Geant4 Installation with HDF5

Getting Started
1

Geant4 Version: 11.1.1
Operating System: MacOS 13.3.1
Compiler/Version: Apple clang version 14.0.3 (clang-1403.0.22.14.1)
Target: arm64-apple-darwin22.4.0
Thread model: posix
InstalledDir: /Library/Developer/CommandLineTools/usr/bin

Hey so I am trying to compile Geant4.11.1.1 with HDF5 and I am using this cmake command:

cmake -DCMAKE_PREFIX_PATH=/Users/diiego/software/hdf5_fromsource/CMake-hdf5-1.12.2 -DGEANT4_INSTALL_DATADIR=/Users/diiego/software/GEANT4/GEANT4_11.1/install/share/Geant4/data -DGEANT4_INSTALL_DATA=ON  -DGEANT4_USE_QT=ON -DGEANT4_USE_OPENGL_X11=ON -DGEANT4_USE_HDF5=ON -DCMAKE_INSTALL_PREFIX=../install ../../GEANT4_11.1/geant4-v11.1.0

But it is returning this error:

CMake Error at /Applications/CMake.app/Contents/share/cmake-3.25/Modules/FindPackageHandleStandardArgs.cmake:230 (message):
  Could NOT find HDF5: (Required is at least version "1.8") (found
  HDF5_hdf5_LIBRARY-NOTFOUND)
Call Stack (most recent call first):
  /Applications/CMake.app/Contents/share/cmake-3.25/Modules/FindPackageHandleStandardArgs.cmake:598 (_FPHSA_FAILURE_MESSAGE)
  /Applications/CMake.app/Contents/share/cmake-3.25/Modules/FindHDF5.cmake:1007 (find_package_handle_standard_args)
  cmake/Modules/G4OptionalComponents.cmake:351 (find_package)
  cmake/Modules/G4CMakeMain.cmake:59 (include)
  CMakeLists.txt:50 (include)

So I don’t know what I’m doing incorrectly, the hdf5 folder I am pointing to has the HDF5config.cmake file so I thought it would be correct.

Hope someone can help me, thanks in advance, Diego!

2

Could you post the list of files and directories that are present in this directory please?

3

Here!

CTestScript.cmake                 LIBAEC.tar.gz
FailedCTest.txt                   ZLib.tar.gz
HDF5-1.12.2-Darwin.dmg            build
HDF5-1.12.2-Darwin.sh             build-unix.sh
HDF5-1.12.2-Darwin.tar.gz         hdf5-1.12.2
HDF5Examples-1.12.9-Source.tar.gz hdf5.log
HDF5config.cmake                  hdf5_plugins-1_12_2.tar.gz
HDF5options.cmake

Thanks for the quick reply!

4

Thanks for the detail! How did you download/install HDF5? Though there is an HDF5Config.cmake present here, it doesn’t look related to any build/install - e.g. there’re no bin/lib/include directories or scripts I’d expect to see if HDF5 had been built here.

5

I followed this official documentation , basically doing this:

Quick Instructions
The quick instructions for building HDF5 with CMake are:
Download the CMake source code (CMake-hdf5-N.N.N.tar.gz or CMake-hdf5.N.N.N.zip).
Uncompress it.
From the command line, go in to the top CMake-hdf5-N.N.N directory and execute the build script  (build*) for your platform.
If you encounter any issues, then see the instructions below.

You are right there is no bin/lib/include directories. I also tried installing HDF5 using a version that allows executing a .configure and that’s all, but Geant4 wouldn’t compile either.

Thanks again :slight_smile:

6

Looking at the “Build Instructions” section and items 6/7, I think the “build” is actually of the packages:

HDF5-1.12.2-Darwin.dmg
HDF5-1.12.2-Darwin.sh
HDF5-1.12.2-Darwin.tar.gz

though it’s not mentioned those probably need to be unpacked/installed somewhere and that location will be where Geant4 needs to be pointed to find HDF5.

7

Hi again,

I executed the HDF5-1.12.2-Darwin.sh file and generated and actual installation.

Now I can see this inside a new folder:

bin     cmake   include lib     share

and inside the cmake folder I see this:

hdf5-config-version.cmake    hdf5-targets.cmake           libaec-targets-release.cmake zlib-config.cmake
hdf5-config.cmake            libaec-config-version.cmake  libaec-targets.cmake         zlib-targets-release.cmake
hdf5-targets-release.cmake   libaec-config.cmake          zlib-config-version.cmake    zlib-targets.cmake

Then I try to install Geant4 with this instructions:

cmake -DCMAKE_PREFIX_PATH=/Users/diiego/software/hdf5_fromsource/CMake-hdf5-1.12.2/HDF5-1.12.2-Darwin/HDF_Group/HDF5/1.12.2/cmake -DCMAKE_PREFIX_PATH=/opt/homebrew/Cellar/qt@5/5.15.8_2/lib/cmake -DGEANT4_INSTALL_DATADIR=/Users/diiego/software/GEANT4/GEANT4_11.1/install/share/Geant4/data -DGEANT4_INSTALL_DATA=ON  -DGEANT4_USE_QT=ON -DGEANT4_USE_OPENGL_X11=ON -DGEANT4_USE_HDF5=ON -DCMAKE_INSTALL_PREFIX=../install ../../GEANT4_11.1/geant4-v11.1.0

But it fails:

-- The C compiler identification is AppleClang 14.0.3.14030022
-- The CXX compiler identification is AppleClang 14.0.3.14030022
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /Library/Developer/CommandLineTools/usr/bin/cc - skipped
-- Detecting C compile features
-- Detecting C compile features - done
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /Library/Developer/CommandLineTools/usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Checking C++ feature CXXSTDLIB_FILESYSTEM_NATIVE - Success
-- Performing Test HAVE_TLS
-- Performing Test HAVE_TLS - Success
-- Found EXPAT: /Library/Developer/CommandLineTools/SDKs/MacOSX13.3.sdk/usr/lib/libexpat.tbd (found version "2.5.0")
CMake Error at /Applications/CMake.app/Contents/share/cmake-3.25/Modules/FindPackageHandleStandardArgs.cmake:230 (message):
  Could NOT find HDF5: (Required is at least version "1.8") (found
  HDF5_hdf5_LIBRARY-NOTFOUND)
Call Stack (most recent call first):
  /Applications/CMake.app/Contents/share/cmake-3.25/Modules/FindPackageHandleStandardArgs.cmake:598 (_FPHSA_FAILURE_MESSAGE)
  /Applications/CMake.app/Contents/share/cmake-3.25/Modules/FindHDF5.cmake:1007 (find_package_handle_standard_args)
  cmake/Modules/G4OptionalComponents.cmake:351 (find_package)
  cmake/Modules/G4CMakeMain.cmake:59 (include)
  CMakeLists.txt:50 (include)

I tried giving Geant4 the path to the “hole” installation folder and to lib too, and it does not work.

Thanks again, Diego

8

I think the appropriate path to use for HDF5 is /Users/diiego/software/hdf5_fromsource/CMake-hdf5-1.12.2/HDF5-1.12.2-Darwin/HDF_Group/HDF5/1.12.2/ as the cmake isn’t needed with CMAKE_PREFIX_PATH.

Also, whilst I’m not sure exactly how CMake treats two or more repitions of -DCMAKE_PREFIX_PATH, it’s probably better to combine these as a semi-colong separated list, e.g.

cmake -DCMAKE_PREFIX_PATH="/Users/diiego/software/hdf5_fromsource/CMake-hdf5-1.12.2/HDF5-1.12.2-Darwin/HDF_Group/HDF5/1.12.2/;/opt/homebrew/Cellar/qt@5/" ...
9

That worked! Thank you so much!

Diego

10

This topic was automatically closed 7 days after the last reply. New replies are no longer allowed.