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CCPEM  August 2018

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Subject:

Re: Relion3 beta installation issue: cmake FindMPI issue when compiling on Ubuntu 18.04

From:

Clemens Grimm <[log in to unmask]>

Reply-To:

Clemens Grimm <[log in to unmask]>

Date:

Wed, 29 Aug 2018 08:09:13 +0000

Content-Type:

text/plain

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Parts/Attachments

text/plain (118 lines)

Thanks again, Daniel for this tip.

The latest version of cmake that works for Relion3 beta seems to be  
3.9.6 as for my tests on Ubuntu 18.04. The changes to FindMPI in later  
versions seem to cause the issue.


Best,
Clemens


Zitat von Daniel Larsson <[log in to unmask]>:

> You need to downgrade to an older cmake version. For me using  
> version 3.5.2 worked, while version 3.10.2 gave the same error that  
> you got (although it works for building relion 2.1).
>
> For your reference, here is the bug ticket:
> https://github.com/3dem/relion/issues/384#issuecomment-413243344
>
> Regards,
> Daniel
>
>
>
>> On 2018-08-28, at 16:22, Clemens Grimm  
>> <[log in to unmask]> wrote:
>>
>> Dear All,
>>
>> I could build the targets for Relion 3.0, however, when doing 'make  
>> install', I get the error message attached below. It seems that  
>> there is an issue with the cmake FindMPI module which has been  
>> changed with version 3.10.0. I am using cmake version 3.10.2.
>>
>> I wonder whether  up- or downgrading cmake would fix the problem.  
>> Remarkably, Relion 2.1.0 builds fine on this system.
>>
>> Has anybody else encountered (and possibly solved) this? What cmake  
>> versions are reported to run fine?
>>
>> Best,
>> Clemens
>>
>>
>>
>> cmake error message:
>>
>>
>> -- BUILD TYPE set to the default type:  'Release'
>> -- Setting fallback CUDA_ARCH=35
>> -- CUDA enabled - Building CUDA-accelerated version of RELION
>> -- Setting cpu precision to double
>> -- Setting accelerated code precision to single
>> -- Using cuda wrapper to compile....
>> -- Cuda version is >= 7.5 and single-precision build, enable double  
>> usage warning.
>> -- CMAKE_C_COMPILER : /usr/bin/cc
>> -- CMAKE_CXX_COMPILER : /usr/bin/c++
>> -- MPI_C_COMPILER : /usr/bin/mpicc
>> -- MPI_CXX_COMPILER : /usr/bin/mpicxx
>> -- CMAKE_CXX_COMPILER_ID : GNU
>> -- Could NOT find MPI_C (missing: MPI_C_WORKS)
>> -- Could NOT find MPI_CXX (missing: MPI_CXX_WORKS)
>> CMake Error at  
>> /usr/share/cmake-3.10/Modules/FindPackageHandleStandardArgs.cmake:137  
>> (message):
>>  Could NOT find MPI (missing: MPI_C_FOUND MPI_CXX_FOUND)
>> Call Stack (most recent call first):
>>   
>> /usr/share/cmake-3.10/Modules/FindPackageHandleStandardArgs.cmake:378  
>> (_FPHSA_FAILURE_MESSAGE)
>>  /usr/share/cmake-3.10/Modules/FindMPI.cmake:1444  
>> (find_package_handle_standard_args)
>>  CMakeLists.txt:242 (find_package)
>>
>>
>> -- Configuring incomplete, errors occurred!
>> See also "/home/em/relion-3.0_beta/build/CMakeFiles/CMakeOutput.log".
>> See also "/home/em/relion-3.0_beta/build/CMakeFiles/CMakeError.log".
>> Makefile:894: recipe for target 'cmake_check_build_system' failed
>> make: *** [cmake_check_build_system] Error 1
>>
>>
>> --------------------------------------------------
>> Dr. Clemens Grimm
>> Institut für Biochemie
>> Biozentrum der Universität Würzburg
>> Am Hubland
>> D-97074 Würzburg
>> Germany
>> e-mail: [log in to unmask]
>> phone : +49 0931 31 84031
>> -------------------------------------------------
>>
>> ########################################################################
>>
>> To unsubscribe from the CCPEM list, click the following link:
>> https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCPEM&A=1



--------------------------------------------------
Dr. Clemens Grimm
Institut für Biochemie
Biozentrum der Universität Würzburg
Am Hubland
D-97074 Würzburg
Germany
e-mail: [log in to unmask]
phone : +49 0931 31 84031
-------------------------------------------------

########################################################################

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