[petsc-users] -ksp_diagonal_scale question
I was looking at the documentation for KSPSetDiagonalScale and it contains this comment: This routine is only used if the matrix and preconditioner matrix are the same thing. However,?I have found that even if the matrix and preconditioner are different, using the -ksp_diagonal_scale command line argument changes the convergence behavior of the solvers. Is the man page correct? Also, can you point me towards documentation of the type of scaling that is applied? Thanks for your help, Max Rudolph
[petsc-users] Binary VTK viewer
I was looking into the various PetscViewerFormats available and it appears that only ASCII vtk format is supported. I found an old thread on this mailing list with talk between Blaise Bourdin and Matt Knepley of adding support for output of binary vtk files. Was this ever done? Thanks for your help, Max -- next part -- An HTML attachment was scrubbed... URL: http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20120308/2d2bf351/attachment.htm
[petsc-users] Matrix format mpiaij does not have a built-in PETSc XXX!
MPIAIJ and SEQQIJ matrices are subtypes of the AIJ matrix type. Looking at that table, you should be able to use any of the PCs that supports AIJ and has an X under 'parallel'. Max On Sun, Feb 26, 2012 at 8:16 AM, Aron Roland aaronroland at gmx.de wrote: Dear All, I hope somebody can help us on this or give at least some clearance. We have just included PETSc as an solver for our sparse matrix evolving from an unstructured mesh advection scheme. The problem is that we are using the mpiaij matrix type, since our matrix is naturally sparse. However it seems that PETSc has no PC for this, except the PCSOR, which showed to be not very effective for our problem. All others give the error msg. of the mail subject, where XXX are the different PC tried. The manual is a bit diffuse on this e.g. http://www.mcs.anl.gov/petsc/**documentation/**linearsolvertable.htmlhttp://www.mcs.anl.gov/petsc/documentation/linearsolvertable.html it is claimed that certain PC's are running on aij matrices ... but these are to be defined either as seq. or parallel (mpiaij) matrices. Moreover in the above mentioned list are two columns parallel/seriel, what is the intention of parallel capability when not applicable to matrices stored within the parallel mpiaij framework. I guess we just not understanding the concept or have some other difficulties of understanding of all this. Any comments help is welcome Aron -- next part -- An HTML attachment was scrubbed... URL: http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20120226/9eca1576/attachment.htm
[petsc-users] Starting point for Stokes fieldsplit
I did eventually make my test case work using the split preconditioning, first using additive schwartz as the preconditioner for the upper left (0,0) block and then using ML with asm and gmres within each multigrid level. I am posting my runtime options in case it might be helpful for someone else out there who wants to try this. The key to getting the solver to converge for me was starting with a good initial guess (the solution diverged with a zero initial guess), especially for the pressure field, using gcr as the outer ksp and, small ksp_rtol values for both of the inner ksps. Max -stokes_pc_fieldsplit_0_fields 0,1 -stokes_pc_fieldsplit_1_fields 2 \ -stokes_pc_type fieldsplit -stokes_pc_fieldsplit_type multiplicative \ -stokes_ksp_initial_guess_nonzero \ -stokes_fieldsplit_0_pc_type asm \ -stokes_fieldsplit_0_ksp_type gmres \ -stokes_fieldsplit_0_ksp_initial_guess_nonzero \ -stokes_fieldsplit_0_ksp_max_it 10 \ -stokes_fieldsplit_0_ksp_rtol 1.0e-9 \ -stokes_fieldsplit_1_pc_type jacobi \ -stokes_fieldsplit_1_ksp_type gmres \ -stokes_fieldsplit_1_ksp_max_it 10 \ -stokes_fieldsplit_1_ksp_rtol 1.0e-9 \ -stokes_ksp_type gcr \ -stokes_ksp_monitor_blocks \ -stokes_ksp_monitor \ -stokes_ksp_view \ -stokes_ksp_atol 1e-2 \ -stokes_ksp_rtol 0.0 \ On Wed, Feb 22, 2012 at 1:29 PM, Max Rudolph maxwellr at gmail.com wrote: On Tue, Feb 21, 2012 at 3:36 AM, Dave May dave.mayhem23 at gmail.com wrote: Max, The test case that I am working with is isoviscous convection, benchmark case 1a from Blankenbach 1989. Okay, I know this problem. An iso viscous problem, solved on a uniform grid using dx=dy=dz discretised via FV should be super easy to precondition. I think that this is the problem. The (2,2) slot in the LHS matrix is all zero (pressure does not appear in the continuity equation), so I think that the preconditioner is meaningless. I am still confused as to why this choice of preconditioner was suggested in the tutorial, and what is a better choice of preconditioner for this block? Should I be using one of the Schur complement methods instead of the additive or multiplicative field split? No, you need to define an appropriate stokes preconditioner You should assemble this matrix B = ( K,B ; B^T, -1/eta* I ) as the preconditioner for stokes. Here eta* is a measure of the local viscosity within each pressure control volume. Unless you specify to use the real diagonal Pass this into the third argument in KSPSetOperators() (i.e. the Pmat variable) http://www.mcs.anl.gov/petsc/petsc-current/docs/manualpages/KSP/KSPSetOperators.html Not sure how you represent A and B, but if you really want to run just additive with fieldsplit, you don't need the off diagonal blocks, so B = ( K,0 ; 0, -1/eta* I ) would yield the same result. Depending on your matrix representation, this may save you some memory. PCFieldsplit will use the B(1,1) and B(2,2) to build the stokes preconditioner unless you ask for it to use the real diagonal - but for the stokes operator A, this makes no sense. This is the right thing to do (as Matt states). Try it out, and let us know how it goes. Cheers, Dave Dave and Matt, Thanks for your help. I had some time to work on this a little more. I now have a stokes operator A that looks like this: A=(K B; B^T 0) and a matrix from which the preconditioner is generated P=(K B; B^T -1/eta*I) I verified that I can solve this system using the default ksp and pc settings in 77 iterations for the first timestep (initial guess zero) and in 31 iterations for the second timestep (nonzero initial guess). I adopted your suggestion to use the multiplicative field split as a starting point. My reading of the PETSc manual suggests to me that the preconditioner formed should then look like: B = (ksp(K,K) 0;-B^T*ksp(K,K)*ksp(0,-1/eta*I)ksp(0,-1/eta*I)) My interpretation of the output suggests that the solvers within each fieldsplit are converging nicely, but the global residual is not decreasing after the first few iterations. Given the disparity in residual sizes, I think that there might be a problem with the scaling of the pressure variable (I scaled the continuity equation by eta/dx where dx is my grid spacing). I also scaled the (1,1) block in the preconditioner by this scale factor. Thanks again for all of your help. Max Options used: -stokes_pc_fieldsplit_0_fields 0,1 -stokes_pc_fieldsplit_1_fields 2 \ -stokes_pc_type fieldsplit -stokes_pc_fieldsplit_type multiplicative \ -stokes_fieldsplit_0_pc_type ml \ -stokes_fieldsplit_0_ksp_type gmres \ -stokes_fieldsplit_0_ksp_monitor_true_residual \ -stokes_fieldsplit_0_ksp_norm_type UNPRECONDITIONED \ -stokes_fieldsplit_0_ksp_max_it 3 \ -stokes_fieldsplit_0_ksp_type gmres \ -stokes_fieldsplit_0_ksp_rtol 1.0e-4 \ -stokes_fieldsplit_0_mg_levels_ksp_type
[petsc-users] Accessing Vector's ghost values
Did you try running with -on_error_attach_debugger and and using your debugger to try to figure out where your code is segfaulting? Max On Thu, Feb 23, 2012 at 10:07 AM, Bojan Niceno bojan.niceno at psi.ch wrote: Thanks Ju. I studied this case carefully, and it seems clear to me. When I apply the same techniques in my code, I get error messages I sent to my reply to Matthew. Cheers, Bojan On 2/23/2012 6:46 PM, Ju LIU wrote: 2012/2/23 Bojan Niceno bojan.niceno at psi.ch Hi all, I've never used a mailing list before, so I hope this message will reach PETSc users and experts and someone might be willing to help me. I am also novice in PETSc. I have developed an unstructured finite volume solver on top of PETSc libraries. In sequential, it works like a charm. For the parallel version, I do domain decomposition externally with Metis, and work out local and global numberings, as well as communication patterns between processor. (The latter don't seem to be needed for PETSc, though.) When I run my program in parallel, it also works, but I miss values in vectors' ghost points. I create vectors with command: VecCreate(PETSC_COMM_WORLD, x); Is it possible to get the ghost values if a vector is created like this? I have tried to use VecCreateGhost, but for some reason which is beyond my comprehension, PETSc goes berserk when it reaches the command: VecCreateGhost(PETSC_COMM_WORLD, n, PETSC_DECIDE, nghost, ifrom, x) Can anyone help me? Either how to reach ghost values for vector created by VecCreate, or how to use VecCreateGhost properly? http://www.mcs.anl.gov/petsc/petsc-current/src/vec/vec/examples/tutorials/ex9.c.html could be helpful. Bojan -- -- next part -- An HTML attachment was scrubbed... URL: http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20120223/f9528d25/attachment.htm -- next part -- A non-text attachment was scrubbed... Name: not available Type: image/png Size: 6515 bytes Desc: not available URL: http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20120223/f9528d25/attachment.png
[petsc-users] Starting point for Stokes fieldsplit
On Tue, Feb 21, 2012 at 3:36 AM, Dave May dave.mayhem23 at gmail.com wrote: Max, The test case that I am working with is isoviscous convection, benchmark case 1a from Blankenbach 1989. Okay, I know this problem. An iso viscous problem, solved on a uniform grid using dx=dy=dz discretised via FV should be super easy to precondition. I think that this is the problem. The (2,2) slot in the LHS matrix is all zero (pressure does not appear in the continuity equation), so I think that the preconditioner is meaningless. I am still confused as to why this choice of preconditioner was suggested in the tutorial, and what is a better choice of preconditioner for this block? Should I be using one of the Schur complement methods instead of the additive or multiplicative field split? No, you need to define an appropriate stokes preconditioner You should assemble this matrix B = ( K,B ; B^T, -1/eta* I ) as the preconditioner for stokes. Here eta* is a measure of the local viscosity within each pressure control volume. Unless you specify to use the real diagonal Pass this into the third argument in KSPSetOperators() (i.e. the Pmat variable) http://www.mcs.anl.gov/petsc/petsc-current/docs/manualpages/KSP/KSPSetOperators.html Not sure how you represent A and B, but if you really want to run just additive with fieldsplit, you don't need the off diagonal blocks, so B = ( K,0 ; 0, -1/eta* I ) would yield the same result. Depending on your matrix representation, this may save you some memory. PCFieldsplit will use the B(1,1) and B(2,2) to build the stokes preconditioner unless you ask for it to use the real diagonal - but for the stokes operator A, this makes no sense. This is the right thing to do (as Matt states). Try it out, and let us know how it goes. Cheers, Dave Dave and Matt, Thanks for your help. I had some time to work on this a little more. I now have a stokes operator A that looks like this: A=(K B; B^T 0) and a matrix from which the preconditioner is generated P=(K B; B^T -1/eta*I) I verified that I can solve this system using the default ksp and pc settings in 77 iterations for the first timestep (initial guess zero) and in 31 iterations for the second timestep (nonzero initial guess). I adopted your suggestion to use the multiplicative field split as a starting point. My reading of the PETSc manual suggests to me that the preconditioner formed should then look like: B = (ksp(K,K) 0;-B^T*ksp(K,K)*ksp(0,-1/eta*I)ksp(0,-1/eta*I)) My interpretation of the output suggests that the solvers within each fieldsplit are converging nicely, but the global residual is not decreasing after the first few iterations. Given the disparity in residual sizes, I think that there might be a problem with the scaling of the pressure variable (I scaled the continuity equation by eta/dx where dx is my grid spacing). I also scaled the (1,1) block in the preconditioner by this scale factor. Thanks again for all of your help. Max Options used: -stokes_pc_fieldsplit_0_fields 0,1 -stokes_pc_fieldsplit_1_fields 2 \ -stokes_pc_type fieldsplit -stokes_pc_fieldsplit_type multiplicative \ -stokes_fieldsplit_0_pc_type ml \ -stokes_fieldsplit_0_ksp_type gmres \ -stokes_fieldsplit_0_ksp_monitor_true_residual \ -stokes_fieldsplit_0_ksp_norm_type UNPRECONDITIONED \ -stokes_fieldsplit_0_ksp_max_it 3 \ -stokes_fieldsplit_0_ksp_type gmres \ -stokes_fieldsplit_0_ksp_rtol 1.0e-4 \ -stokes_fieldsplit_0_mg_levels_ksp_type gmres \ -stokes_fieldsplit_0_mg_levels_pc_type bjacobi \ -stokes_fieldsplit_0_mg_levels_ksp_max_it 4 \ -stokes_fieldsplit_1_pc_type jacobi \ -stokes_fieldsplit_1_ksp_type preonly \ -stokes_fieldsplit_1_ksp_max_it 3 \ -stokes_fieldsplit_1_ksp_monitor_true_residual \ -stokes_ksp_type gcr \ -stokes_ksp_monitor_blocks \ -stokes_ksp_monitor_draw \ -stokes_ksp_view \ -stokes_ksp_atol 1e-6 \ -stokes_ksp_rtol 1e-6 \ -stokes_ksp_max_it 100 \ -stokes_ksp_norm_type UNPRECONDITIONED \ -stokes_ksp_monitor_true_residual \ Output: 0 KSP Component U,V,P residual norm [ 0.e+00, 1.165111661413e+06, 0.e+00 ] Residual norms for stokes_ solve. 0 KSP unpreconditioned resid norm 1.165111661413e+06 true resid norm 1.165111661413e+06 ||r(i)||/||b|| 1.e+00 Residual norms for stokes_fieldsplit_0_ solve. 0 KSP unpreconditioned resid norm 1.165111661413e+06 true resid norm 1.165111661413e+06 ||r(i)||/||b|| 1.e+00 1 KSP unpreconditioned resid norm 3.173622513625e+05 true resid norm 3.173622513625e+05 ||r(i)||/||b|| 2.723878421898e-01 2 KSP unpreconditioned resid norm 5.634119635158e+04 true resid norm 1.725996376799e+05 ||r(i)||/||b|| 1.481399967026e-01 3 KSP unpreconditioned resid norm 1.218418968344e+03 true resid norm 1.559727441168e+05 ||r(i)||/||b|| 1.338693528546e-01 1 KSP Component U,V,P residual norm [
[petsc-users] Specifying different ksp_types for multiple linear systems
In my thermomechanical convection code, I set up and solve two linear systems, the first for the Stokes system and the second for an energy equation. Currently, these are separate matrices and during each timestep I first create a KSP object for each system, then solve, then destroy the KSP contexts. I would like to try out the -pc_type fieldsplit for the Stokes system, but is it possible to use -pc_type fieldsplit for the Stokes system and different pc_type and ksp_type for the energy equation? Is there perhaps a way to name the KSP associated with the Stokes system and then refer to this label from the command line (e.g. -pc_type_0 fieldsplit -pc_type_1 lu) ? Thanks very much for your help. Max Rudolph
[petsc-users] Starting point for Stokes fieldsplit
I am solving a 2D Stokes flow problem using a finite volume discretization, velocity (dof 0,1)-pressure (dof 2) formulation. Until now I have mostly used MUMPS. I am trying to use the PCFieldSplit interface now, with the goal of trying out the multigrid functionality provided through ML. I looked at these (http://www.mcs.anl.gov/petsc/documentation/tutorials/Speedup10.pdf) talk slides for some guidance on command line options and tried. When assembling the linear system, I obtain the global degree-of-freedom indices using DMDAGetGlobalIndices. The solver does not appear to be converging and I was wondering if someone could explain to me why this might be happening. Thanks for your help. Max petscmpiexec -n $1 $2 $3 \ -stokes_pc_fieldsplit_0_fields 0,1 -stokes_pc_fieldsplit_1_fields 2 \ -stokes_pc_type fieldsplit -stokes_pc_fieldsplit_type additive \ -stokes_fieldsplit_0_pc_type ml -stokes_fieldsplit_0_ksp_type preonly \ -stokes_fieldsplit_1_pc_type jacobi -stokes_fieldsplit_1_ksp_type preonly \ -stokes_ksp_view \ -stokes_ksp_monitor_true_residual \ Residual norms for stokes_ solve. 0 KSP preconditioned resid norm 2.156200561011e-07 true resid norm 1.165111661413e+06 ||r(i)||/||b|| 1.e+00 1 KSP preconditioned resid norm 2.156200561011e-07 true resid norm 1.165111661413e+06 ||r(i)||/||b|| 1.e+00 2 KSP preconditioned resid norm 5.176186579848e-08 true resid norm 5.747484453195e+06 ||r(i)||/||b|| 4.932990239085e+00 3 KSP preconditioned resid norm 5.054067588022e-08 true resid norm 5.763708451168e+06 ||r(i)||/||b|| 4.946915082953e+00 4 KSP preconditioned resid norm 3.556841873413e-08 true resid norm 4.649778784249e+06 ||r(i)||/||b|| 3.990843915003e+00 5 KSP preconditioned resid norm 3.177972840516e-08 true resid norm 4.677248322326e+06 ||r(i)||/||b|| 4.014420657890e+00 6 KSP preconditioned resid norm 3.100188857346e-08 true resid norm 4.857618195959e+06 ||r(i)||/||b|| 4.169229745814e+00 7 KSP preconditioned resid norm 3.045495907075e-08 true resid norm 5.030091724356e+06 ||r(i)||/||b|| 4.317261504580e+00 8 KSP preconditioned resid norm 2.993896937859e-08 true resid norm 5.213745290794e+06 ||r(i)||/||b|| 4.474888942808e+00 9 KSP preconditioned resid norm 2.944838631679e-08 true resid norm 5.403745734510e+06 ||r(i)||/||b|| 4.637963822245e+00 10 KSP preconditioned resid norm 2.898115557667e-08 true resid norm 5.596205405394e+06 ||r(i)||/||b|| 4.803149423985e+00 11 KSP preconditioned resid norm 2.853548106431e-08 true resid norm 5.788329048801e+06 ||r(i)||/||b|| 4.968046617765e+00 12 KSP preconditioned resid norm 2.810975464206e-08 true resid norm 5.978285004145e+06 ||r(i)||/||b|| 5.131083313418e+00 13 KSP preconditioned resid norm 2.770253127208e-08 true resid norm 6.164551408716e+06 ||r(i)||/||b|| 5.290953316217e+00 14 KSP preconditioned resid norm 2.731250834421e-08 true resid norm 6.346469882864e+06 ||r(i)||/||b|| 5.447091547575e+00 15 KSP preconditioned resid norm 2.693850812065e-08 true resid norm 6.523343466838e+06 ||r(i)||/||b|| 5.598899816114e+00
[petsc-users] Valgrind and uninitialized values
I am trying to track down a memory corruption bug using valgrind, but I am having to wade through lots and lots of error messages similar to this one, which I believe are either spurious or related to some problem in Petsc and not in my code (please correct me if I'm wrong!) ==18162== Conditional jump or move depends on uninitialised value(s) ==18162==at 0x7258D73: MPIDI_CH3U_Handle_recv_req (ch3u_handle_recv_req.c:99) ==18162==by 0x724F2E1: MPIDI_CH3I_SMP_read_progress (ch3_smp_progress.c:656) ==18162==by 0x72462D4: MPIDI_CH3I_Progress (ch3_progress.c:185) ==18162==by 0x72AC52B: MPIC_Wait (helper_fns.c:518) ==18162==by 0x72AC314: MPIC_Sendrecv (helper_fns.c:163) ==18162==by 0x7218E18: MPIR_Allgather_OSU (allgather_osu.c:524) ==18162==by 0x7217099: PMPI_Allgather (allgather.c:840) ==18162==by 0x649FFD: PetscLayoutSetUp (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x631C32: VecCreate_MPI_Private (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x63253E: VecCreate_MPI (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x5E3279: VecSetType (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x6329CC: VecCreate_Standard (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x5E3279: VecSetType (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x93BFE7: DMCreateGlobalVector_DA (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x8C7F68: DMCreateGlobalVector (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x93B6DA: VecDuplicate_MPI_DA (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x5CF419: VecDuplicate (in /work/01038/max/gk_0.1mm/gk_conv_50_vg/iso-convect-p) ==18162==by 0x438F04: initializeNodalFields (nodalFields.c:35) ==18162==by 0x434730: main (main_isotropic_convection.c:123) The relevant line of code is: 33: ierr = DMCreateGlobalVector(grid-da, nodalFields-lastT); CHKERRQ(ierr); 34: ierr = PetscObjectSetName((PetscObject) nodalFields-lastT, lastT);CHKERRQ(ierr); 35: ierr = VecDuplicate( nodalFields-lastT, nodalFields-thisT);CHKERRQ(ierr); I am using icc with petsc-3.2 on the Intel Westmere cluster at TACC. Petsc was compiled with debugging enabled. Thanks for your help. Max
[petsc-users] Valgrind and uninitialized values
No, I am using the version of Petsc supplied on the lonestar machine, which was compiled with their MPI build. I will look into making a suppressions file. Thanks for your help. Max I am trying to track down a memory corruption bug using valgrind, but I am having to wade through lots and lots of error messages similar to this one, which I believe are either spurious or related to some problem in Petsc and not in my code (please correct me if I'm wrong!) Are you using ---download-mpich? It should be valgrind clean. These are a pain, but you can make a supressions file as well. Matt
[petsc-users] -log_summary problem
On Tue, Dec 20, 2011 at 19:35, Max Rudolph rudolph at berkeley.edu wrote: When I run my code with the -log_summary option, it hangs indefinitely after displaying: Average time to get PetscTime(): 9.53674e-08 Average time for MPI_Barrier(): 0.00164938 Is this a common problem, and if so, how do I fix it? This does not happen when I run the example programs - only my own code, so I must be at fault but without an error message I am not sure where to start. I am using petsc-3.1-p7. Thanks for your help. Are all processes calling PetscFinalize()? How did you set -log_summary? It should be provided at the time you invoke PetscInitialize() on all processes. Try running in a debugger, then break when it hangs and print the stack trace. I found the problem, or at least a workaround. I have a PetscRandom and freed it in the second to last line of my main subroutine: ... ierr= PetscRandomCreate(PETSC_COMM_WORLD, r);CHKERRQ(ierr); ierr = PetscRandomSetType(r,PETSCRAND48);CHKERRQ(ierr); ... ierr = PetscRandomDestroy( r );CHKERRQ(ierr); ierr = PetscFinalize(); } If I comment out the line with PetscRandomDestroy, -log_summary seems to work. Max -- next part -- An HTML attachment was scrubbed... URL: http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20120103/1b31fc77/attachment.htm
[petsc-users] Mumps Error
I'm not sure if you figured out a solution yet, but I think that you might want to run with -mat_mumps_icntl_14 100 Max Dear Users, I'm having trouble figuring out why the MUMPS solver is failing on a specific range of one of my parameters. When using the PETSc direct solver on a single processor I have no issues. There error is: [0]PETSC ERROR: - Error Message [0]PETSC ERROR: Error in external library! [0]PETSC ERROR: Error reported by MUMPS in numerical factorization phase: INFO(1)=-9, INFO(2)=13 ! [0]PETSC ERROR: [0]PETSC ERROR: Petsc Release Version 3.1.0, Patch 8, Thu Mar 17 13:37:48 CDT 2011 [0]PETSC ERROR: See docs/changes/index.html for recent updates. [0]PETSC ERROR: See docs/faq.html for hints about trouble shooting. [0]PETSC ERROR: See docs/index.html for manual pages. [0]PETSC ERROR: [0]PETSC ERROR: ./cntor on a complex-c named hpc-1-14.local by abyrd Wed Aug 31 10:53:42 2011 [0]PETSC ERROR: Libraries linked from /panfs/storage.local/scs/home/abyrd/petsc-3.1-p8/complex-cpp-mumps/lib [0]PETSC ERROR: Configure run at Mon Jul 11 15:28:42 2011 [0]PETSC ERROR: Configure options PETSC_ARCH=complex-cpp-mumps --with-cc=mpicc --with-fc=mpif90 --with-blas-lapack-dir=/usr/lib64 --with-shared --with-clanguage=c++ --with-scalar-type=complex --download-mumps=1 --download-blacs=1 --download-scalapack=1 --download-parmetis=1 --with-cxx=mpicxx [0]PETSC ERROR: [0]PETSC ERROR: MatFactorNumeric_MUMPS() line 517 in src/mat/impls/aij/mpi/mumps/mumps.c [0]PETSC ERROR: MatLUFactorNumeric() line 2587 in src/mat/interface/matrix.c [0]PETSC ERROR: PCSetUp_LU() line 158 in src/ksp/pc/impls/factor/lu/lu.c [0]PETSC ERROR: PCSetUp() line 795 in src/ksp/pc/interface/precon.c [0]PETSC ERROR: KSPSetUp() line 237 in src/ksp/ksp/interface/itfunc.c [0]PETSC ERROR: InvertHamiltonian() line 102 in WDinvert.h I suspect it has something to do with the preconditioning or setup of the matrix I am trying to invert. The matrix becomes singular at energy = 0 eV, and is nearly singular for values close to that, but the code is failing on energies relatively far from that point. The affected energy interval is [-0.03095, 0.03095]. Is anyone able to point in the right direction to figure out what I'm not setting up properly? Respectfully, Adam Byrd PETScCntor.zip ___ petsc-users mailing list petsc-users at mcs.anl.gov https://lists.mcs.anl.gov/mailman/listinfo/petsc-users
[petsc-users] VecPointwiseDivide for Vecs with multiple DOFs?
Is there a straightforward way to perform a pointwise divide of every DOF in a global Vec with multiple degrees of freedom by another vector that has only one degree of freedom? Thanks for your help. Max
