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Subject: Re: [OMPI users] Performance difference on OpenMPI, IntelMPI and ScaliMPI
From: Pavel Shamis (Pasha) (pashash_at_[hidden])
Date: 2009-08-05 08:51:32


Do you know if the application use some collective operations ?

Thanks

Pasha

Torgny Faxen wrote:
> Hello,
> we are seeing a large difference in performance for some applications
> depending on what MPI is being used.
>
> Attached are performance numbers and oprofile output (first 30 lines)
> from one out of 14 nodes from one application run using OpenMPI,
> IntelMPI and Scali MPI respectively.
>
> Scali MPI is faster the other two MPI:s with a factor of 1.6 and 1.75:
>
> ScaliMPI: walltime for the whole application is 214 seconds
> OpenMPI: walltime for the whole application is 376 seconds
> Intel MPI: walltime for the whole application is 346 seconds.
>
> The application is running with the main send receive commands being:
> MPI_Bsend
> MPI_Iprobe followed by MPI_Recv (in case of there being a message).
> Quite often MPI_Iprobe is being called just to check whether there is
> a certain message pending.
>
> Any idea on tuning tips, performance analysis, code modifications to
> improve the OpenMPI performance? A lot of time is being spent in
> "mca_btl_sm_component_progress", "btl_openib_component_progress" and
> other internal routines.
>
> The code is running on a cluster with 140 HP ProLiant DL160 G5 compute
> servers. Infiniband interconnect. Intel Xeon E5462 processors. The
> profiled application is using 144 cores on 18 nodes over Infiniband.
>
> Regards / Torgny
> =====================================================================================================================0
>
> OpenMPI 1.3b2
> =====================================================================================================================0
>
>
> Walltime: 376 seconds
>
> CPU: CPU with timer interrupt, speed 0 MHz (estimated)
> Profiling through timer interrupt
> samples % image name app name
> symbol name
> 668288 22.2113 mca_btl_sm.so rco2.24pe
> mca_btl_sm_component_progress
> 441828 14.6846 rco2.24pe rco2.24pe step_
> 335929 11.1650 libmlx4-rdmav2.so rco2.24pe
> (no symbols)
> 301446 10.0189 mca_btl_openib.so rco2.24pe
> btl_openib_component_progress
> 161033 5.3521 libopen-pal.so.0.0.0 rco2.24pe
> opal_progress
> 157024 5.2189 libpthread-2.5.so rco2.24pe
> pthread_spin_lock
> 99526 3.3079 no-vmlinux no-vmlinux
> (no symbols)
> 93887 3.1204 mca_btl_sm.so rco2.24pe
> opal_using_threads
> 69979 2.3258 mca_pml_ob1.so rco2.24pe
> mca_pml_ob1_iprobe
> 58895 1.9574 mca_bml_r2.so rco2.24pe
> mca_bml_r2_progress
> 55095 1.8311 mca_pml_ob1.so rco2.24pe
> mca_pml_ob1_recv_request_match_wild
> 49286 1.6381 rco2.24pe rco2.24pe
> tracer_
> 41946 1.3941 libintlc.so.5 rco2.24pe
> __intel_new_memcpy
> 40730 1.3537 rco2.24pe rco2.24pe
> scobi_
> 36586 1.2160 rco2.24pe rco2.24pe
> state_
> 20986 0.6975 rco2.24pe rco2.24pe diag_
> 19321 0.6422 libmpi.so.0.0.0 rco2.24pe
> PMPI_Unpack
> 18552 0.6166 libmpi.so.0.0.0 rco2.24pe
> PMPI_Iprobe
> 17323 0.5757 rco2.24pe rco2.24pe
> clinic_
> 16194 0.5382 rco2.24pe rco2.24pe
> k_epsi_
> 15330 0.5095 libmpi.so.0.0.0 rco2.24pe
> PMPI_Comm_f2c
> 13778 0.4579 libmpi_f77.so.0.0.0 rco2.24pe
> mpi_iprobe_f
> 13241 0.4401 rco2.24pe rco2.24pe
> s_recv_
> 12386 0.4117 rco2.24pe rco2.24pe
> growth_
> 11699 0.3888 rco2.24pe rco2.24pe
> testnrecv_
> 11268 0.3745 libmpi.so.0.0.0 rco2.24pe
> mca_pml_base_recv_request_construct
> 10971 0.3646 libmpi.so.0.0.0 rco2.24pe
> ompi_convertor_unpack
> 10034 0.3335 mca_pml_ob1.so rco2.24pe
> mca_pml_ob1_recv_request_match_specific
> 10003 0.3325 libimf.so rco2.24pe exp.L
> 9375 0.3116 rco2.24pe rco2.24pe
> subbasin_
> 8912 0.2962 libmpi_f77.so.0.0.0 rco2.24pe
> mpi_unpack_f
>
>
>
> =====================================================================================================================0
>
> Intel MPI, version 3.2.0.011/
> =====================================================================================================================0
>
>
> Walltime: 346 seconds
>
> CPU: CPU with timer interrupt, speed 0 MHz (estimated)
> Profiling through timer interrupt
> samples % image name app name
> symbol name
> 486712 17.7537 rco2 rco2 step_
> 431941 15.7558 no-vmlinux no-vmlinux
> (no symbols)
> 212425 7.7486 libmpi.so.3.2 rco2
> MPIDI_CH3U_Recvq_FU
> 188975 6.8932 libmpi.so.3.2 rco2
> MPIDI_CH3I_RDSSM_Progress
> 172855 6.3052 libmpi.so.3.2 rco2
> MPIDI_CH3I_read_progress
> 121472 4.4309 libmpi.so.3.2 rco2
> MPIDI_CH3I_SHM_read_progress
> 64492 2.3525 libc-2.5.so rco2
> sched_yield
> 52372 1.9104 rco2 rco2
> tracer_
> 48621 1.7735 libmpi.so.3.2 rco2 .plt
> 45475 1.6588 libmpiif.so.3.2 rco2
> pmpi_iprobe__
> 44082 1.6080 libmpi.so.3.2 rco2
> MPID_Iprobe
> 42788 1.5608 libmpi.so.3.2 rco2
> MPIDI_CH3_Stop_recv
> 42754 1.5595 libpthread-2.5.so rco2
> pthread_mutex_lock
> 42190 1.5390 libmpi.so.3.2 rco2
> PMPI_Iprobe
> 41577 1.5166 rco2 rco2
> scobi_
> 40356 1.4721 libmpi.so.3.2 rco2
> MPIDI_CH3_Start_recv
> 38582 1.4073 libdaplcma.so.1.0.2 rco2
> (no symbols)
> 37545 1.3695 rco2 rco2
> state_
> 35597 1.2985 libc-2.5.so rco2 free
> 34019 1.2409 libc-2.5.so rco2
> malloc
> 31841 1.1615 rco2 rco2
> s_recv_
> 30955 1.1291 libmpi.so.3.2 rco2
> __I_MPI___intel_new_memcpy
> 27876 1.0168 libc-2.5.so rco2
> _int_malloc
> 26963 0.9835 rco2 rco2
> testnrecv_
> 23005 0.8391 libpthread-2.5.so rco2
> __pthread_mutex_unlock_usercnt
> 22290 0.8131 libmpi.so.3.2 rco2
> MPID_Segment_manipulate
> 22086 0.8056 libmpi.so.3.2 rco2
> MPIDI_CH3I_read_progress_expected
> 19146 0.6984 rco2 rco2 diag_
> 18250 0.6657 rco2 rco2
> clinic_
> =====================================================================================================================0
>
> Scali MPI, version 3.13.10-59413
> =====================================================================================================================0
>
>
> Walltime:
>
> CPU: CPU with timer interrupt, speed 0 MHz (estimated)
> Profiling through timer interrupt
> samples % image name app name
> symbol name
> 484267 30.0664 rco2.24pe rco2.24pe step_
> 111949 6.9505 libmlx4-rdmav2.so rco2.24pe
> (no symbols)
> 73930 4.5900 libmpi.so rco2.24pe
> scafun_rq_handle_body
> 57846 3.5914 libmpi.so rco2.24pe
> invert_decode_header
> 55836 3.4667 libpthread-2.5.so rco2.24pe
> pthread_spin_lock
> 53703 3.3342 rco2.24pe rco2.24pe
> tracer_
> 40934 2.5414 rco2.24pe rco2.24pe
> scobi_
> 40244 2.4986 libmpi.so rco2.24pe
> scafun_request_probe_handler
> 37399 2.3220 rco2.24pe rco2.24pe
> state_
> 30455 1.8908 libmpi.so rco2.24pe
> invert_matchandprobe
> 29707 1.8444 no-vmlinux no-vmlinux
> (no symbols)
> 29147 1.8096 libmpi.so rco2.24pe
> FMPI_scafun_Iprobe
> 27969 1.7365 libmpi.so rco2.24pe
> decode_8_u_64
> 27475 1.7058 libmpi.so rco2.24pe
> scafun_rq_anysrc_fair_one
> 25966 1.6121 libmpi.so rco2.24pe
> scafun_uxq_probe
> 24380 1.5137 libc-2.5.so rco2.24pe
> memcpy
> 22615 1.4041 libmpi.so rco2.24pe .plt
> 21172 1.3145 rco2.24pe rco2.24pe diag_
> 20716 1.2862 libc-2.5.so rco2.24pe
> memset
> 18565 1.1526 libmpi.so rco2.24pe
> openib_wrapper_poll_cq
> 18192 1.1295 rco2.24pe rco2.24pe
> clinic_
> 17135 1.0638 libmpi.so rco2.24pe
> PMPI_Iprobe
> 16685 1.0359 rco2.24pe rco2.24pe
> k_epsi_
> 16236 1.0080 libmpi.so rco2.24pe
> PMPI_Unpack
> 15563 0.9662 libmpi.so rco2.24pe
> scafun_r_rq_append
> 14829 0.9207 libmpi.so rco2.24pe
> scafun_rq_test_finished
> 13349 0.8288 rco2.24pe rco2.24pe
> s_recv_
> 12490 0.7755 libmpi.so rco2.24pe
> flop_matchandprobe
> 12427 0.7715 libibverbs.so.1.0.0 rco2.24pe
> (no symbols)
> 12272 0.7619 libmpi.so rco2.24pe
> scafun_rq_handle
> 12146 0.7541 rco2.24pe rco2.24pe
> growth_
> 10175 0.6317 libmpi.so rco2.24pe
> wrp2p_test_finished
> 9888 0.6139 libimf.so rco2.24pe exp.L
> 9179 0.5699 rco2.24pe rco2.24pe
> subbasin_
> 9082 0.5639 rco2.24pe rco2.24pe
> testnrecv_
> 8901 0.5526 libmpi.so rco2.24pe
> openib_wrapper_purge_requests
> 7425 0.4610 rco2.24pe rco2.24pe
> scobimain_
> 7378 0.4581 rco2.24pe rco2.24pe
> scobi_interface_
> 6530 0.4054 rco2.24pe rco2.24pe
> setvbc_
> 6471 0.4018 libfmpi.so rco2.24pe
> pmpi_iprobe
> 6341 0.3937 rco2.24pe rco2.24pe snap_
>
>