[aspect-devel] Problem compiling Aspect on Tacc-Stampede2

Sat May 12 00:00:39 PDT 2018

 Hi John Naliboff,

      Have you had the time to work on the Aspect build on Stampede2?

      If we ask the TACC administrators to install dealii as a special
module for Aspect, shouldn't we ask for two versions, 8.5.1 and 9.0 ? If
that's not a problem, or too much to ask.

cheers,
Felipe

On Thu, May 10, 2018 at 12:02 PM, John Naliboff <jbnaliboff at ucdavis.edu>
wrote:

> Hi Felipe,
>
>    I guess it would be healthy to ask the TACC guys to build a dealii
> 8.5.1? for Aspect.
>
>
> Yep, I think that is the best path forward. I’m currently working on a new
> build on a Stampede2 that uses very general instructions. Please ping me if
> you have not heard back by tomorrow afternoon.
>
> Cheers,
> John
>
>
>
> On May 10, 2018, at 11:32 AM, FELIPE ORELLANA ROVIROSA <
> f_orellana at berkeley.edu> wrote:
>
>
>  Hello John,
>
>          I have been trying to proceed with ASPECT installation on
> Stampede2. Unfortunately I have not succeeded.
>
>         I have loaded all the modules on the list you suggested.
>
>         There are a number of ways in which the compilation fails. I guess
> these are due to different ways to write the instructions you suggest (one
> single character change causes changes). The last error message I got is
> this:
>
>     c506-011[skx](427)$ cmake \
> > >        -DDEAL_II_DIR=/work/01038/jboff/stampede2/software/gcc-
> 7.1.0/dealii/v8.5.1/install/lib/cmake \
> > -DCMAKE_INSTALL_PREFIX=/home1/04020/unfelipe/aspect-1.5/ \
> > -DCMAKE_BUILD_TYPE=Release
> -bash: -DDEAL_II_DIR=/work/01038/jboff/stampede2/software/gcc-
> 7.1.0/dealii/v8.5.1/install/lib/cmake: No such file or directory
>
>   so, seemingly, it is not connecting properly.
>
>    I have tried this installation, using slight modifications, more than
> 10 times.
>
>    I installed different versions of ASPECT on Stampede1 long ago, using
> the 'aspect-setup-stampede.sh' script. It was definitely doable.
>
>    I guess it would be healthy to ask the TACC guys to build a dealii
> 8.5.1? for Aspect.
>
> cheers,
> Felipe
>
>
>
> On Mon, May 7, 2018 at 3:01 PM, John Naliboff <jbnaliboff at ucdavis.edu>
> wrote:
>
>> Hi Felipe,
>>
>> I just installed ASPECT v1.5 with the one of the versions of deal.II
>> (8.5.1) I built a while back. For now, perhaps try building ASPECT by
>> linking to the version of deal.II on my account? Instructions to do this
>> are at the bottom of the email.
>>
>> However, a number of things may change in the final Stampede2
>> installation instructions. For example, I get a number of warnings related
>> to the version of BOOST (Stampede2 module). Linking to my version of
>> deal.II may also not work (during installation or running a model) and
>> please let me know if this is the case.
>>
>> I'll have the instructions go through a round of review through an
>> existing issue (https://github.com/geodynamics/aspect/issues/1838), and
>> once everyone is happy I'll add the instructions to the ASPECT wiki:
>> https://github.com/geodynamics/aspect/wiki. From there, we can also have
>> the TACC folks build a deal.II 8.5.1 module for ASPECT.
>>
>> Cheers,
>> John
>>
>> *ASPECT Installations Instructions for Stampede2** using pre-built
>> deal.II 8.5.1 (***not guaranteed to work****)*
>> 1. Start idev session
>>      idev -p skx-dev -N 1 -n 48 -m 60
>>
>> 2. Make sure following modules are loaded
>>      gcc/7.1.0 impi/17.0.3 mkl/17.0.4 python/2.7.13 boost/1.64
>> swig/3.0.12 cmake/3.8.2
>>      phdf5/1.8.16 parallel-netcdf/4.3.3.1
>>
>> 3. Set cc and cxx compiler enivornment variables
>>      export CC="${TACC_IMPI_BIN}"/mpicc; export
>> CXX="${TACC_IMPI_BIN}"/mpicxx
>>
>> 4. Configure (be sure to add in the correct path to your ASPECT
>> installation folder)
>>      cmake \
>>        -DDEAL_II_DIR=/work/01038/jboff/stampede2/software/gcc-7.1.
>> 0/dealii/v8.5.1/install/lib/cmake \
>>        -DCMAKE_INSTALL_PREFIX=""PATH_TO_YOUR_ASPECT_FOLDER" \
>>        -DCMAKE_BUILD_TYPE=Release .
>>
>> 5. Build
>>      make -j32
>>
>>
>>
>> On 05/03/2018 12:05 PM, FELIPE ORELLANA ROVIROSA wrote:
>>
>>
>>  Hi Timo and John,
>>
>>      Thanks a loooooot for your support.
>>
>>      I understand. There is a problem with dealii in Stampede2.
>>
>>      I installed dealii in my account on Stampede1 long ago, and it was
>> kind of a big task for me.
>>
>>      OK, I will wait for you John. In that way we will all be on the same
>> track.
>>
>> When you proceed, let me know if I can help with anything.
>>
>> cheers,
>> thank you very much,
>>
>> Felipe
>>
>>
>>
>>
>>
>> On Thu, May 3, 2018 at 9:40 AM, John Naliboff <jbnaliboff at ucdavis.edu>
>> wrote:
>>
>>> Hi all,
>>>
>>> I'll coordinate with one of the TACC folks early next week and have a
>>> general deal.II module (8.5.1) built using gcc. I installed both the
>>> development and 8.5.0 on Stampede2 recently, so I'm not sure what the
>>> issue. I'll also put up general instructions for the installation on the
>>> ASPECT github page.
>>>
>>> Felipe - As soon as I rebuild deal.II on my account, you can build
>>> ASPECT using that version until the general module is installed.
>>>
>>> Cheers,
>>> John
>>> On 05/03/2018 09:34 AM, Timo Heister wrote:
>>>
>>> login4.stampede2(364)$ find . -name trilinos_block*
>>> ./include/deal.II/lac/trilinos_block_sparse_matrix.h
>>>
>>> so, the file 'trilinos_block_vector.h' does not exists in this library
>>> collection  :(
>>>
>>> what should I do?
>>>
>>> This means the deal.II installation you are trying to use is broken.
>>> Your options:
>>> - install deal.II yourself
>>> - ask the admins to fix the installation
>>> - ask somebody else to install deal.II and use that installation (I am
>>> planning to do that at some point this summer)
>>>
>>>
>>>
>>>
>>>
>>> _______________________________________________
>>> Aspect-devel mailing list
>>> Aspect-devel at geodynamics.org
>>> http://lists.geodynamics.org/cgi-bin/mailman/listinfo/aspect-devel
>>>
>>
>>
>>
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