLog.properties rank position currentStep particleCount cellCount
--resourceLog.format jsonpp"
################################################################################
## Section: Program Parameters
## This section contains TBG internal variables, often composed from required
## variables. These should not be modified except when you know what you are doing!
################################################################################
# Number of compute devices in each dimension as "-d X Y Z"
TBG_devices="-d !TBG_gpu_x !TBG_gpu_y !TBG_gpu_z"
# Combines all declared variables. These are passed to PIConGPU as command line flags.
# The program output (stdout) is stored in a file called output.stdout.
TBG_programParams="!TBG_devices \
!TBG_gridSize \
!TBG_steps \
!TBG_plugins"
# Total number of GPUs
TBG_tasks="$(( TBG_gpu_x * TBG_gpu_y * TBG_gpu_z ))"