Pierre, Sure, I have now installed PETSc with MUMPS and PT-SCHOTCH, I got some errors at the beginning but then it worked adding --COPTFLAGS="-D_POSIX_C_SOURCE=199309L" to the configuration. Also, I have compilation errors when I try to use newer versions, so I kept the 3.17.0 for the moment.
Now the parallel ordering works with PT-SCOTCH, however, is it normal that I do not see any difference in the performance compared to sequential ordering ? Also, could the error using Metis/Parmetis be due to the fact that my main code (to which I linked PETSc) uses a different ParMetis than the one separately installed by PETSC during the configuration? Hence should I configure PETSc linking ParMetis to the same library used by my main code? Thanks, Victoria Il giorno gio 2 nov 2023 alle ore 09:35 Pierre Jolivet <pie...@joliv.et> ha scritto: > > On 2 Nov 2023, at 5:29 PM, Victoria Rolandi <victoria.roland...@gmail.com> > wrote: > > Pierre, > Yes, sorry, I'll keep the list in copy. > Launching with those options (-mat_mumps_icntl_28 2 -mat_mumps_icntl_29 2) > I get an error during the analysis step. I also launched increasing the > memory and I still have the error. > > > Oh, OK, that’s bad. > Would you be willing to give SCOTCH and/or PT-SCOTCH a try? > You’d need to reconfigure/recompile with --download-ptscotch (and maybe > --download-bison depending on your system). > Then, the option would become either -mat_mumps_icntl_28 2 > -mat_mumps_icntl_29 2 (PT-SCOTCH) or -mat_mumps_icntl_7 3 (SCOTCH). > It may be worth updating PETSc as well (you are using 3.17.0, we are at > 3.20.1), though I’m not sure we updated the METIS/ParMETIS snapshots since > then, so it may not fix the present issue. > > Thanks, > Pierre > > *The calculations stops at :* > > Entering CMUMPS 5.4.1 from C interface with JOB, N = 1 699150 > executing #MPI = 2, without OMP > > ================================================= > MUMPS compiled with option -Dmetis > MUMPS compiled with option -Dparmetis > ================================================= > L U Solver for unsymmetric matrices > Type of parallelism: Working host > > ****** ANALYSIS STEP ******** > > ** Maximum transversal (ICNTL(6)) not allowed because matrix is > distributed > Using ParMETIS for parallel ordering > Structural symmetry is: 90% > > > *The error:* > > [0]PETSC ERROR: Caught signal number 11 SEGV: Segmentation Violation, > probably memory access out of range > [0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger > [0]PETSC ERROR: or see https://petsc.org/release/faq/#valgrind > [0]PETSC ERROR: or try http://valgrind.org on GNU/linux and Apple MacOS > to find memory corruption errors > [0]PETSC ERROR: configure using --with-debugging=yes, recompile, link, and > run > [0]PETSC ERROR: to get more information on the crash. > [0]PETSC ERROR: --------------------- Error Message > -------------------------------------------------------------- > [0]PETSC ERROR: Signal received > [0]PETSC ERROR: See https://petsc.org/release/faq/ for trouble shooting. > [0]PETSC ERROR: Petsc Release Version 3.17.0, unknown > [0]PETSC ERROR: ./charlin.exe on a named n1056 by vrolandi Wed Nov 1 > 11:38:28 2023 > [0]PETSC ERROR: Configure options > --prefix=/u/home/v/vrolandi/CODES/LIBRARY/packages/petsc/installationDir > --with-cc=mpiicc --with-cxx=mpiicpc --with-fc=mpiifort CXXOPTFLAGS=-O3 > --with-scalar-type=complex --with-debugging=0 --with-precision=single > --download-mumps --download-scalapack --download-parmetis --download-metis > > [0]PETSC ERROR: #1 User provided function() at unknown file:0 > [0]PETSC ERROR: Run with -malloc_debug to check if memory corruption is > causing the crash. > Abort(59) on node 0 (rank 0 in comm 0): application called > MPI_Abort(MPI_COMM_WORLD, 59) - process 0 > > > Thanks, > Victoria > > Il giorno mer 1 nov 2023 alle ore 10:33 Pierre Jolivet <pie...@joliv.et> > ha scritto: > >> Victoria, please keep the list in copy. >> >> I am not understanding how can I switch to ParMetis if it does not appear >> in the options of -mat_mumps_icntl_7.In the options I only have Metis and >> not ParMetis. >> >> >> You need to use -mat_mumps_icntl_28 2 -mat_mumps_icntl_29 2 >> >> Barry, I don’t think we can programmatically shut off this warning, it’s >> guarded by a bunch of KEEP() values, see src/dana_driver.F:4707, which are >> only settable/gettable by people with access to consortium releases. >> I’ll ask the MUMPS people for confirmation. >> Note that this warning is only printed to screen with the option >> -mat_mumps_icntl_4 2 (or higher), so this won’t show up for standard runs. >> >> Thanks, >> Pierre >> >> On 1 Nov 2023, at 5:52 PM, Barry Smith <bsm...@petsc.dev> wrote: >> >> >> Pierre, >> >> Could the PETSc MUMPS interface "turn-off" ICNTL(6) in this situation >> so as to not trigger the confusing warning message from MUMPS? >> >> Barry >> >> On Nov 1, 2023, at 12:17 PM, Pierre Jolivet <pie...@joliv.et> wrote: >> >> >> >> On 1 Nov 2023, at 3:33 PM, Zhang, Hong via petsc-users < >> petsc-users@mcs.anl.gov> wrote: >> >> Victoria, >> "** Maximum transversal (ICNTL(6)) not allowed because matrix is >> distributed >> Ordering based on METIS" >> >> >> This warning is benign and appears for every run using a sequential >> partitioner in MUMPS with a MATMPIAIJ. >> (I’m not saying switching to ParMETIS will not make the issue go away) >> >> Thanks, >> Pierre >> >> $ ../../../../arch-darwin-c-debug-real/bin/mpirun -n 2 ./ex2 -pc_type lu >> -mat_mumps_icntl_4 2 >> Entering DMUMPS 5.6.2 from C interface with JOB, N = 1 56 >> executing #MPI = 2, without OMP >> >> ================================================= >> MUMPS compiled with option -Dmetis >> MUMPS compiled with option -Dparmetis >> MUMPS compiled with option -Dpord >> MUMPS compiled with option -Dptscotch >> MUMPS compiled with option -Dscotch >> ================================================= >> L U Solver for unsymmetric matrices >> Type of parallelism: Working host >> >> ****** ANALYSIS STEP ******** >> >> ** Maximum transversal (ICNTL(6)) not allowed because matrix is >> distributed >> Processing a graph of size: 56 with 194 edges >> Ordering based on AMF >> WARNING: Largest root node of size 26 not selected for parallel >> execution >> >> Leaving analysis phase with ... >> INFOG(1) = 0 >> INFOG(2) = 0 >> […] >> >> Try parmetis. >> Hong >> ------------------------------ >> *From:* petsc-users <petsc-users-boun...@mcs.anl.gov> on behalf of >> Victoria Rolandi <victoria.roland...@gmail.com> >> *Sent:* Tuesday, October 31, 2023 10:30 PM >> *To:* petsc-users@mcs.anl.gov <petsc-users@mcs.anl.gov> >> *Subject:* [petsc-users] Error using Metis with PETSc installed with >> MUMPS >> >> Hi, >> >> I'm solving a large sparse linear system in parallel and I am using PETSc >> with MUMPS. I am trying to test different options, like the ordering of the >> matrix. Everything works if I use the *-mat_mumps_icntl_7 2 *or >> *-mat_mumps_icntl_7 >> 0 *options (with the first one, AMF, performing better than AMD), >> however when I test METIS *-mat_mumps_icntl_7** 5 *I get an error >> (reported at the end of the email). >> >> I have configured PETSc with the following options: >> >> --with-cc=mpiicc --with-cxx=mpiicpc --with-fc=mpiifort >> --with-scalar-type=complex --with-debugging=0 --with-precision=single >> --download-mumps --download-scalapack --download-parmetis --download-metis >> >> and the installation didn't give any problems. >> >> Could you help me understand why metis is not working? >> >> Thank you in advance, >> Victoria >> >> Error: >> >> ****** ANALYSIS STEP ******** >> ** Maximum transversal (ICNTL(6)) not allowed because matrix is >> distributed >> Processing a graph of size: 699150 with 69238690 edges >> Ordering based on METIS >> 510522 37081376 [100] [10486 699150] >> Error! Unknown CType: -1 >> >> >> >> >> >
