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examples/extended/parallel/MPI/.README.txt
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/// @file "parallel/MPI/.README.txt"
/// @brief Examples MPI README
/*! \page Examples_MPI Category : parallel/MPI
About the interface
===================
G4MPI is a native interface with MPI libraries. The directory contains
a Geant4 UI library and a couple of parallelized examples.
Using this interface, users applications can be parallelized with
different MPI compliant libraries, such as OpenMPI, MPICH2 and so on.
System Requirements:
--------------------
### MPI Library
The MPI interface can work with MPI-compliant libraries,
such as Open MPI, MPICH, Intel MPI etc.
For example, the information about Open MPI can be obtained from
http://www.open-mpi.org/
MPI support:
------------
G4mpi has been tested with the following MPI flavors:
* OpenMPI 1.8.1
* MPICH 3.2
* Intel MPI 5.0.1
### CMake
CMake is used to build <a href="./group__extended__parallel__MPI__libG4mpi.html"> G4MPI </a> library, that co-works with Geant4 build system.
### Optional (for exMPI02)
ROOT for histogramming/analysis
How to build G4MPI
==================
To build G4MPI library, use CMake on Geant4 library installed with CMake build.
Follow these commands,
> mkdir build
> cd build
> cmake -DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n \
-DCMAKE_INSTALL_PREFIX=<where-G4mpi-lib-will-be-installed> \
<g4source>/examples/extended/parallel/MPI/source
> make
> make install
The cmake step will try to guess where MPI is installed, mpi executables should
be in PATH. You can specify CXX and CC environment variables to your specific
mpi wrappers if needed.
The library and header files will be installed on the installation directory
specified in CMAKE_INSTALL_PREFIX
a CMake configuration file will also be installed
(see examples on how to compile an application using G4mpi)
How to use
==========
How to make parallel applications
---------------------------------
An example of a main program:
\verbatim
#include "G4MPImanager.hh"
#include "G4MPIsession.hh"
int main(int argc,char** argv)
{
// At first, G4MPImanager/G4MPIsession should be created.
G4MPImanager* g4MPI= new G4MPImanager(argc,argv);
// MPI session (G4MPIsession) instead of G4UIterminal
G4MPIsession* session= g4MPI-> GetMPIsession();
// user application setting
G4RunManager* runManager= new G4RunManager();
....
// After user application setting, just start a MPI session.
MPIsession treats both interactive and batch modes.
session-> SessionStart();
// Finally, terminate the program
delete g4MPI;
delete runManager;
}
```
\endverbatim
How to compile
---------------
Using cmake, assuming G4mpi library is installed in path _g4mpi-path_ and
Geant4 is installed in _g4-path_:
> mkdir build
> cd build
> cmake -DGeant4_DIR=<g4-path>/lib[64]/Geant4-V.m.n \
-DG4mpi_DIR=<g4mpi-path>/lib[64]/G4mpi-V.m.n \
<source>
> make
Check provided examples: under examples/extended/parallel/MPI/examples for an
example of CMakeLists.txt file to be used.
### Notes about session shell
LAM/MPI users can use "G4tcsh" as an interactive session shell.
For other users (Open MPI/MPICH2), plesae use G4csh (default).
In case of OpenMPI, *LD_LIBRARY_PATH* for OpenMPI runtime libraries
should be set at run time. Alternatively, you can add this path
to the dynamic linker configuration using `ldconfig`.
(needs sys-admin authorization)
MPI runtime Environment
-----------------------
1. Make hosts/cluster configuration of your MPI environment.
2. Launch MPI runtime environment, typically executing
`lamboot` (LAM) / `mpdboot` (MPICH2) / `mpd` (Intel).
How to run
----------
For example,
> mpiexec -n # <your application>
<p>Replace mpicxx with your MPI compiler wrapper if you need to specify which one to use.</p>
Instead, `mpirun` command is more convenient for LAM users.
MPI G4UI commands
-----------------
G4UI commands handling the G4MPI interface are placed in /mpi/.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Command directory path : /mpi/
Guidance :
MPI control commands
Sub-directories :
Commands :
verbose * Set verbose level.
status * Show mpi status.
execute * Execute a macro file. (=/control/execute)
beamOn * Start a parallel run w/ thread.
.beamOn * Start a parallel run w/o thread.
masterWeight * Set weight for master node.
showSeeds * Show seeds of MPI nodes.
setMasterSeed * Set a master seed for the seed generator.
setSeed * Set a seed for a specified node.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
### Notes:
While "/run/beamOn" and "/mpi/beamOn" commands invoke beam-on in background,
so you can input UI commands even while event processing. Note that drawing
tracks in OpenGL with these commands causes a crash. Please use /mpi/.beamOn
command instead.
The original "/control/execute" and "/run/beamOn" are overwritten
with "/mpi/execute" and "/mpi/beamOn" commands respectively,
that are customized for the MPI interface.
Examples
========
There are a couple of examples for Geant4 MPI applications.
For using ROOT libraries (exMPI02)
- *ROOTSYS* : root path of the ROOT package
\link exMPI01 exMPI01 \endlink
A simple application.
**Configuration:**
- Geometry : chamber / calorimeter
- Primary : particle gun (200 MeV electron as default)
- Physics List : FTFP_BERT
**Features:**
- Particles are transported in a geometry without any scoring.
- Learn how to parallelized your G4 session.
\link exMPI02 exMPI02 (ROOT application) \endlink
An example of dosimetry in a water phantom.
Note: due to limited MT support in ROOT, in this example
MT is disabled, but the code is migrated to MT, ready
for MT when ROOT will support MT.
For an example of MT+MPI take a look at exMPI03
**Configuration:**
- Geometry : water phantom
- Primary : broad beam (200 MeV proton)
- Physics List : FTFP_BERT
- Analysis : ROOT histogramming
**Features:**
- Score dose distribution in a water phantom.
- Learn how to parallelized your applications.
- Create a ROOT file containing histograms/trees in each node.
\link exMPI03 exMPI03 (merging of histograms via MPI) \endlink
This example is the same as exMPI02 with the following
differences:
- It uses g4tools instead of ROOT for histogramming
- It shows how to merge, using g4tools, histograms via MPI
so that the entire statistics is accumulated in a single output file
- It also shows how to merge G4Run objects from different ranks and
how to merge scorers
- MT is enabled.
\link exMPI04 exMPI04 (merging of ntuples via MPI) \endlink
This example is the same as exMPI03 with added ntuple.
- It uses g4tools for histogramming and ntuples.
- It shows how to merge, using g4tools, ntuples via MPI in sequential mode,
so that the entire statistics is accumulated in a single output file.
- If MT is enabled, the ntuples are merged from threads to
files per ranks.
- Combined MT + MPI merging is not yet supported.
- Merging ntuples is actually supported only with Root output format.
*/
examples/extended/parallel/MPI/README.md
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Geant4 MPI Interface
====================
Author:
Koichi Murakami (KEK) / Koichi.Murakami@kek.jp
Andrea Dotti (SLAC) / adotti@slac.stanford.edu
About the interface
===================
G4MPI is a native interface with MPI libraries. The directory contains
a Geant4 UI library and a couple of parallelized examples.
Using this interface, users applications can be parallelized with
different MPI compliant libraries, such as OpenMPI, MPICH2 and so on.
System Requirements:
--------------------
### MPI Library
The MPI interface can work with MPI-compliant libraries,
such as Open MPI, MPICH, Intel MPI etc.
For example, the information about Open MPI can be obtained from
http://www.open-mpi.org/
MPI support:
------------
G4mpi has been tested with the following MPI flavors:
* OpenMPI 1.8.1
* MPICH 3.2
* Intel MPI 5.0.1
### CMake
CMake is used to build G4MPI library, that co-works with Geant4 build system.
### Optional (for exMPI02)
ROOT for histogramming/analysis
How to build G4MPI
==================
To build G4MPI library, use CMake on Geant4 library installed with CMake build.
Follow these commands,
> mkdir build
> cd build
> cmake -DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n \
-DCMAKE_INSTALL_PREFIX=<where-G4mpi-lib-will-be-installed> \
<g4source>/examples/extended/parallel/MPI/source
> make
> make install
The cmake step will try to guess where MPI is installed, mpi executables should
be in PATH. You can specify CXX and CC environment variables to your specific
mpi wrappers if needed.
The library and header files will be installed on the installation directory
specified in CMAKE_INSTALL_PREFIX
a CMake configuration file will also be installed
(see examples on how to compile an application using G4mpi)
How to use
==========
How to make parallel applications
---------------------------------
An example of a main program:
```c++
#include "G4MPImanager.hh"
#include "G4MPIsession.hh"
int main(int argc,char** argv)
{
// At first, G4MPImanager/G4MPIsession should be created.
G4MPImanager* g4MPI= new G4MPImanager(argc,argv);
// MPI session (G4MPIsession) instead of G4UIterminal
G4MPIsession* session= g4MPI-> GetMPIsession();
// user application setting
G4RunManager* runManager= new G4RunManager();
....
// After user application setting, just start a MPI session.
MPIsession treats both interactive and batch modes.
session-> SessionStart();
// Finally, terminate the program
delete g4MPI;
delete runManager;
}
```
How to compile
---------------
Using cmake, assuming G4mpi library is installed in path _g4mpi-path_ and
Geant4 is installed in _g4-path_:
> mkdir build
> cd build
> cmake -DGeant4_DIR=<g4-path>/lib[64]/Geant4-V.m.n \
-DG4mpi_DIR=<g4mpi-path>/lib[64]/G4mpi-V.m.n \
<source>
> make
Check provided examples: under examples/extended/parallel/MPI/examples for an
example of CMakeLists.txt file to be used.
### Notes about session shell
LAM/MPI users can use "G4tcsh" as an interactive session shell.
For other users (Open MPI/MPICH2), plesae use G4csh (default).
In case of OpenMPI, *LD_LIBRARY_PATH* for OpenMPI runtime libraries
should be set at run time. Alternatively, you can add this path
to the dynamic linker configuration using `ldconfig`.
(needs sys-admin authorization)
MPI runtime Environment
-----------------------
1. Make hosts/cluster configuration of your MPI environment.
2. Launch MPI runtime environment, typically executing
`lamboot` (LAM) / `mpdboot` (MPICH2) / `mpd` (Intel).
How to run
----------
For example,
> mpiexec -n # <your application>
<p>Replace mpicxx with your MPI compiler wrapper if you need to specify which one to use.</p>
Instead, `mpirun` command is more convenient for LAM users.
MPI G4UI commands
-----------------
G4UI commands handling the G4MPI interface are placed in /mpi/.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Command directory path : /mpi/
Guidance :
MPI control commands
Sub-directories :
Commands :
verbose * Set verbose level.
status * Show mpi status.
execute * Execute a macro file. (=/control/execute)
beamOn * Start a parallel run w/ thread.
.beamOn * Start a parallel run w/o thread.
masterWeight * Set weight for master node.
showSeeds * Show seeds of MPI nodes.
setMasterSeed * Set a master seed for the seed generator.
setSeed * Set a seed for a specified node.
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
### Notes:
While "/run/beamOn" and "/mpi/beamOn" commands invoke beam-on in background,
so you can input UI commands even while event processing. Note that drawing
tracks in OpenGL with these commands causes a crash. Please use /mpi/.beamOn
command instead.
The original "/control/execute" and "/run/beamOn" are overwritten
with "/mpi/execute" and "/mpi/beamOn" commands respectively,
that are customized for the MPI interface.
Examples
========
There are a couple of examples for Geant4 MPI applications.
For using ROOT libraries (exMPI02)
- *ROOTSYS* : root path of the ROOT package
exMPI01
-------
A simple application.
**Configuration:**
- Geometry : chamber / calorimeter
- Primary : particle gun (200 MeV electron as default)
- Physics List : FTFP_BERT
**Features:**
- Particles are transported in a geometry without any scoring.
- Learn how to parallelized your G4 session.
exMPI02 (ROOT application)
--------------------------
An example of dosimetry in a water phantom.
Note: due to limited MT support in ROOT, in this example
MT is disabled, but the code is migrated to MT, ready
for MT when ROOT will support MT.
For an example of MT+MPI take a look at exMPI03
**Configuration:**
- Geometry : water phantom
- Primary : broad beam (200 MeV proton)
- Physics List : FTFP_BERT
- Analysis : ROOT histogramming
**Features:**
- Score dose distribution in a water phantom.
- Learn how to parallelized your applications.
- Create a ROOT file containing histograms/trees in each node.
exMPI03 (merging of histograms via MPI)
---------------------------------------
This example is the same as exMPI02 with the following
differences:
- It uses Geant4 analysis instead of ROOT for histogramming
- It shows how to merge, using g4tools, histograms via MPI
so that the entire statistics is accumulated in a single output file
- It also shows how to merge G4Run objects from different ranks and
how to merge scorers
- MT is enabled.
- Root output files from application run with `mpiexec -n 3`
- dose-merged.root - merged histograms
- dose-rank0,1,2 - histograms data collected on rank 0, 1,2 before merge
exMPI04 (merging of ntuples via MPI)
---------------------------------------
This example is the same as exMPI03 with added ntuple.
- It uses Geant4 analysis for histogramming and ntuples.
- It shows how to merge, using g4tools, ntuples via MPI in sequential mode,
so that the entire statistics is accumulated in a single output file.
- If MT is enabled, the ntuples are merged from threads to
files per ranks.
- Combined MT + MPI merging is not yet supported.
- Merging ntuples is actually supported only with Root output format.
- Root output files from application run with `mpiexec -n 4`
- Sequential application:
(3 working ranks, 1 rank dedicated for collecting ntuple data)
- dose-merged.root - merged histograms
- dose-rank0,1,2.root - histograms data collected on rank 0 before merge
- dose-rank3 - ntuples merged from ranks 0, 1 and 2
- MT application:
(4 working ranks)
- dose-merged.root - merged histograms
- dose-rank0, 1, 2, 3.root - histograms data collected on rank N before merge;
ntuples merged on rank N from rank threads
examples/extended/parallel/MPI/ctests-definitions.cmake
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#Workaround: rely on executables build by cmake since it does not compile
#correctly because FindG4mpi.cmake is not found
find_package(MPI QUIET)
if(NOT MPI_CXX_FOUND)
message(STATUS "G4 Examples: MPI not found --> mpi based tests disabled")
return()
endif()
message(STATUS "G4 Examples: mpi examples will use mpi launcher: " ${MPIEXEC})
# Base output dir for MPI examples:
set(G4MPI_CTESTS_BASE_OUTPUT_DIR "${CMAKE_BINARY_DIR}/examples/extended/parallel/MPI")
# Set G4mpi_DIR fo later pass-down to examples
set(G4mpi_DIR "${G4MPI_CTESTS_BASE_OUTPUT_DIR}/G4mpi")
# - Build/Test G4mpi
geant4_add_test(mpi-libg4mpi
COMMAND ${CMAKE_COMMAND} -E echo "G4mpi build complete"
SOURCE_DIR ${CMAKE_CURRENT_LIST_DIR}/source
BINARY_DIR ${G4mpi_DIR}
PROJECT libG4mpi
BUILD G4mpi
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
LABELS MPI
)
# - Build/Test exMPI01
# variable to simplify paths
set(G4MPI_EX01_BINDIR ${G4MPI_CTESTS_BASE_OUTPUT_DIR}/exMPI01)
geant4_add_test(mpi-ex01-sequential
SOURCE_DIR ${CMAKE_CURRENT_LIST_DIR}/examples/exMPI01
BINARY_DIR ${G4MPI_EX01_BINDIR}
PROJECT exMPI01
BUILD exMPI01
COMMAND ${G4MPI_EX01_BINDIR}/exMPI01 run.mac
WORKING_DIRECTORY ${G4MPI_EX01_BINDIR}
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
DEPENDS mpi-libg4mpi
LABELS MPI
)
# Needs G4mpi
set_property(TEST mpi-ex01-sequential APPEND PROPERTY ENVIRONMENT G4mpi_DIR=${G4mpi_DIR})
geant4_add_test(mpi-ex01
COMMAND ${MPIEXEC} -n 2 ${G4MPI_EX01_BINDIR}/exMPI01 run.mac
WORKING_DIRECTORY ${G4MPI_EX01_BINDIR}
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
DEPENDS mpi-ex01-sequential
LABELS MPI
)
# - Build/Test exMPI02
# Needs ROOT
find_package(ROOT QUIET)
if(ROOT_FOUND)
set(G4MPI_EX02_BINDIR ${G4MPI_CTESTS_BASE_OUTPUT_DIR}/exMPI02)
geant4_add_test(mpi-ex02-sequential
SOURCE_DIR ${CMAKE_CURRENT_LIST_DIR}/examples/exMPI02
BINARY_DIR ${G4MPI_EX02_BINDIR}
PROJECT exMPI02
BUILD exMPI02
COMMAND ${G4MPI_EX02_BINDIR}/exMPI02 run.mac
WORKING_DIRECTORY ${G4MPI_EX02_BINDIR}
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
DEPENDS mpi-libg4mpi
LABELS MPI
)
# Needs G4mpi
set_property(TEST mpi-ex02-sequential APPEND PROPERTY ENVIRONMENT G4mpi_DIR=${G4mpi_DIR})
geant4_add_test(mpi-ex02
COMMAND ${MPIEXEC} -n 2 ${G4MPI_EX02_BINDIR}/exMPI02 run.mac
WORKING_DIRECTORY ${G4MPI_EX02_BINDIR}
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
DEPENDS mpi-ex02-sequential
LABELS MPI
)
else()
message(STATUS "G4 Examples: MPI example exMPI02 disabled: ROOT not found")
endif()
# - Build/Test exMPI03
# variable to simplify paths
set(G4MPI_EX03_BINDIR ${G4MPI_CTESTS_BASE_OUTPUT_DIR}/exMPI03)
geant4_add_test(mpi-ex03-sequential
SOURCE_DIR ${CMAKE_CURRENT_LIST_DIR}/examples/exMPI03
BINARY_DIR ${G4MPI_EX03_BINDIR}
PROJECT exMPI03
BUILD exMPI03
COMMAND ${G4MPI_EX03_BINDIR}/exMPI03 run.mac
WORKING_DIRECTORY ${G4MPI_EX03_BINDIR}
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
DEPENDS mpi-libg4mpi
LABELS MPI
)
# Needs G4mpi
set_property(TEST mpi-ex03-sequential APPEND PROPERTY ENVIRONMENT G4mpi_DIR=${G4mpi_DIR})
geant4_add_test(mpi-ex03
COMMAND ${MPIEXEC} -n 2 ${G4MPI_EX03_BINDIR}/exMPI03 run.mac
WORKING_DIRECTORY ${G4MPI_EX03_BINDIR}
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
DEPENDS mpi-ex03-sequential
LABELS MPI
)
# - Build/Test exMPI04
# variable to simplify paths
set(G4MPI_EX04_BINDIR ${G4MPI_CTESTS_BASE_OUTPUT_DIR}/exMPI04)
geant4_add_test(mpi-ex04-sequential
SOURCE_DIR ${CMAKE_CURRENT_LIST_DIR}/examples/exMPI04
BINARY_DIR ${G4MPI_EX04_BINDIR}
PROJECT exMPI04
BUILD exMPI04
COMMAND ${G4MPI_EX04_BINDIR}/exMPI04 run.mac
WORKING_DIRECTORY ${G4MPI_EX04_BINDIR}
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
DEPENDS mpi-libg4mpi
LABELS MPI
)
# Needs G4mpi
set_property(TEST mpi-ex04-sequential APPEND PROPERTY ENVIRONMENT G4mpi_DIR=${G4mpi_DIR})
geant4_add_test(mpi-ex04
COMMAND ${MPIEXEC} -n 3 ${G4MPI_EX04_BINDIR}/exMPI04 run.mac
WORKING_DIRECTORY ${G4MPI_EX04_BINDIR}
ENVIRONMENT ${GEANT4_TEST_ENVIRONMENT}
DEPENDS mpi-ex04-sequential
LABELS MPI
)
examples/extended/parallel/MPI/examples/exMPI01/.README.txt
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/// @file "MPI/examples/exMPI01/.README.txt"
/// @brief Example exMPI01 README
/*! \page exMPI01 Example : exMPI01
Description
===========
A simple application
### Configuration:
- Geometry : chamber / calorimeter
- Primary : particle gun (200 MeV electron as default)
- Physics List : FTFP_BERT
The environment variable *G4LEDATA* for low energy EM data is required.
### Features:
- Particles are transported in a geometry without any scoring.
- Learn how to parallelized your G4 session.
- - -
How to build
============
Use CMake on Geant4 library installed with CMake build.
This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)
Follow these commands,
> mkdir build
> cd build
> cmake -DG4mpi_DIR=<where-G4mpi-wasintalled>/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n <path-to-source>
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
> make
> make install
Replace mpicxx with your MPI-compiler wrapper.
*/
examples/extended/parallel/MPI/examples/exMPI01/README.html
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<!DOCTYPE html>
<html>
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
<meta name="generated-by" content="Markdown PRO, http://markdownpro.com"/>
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<body>
<h1>MPI/Examples : exMPI01</h1>
<h2>Description</h2>
<p>A simple application</p>
<h3>Configuration:</h3>
<ul>
<li>Geometry : chamber / calorimeter</li>
<li>Primary : particle gun (200 MeV electron as default)</li>
<li>Physics List : FTFP_BERT</li>
</ul>
<h3>Features:</h3>
<ul>
<li>Particles are transported in a geometry without any scoring.</li>
<li>Learn how to parallelized your G4 session.</li>
</ul>
<h2>How to build</h2>
<p>Use CMake on Geant4 library installed with CMake build.</p>
<p>This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)</p>
<p>Follow these commands,</p>
<pre><code>&gt; mkdir build
&gt; cd build
&gt; cmake -DG4mpi_DIR=&lt;where-G4mpi-wasintalled &gt;/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=&lt;your Geant4 install path
&gt;/lib[64]/Geant4-V.m.n &lt;path-to-source&gt;<
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
&gt; make<
&gt; make install
</code></pre>
</body>
</html>
examples/extended/parallel/MPI/examples/exMPI01/README.md
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MPI/Examples : exMPI01
======================
Description
-----------
A simple application
### Configuration:
- Geometry : chamber / calorimeter
- Primary : particle gun (200 MeV electron as default)
- Physics List : FTFP_BERT
### Features:
- Particles are transported in a geometry without any scoring.
- Learn how to parallelized your G4 session.
How to build
------------
Use CMake on Geant4 library installed with CMake build.
This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)
Follow these commands,
> mkdir build
> cd build
> cmake -DG4mpi_DIR=<where-G4mpi-wasintalled>/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n <path-to-source>
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
> make
> make install
Replace mpicxx with your MPI-compiler wrapper.
examples/extended/parallel/MPI/examples/exMPI02/.README.txt
+50
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/// @file "MPI/examples/exMPI02/.README.txt"
/// @brief Example exMPI02 README
/*! \page exMPI02 Example : exMPI02
Description
===========
An example of dosimetry in a water phantom.
### Configuration:
- Geometry : water phantom
- Primary : broad beam (200 MeV proton)
- Physics List : FTFP_BERT
- Analysis : ROOT histogramming
The environment variables, *G4LEDATA*, *G4LEVELGAMMADATA* and *G4SAIDXSDATA*
are required for data files.
The enviromnet variable, *ROOTSYS*, is set to the root path of the ROOT package.
### Features:
- Score dose distribution in a water phantom.
- Learn how to paralleized your applications.
- Create a ROOT file containing histograms/trees in each node.
Each slave node generate a ROOT file, whose file name is different
from each other.
- - -
How to build
============
Use CMake on Geant4 library installed with CMake build.
This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)
Follow these commands,
> mkdir build
> cd build
> cmake -DG4mpi_DIR=<where-G4mpi-wasintalled>/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n <path-to-source>
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
> make
> make install
Replace mpicxx with your MPI-compiler wrapper.
*/
examples/extended/parallel/MPI/examples/exMPI02/README.html
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<body>
<h1>MPI/Examples : exMPI02</h1>
<h2>Description</h2>
<p>An example of dosimetry in a water phantom.</p>
<h3>Configuration:</h3>
<ul>
<li>Geometry : water phantom</li>
<li>Primary : broad beam (200 MeV proton)</li>
<li>Physics List : FTFP_BERT</li>
<li>Analysis : ROOT histogramming</li>
</ul>
<p>The environment variables, <em>G4LEDATA</em>, <em>G4LEVELGAMMADATA</em> and <em>G4SAIDXSDATA</em>
are required for data files.</p>
<p>The enviromnet variable, <em>ROOTSYS</em>, is set to the root path of the ROOT package.</p>
<h3>Features:</h3>
<ul>
<li>Score dose distribution in a water phantom.</li>
<li>Learn how to paralleized your applications.</li>
<li>Create a ROOT file containing histograms/trees in each node.
Each slave node generate a ROOT file, whose file name is different
from each other.</li>
</ul>
<h2>How to build</h2>
<p>Use CMake on Geant4 library installed with CMake build.</p>
<p>This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)</p>
<p>Follow these commands,</p>
<pre><code>&gt; mkdir build
&gt; cd build
&gt; cmake -DG4mpi_DIR=&lt;where-G4mpi-wasintalled &gt;/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=&lt;your Geant4 install path
&gt;/lib[64]/Geant4-V.m.n &lt;path-to-source&gt;<
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
&gt; make<
&gt; make install
</code></pre>
</body>
</html>
examples/extended/parallel/MPI/examples/exMPI02/README.md
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MPI/Examples : exMPI02
======================
Description
-----------
An example of dosimetry in a water phantom.
### Configuration:
- Geometry : water phantom
- Primary : broad beam (200 MeV proton)
- Physics List : FTFP_BERT
- Analysis : ROOT histogramming
The environment variables, *G4LEDATA*, *G4LEVELGAMMADATA* and *G4SAIDXSDATA*
are required for data files.
The enviromnet variable, *ROOTSYS*, is set to the root path of the ROOT package.
### Features:
- Score dose distribution in a water phantom.
- Learn how to paralleized your applications.
- Create a ROOT file containing histograms/trees in each node.
Each slave node generate a ROOT file, whose file name is different
from each other.
How to build
------------
Use CMake on Geant4 library installed with CMake build.
This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)
Follow these commands,
> mkdir build
> cd build
> cmake -DG4mpi_DIR=<where-G4mpi-wasintalled>/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n <path-to-source>
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
> make
> make install
Replace mpicxx with your MPI-compiler wrapper.
examples/extended/parallel/MPI/examples/exMPI03/.README.txt
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/// @file "MPI/examples/exMPI03/.README.txt"
/// @brief Example exMPI03 README
/*! \page exMPI03 Example : exMPI03
Description
===========
An example of dosimetry in a water phantom.
The example has same geometry and physics as exMPI02, only the analysis part
is diffenrent.
### Configuration:
- Geometry : water phantom
- Primary : broad beam (200 MeV proton)
- Physics List : FTFP_BERT
- Analysis : g4tools histogramming
The environment variables, *G4LEDATA*, *G4LEVELGAMMADATA* and *G4SAIDXSDATA*
are required for data files.
### Features:
- Score dose distribution in a water phantom.
- Learn how to paralleized your applications.
- Create a ROOT file containing histograms/trees in each node.
Each slave node generate a ROOT file, whose file name is different
from each other.
- MT is enabled.
- One of each object supported by g4tools is instantiated: 1D, 2D and 3D
histograms and 1D and 2D profiles.
- Histograms and profiles are merged first among threads of the same
MPI-rank and then across MPI-ranks. See RunActionMaster class for
an example on how to use the mergers.
- G4Run object and scorers (command line ones) are also merged via
MPI.
- Output: several root files are created: dose-rank*.root thread-merged
histograms for each rank; dose-merged.root, merged across threads and
across ranks.
How to build
============
Use CMake on Geant4 library installed with CMake build.
This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)
Follow these commands,
> mkdir build
> cd build
> cmake -DG4mpi_DIR=<where-G4mpi-wasintalled>/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n <path-to-source>
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
> make
> make install
Replace mpicxx with your MPI-compiler wrapper.
*/
examples/extended/parallel/MPI/examples/exMPI03/README.html
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<body>
<h1>MPI/Examples : exMPI03</h1>
<h2>Description</h2>
<p>An example of dosimetry in a water phantom.</p>
<h3>Configuration:</h3>
<ul>
<li>Geometry : water phantom</li>
<li>Primary : broad beam (200 MeV proton)</li>
<li>Physics List : FTFP_BERT</li>
<li>Analysis : g4tools histogramming</li>
</ul>
<p>The environment variables, <em>G4LEDATA</em>, <em>G4LEVELGAMMADATA</em> and <em>G4SAIDXSDATA</em>
are required for data files.</p>
<h3>Features:</h3>
<ul>
<li>Score dose distribution in a water phantom.</li>
<li>Learn how to paralleized your applications.</li>
<li>Create a ROOT file containing histograms/trees in each node.
Each slave node generate a ROOT file, whose file name is different
from each other.</li>
<li>MT is enabled.</li>
<li>One of each object supported by g4tools is instantiated: 1D, 2D and 3D
histograms and 1D and 2D profiles.</li>
<li>Histograms and profiles are merged first among threads of the same
MPI-rank and then across MPI-ranks. See RunActionMaster class for
an example on how to use the mergers.</li>
<li>G4Run object and scorers (command line ones) are also merged via
MPI.</li>
<li>Output: several root files are created: dose-rank*.root thread-merged
histograms for each rank; dose-merged.root, merged across threads and
across ranks.</li>
</ul>
<h2>How to build</h2>
<p>Use CMake on Geant4 library installed with CMake build.</p>
<p>This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)</p>
<p>Follow these commands,</p>
<pre><code>&gt; mkdir build
&gt; cd build
&gt; cmake -DG4mpi_DIR=&lt;where-G4mpi-wasintalled &gt;/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=&lt;your Geant4 install path
&gt;/lib[64]/Geant4-V.m.n &lt;path-to-source&gt;<
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
&gt; make<
&gt; make install
</code></pre>
</body>
</html>
examples/extended/parallel/MPI/examples/exMPI03/README.md
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MPI/Examples : exMPI03
======================
Description
-----------
An example of dosimetry in a water phantom.
The example has same geometry and physics as exMPI02, only the analysis part
is different.
### Configuration:
- Geometry : water phantom
- Primary : broad beam (200 MeV proton)
- Physics List : FTFP_BERT
- Analysis : g4tools histogramming
The environment variables, *G4LEDATA*, *G4LEVELGAMMADATA* and *G4SAIDXSDATA*
are required for data files.
### Features:
- Score dose distribution in a water phantom.
- Learn how to paralleized your applications.
- Create a ROOT file containing histograms/trees in each node.
Each slave node generate a ROOT file, whose file name is different
from each other.
- MT is enabled.
- One of each object supported by g4tools is instantiated: 1D, 2D and 3D
histograms and 1D and 2D profiles.
- Histograms and profiles are merged first among threads of the same
MPI-rank and then across MPI-ranks. See RunActionMaster class for
an example on how to use the mergers.
- G4Run object and scorers (command line ones) are also merged via
MPI.
- Output: several root files are created: dose-rank*.root thread-merged
histograms for each rank; dose-merged.root, merged across threads and
across ranks.
How to build
------------
Use CMake on Geant4 library installed with CMake build.
This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)
Follow these commands,
> mkdir build
> cd build
> cmake -DG4mpi_DIR=<where-G4mpi-wasintalled>/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n <path-to-source>
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
> make
> make install
Replace mpicxx with your MPI-compiler wrapper.
examples/extended/parallel/MPI/examples/exMPI04/.README.txt
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/// @file "MPI/examples/exMPI04/.README.txt"
/// @brief Example exMPI04 README
/*! \page exMPI04 Example : exMPI04
Description
===========
An example of dosimetry in a water phantom.
The example is as exMPI03, but adds output in G4analysis ntuple
and demonstrates ntuple merging.
In difference from merging other data (G4Run, scorers, hitograms),
the ntuple data are not sent to the collecting rank(s) at the
end of run but during event processing. That's why (an) extra rank(s)
have to be reserved for this purpose. The number of extra workers requested
is set in G4MPImanager constructor in main(). While G4MPImanager
can be created with any number of extra workers (< total number),
the ntuple merging is at present supported only for one.
The extra worker is connected to the run action class via G4MPIextraWorker
object which is set to G4MPImanager in main().
The standard calls to G4AnalysisManager (creating ntuple, open, write and
close file) trigger creating all necessary analysis tools object
for merging ntuple data on flight.
MPI ntuple merging can be activated in sequential mode only;
this activation is perfomed by creating the G4MPIntupleMerger
object in the RunActionMaster constructor.
The merger must be created before creating G4AnalysisManager
(= the first call to G4AnalysisManager::Instance())
and deleted only at the end of program.
If multithreading mode is enabled, the ntuples are merged from
threads to files per ranks.
Combined MT + MPI merging is not yet supported.
Merging ntuples is actually supported only with Root output format.
How to build
============
Use CMake on Geant4 library installed with CMake build.
This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)
Follow these commands,
> mkdir build
> cd build
> cmake -DG4mpi_DIR=<where-G4mpi-wasintalled>/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n <path-to-source>
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
> make
> make install
Replace mpicxx with your MPI-compiler wrapper.
*/
examples/extended/parallel/MPI/examples/exMPI04/README.md
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@@ -0,0 +1,53 @@
MPI/Examples : exMPI04
======================
Description
-----------
An example of dosimetry in a water phantom.
The example is as exMPI03, but adds output in G4analysis ntuple
and demonstrates ntuple merging.
In difference from merging other data (G4Run, scorers, hitograms),
the ntuple data are not sent to the collecting rank(s) at the
end of run but during event processing. That's why (an) extra rank(s)
have to be reserved for this purpose. The number of extra workers requested
is set in G4MPImanager constructor in main(). While G4MPImanager
can be created with any number of extra workers (< total number),
the ntuple merging is at present supported only for one.
The extra worker is connected to the run action class via G4MPIextraWorker
object which is set to G4MPImanager in main().
The standard calls to G4AnalysisManager (creating ntuple, open, write and
close file) trigger creating all necessary analysis tools object
for merging ntuple data on flight.
MPI ntuple merging can be activated in sequential mode only;
this activation is perfomed by creating the G4MPIntupleMerger
object in the RunActionMaster constructor.
The merger must be created before creating G4AnalysisManager
(= the first call to G4AnalysisManager::Instance())
and deleted only at the end of program.
If multithreading mode is enabled, the ntuples are merged from
threads to files per ranks.
Combined MT + MPI merging is not yet supported.
Merging ntuples is actually supported only with Root output format.
How to build
------------
Use CMake on Geant4 library installed with CMake build.
This example requires G4mpi library to be installed
(see examples/extended/parallel/MPI/source/REDME.md)
Follow these commands,
> mkdir build
> cd build
> cmake -DG4mpi_DIR=<where-G4mpi-wasintalled>/lib[64]/G4mpi -DCMAKE_CXX_COMPILER=mpicxx \
-DGeant4_DIR=<your Geant4 install path>/lib[64]/Geant4-V.m.n <path-to-source>
(V.m.n is the version of Geant4, eg. Geant4-9.6.0)
> make
> make install
Replace mpicxx with your MPI-compiler wrapper.