Timo, Yes. My mistake. I was looking at the source folder instead of the installation folder. But I guess getting this output does not make a lot of sense.
ubuntu@dulcet:~/software/dealii-8.4.1/build/tests/quick_tests$ mpirun -np 4 ./p4est.debug application called MPI_Abort(MPI_COMM_WORLD, 1) - process 0 >> try running in a debugger Will have to try this and I will come back with what I get. but I hope you mean using eclipse for it. Or are you referring to gdb and xterm. I am still a novice at debugging parallel codes. Would you be able to point to resources in this regard? Regards, Kartik Jujare On Sun, Dec 4, 2016 at 9:24 PM, Timo Heister <heis...@clemson.edu> wrote: > Kartik, > > > It returned this when I tried to compile it this way. Is this the right > way? > > No, don't compile it manually. You will be missing a large number of > preprocessor defines, include paths, etc.. If you run "make test", the > binaries should still exist. Just try to run them as is. > > On Sun, Dec 4, 2016 at 3:01 PM, Kartik Jujare <kartik.juj...@gmail.com> > wrote: > > This is not the case. Still unable to figure out. > > > > On Sun, Dec 4, 2016 at 8:36 PM, Kartik Jujare <kartik.juj...@gmail.com> > > wrote: > >> > >> 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= > 4k7iKXbjGC8LfYxVJJXiaYVu6FRWmEjX38S7JmlS9Vw&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= > 4k7iKXbjGC8LfYxVJJXiaYVu6FRWmEjX38S7JmlS9Vw&m=kJCrxRvG_ > tbq41NC8oZvBxxT3eVYqKmZ9KvjoogieJg&s=qsyhRdBz89vJEcv8ovaGIS7crohGaM > EP2ZGurjocBVo&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-ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLx > WPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmEjX38S7JmlS9Vw&m=kJCrxRvG_ > tbq41NC8oZvBxxT3eVYqKmZ9KvjoogieJg&s=2xCVSwjKrCbxNaJKUF6vc- > OmzsjGnNDcBy8rBEN32Vw&e= > >>> > . > >>> > >>> > >>> > >>> -- > >>> Timo Heister > >>> http://www.math.clemson.edu/~heister/ > >>> > >>> -- > >>> The deal.II project is located at https://urldefense.proofpoint. > com/v2/url?u=http-3A__www.dealii.org_&d=CwIFaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=qBfFDSWPW4ApDkpXc56B3mTfcJw6fjR-h--zNqhpXSg&s=xSad9dbz_W- > ao7x0gYtrTM3nHWiZZIpjPUUwhQWBt2I&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=CwIFaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=qBfFDSWPW4ApDkpXc56B3mTfcJw6fjR-h--zNqhpXSg&s=V- > 4tkwxEsioc3mQzzB7XTHdJR7haHMIrTdaXPHw7C_w&e= > >>> --- > >>> 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://urldefense.proofpoint.com/v2/url?u=https-3A__groups. > google.com_d_topic_dealii_YRRoMo0vStg_unsubscribe&d=CwIFaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=qBfFDSWPW4ApDkpXc56B3mTfcJw6fjR-h--zNqhpXSg&s=QjAMa1TWo- > 2q3CWjWw0v3wRQnSo0_SPVjB4iz5pWFpQ&e= . > >>> To unsubscribe from this group and all its topics, 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=CwIFaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=qBfFDSWPW4ApDkpXc56B3mTfcJw6fjR-h--zNqhpXSg&s=IZYoEH- > I4q6FhnTJi8vPPso0kd3iBroIPZMSBbU3NEU&e= . > >> > >> > > > > -- > > The deal.II project is located at https://urldefense.proofpoint. > com/v2/url?u=http-3A__www.dealii.org_&d=CwIFaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=qBfFDSWPW4ApDkpXc56B3mTfcJw6fjR-h--zNqhpXSg&s=xSad9dbz_W- > ao7x0gYtrTM3nHWiZZIpjPUUwhQWBt2I&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=CwIFaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=qBfFDSWPW4ApDkpXc56B3mTfcJw6fjR-h--zNqhpXSg&s=V- > 4tkwxEsioc3mQzzB7XTHdJR7haHMIrTdaXPHw7C_w&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=CwIFaQ&c=Ngd- > ta5yRYsqeUsEDgxhcqsYYY1Xs5ogLxWPA_2Wlc4&r=4k7iKXbjGC8LfYxVJJXiaYVu6FRWmE > jX38S7JmlS9Vw&m=qBfFDSWPW4ApDkpXc56B3mTfcJw6fjR-h--zNqhpXSg&s=IZYoEH- > I4q6FhnTJi8vPPso0kd3iBroIPZMSBbU3NEU&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 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