Bruno,
I apparently spoke to soon. It passed "make test" with 0 failed test.
However, when I run "cmake ." in the directory of step-1 I get this output:
-- Using the deal.II-9.5.2 installation found at /usr/local
-- Include macro
/usr/local/share/deal.II/macros/macro_deal_ii_add_test.cmake
-- Include macro
/usr/local/share/deal.II/macros/macro_deal_ii_initialize_cached_variables.cmake
-- Include macro
/usr/local/share/deal.II/macros/macro_deal_ii_invoke_autopilot.cmake
-- Include macro
/usr/local/share/deal.II/macros/macro_deal_ii_pickup_tests.cmake
-- Include macro
/usr/local/share/deal.II/macros/macro_deal_ii_query_git_information.cmake
-- Include macro
/usr/local/share/deal.II/macros/macro_deal_ii_setup_target.cmake
-- Include macro
/usr/local/share/deal.II/macros/macro_shell_escape_option_groups.cmake
-- Include macro
/usr/local/share/deal.II/macros/macro_target_compile_flags.cmake
-- Include macro
/usr/local/share/deal.II/macros/macro_target_link_flags.cmake
-- Autopilot invoked
-- Run $ make info to print a detailed help message
-- Configuring done
CMake Error in CMakeLists.txt:
Imported target "dealii::dealii_debug" includes non-existent path
"/usr/local/include/deal.II/bundled"
in its INTERFACE_INCLUDE_DIRECTORIES. Possible reasons include:
* The path was deleted, renamed, or moved to another location.
* An install or uninstall procedure did not complete successfully.
* The installation package was faulty and references files it does not
provide.
-- Generating done
CMake Generate step failed. Build files cannot be regenerated correctly.
Then when I try "make" I get this:
[ 33%] Building CXX object CMakeFiles/step-1.dir/step-1.cc.o
In file included from /usr/local/include/deal.II/grid/tria.h:20,
from /home/sean/dealii-9.5.2/examples/step-1/step-1.cc:22:
/usr/local/include/deal.II/base/config.h:588:12: fatal error: mpi.h: No
such file or directory
588 | # include <mpi.h>
| ^~~~~~~
compilation terminated.
make[3]: *** [CMakeFiles/step-1.dir/build.make:76:
CMakeFiles/step-1.dir/step-1.cc.o] Error 1
make[2]: *** [CMakeFiles/Makefile2:90: CMakeFiles/step-1.dir/all] Error 2
make[1]: *** [CMakeFiles/Makefile2:123: CMakeFiles/run.dir/rule] Error 2
make: *** [Makefile:137: run] Error 2
I am currently recompiling with fewer jobs to see if any errors pop up or
if recompiling might help.
Thanks,
Sean
On Tuesday, February 6, 2024 at 3:17:42 PM UTC-7 bruno.t...@gmail.com wrote:
> Sean,
>
> That's great to hear. We don't mark problems as solved. So there is
> nothing to do.
>
> Best,
>
> Bruno
>
> Le mar. 6 févr. 2024 à 16:41, Sean Johnson <sljoh...@gmail.com> a écrit :
>
>> Thanks again!
>>
>> The using a newer version of Boost helped me get further and realize I
>> made another bone headed mistake of compiling kokkos as a static library.
>>
>> I am all compiled and passed all tests now.
>>
>> Thanks for your help and let me know if I have to do anything for this to
>> be marked as solved.
>>
>> Best,
>> Sean
>>
>> On Tuesday, February 6, 2024 at 8:30:19 AM UTC-7 bruno.t...@gmail.com
>> wrote:
>>
>>> Sean,
>>>
>>> I am not sure what's the issue. It's probably not the issue but make
>>> sure that mpi is using nvcc_wrapper as the underlying compiler. If you use
>>> OpenMPI, you can use export `OMPI_CXX=nvcc_wrapper`. You could also try to
>>> use a newer version of Boost. The bundled version is pretty old. Since you
>>> are using Ubuntu 22.04, you can just use your package manager to install a
>>> newer version of boost.
>>>
>>> Best,
>>>
>>> Bruno
>>>
>>> Le mar. 6 févr. 2024 à 09:37, Sean Johnson <sljoh...@gmail.com> a
>>> écrit :
>>>
>>>> Thanks,
>>>>
>>>> I tried lowering it down to 2 and it looks like two of them were caught
>>>> a lot earlier. Now I don't make it past 6%. I erased everything from
>>>> before
>>>> and recompiled the cmake files and ran with just 2 jobs and again it stuck
>>>> in the same spot.
>>>>
>>>> Here are the last few lines and logs.
>>>>
>>>> [ 6%] Building CXX object
>>>> bundled/boost-1.70.0/libs/iostreams/src/CMakeFiles/bundled_boost_iostreams_debug.dir/gzip.cpp.o
>>>> /home/sean/dealii-9.5.2/bundled/boost-1.70.0/libs/iostreams/src/../../../include/boost/mpl/assert.hpp:193:42:
>>>>
>>>> warning: unnecessary parentheses in declaration of ‘assert_arg’
>>>> [-Wparentheses]
>>>> 193 | template< typename Pred >
>>>> | ^
>>>>
>>>> /home/sean/dealii-9.5.2/bundled/boost-1.70.0/libs/iostreams/src/../../../include/boost/mpl/assert.hpp:193:42:
>>>>
>>>> note: remove parentheses
>>>> 193 | template< typename Pred >
>>>> | ^
>>>>
>>>> | -
>>>> -
>>>> /home/sean/dealii-9.5.2/bundled/boost-1.70.0/libs/iostreams/src/../../../include/boost/mpl/assert.hpp:198:42:
>>>>
>>>> warning: unnecessary parentheses in declaration of ‘assert_not_arg’
>>>> [-Wparentheses]
>>>> 198 | template< typename Pred >
>>>> | ^
>>>>
>>>>
>>>>
>>>> /home/sean/dealii-9.5.2/bundled/boost-1.70.0/libs/iostreams/src/../../../include/boost/mpl/assert.hpp:198:42:
>>>>
>>>> note: remove parentheses
>>>> 198 | template< typename Pred >
>>>> | ^
>>>>
>>>>
>>>>
>>>> | -
>>>>
>>>>
>>>> -
>>>> [ 6%] Building CXX object
>>>> bundled/boost-1.70.0/libs/iostreams/src/CMakeFiles/bundled_boost_iostreams_debug.dir/mapped_file.cpp.o
>>>>
>>>> Thanks again for your patience and help,
>>>> Sean
>>>>
>>>> On Monday, February 5, 2024 at 7:07:01 PM UTC-7 bruno.t...@gmail.com
>>>> wrote:
>>>>
>>>>> Sean,
>>>>>
>>>>> It's possible that you don't have enough RAM and that you are swapping
>>>>> memory which is extremely slow. Try to reinstall using fewer processors.
>>>>>
>>>>> Best,
>>>>>
>>>>> Bruno
>>>>>
>>>>> Le lun. 5 févr. 2024 à 19:01, Sean Johnson <sljoh...@gmail.com> a
>>>>> écrit :
>>>>>
>>>>>> Thanks Bruno,
>>>>>>
>>>>>> This was definitely it.
>>>>>>
>>>>>> So I have now gotten to running make --jobs=4 install but it has
>>>>>> frozen at 82%
>>>>>> I have been sitting on it for about 6 to 7 hours with no change at
>>>>>> all. The last line is:
>>>>>> [ 82%] Built target object_non_matching_debug
>>>>>>
>>>>>> and attached are the summary.log and detailed.log
>>>>>>
>>>>>> I will keep it running still just incase but from previous
>>>>>> installations of dealii this has never happened.
>>>>>>
>>>>>> Thanks,
>>>>>> Sean
>>>>>>
>>>>>> On Monday, February 5, 2024 at 8:32:28 AM UTC-7 bruno.t...@gmail.com
>>>>>> wrote:
>>>>>>
>>>>>>> Sean,
>>>>>>>
>>>>>>> It looks like you are using the wrong compiler. If you want to use
>>>>>>> CUDA, you should use nvcc_wrapper as your C++ compiler. You want
>>>>>>> something
>>>>>>> like `-DCMAKE_CXX_COMPILER=/path/nvcc_wrapper`. You should already have
>>>>>>> used `nvcc_wrapper` to compiler Kokkos.
>>>>>>>
>>>>>>> Best,
>>>>>>>
>>>>>>> Bruno
>>>>>>>
>>>>>>> On Monday, February 5, 2024 at 2:40:37 AM UTC-5 sljoh...@gmail.com
>>>>>>> wrote:
>>>>>>>
>>>>>>>> Hey,
>>>>>>>>
>>>>>>>> I am trying to get deal.ii to compile with p4est and cuda. Due to
>>>>>>>> cuda it also needs MPI and Kokkos from me. I can't even make the make
>>>>>>>> file
>>>>>>>> yet. I tried to find any similar problems in the mailing list and was
>>>>>>>> unable to.
>>>>>>>>
>>>>>>>> I am running Ubuntu 22.04
>>>>>>>>
>>>>>>>> The Error at the end reads:
>>>>>>>> [ 50%] Building CXX object
>>>>>>>> CMakeFiles/CheckCompilerSetupExec.dir/dummy.cpp.o
>>>>>>>> /usr/bin/c++ -fopenmp-simd -O0 -ggdb
>>>>>>>> -Wa,--compress-debug-sections -extended-lambda
>>>>>>>> -Wext-lambda-captures-this -arch=sm_89 -DKOKKOS_DEPENDENCE
>>>>>>>> -Wno-non-template-friend -o
>>>>>>>> CMakeFiles/CheckCompilerSetupExec.dir/dummy.cpp.o -c
>>>>>>>> /home/sean/dealii-9.5.2/cmake/macros/check_compiler_setup/dummy.cpp
>>>>>>>> c++: error: unrecognized command-line option
>>>>>>>> -Wext-lambda-captures-this
>>>>>>>> c++: error: unrecognized command-line option -arch=sm_89
>>>>>>>> gmake[2]: *** [CMakeFiles/CheckCompilerSetupExec.dir/build.make:78:
>>>>>>>> CMakeFiles/CheckCompilerSetupExec.dir/dummy.cpp.o] Error 1
>>>>>>>> gmake[2]: Leaving directory
>>>>>>>>
>>>>>>>>
>>>>>>>> '/home/sean/dealii-9.5.2/build/check_compiler_setup/DEAL_II_HAVE_USABLE_FLAGS_DEBUG'
>>>>>>>> gmake[1]: *** [CMakeFiles/Makefile2:86:
>>>>>>>> CMakeFiles/CheckCompilerSetupExec.dir/all] Error 2
>>>>>>>> gmake[1]: Leaving directory
>>>>>>>>
>>>>>>>>
>>>>>>>> '/home/sean/dealii-9.5.2/build/check_compiler_setup/DEAL_II_HAVE_USABLE_FLAGS_DEBUG'
>>>>>>>> gmake: *** [Makefile:94: all] Error 2
>>>>>>>>
>>>>>>>>
>>>>>>>> CMake Error at cmake/setup_finalize.cmake:126 (message):
>>>>>>>>
>>>>>>>>
>>>>>>>> Configuration error: Cannot compile a test program with the
>>>>>>>> final set of
>>>>>>>> compiler and linker flags:
>>>>>>>> CXX flags (DEBUG): -fopenmp-simd -O0 -ggdb
>>>>>>>> -Wa,--compress-debug-sections
>>>>>>>> LD flags (DEBUG): -rdynamic -fopenmp -ggdb
>>>>>>>> -Wl,--compress-debug-sections=zlib
>>>>>>>> LIBRARIES (DEBUG): rt;
>>>>>>>>
>>>>>>>> Attached are the output and error logs.
>>>>>>>>
>>>>>>>> Thanks for any help,
>>>>>>>> Sean
>>>>>>>>
>>>>>>>> --
>>>>>> The deal.II project is located at http://www.dealii.org/
>>>>>> For mailing list/forum options, see
>>>>>> https://groups.google.com/d/forum/dealii?hl=en
>>>>>> ---
>>>>>> You received this message because you are subscribed to a topic in
>>>>>> the Google Groups "deal.II User Group" group.
>>>>>> To unsubscribe from this topic, visit
>>>>>> https://groups.google.com/d/topic/dealii/l1tWck3YnHs/unsubscribe.
>>>>>> To unsubscribe from this group and all its topics, send an email to
>>>>>> dealii+un...@googlegroups.com.
>>>>>> To view this discussion on the web visit
>>>>>> https://groups.google.com/d/msgid/dealii/6ad27807-9f07-4a98-9a8b-c1fea625d13an%40googlegroups.com
>>>>>>
>>>>>> <https://groups.google.com/d/msgid/dealii/6ad27807-9f07-4a98-9a8b-c1fea625d13an%40googlegroups.com?utm_medium=email&utm_source=footer>
>>>>>> .
>>>>>>
>>>>> --
>>>> The deal.II project is located at http://www.dealii.org/
>>>> For mailing list/forum options, see
>>>> https://groups.google.com/d/forum/dealii?hl=en
>>>> ---
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>>>>
>>> To view this discussion on the web visit
>>>> https://groups.google.com/d/msgid/dealii/539d86cb-8437-4b70-bd28-23c279e3dd5cn%40googlegroups.com
>>>>
>>>> <https://groups.google.com/d/msgid/dealii/539d86cb-8437-4b70-bd28-23c279e3dd5cn%40googlegroups.com?utm_medium=email&utm_source=footer>
>>>> .
>>>>
>>> --
>> The deal.II project is located at http://www.dealii.org/
>> For mailing list/forum options, see
>> https://groups.google.com/d/forum/dealii?hl=en
>> ---
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>>
> To view this discussion on the web visit
>> https://groups.google.com/d/msgid/dealii/56c23c4c-c70a-462e-bb1a-85dd497a689bn%40googlegroups.com
>>
>> <https://groups.google.com/d/msgid/dealii/56c23c4c-c70a-462e-bb1a-85dd497a689bn%40googlegroups.com?utm_medium=email&utm_source=footer>
>> .
>>
>
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