[aspect-devel] Problem compiling Aspect on Tacc-Stampede2
John Naliboff
jbnaliboff at ucdavis.edu
Thu May 10 12:02:10 PDT 2018
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 <mailto: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 <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 <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 <http://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 <mailto: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 <mailto:Aspect-devel at geodynamics.org>
>> http://lists.geodynamics.org/cgi-bin/mailman/listinfo/aspect-devel <http://lists.geodynamics.org/cgi-bin/mailman/listinfo/aspect-devel>
>>
>>
>>
>> _______________________________________________
>> Aspect-devel mailing list
>> Aspect-devel at geodynamics.org <mailto:Aspect-devel at geodynamics.org>
>> http://lists.geodynamics.org/cgi-bin/mailman/listinfo/aspect-devel <http://lists.geodynamics.org/cgi-bin/mailman/listinfo/aspect-devel>
>
> _______________________________________________
> Aspect-devel mailing list
> Aspect-devel at geodynamics.org <mailto:Aspect-devel at geodynamics.org>
> http://lists.geodynamics.org/cgi-bin/mailman/listinfo/aspect-devel <http://lists.geodynamics.org/cgi-bin/mailman/listinfo/aspect-devel>
>
> _______________________________________________
> Aspect-devel mailing list
> Aspect-devel at geodynamics.org
> http://lists.geodynamics.org/cgi-bin/mailman/listinfo/aspect-devel
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.geodynamics.org/pipermail/aspect-devel/attachments/20180510/95d791b9/attachment.html>
More information about the Aspect-devel
mailing list