Problem Trying to Configure CMAKE Using Python Scripts #1884
Replies: 11 comments 41 replies
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Hi @ironsmines, It appears that with and let us know if the command is successful? Also could you please post the output of |
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Thanks for the reply. Info below. $ mpicc -show $ module show mpi/mpich-x86_64/usr/share/modulefiles/mpi/mpich-x86_64: conflict mpi
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Ok, MPI module seems fine, thanks for checking. Could you please attach the following file: |
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Here is the file |
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It seems that CMake is unable to extract the correct link flags from the And one more question, could you please post your just to make sure there isn't anything there that interferes with CMake's FindMPI script? |
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I have not built any other projects on this machine. This was purposely setup to run GEOSX. This is the first project attempted on it. The host-configs.cmake is attached. I had to add '.txt' file suffix to get it to attach. Thanks again. |
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@ironsmines What version of cmake are you using? @klevzoff perhaps the new version of blt that is in the merge queue will help this. |
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$ cmake --version |
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I was able to get the third party libraries to configure. I am compiling now. To get things to work, I had to make a specific environmental variable for each error I was getting. This worked. I will try that with the main program as well. Larry |
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Well I wrote too soon. The compile failed as it needed some sort of MPI defined. I went back to define MPICH. I now get the following errors: sudo python scripts/config-build.py -hc ../GEOSX/host-configs//host-configs.cmake -bt Release -- Configuring incomplete, errors occurred! |
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Just out of curiosity, have you always been trying to configure with May I suggest that you try to make a clone of I can't say for sure this is the cause of the issue, but building under |
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Sergei - thanks for the reply and the suggestion. I will change the ownership and write-ability to my account. Then try again. Larry |
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I changed ownership to me and changed permissions to 775, but I get the same result as above. Larry |
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If I remove all references to MPI, i.e, MPI OFF, then the scripts build the cmake files. The make builds the third party programs. So if I can get the cmake scripts to find MPI files, everything will be fine. That is where I need some help. Larry Irons |
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@ironsmines, what's the latest status on this? are you still struggling with your MPI installation? |
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I am still having issues with the cmake build. I am attempting to build the third party apps with MPI. This is the latest using the python build scripts; Here is my host-configs.cmake |
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At this point I have gone through the cmake modules in /usr/share/cmake to see what environment variables need to be defined. But I can't understand what I am missiing with the following errors. This is for the thirdparty libs. I am giving up. -- Could NOT find MPI_C (missing: MPI_/usr/lib64/mpich/lib/libmpi.so_LIBRARY MPI_C_WORKS) -- Configuring incomplete, errors occurred! |
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Sorry to hear you struggle with the installation process @ironsmines |
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Here is the content of CMakeError.log - I do not understand the mp_init and mpi_fialize problems. |
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Se definitely a problem with your which is enough. Plus you should not define since the |
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I edited the CMakeLists.txt file and added CACHE operations to each of the MPI lines. Now I see MPI lines in the CMakeCache.txt file in the build directory. But still no proper linking to the MPI libs. These were in the cache listing - Larry |
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I added the following to the CMakeLists.txt find_package(MPI REQUIRED) That added some new results. However, the linking is still not fidning the MPI Libs. Still digging. Larry |
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I think it's getting better with the |
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I got the FindMPI setting to work. The build output is this But I am still having the linker issue - |
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Can you run |
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Output from verbose is below. |
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Here is src/CMakeLists.txt. Larry |
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I forgot to mention that many of the items are commented out, as I was switching items on and off to experiment. The uncommented ones have successfully did a successful cmake build. |
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Hello @ironsmines I've done the following And the |
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No, it did not. I got the following error - |
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Hello @ironsmines Sorry to hear that you could not build it 😢 I'm sorry but I really do not understand what's going on and I'm completely clueless. Do you think anyone on site could help you? |
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Which distribution of Linux are you using? Perhaps RHEL has some strange issue. I could not find any solutions on the Red Hat website.
I would have to check with CompSci or the IT Department folks to see if they have any ideas, in particular the HPC group.
Larry
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We're running on a bunch of distributions. We have some rh7, ubuntus, debians, max osx. |
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I finally got the Hello World program to build, but the make was not linking the MPI libs even though they were defined in the environment. But I edited link.txt to hard code that in and it linked building the executable which worked fine. |
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This is an interesting path forward, but you should never be editing the |
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I am using the Python Scripts to configure cmake. I am running on Red Hat Enterprise Linux (RHEL) 8.5. I set the module to mpi/mpich-x86_64. I used the following command -
sudo python scripts/config-build.py --hostconfig=/usr/local/src/codes/GEOSX/host-configs/host-configs.cmake --buildtype=Release --installpath=/usr/local/src/codes/GEOSX/install
I have also tried it without sudo and it works the same.
I get the following output -
[config-build.py]:[INFO]: Using host config file: '/usr/local/src/codes/GEOSX/host-configs/host-configs.cmake'.
[config-build.py]:[INFO]: Build path is: build-host-configs-release
[config-build.py]:[INFO]: Build directory '/usr/local/src/codes/GEOSX/build-host-configs-release' already exists. Deleting...
[config-build.py]:[INFO]: Creating build directory '/usr/local/src/codes/GEOSX/build-host-configs-release'...
[config-build.py]:[INFO]: Install directory '/usr/local/src/codes/GEOSX/install' already exists. Deleting...
[config-build.py]:[INFO]: Creating install path '/usr/local/src/codes/GEOSX/install'...
[config-build.py]:[INFO]: Extracting cmake entry from host config file /usr/local/src/codes/GEOSX/host-configs/host-configs.cmake
[config-build.py]:[INFO]: Could not find a cmake entry in host config file. Using ${PATH}.
[config-build.py]:[INFO]: Changing to build directory '/usr/local/src/codes/GEOSX/build-host-configs-release'
[config-build.py]:[INFO]: Executing cmake line: 'cmake -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=/usr/local/src/codes/GEOSX/install -C/usr/local/src/codes/GEOSX/host-configs/host-configs.cmake /usr/local/src/codes/GEOSX/src'
loading initial cache file /usr/local/src/codes/GEOSX/host-configs/host-configs.cmake
-- GEOSX_LA_INTERFACE = Hypre
in tpls.cmake GEOSX_TPL_DIR=/usr/local/src/codes/thirdPartyLibs/install-
-- The C compiler identification is GNU 8.5.0
-- The CXX compiler identification is GNU 8.5.0
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Check for working C compiler: /bin/gcc - 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: /bin/g++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- BLT Version: 0.4.1
-- CMake Version: 3.20.2
-- CMake Executable: /usr/bin/cmake
-- The Fortran compiler identification is GNU 8.5.0
-- Detecting Fortran compiler ABI info
-- Detecting Fortran compiler ABI info - done
-- Check for working Fortran compiler: /bin/gfortran - skipped
-- Checking whether /bin/gfortran supports Fortran 90
-- Checking whether /bin/gfortran supports Fortran 90 - yes
-- Found Git: /bin/git (found version "2.27.0")
-- Git Support is ON
-- Git Executable: /bin/git
-- Git Version: 2.27.0
-- MPI Support is ON
-- FindMPI Enabled (ENABLE_FIND_MPI == ON)
-- Could NOT find MPI_C (missing: MPI_C_LIB_NAMES MPI_C_WORKS)
-- Could NOT find MPI_CXX (missing: MPI_CXX_LIB_NAMES MPI_CXX_WORKS)
-- Could NOT find MPI_Fortran (missing: MPI_Fortran_LIB_NAMES MPI_Fortran_F77_HEADER_DIR MPI_Fortran_MODULE_DIR MPI_Fortran_WORKS)
CMake Error at /usr/share/cmake/Modules/FindPackageHandleStandardArgs.cmake:230 (message):
Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND MPI_Fortran_FOUND)
Call Stack (most recent call first):
/usr/share/cmake/Modules/FindPackageHandleStandardArgs.cmake:594 (_FPHSA_FAILURE_MESSAGE)
/usr/share/cmake/Modules/FindMPI.cmake:1742 (find_package_handle_standard_args)
cmake/blt/cmake/thirdparty/SetupMPI.cmake:43 (find_package)
cmake/blt/cmake/thirdparty/SetupThirdParty.cmake:29 (include)
cmake/blt/SetupBLT.cmake:112 (include)
CMakeLists.txt:20 (include)
-- Configuring incomplete, errors occurred!
See also "/usr/local/src/codes/GEOSX/build-host-configs-release/CMakeFiles/CMakeOutput.log".
See also "/usr/local/src/codes/GEOSX/build-host-configs-release/CMakeFiles/CMakeError.log".
I am not sure what needs to be done for the MPI files to be found.
Thanks in advance -
Larry Irons
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