[petsc-users] PetscAllreduceBarrierCheck is valgrind clean?

[Fande Kong]

Hi All,

I ran valgrind with mvapich-2.3.5 for a moose simulation.  The motivation
was that we have a few non-deterministic parallel simulations in moose. I
want to check if we have any memory issues. I got some complaints from
PetscAllreduceBarrierCheck

Thanks,


Fande



==98001== 88 (24 direct, 64 indirect) bytes in 1 blocks are definitely lost
in loss record 31 of 54
==98001==    at 0x4C29F73: malloc (vg_replace_malloc.c:307)
==98001==    by 0xDAE1D5E: hwloc_bitmap_alloc (bitmap.c:74)
==98001==    by 0xDA7523F: get_socket_bound_info (mv2_arch_detect.c:898)
==98001==    by 0xD93C87A: create_intra_sock_comm (create_2level_comm.c:593)
==98001==    by 0xD93BEBA: create_2level_comm (create_2level_comm.c:1762)
==98001==    by 0xD59A894: mv2_increment_shmem_coll_counter
(ch3_shmem_coll.c:2183)
==98001==    by 0xD4E4CBB: PMPI_Allreduce (allreduce.c:912)
==98001==    by 0x99F1766: PetscAllreduceBarrierCheck (pbarrier.c:26)
==98001==    by 0x99F70BE: PetscSplitOwnership (psplit.c:84)
==98001==    by 0x9C5C26B: PetscLayoutSetUp (pmap.c:262)
==98001==    by 0xA08C66B: MatMPIAdjSetPreallocation_MPIAdj (mpiadj.c:630)
==98001==    by 0xA08EB9A: MatMPIAdjSetPreallocation (mpiadj.c:856)
==98001==    by 0xA08F6D3: MatCreateMPIAdj (mpiadj.c:904)


==98001== 88 (24 direct, 64 indirect) bytes in 1 blocks are definitely lost
in loss record 32 of 54
==98001==    at 0x4C29F73: malloc (vg_replace_malloc.c:307)
==98001==    by 0xDAE1D5E: hwloc_bitmap_alloc (bitmap.c:74)
==98001==    by 0xDA7523F: get_socket_bound_info (mv2_arch_detect.c:898)
==98001==    by 0xD93C87A: create_intra_sock_comm (create_2level_comm.c:593)
==98001==    by 0xD93BEBA: create_2level_comm (create_2level_comm.c:1762)
==98001==    by 0xD59A9A4: mv2_increment_allgather_coll_counter
(ch3_shmem_coll.c:2218)
==98001==    by 0xD4E4CE4: PMPI_Allreduce (allreduce.c:917)
==98001==    by 0xCD9D74D: libparmetis__gkMPI_Allreduce (gkmpi.c:103)
==98001==    by 0xCDBB663: libparmetis__ComputeParallelBalance (stat.c:87)
==98001==    by 0xCDA4FE0: libparmetis__KWayFM (kwayrefine.c:352)
==98001==    by 0xCDA21ED: libparmetis__Global_Partition (kmetis.c:222)
==98001==    by 0xCDA20B2: libparmetis__Global_Partition (kmetis.c:191)
==98001==    by 0xCDA20B2: libparmetis__Global_Partition (kmetis.c:191)
==98001==    by 0xCDA20B2: libparmetis__Global_Partition (kmetis.c:191)
==98001==    by 0xCDA20B2: libparmetis__Global_Partition (kmetis.c:191)
==98001==    by 0xCDA2748: ParMETIS_V3_PartKway (kmetis.c:94)
==98001==    by 0xA2D6B39: MatPartitioningApply_Parmetis_Private
(pmetis.c:145)
==98001==    by 0xA2D77D9: MatPartitioningApply_Parmetis (pmetis.c:219)
==98001==    by 0xA2CD46A: MatPartitioningApply (partition.c:332)


==98001== 88 (24 direct, 64 indirect) bytes in 1 blocks are definitely lost
in loss record 33 of 54
==98001==    at 0x4C29F73: malloc (vg_replace_malloc.c:307)
==98001==    by 0xDAE1D5E: hwloc_bitmap_alloc (bitmap.c:74)
==98001==    by 0xDA7523F: get_socket_bound_info (mv2_arch_detect.c:898)
==98001==    by 0xD93C87A: create_intra_sock_comm (create_2level_comm.c:593)
==98001==    by 0xD93BEBA: create_2level_comm (create_2level_comm.c:1762)
==98001==    by 0xD59A894: mv2_increment_shmem_coll_counter
(ch3_shmem_coll.c:2183)
==98001==    by 0xD4E4CBB: PMPI_Allreduce (allreduce.c:912)
==98001==    by 0x99F1766: PetscAllreduceBarrierCheck (pbarrier.c:26)
==98001==    by 0x99F733E: PetscSplitOwnership (psplit.c:91)
==98001==    by 0x9C5C26B: PetscLayoutSetUp (pmap.c:262)
==98001==    by 0x9C5DB0D: PetscLayoutCreateFromSizes (pmap.c:112)
==98001==    by 0x9D9A018: ISGeneralSetIndices_General (general.c:568)
==98001==    by 0x9D9AB44: ISGeneralSetIndices (general.c:554)
==98001==    by 0x9D9ADC4: ISCreateGeneral (general.c:529)
==98001==    by 0x9B431E6: VecCreateGhostWithArray (pbvec.c:692)
==98001==    by 0x9B43A33: VecCreateGhost (pbvec.c:748)


==98001== 88 (24 direct, 64 indirect) bytes in 1 blocks are definitely lost
in loss record 34 of 54
==98001==    at 0x4C29F73: malloc (vg_replace_malloc.c:307)
==98001==    by 0xDAE1D5E: hwloc_bitmap_alloc (bitmap.c:74)
==98001==    by 0xDA7523F: get_socket_bound_info (mv2_arch_detect.c:898)
==98001==    by 0xD93C87A: create_intra_sock_comm (create_2level_comm.c:593)
==98001==    by 0xD93BEBA: create_2level_comm (create_2level_comm.c:1762)
==98001==    by 0xD59A894: mv2_increment_shmem_coll_counter
(ch3_shmem_coll.c:2183)
==98001==    by 0xD4E4CBB: PMPI_Allreduce (allreduce.c:912)
==98001==    by 0x9B0B5F3: VecSetSizes (vector.c:1318)
==98001==    by 0x9B42DDC: VecCreateMPIWithArray (pbvec.c:625)
==98001==    by 0xA7CF280: PCSetUp_Redundant (redundant.c:125)
==98001==    by 0xA7BB0CE: PCSetUp (precon.c:1009)
==98001==    by 0xAA2A9B9: KSPSetUp (itfunc.c:406)
==98001==    by 0xA92C490: PCSetUp_MG (mg.c:907)
==98001==    by 0xA93CAE9: PCSetUp_HMG (hmg.c:220)
==98001==    by 0xA7BB0CE: PCSetUp (precon.c:1009)
==98001==    by 0xAA2A9B9: KSPSetUp (itfunc.c:406)
==98001==    by 0xAA2B2E9: KSPSolve_Private (itfunc.c:658)
==98001==    by 0xAA2E8B7: KSPSolve (itfunc.c:889)
==98001==    by 0xAC33950: SNESSolve_NEWTONLS (ls.c:225)
==98001==    by 0xABD95AA: SNESSolve (snes.c:4569)


==98001== 176 (48 direct, 128 indirect) bytes in 2 blocks are definitely
lost in loss record 39 of 54
==98001==    at 0x4C29F73: malloc (vg_replace_malloc.c:307)
==98001==    by 0xDAE1D5E: hwloc_bitmap_alloc (bitmap.c:74)
==98001==    by 0xDA7523F: get_socket_bound_info (mv2_arch_detect.c:898)
==98001==    by 0xD93C87A: create_intra_sock_comm (create_2level_comm.c:593)
==98001==    by 0xD93BEBA: create_2level_comm (create_2level_comm.c:1762)
==98001==    by 0xD59A894: mv2_increment_shmem_coll_counter
(ch3_shmem_coll.c:2183)
==98001==    by 0xD4E4CBB: PMPI_Allreduce (allreduce.c:912)
==98001==    by 0xBAB3848: hypre_MPI_Allreduce (mpistubs.c:1180)
==98001==    by 0xB96093E: hypre_ParCSRMatrixSetNumNonzeros_core
(par_csr_matrix.c:383)
==98001==    by 0xB960A11: hypre_ParCSRMatrixSetDNumNonzeros
(par_csr_matrix.c:413)
==98001==    by 0xB8B32DF: hypre_BoomerAMGSetup (par_amg_setup.c:2784)
==98001==    by 0xB8A0D26: HYPRE_BoomerAMGSetup (HYPRE_parcsr_amg.c:47)
==98001==    by 0xA9EDB17: PCSetUp_HYPRE (hypre.c:408)
==98001==    by 0xA7BB0CE: PCSetUp (precon.c:1009)
==98001==    by 0xA93B2DB: PCSetUp_HMG (hmg.c:161)
==98001==    by 0xA7BB0CE: PCSetUp (precon.c:1009)
==98001==    by 0xAA2A9B9: KSPSetUp (itfunc.c:406)
==98001==    by 0xAA2B2E9: KSPSolve_Private (itfunc.c:658)
==98001==    by 0xAA2E8B7: KSPSolve (itfunc.c:889)
==98001==    by 0xAC33950: SNESSolve_NEWTONLS (ls.c:225)
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20210113/d47f9f1d/attachment.html>