[CIG-SHORT] PyLith version 2.2.0 installation from source

Thu Jun 8 07:57:48 PDT 2017

On Thu, Jun 8, 2017 at 7:58 AM, Josimar Alves da Silva <jsilva.mit at gmail.com
> wrote:

> Brad,
>
> Thank you so much for the help. The MPI version seems compatible with what
> is asked on the installation file:
>

The question is where -fp-model is coming from. I think it might be from
the Python installation, since this is compiling
a module. This would lead me to build my own Python, since the Python you
have must have been built with
something else (clang?).

  Thanks,

    Matt

> "mpicc -show" results in:
>
> gcc -I/cm/shared/engaging/openmpi/1.8.8/include -pthread -Wl,-rpath
> -Wl,/cm/shared/engaging/openmpi/1.8.8/lib -Wl,--enable-new-dtags
> -L/cm/shared/engaging/openmpi/1.8.8/lib -lmpi
>
>
> However, the gcc version is older than what is asked on the installation
> file:
>
>
> cm/shared/apps/gcc/4.8.4/bin/gcc
>
>
>
> In order to update the gcc version,  I attempted to build PyLith again
> using the following configuration:
>
> ./configure  --with-make-threads=2 --prefix=$HOME/pylith --enable-python
> --enable-force-install --enable-gcc
>
> However I still got the error message that I sent on the previous e-mail.
> Note that I did load the "setup.sh" file before "make".
>
> You can find all the log files that you asked on the previous e-mail,
> along with a shell script that I am using to build pylith, on the dropbox
> link below:
>
> https://www.dropbox.com/sh/xjr5dn23ptxivv3/AACLybuo8ckIvk9tZwOl6IrVa?dl=0
>
> Let me know if you have any further suggestions.
>
> thank you in advance for the help,
>
> Josimar
>
>
>
> On Wed, Jun 7, 2017 at 6:10 PM, Brad Aagaard <baagaard at usgs.gov> wrote:
>
>> Josimar,
>>
>> The error you are getting seems to suggest that the compiler does not
>> recognize the -fp-model strict command line argument. This could be the
>> case if a different compiler is being used than the one it thinks it should
>> be using.
>>
>> Check to make sure the gcc and MPI in your path are consistent. Usually
>> "mpicc -show" will show you which compiler is being used. Also make sure
>> the shell environment when you build matches the one used during the
>> configure (and loads the setup.sh generated in the configure process).
>>
>> If you still get stuck, send the config.log for the top-level installer
>> configure, and the config.log and make.log (capture all of the make output)
>> for the package that fails to build.
>>
>> Regards,
>> Brad
>>
>>
>>
>>
>>
>>
>> On 06/07/2017 01:39 PM, Josimar Alves da Silva wrote:
>>
>>> Dear Brad,
>>>
>>> I am building PyLith version 2.2.0 from source on a linux machine. I am
>>> getting the error below.
>>>
>>> See computer information below along with the error message at the end
>>> of the e-mail. The config.log file is also attached.
>>>
>>> Please let me know if you have seen this error before and how to correct
>>> it.
>>>
>>> thank you in advance,
>>> Josimar
>>>
>>>
>>>
>>> ############# BASIC COMPUTER INFORMATION HERE
>>>
>>> Linux eofe4 2.6.32-504.30.3.el6.x86_64 #1 SMP Wed Jul 15 10:13:09 UTC
>>> 2015 x86_64 x86_64 x86_64 GNU/Linux
>>>
>>>
>>> ########################
>>>
>>> Architecture:          x86_64
>>>
>>> CPU op-mode(s):        32-bit, 64-bit
>>>
>>> Byte Order:            Little Endian
>>>
>>> CPU(s):                16
>>>
>>> On-line CPU(s) list:   0-15
>>>
>>> Thread(s) per core:    1
>>>
>>> Core(s) per socket:    8
>>>
>>> Socket(s):             2
>>>
>>> NUMA node(s):          2
>>>
>>> Vendor ID:             GenuineIntel
>>>
>>> CPU family:            6
>>>
>>> Model:                 45
>>>
>>> Model name:            Intel(R) Xeon(R) CPU E5-2650 0 @ 2.00GHz
>>>
>>> Stepping:              7
>>>
>>> CPU MHz:               1999.998
>>>
>>> BogoMIPS:              3999.47
>>>
>>> Virtualization:        VT-x
>>>
>>> L1d cache:             32K
>>>
>>> L1i cache:             32K
>>>
>>> L2 cache:              256K
>>>
>>> L3 cache:              20480K
>>>
>>> NUMA node0 CPU(s):     0,2,4,6,8,10,12,14
>>>
>>> NUMA node1 CPU(s):     1,3,5,7,9,11,13,15
>>>
>>>
>>>
>>>
>>>
>>> ############# ERRO MESSAGE FROM PYLITH INSTALLATION HERE #############
>>>
>>> make[4]: Entering directory `/home/josimar/build/pylith/python-build'
>>>
>>> mpicc -c -fno-strict-aliasing -fp-model strict -g -O2 -DNDEBUG -g
>>> -fwrapv -O3 -Wall -Wstrict-prototypes  -I. -IInclude
>>> -I../Python-2.7.13/Include -I/home/josimar/pylith/include  -fPIC
>>> -DPy_BUILD_CORE -o Modules/python.o ../Python-2.7.13/Modules/python.c
>>>
>>> mpicc -c -fno-strict-aliasing -fp-model strict -g -O2 -DNDEBUG -g
>>> -fwrapv -O3 -Wall -Wstrict-prototypes  -I. -IInclude
>>> -I../Python-2.7.13/Include -I/home/josimar/pylith/include  -fPIC
>>> -DPy_BUILD_CORE -o Parser/acceler.o ../Python-2.7.13/Parser/acceler.c
>>>
>>> gcc: error: strict: No such file or directory
>>>
>>> gcc: error: unrecognized command line option ‘-fp-model’
>>>
>>> make[4]: *** [Modules/python.o] Error 1
>>>
>>> make[4]: *** Waiting for unfinished jobs....
>>>
>>> gcc: error: strict: No such file or directory
>>>
>>> gcc: error: unrecognized command line option ‘-fp-model’
>>>
>>> make[4]: *** [Parser/acceler.o] Error 1
>>>
>>> make[4]: Leaving directory `/home/josimar/build/pylith/python-build'
>>>
>>> make[3]: *** [python] Error 2
>>>
>>> make[3]: Leaving directory `/home/josimar/build/pylith'
>>>
>>> make[2]: *** [installed_python] Error 2
>>>
>>> make[2]: Leaving directory `/home/josimar/build/pylith'
>>>
>>> make[1]: *** [installed_swig] Error 2
>>>
>>> make[1]: Leaving directory `/home/josimar/build/pylith'
>>>
>>> make: *** [installed_pylith] Error 2
>>>
>>>
>>>
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