Hi Timo, I slightly remember that I had included -DDEAL_II_WITH_THREADS=OFF . This could be a cause of the problem right? If it could be should I reconfigure dealii with this option on?
Regards, Kartik Jujare. On Sun, Dec 4, 2016 at 6:54 PM, Timo Heister <heis...@clemson.edu> wrote: > Hey Kartik, > > I haven't seen an error like this before. A few ideas: > 1. Can you check that p4est is using the same mpi libraries? You can > for example compare the output of "ldd libp4est.so | grep mpi" with > the one from the deal.II libs. > 2. you can go into the tests/quicktests/ directory inside your build > directory and run the p4est test manually using mpirun. Maybe vary the > number of MPI ranks and/or try running in a debugger to see where > things are breaking. > > On Sun, Dec 4, 2016 at 6:29 AM, Kartik Jujare <kartik.juj...@gmail.com> > wrote: > > Hello, > > > > I was wondering if anyone could help pinpoint any anomaly with my p4est > and > > dealii integration. > > > > I was able to successfully install Petsc and run its own tests using my > > already installed mpich. > > Next, I installed p4est which also seemed to install without problems. > > Then dealii which also did not give me any problems. > > > > I could not find any topics relating to this error. I'd be grateful if > > anyone could help solve this issue. Following is more information about > my > > installations. > > > > The problem came when I ran the following command after dealii > installation > > $ make test > > > > The attachments: > > detailed.log -- dealii > > config.log -- p4est build directory > > > > Here is the output from the terminal: > > > > ************************************************************ > ************************************************************ > ******************** > > ubuntu@dulcet:~/software/dealii-8.4.1/build$ make test > > Scanning dependencies of target test > > [100%] Running quicktests... > > Test project /home/ubuntu/software/dealii-8.4.1/build/tests/quick_tests > > Start 1: step.debug > > 1/7 Test #1: step.debug ....................... Passed 20.28 sec > > Start 2: step.release > > 2/7 Test #2: step.release ..................... Passed 17.81 sec > > Start 3: affinity.debug > > 3/7 Test #3: affinity.debug ................... Passed 12.33 sec > > Start 4: mpi.debug > > 4/7 Test #4: mpi.debug ........................ Passed 12.67 sec > > Start 5: tbb.debug > > 5/7 Test #5: tbb.debug ........................ Passed 11.19 sec > > Start 6: p4est.debug > > 6/7 Test #6: p4est.debug ......................***Failed 17.08 sec > > Test p4est.debug: RUN > > =============================== OUTPUT BEGIN > > =============================== > > Scanning dependencies of target kill-p4est.debug-OK > > [ 0%] Built target kill-p4est.debug-OK > > [ 0%] Built target expand_instantiations_exe > > [ 0%] Built target obj_opencascade.inst > > [ 1%] Built target obj_opencascade.debug > > [ 6%] Built target obj_boost_serialization.debug > > [ 6%] Built target obj_boost_system.debug > > [ 13%] Built target obj_tbb.debug > > [ 15%] Built target obj_muparser.debug > > [ 20%] Built target obj_numerics.inst > > [ 28%] Built target obj_numerics.debug > > [ 37%] Built target obj_fe.inst > > [ 47%] Built target obj_fe.debug > > [ 49%] Built target obj_dofs.inst > > [ 52%] Built target obj_dofs.debug > > [ 55%] Built target obj_lac.inst > > [ 66%] Built target obj_lac.debug > > [ 67%] Built target obj_base.inst > > [ 79%] Built target obj_base.debug > > [ 83%] Built target obj_grid.inst > > [ 86%] Built target obj_grid.debug > > [ 88%] Built target obj_hp.inst > > [ 89%] Built target obj_hp.debug > > [ 91%] Built target obj_multigrid.inst > > [ 93%] Built target obj_multigrid.debug > > [ 94%] Built target obj_distributed.inst > > [ 96%] Built target obj_distributed.debug > > [ 96%] Built target obj_algorithms.inst > > [ 98%] Built target obj_algorithms.debug > > [ 98%] Built target obj_integrators.debug > > [100%] Built target obj_matrix_free.inst > > [100%] Built target obj_matrix_free.debug > > [100%] Built target obj_meshworker.inst > > [100%] Built target obj_meshworker.debug > > [100%] Built target deal_II.g > > Scanning dependencies of target p4est.debug > > [100%] Building CXX object > > tests/quick_tests/CMakeFiles/p4est.debug.dir/p4est.cc.o > > Linking CXX executable p4est.debug > > [100%] Built target p4est.debug > > Scanning dependencies of target p4est.debug.run > > p4est.debug: RUN failed. Output: > > application called MPI_Abort(MPI_COMM_WORLD, 1) - process 0 > > make[7]: *** [tests/quick_tests/CMakeFiles/p4est.debug.run] Error 1 > > make[6]: *** [tests/quick_tests/CMakeFiles/p4est.debug.run.dir/all] > Error 2 > > make[5]: *** [tests/quick_tests/CMakeFiles/p4est.debug.run.dir/rule] > Error 2 > > make[4]: *** [p4est.debug.run] Error 2 > > > > > > p4est.debug: ****** RUN failed ******* > > > > =============================== OUTPUT END > > =============================== > > Expected stage PASSED - aborting > > CMake Error at > > /home/ubuntu/software/dealii-8.4.1/cmake/scripts/run_test.cmake:140 > > (MESSAGE): > > *** abort > > > > > > > > Start 7: step-petsc.debug > > Errors while running CTest > > 7/7 Test #7: step-petsc.debug ................. Passed 16.50 sec > > > > 86% tests passed, 1 tests failed out of 7 > > > > Total Test time (real) = 107.88 sec > > > > The following tests FAILED: > > 6 - p4est.debug (Failed) > > > > > > ******************************* WARNING > > ******************************* > > > > Some of the tests failed! > > > > Please scroll up or check the file tests/quick_tests/quicktests.log for > the > > error messages. If you are unable to fix the problems, see the FAQ or > write > > to the mailing list linked at https://urldefense.proofpoint. > com/v2/url?u=http-3A__www.dealii.org&d=CwIBaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=kJCrxRvG_tbq41NC8oZvBxxT3eVYqKmZ9KvjoogieJg&s= > 4gGLkxn4kqLMcvYIIhPXdKpxQV_3yMiA0mhdK5nb6Ew&e= > > > > > > The p4est test can fail if you are running an OpenMPI version before 1.5. > > This is a known problem and the only work around is to update to a more > > recent version or use a different MPI library like MPICH. > > > > Built target test > > > > ************************************************************ > ************************************************************ > ******************** > > > > Thank you for your help. > > > > Regards, > > Kartik Jujare > > > > -- > > The deal.II project is located at https://urldefense.proofpoint. > com/v2/url?u=http-3A__www.dealii.org_&d=CwIBaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=kJCrxRvG_tbq41NC8oZvBxxT3eVYqKmZ9KvjoogieJg&s= > qsyhRdBz89vJEcv8ovaGIS7crohGaMEP2ZGurjocBVo&e= > > For mailing list/forum options, see > > https://urldefense.proofpoint.com/v2/url?u=https-3A__groups. > google.com_d_forum_dealii-3Fhl-3Den&d=CwIBaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=kJCrxRvG_tbq41NC8oZvBxxT3eVYqKmZ9KvjoogieJg&s=_ > MSLRpxO43OKq0xgoTZ21kepstZ7eJCINnFgWguDZdU&e= > > --- > > You received this message because you are subscribed to the Google Groups > > "deal.II User Group" group. > > To unsubscribe from this group and stop receiving emails from it, send an > > email to dealii+unsubscr...@googlegroups.com. > > For more options, visit https://urldefense.proofpoint. > com/v2/url?u=https-3A__groups.google.com_d_optout&d=CwIBaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=kJCrxRvG_tbq41NC8oZvBxxT3eVYqKmZ9Kvjoog > ieJg&s=2xCVSwjKrCbxNaJKUF6vc-OmzsjGnNDcBy8rBEN32Vw&e= . > > > > -- > Timo Heister > http://www.math.clemson.edu/~heister/ > > -- > 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/YRRoMo0vStg/unsubscribe. > To unsubscribe from this group and all its topics, send an email to > dealii+unsubscr...@googlegroups.com. > For more options, visit https://groups.google.com/d/optout. > -- 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 the Google Groups "deal.II User Group" group. To unsubscribe from this group and stop receiving emails from it, send an email to dealii+unsubscr...@googlegroups.com. For more options, visit https://groups.google.com/d/optout.
