Geant4.11.2.2 and Geant4-DNA processes

Sarah-Abdelaziz · September 27, 2024, 3:19pm

Hello!
I try to use Geant4 -DNA.
After I building again geant411.2.2, I try to check if I have DNA data.

sarahabdelaziz@Sarahs-MacBook-Pro geant4-v11.2.2 % mkdir build
sarahabdelaziz@Sarahs-MacBook-Pro geant4-v11.2.2 % ls
CHANGELOG		CONTRIBUTING.rst	ReleaseNotes		config			packaging
CITATION.cff		LICENSE			build			environments		source
CMakeLists.txt		README.rst		cmake			examples
sarahabdelaziz@Sarahs-MacBook-Pro geant4-v11.2.2 % cd build
sarahabdelaziz@Sarahs-MacBook-Pro build % ccmake ..


sarahabdelaziz@Sarahs-MacBook-Pro build % cmake .. 
-- Checking C++ feature CXXSTDLIB_FILESYSTEM_NATIVE - Success
-- Reusing dataset G4NDL (4.7.1)
-- Reusing dataset G4EMLOW (8.5)
-- Reusing dataset PhotonEvaporation (5.7)
-- Reusing dataset RadioactiveDecay (5.6)
-- Reusing dataset G4PARTICLEXS (4.0)
-- Reusing dataset G4PII (1.3)
-- Reusing dataset RealSurface (2.2)
-- Reusing dataset G4SAIDDATA (2.0)
-- Reusing dataset G4ABLA (3.3)
-- Reusing dataset G4INCL (1.2)
-- Reusing dataset G4ENSDFSTATE (2.3)
-- The following Geant4 features are enabled:
CMAKE_CXX_STANDARD: Compiling against C++ Standard '17'
GEANT4_BUILD_MULTITHREADED: Build multithread enabled libraries
GEANT4_BUILD_TLS_MODEL: Building with TLS model 'initial-exec'
GEANT4_USE_SYSTEM_EXPAT: Using system EXPAT library
GEANT4_USE_GDML: Building Geant4 with GDML support
GEANT4_USE_OPENGL_X11: Build Geant4 OpenGL driver with X11 support
GEANT4_USE_RAYTRACER_X11: Build RayTracer driver with X11 support
GEANT4_USE_QT: Build Geant4 with Qt5 support
GEANT4_USE_QT3D: Build Geant4 Qt3D driver

-- Configuring done (1.4s)
-- Generating done (0.9s)
-- Build files have been written to: /Users/sarahabdelaziz/Downloads/geant4-v11.2.2/build
sarahabdelaziz@Sarahs-MacBook-Pro build % cmake -DGEANT4_USE_DNA=ON -DGEANT4_USE_DNACHEM=ON ..
-- Checking C++ feature CXXSTDLIB_FILESYSTEM_NATIVE - Success
-- Reusing dataset G4NDL (4.7.1)
-- Reusing dataset G4EMLOW (8.5)
-- Reusing dataset PhotonEvaporation (5.7)
-- Reusing dataset RadioactiveDecay (5.6)
-- Reusing dataset G4PARTICLEXS (4.0)
-- Reusing dataset G4PII (1.3)
-- Reusing dataset RealSurface (2.2)
-- Reusing dataset G4SAIDDATA (2.0)
-- Reusing dataset G4ABLA (3.3)
-- Reusing dataset G4INCL (1.2)
-- Reusing dataset G4ENSDFSTATE (2.3)
-- The following Geant4 features are enabled:
CMAKE_CXX_STANDARD: Compiling against C++ Standard '17'
GEANT4_BUILD_MULTITHREADED: Build multithread enabled libraries
GEANT4_BUILD_TLS_MODEL: Building with TLS model 'initial-exec'
GEANT4_USE_SYSTEM_EXPAT: Using system EXPAT library
GEANT4_USE_GDML: Building Geant4 with GDML support
GEANT4_USE_OPENGL_X11: Build Geant4 OpenGL driver with X11 support
GEANT4_USE_RAYTRACER_X11: Build RayTracer driver with X11 support
GEANT4_USE_QT: Build Geant4 with Qt5 support
GEANT4_USE_QT3D: Build Geant4 Qt3D driver

-- Configuring done (1.5s)
-- Generating done (0.8s)
CMake Warning:
  Manually-specified variables were not used by the project:

    GEANT4_USE_DNA
    GEANT4_USE_DNACHEM


-- Build files have been written to: /Users/sarahabdelaziz/Downloads/geant4-v11.2.2/build

Sarah-Abdelaziz · September 27, 2024, 3:21pm

Then,

sarahabdelaziz@Sarahs-MacBook-Pro build % cmake -DGEANT4_USE_DNA=ON -DGEANT4_USE_DNACHEM=ON .. 
-- Checking C++ feature CXXSTDLIB_FILESYSTEM_NATIVE - Success
-- Reusing dataset G4NDL (4.7.1)
-- Reusing dataset G4EMLOW (8.5)
-- Reusing dataset PhotonEvaporation (5.7)
-- Reusing dataset RadioactiveDecay (5.6)
-- Reusing dataset G4PARTICLEXS (4.0)
-- Reusing dataset G4PII (1.3)
-- Reusing dataset RealSurface (2.2)
-- Reusing dataset G4SAIDDATA (2.0)
-- Reusing dataset G4ABLA (3.3)
-- Reusing dataset G4INCL (1.2)
-- Reusing dataset G4ENSDFSTATE (2.3)
-- The following Geant4 features are enabled:
CMAKE_CXX_STANDARD: Compiling against C++ Standard '17'
GEANT4_BUILD_MULTITHREADED: Build multithread enabled libraries
GEANT4_BUILD_TLS_MODEL: Building with TLS model 'initial-exec'
GEANT4_USE_SYSTEM_EXPAT: Using system EXPAT library
GEANT4_USE_GDML: Building Geant4 with GDML support
GEANT4_USE_OPENGL_X11: Build Geant4 OpenGL driver with X11 support
GEANT4_USE_RAYTRACER_X11: Build RayTracer driver with X11 support
GEANT4_USE_QT: Build Geant4 with Qt5 support
GEANT4_USE_QT3D: Build Geant4 Qt3D driver

-- Configuring done (1.5s)
-- Generating done (0.8s)
-- Build files have been written to: /Users/sarahabdelaziz/Downloads/geant4-v11.2.2/build
sarahabdelaziz@Sarahs-MacBook-Pro build % make
[  0%] Building CXX object source/externals/ptl/src/CMakeFiles/ptl-shared.dir/TaskGroup.cc.o
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[  1%] Building CXX object source/externals/clhep/CMakeFiles/G4clhep.dir/src/MixMaxRng.cc.o
[  1%] Building CXX object source/externals/clhep/CMakeFiles/G4clhep.dir/src/MTwistEngine.cc.o
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At the end,

Sarah-Abdelaziz · September 27, 2024, 3:25pm




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Sarah-Abdelaziz · September 27, 2024, 3:25pm

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[100%] Built target G4visQt3D

Sarah-Abdelaziz · September 27, 2024, 3:30pm

sarahabdelaziz@Sarahs-MacBook-Pro build % cat CMakeCache.txt | grep DNA 
GEANT4_USE_DNA:UNINITIALIZED=ON
GEANT4_USE_DNACHEM:UNINITIALIZED=ON
sarahabdelaziz@Sarahs-MacBook-Pro build % cmake -LAH .. | grep DNA 
sarahabdelaziz@Sarahs-MacBook-Pro build % ccmake ..


sarahabdelaziz@Sarahs-MacBook-Pro build % ls
BuildProducts			G4X11Shim.cmake			_source_extras
CMakeCPackOptions.cmake		Geant4Config.cmake		cmake_install.cmake
CMakeCache.txt			Geant4ConfigVersion.cmake	cmake_uninstall.cmake
CMakeFiles			Geant4LibraryDepends.cmake	cmake_uninstall.cmake.in
CPackConfig.cmake		Geant4PackageCache.cmake	cxx_filesystem
CPackSourceConfig.cmake		InstallTreeFiles		geant4-config
G4EXPATShim.cmake		LICENSE.txt			geant4_module_check.py
G4FreetypeShim.cmake		Makefile			geant4_validate_sources.cmake
G4HDF5Shim.cmake		Modules				geant4make.csh
G4ModuleAdjacencyList.txt	README.txt			geant4make.sh
G4ModuleInterfaceMap.csv	UseGeant4.cmake			source
G4MotifShim.cmake		UseGeant4_internal.cmake	source_package_extras.cmake
sarahabdelaziz@Sarahs-MacBook-Pro build % cd ..
sarahabdelaziz@Sarahs-MacBook-Pro geant4-v11.2.2 % grep -r GEANT4_USE_DNA CMakeLists.txt

I try to find DNA data , but it says that

GEANT4_USE_DNA:UNINITIALIZED=ON
GEANT4_USE_DNACHEM:UNINITIALIZED=ON

Could you help me to know to know if there is a problem to have Geant4-DNA processes from geant4.11.2.2, please @ivana @ngoc @bmorgan ?
Thanks
I also try to set DNA and DNACHEM in the file CMakefile.txt in geant4.11.2.2 and remove CMakeCache.txt and again cmake build, but it does not work.

bmorgan · September 27, 2024, 4:26pm

Sorry, but I’m a bit unclear on what you’re trying to set up here. GEANT4_USE_DNA and GEANT4_USE_DNACHEM are not CMake variables defined for any toolkit or example.

DNA physics models are built by the toolkit by default, and all core data that these use is in (@ngoc can correct me) the G4EMLOW dataset, which is already installed as indicated by:

-- Reusing dataset G4EMLOW (8.5)

ngoc · September 30, 2024, 10:03am

Yes, these variables are not defined. Shouldn’t use to configure

Sarah-Abdelaziz · October 5, 2024, 9:05am

I mean to add Geant4-DNA if it is not , I know it should be there, but when I check there is not. I just try to solve this problem. Where should I see any thing related Geant4-DNA libraries or classes after building Geant4?
Also, Where should I write this command?

-- Reusing dataset G4EMLOW (8.5)

Thanks
@bmorgan @ngoc

Sarah-Abdelaziz · October 5, 2024, 9:13am

I try to find this dataset.

sarahabdelaziz@Sarahs-MacBook-Pro ~ % cd Downloads/geant4-v11.2.2/build 
sarahabdelaziz@Sarahs-MacBook-Pro build % echo $G4EMLOW

sarahabdelaziz@Sarahs-MacBook-Pro build %

But I do not have any thing printed related to its path?
The build directory for geant4.11.2.2 contains

sarahabdelaziz@Sarahs-MacBook-Pro build % ls
BuildProducts			Geant4Config.cmake		cmake_uninstall.cmake
CMakeCPackOptions.cmake		Geant4ConfigVersion.cmake	cmake_uninstall.cmake.in
CMakeCache.txt			Geant4LibraryDepends.cmake	cxx_filesystem
CMakeFiles			Geant4PackageCache.cmake	geant4-config
CPackConfig.cmake		InstallTreeFiles		geant4_module_check.py
CPackSourceConfig.cmake		LICENSE.txt			geant4_validate_sources.cmake
G4EXPATShim.cmake		Makefile			geant4make.csh
G4FreetypeShim.cmake		Modules				geant4make.sh
G4HDF5Shim.cmake		README.txt			install_manifest.txt
G4ModuleAdjacencyList.txt	UseGeant4.cmake			source
G4ModuleInterfaceMap.csv	UseGeant4_internal.cmake	source_package_extras.cmake
G4MotifShim.cmake		_source_extras
G4X11Shim.cmake			cmake_install.cmake
sarahabdelaziz@Sarahs-MacBook-Pro build %

How can I find it, please?