[petsc-dev] metis config error on XT4

Wed Nov 30 17:36:22 CST 2011

I am using very recent versions of CMake (2.8.5 or 2.8.6, depending on the
machine).

On Wed, Nov 30, 2011 at 5:30 PM, Stefano Zampini
<stefano.zampini at gmail.com>wrote:

> What version of cmake are you using?
>
> I had a similar problem for metis 5.0.1: I got metis compiled by using
> version of cmake 2.6 which is older than the requested one by dropping the
> request in Cmakelists
>
> 2011/12/1 Jack Poulson <jack.poulson at gmail.com>
>
>> I'm not too surprised; I haven't looked at how ParMETIS is being used
>> within PETSc. The problem is definitely that ParMETIS isn't properly
>> locating its GKlib subproject, and I think that the issue is in the lines I
>> pointed out, but I'm not sure as to what the appropriate replacement for
>> i"${CMAKE_CURRENT_SOURCE_DIR}" isin your situation.
>>
>>
>> Jack
>>
>>
>> On Wed, Nov 30, 2011 at 5:18 PM, Mark F. Adams <mark.adams at columbia.edu>wrote:
>>
>>> This did not seem to help.
>>> Mark
>>>
>>> On Nov 30, 2011, at 5:35 PM, Jack Poulson wrote:
>>>
>>> I have actually run into a similar problem with ParMetis. I fixed it on
>>> my end by changing the ParMetis CMakeLists.txt lines
>>>
>>> set(GKLIB_PATH METIS/GKlib CACHE PATH "path to GKlib")
>>>  set(METIS_PATH METIS CACHE PATH "path to METIS")
>>>
>>> to
>>>
>>> set(GKLIB_PATH ${CMAKE_CURRENT_SOURCE_DIR}/metis/GKlib CACHE PATH "path
>>> to GKlib
>>> ")
>>> set(METIS_PATH ${CMAKE_CURRENT_SOURCE_DIR}/metis CACHE PATH "path to
>>> METIS")
>>>
>>> Your mileage may vary.
>>>
>>> Jack
>>>
>>> On Wed, Nov 30, 2011 at 4:32 PM, Aron Ahmadia <aron.ahmadia at kaust.edu.sa
>>> > wrote:
>>>
>>>> Mark,
>>>>
>>>> Sorry, no help here, except that cmake is pretty easy to install from
>>>> source, so that might be my recommendation if you don't want to wait for
>>>> help from their systems team.
>>>>
>>>> A
>>>>
>>>> On Thu, Dec 1, 2011 at 1:30 AM, Mark F. Adams <mark.adams at columbia.edu>wrote:
>>>>
>>>>> Thanks Tim, I do use gcc. And this is on Franklin at NERSC.
>>>>>
>>>>> Cmake is just kicking my ass, now I get (appended).
>>>>>
>>>>> I do have an old version of cmake here:
>>>>>
>>>>> madams/petsc-dev> which cmake
>>>>> /usr/common/usg/cmake/2.8.3/bin/cmake
>>>>>
>>>>> any ideas?
>>>>> Mark
>>>>>
>>>>> ===============================================================================
>>>>>                                           Configuring METIS; this may take
>>>>> several minutes
>>>>>  ===============================================================================
>>>>>
>>>>>
>>>>> *******************************************************************************
>>>>>           UNABLE to CONFIGURE with GIVEN OPTIONS    (see
>>>>> configure.log for details):
>>>>>
>>>>> -------------------------------------------------------------------------------
>>>>> Error running configure on METIS: Could not execute "cd
>>>>> /global/u2/m/madams/petsc-dev/externalpackages/metis-5.0.2 && make
>>>>> distclean && make config
>>>>> prefix=/global/homes/m/madams/petsc-dev/arch-xt5-opt cc="cc"
>>>>> doubleprecision=1":
>>>>> rm -rf build/Linux-x86_64
>>>>> rm -rf build/Linux-x86_64
>>>>> mkdir -p build/Linux-x86_64
>>>>> cd build/Linux-x86_64 && cmake
>>>>> /global/u2/m/madams/petsc-dev/externalpackages/metis-5.0.2
>>>>> -DCMAKE_VERBOSE_MAKEFILE=1 -DGKLIB_PATH=
>>>>> -DCMAKE_INSTALL_PREFIX=/global/homes/m/madams/petsc-dev/arch-xt5-opt
>>>>> -DCMAKE_C_COMPILER=cc -DMETIS_USE_DOUBLEPRECISION=1
>>>>> -- The C compiler identification is GNU
>>>>> -- The CXX compiler identification is GNU
>>>>> -- Check for working C compiler: /opt/cray/xt-asyncpe/5.01/bin/cc
>>>>> -- Check for working C compiler: /opt/cray/xt-asyncpe/5.01/bin/cc --
>>>>> works
>>>>> -- Detecting C compiler ABI info
>>>>> -- Detecting C compiler ABI info - done
>>>>> -- Check for working CXX compiler: /opt/gcc/4.5.3/bin/c++
>>>>> -- Check for working CXX compiler: /opt/gcc/4.5.3/bin/c++ -- works
>>>>> -- Detecting CXX compiler ABI info
>>>>> -- Detecting CXX compiler ABI info - done
>>>>> -- Configuring incomplete, errors occurred!
>>>>> CMake Error at CMakeLists.txt:21 (include):
>>>>>   include could not find load file:
>>>>>
>>>>>     /GKlibSystem.cmake
>>>>>
>>>>>
>>>>> make: *** [config] Error 1
>>>>>
>>>>>
>>>>>
>>>>> On Nov 30, 2011, at 4:00 PM, Tim Gallagher wrote:
>>>>>
>>>>> Without knowing how your system is configured, this may not help. But
>>>>> on the Cray systems we use (they have the modules package installed), if we
>>>>> are using a compiler other than GNU (Intel, PGI, etc) but we want to use
>>>>> cmake, we still have to load the gcc module (not the programming
>>>>> environment, just the module).
>>>>>
>>>>> On our machines, it means we may load the PrgEnv-Intel module (so cc
>>>>> points to icc, ftn points to ifort, etc) but we also have to load
>>>>> gcc/<version> to get cmake to work.
>>>>>
>>>>> Tim
>>>>>
>>>>> ------------------------------
>>>>> *From: *"Aron Ahmadia" <aron.ahmadia at kaust.edu.sa>
>>>>> *To: *"For users of the development version of PETSc" <
>>>>> petsc-dev at mcs.anl.gov>
>>>>> *Sent: *Wednesday, November 30, 2011 3:49:25 PM
>>>>> *Subject: *Re: [petsc-dev] metis config error on XT4
>>>>>
>>>>> looks like a broken cmake...
>>>>>
>>>>> What happens when you just run: cmake by itself?
>>>>>
>>>>> A
>>>>>
>>>>> On Wed, Nov 30, 2011 at 11:47 PM, Mark F. Adams <
>>>>> mark.adams at columbia.edu> wrote:
>>>>>
>>>>>> I'm getting this error on Franklin at NERSC:
>>>>>>
>>>>>>
>>>>>> *******************************************************************************
>>>>>>         UNABLE to CONFIGURE with GIVEN OPTIONS    (see configure.log
>>>>>> for details):
>>>>>>
>>>>>> -------------------------------------------------------------------------------
>>>>>> Error running configure on METIS: Could not execute "cd
>>>>>> /global/u2/m/madams/petsc-dev/externalpackages/metis-5.0.2 && make
>>>>>> distclean && make config
>>>>>> prefix=/global/homes/m/madams/petsc-dev/arch-xt5-opt cc="cc"
>>>>>> doubleprecision=1":
>>>>>> rm -rf build/Linux-x86_64
>>>>>> rm -rf build/Linux-x86_64
>>>>>> mkdir -p build/Linux-x86_64
>>>>>> cd build/Linux-x86_64 && cmake
>>>>>> /global/u2/m/madams/petsc-dev/externalpackages/metis-5.0.2
>>>>>> -DCMAKE_VERBOSE_MAKEFILE=1 -DGKLIB_PATH=
>>>>>> -DCMAKE_INSTALL_PREFIX=/global/homes/m/madams/petsc-dev/arch-xt5-opt
>>>>>> -DCMAKE_C_COMPILER=cc -DMETIS_USE_DOUBLEPRECISION=1
>>>>>> cmake: /opt/gcc/4.5.3/snos/lib64/libstdc++.so.6: version
>>>>>> `GLIBCXX_3.4.15' not found (required by cmake)
>>>>>> make: *** [config] Error 1
>>>>>>
>>>>>> *******************************************************************************
>>>>>>
>>>>>> any ideas?
>>>>>>
>>>>>> Mark
>>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>
>>>
>>>
>>
>
>
> --
> Stefano
>
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