[Mvapich-discuss] MVAPICH2 GDR from source code?
John Moore
john at flexcompute.com
Wed Jan 12 15:46:07 EST 2022
Hello,
While we wait for the RPM, we are trying to get regular MVAPICH2 to work
across two of our nodes. We compiled version 2.3.6 from source. We can run
the osu_bibw test locally, within a node without errors.
However, when we try to run across two nodes, we get the following error:
john at cell3:/shared_data/john_dev/osu-micro-benchmarks-5.8/mpi/pt2pt$
MV2_SMP_USE_CMA=0 mpirun -np 2 -hostfile hostfile ./osu_bibw
[cell3:mpi_rank_0][rdma_param_handle_heterogeneity] All nodes involved in
the job were detected to be homogeneous in terms of processors and
interconnects. Setting MV2_HOMOGENEOUS_CLUSTER=1 can improve job startup
performance on such systems. The following link has more details on
enhancing job startup performance.
http://mvapich.cse.ohio-state.edu/performance/job-startup/.
[cell3:mpi_rank_0][rdma_param_handle_heterogeneity] To suppress this
warning, please set MV2_SUPPRESS_JOB_STARTUP_PERFORMANCE_WARNING to 1
[src/mpid/ch3/channels/mrail/src/gen2/vbuf.c 487] Cannot register vbuf
region
[cell3:mpi_rank_0][get_vbuf_by_offset]
src/mpid/ch3/channels/mrail/src/gen2/vbuf.c:632: vbuf pool allocation
failed: Cannot allocate memory (12)
[src/mpid/ch3/channels/mrail/src/gen2/vbuf.c 487] Cannot register vbuf
region
[cell4:mpi_rank_1][get_vbuf_by_offset]
src/mpid/ch3/channels/mrail/src/gen2/vbuf.c:632: vbuf pool allocation
failed: Cannot allocate memory (12)
We found some documentation that said this may be due to the value of
the log_num_mtt
for OFED. We've found documentation for how to change this, and it involves
changing the parameter in /etc/modprobe.d/mlx4_en.conf.
However, we do not have any mlx4_* under /etc/modprobe.d, only mlx5_. We
are using MLNX_OFED_LINUX-5.5-1.0.3.2 as mentioned above.
The output for ulimit -a on both nodes is:
core file size (blocks, -c) 0
data seg size (kbytes, -d) unlimited
scheduling priority (-e) 0
file size (blocks, -f) unlimited
pending signals (-i) 4126989
max locked memory (kbytes, -l) 65536
max memory size (kbytes, -m) unlimited
open files (-n) 1024
pipe size (512 bytes, -p) 8
POSIX message queues (bytes, -q) 819200
real-time priority (-r) 0
stack size (kbytes, -s) 8192
cpu time (seconds, -t) unlimited
max user processes (-u) 4126989
virtual memory (kbytes, -v) unlimited
file locks (-x) unlimited
Any advice on how to resolve this error would be greatly appreciated.
Thanks,
John
On Wed, Jan 12, 2022 at 11:21 AM John Moore <john at flexcompute.com> wrote:
> Great, thank you.
>
> On Wed, Jan 12, 2022 at 11:20 AM Shineman, Nat <shineman.5 at osu.edu> wrote:
>
>> John,
>>
>> Thanks, we will get started on generating this RPM shortly.
>>
>> Nat
>> ------------------------------
>> *From:* John Moore <john at flexcompute.com>
>> *Sent:* Wednesday, January 12, 2022 11:19
>> *To:* Shineman, Nat <shineman.5 at osu.edu>
>> *Cc:* Panda, Dhabaleswar <panda at cse.ohio-state.edu>; Maitham Alhubail <
>> maitham at flexcompute.com>; mvapich-discuss at lists.osu.edu <
>> mvapich-discuss at lists.osu.edu>
>> *Subject:* Re: [Mvapich-discuss] MVAPICH2 GDR from source code?
>>
>> Hi Nat,
>>
>> we are using: MLNX_OFED_LINUX-5.5-1.0.3.2-ubuntu20.04-x86_64
>>
>> Thanks,
>> John
>>
>> On Wed, Jan 12, 2022 at 11:16 AM Shineman, Nat <shineman.5 at osu.edu>
>> wrote:
>>
>> Hi John,
>>
>> Can you tell us the ofed version on your system?
>>
>> Thanks,
>> Nat
>> ------------------------------
>> *From:* John Moore <john at flexcompute.com>
>> *Sent:* Wednesday, January 12, 2022 11:14
>> *To:* Shineman, Nat <shineman.5 at osu.edu>
>> *Cc:* Panda, Dhabaleswar <panda at cse.ohio-state.edu>; Maitham Alhubail <
>> maitham at flexcompute.com>; mvapich-discuss at lists.osu.edu <
>> mvapich-discuss at lists.osu.edu>
>> *Subject:* Re: [Mvapich-discuss] MVAPICH2 GDR from source code?
>>
>> HI Nat,
>>
>> We have been struggling to get the RPM to work for us -- we've been
>> working on it for about a week. We are using this RPM:
>>
>> http://mvapich.cse.ohio-state.edu/download/mvapich/gdr/2.3.6/mofed5.4/mvapich2-gdr-cuda11.3.mofed5.4.gnu8.4.1-2.3.6-1.el8.x86_64.rpm
>>
>> If you could build us a custom RPM for our system, that would be very
>> helpful.
>>
>> We're running Ubuntu 20.04 kernel 5.4.0-92-generic
>>
>> GCC version is: gcc (Ubuntu 9.3.0-17ubuntu1~20.04) 9.3.0
>>
>> CUDA version is CUDA 11.4
>> CUDA driver: 470.82.01
>>
>> Please let me know if there is any other information that you need.
>>
>> Thanks,
>> John
>>
>>
>> On Wed, Jan 12, 2022 at 9:26 AM Shineman, Nat <shineman.5 at osu.edu> wrote:
>>
>> Hi John,
>>
>> You should be able to use the RPMs on Ubuntu by converting them with
>> alien. Regarding the CUDA and compiler versioning, you will want to make
>> sure CUDA is an exact match, but the compiler should only need to be the
>> same major version. You will also want to make sure that you match the
>> mofed major version as well, though we recommend matching the exact version
>> if possible. Please take a look at the download page and see if any of the
>> RPMs there match your needs. Otherwise, we would be happy to generate a
>> custom RPM based on your system specifications.
>>
>> Thanks,
>> Nat
>> ------------------------------
>> *From:* Mvapich-discuss <mvapich-discuss-bounces+shineman.5=
>> osu.edu at lists.osu.edu> on behalf of John Moore via Mvapich-discuss <
>> mvapich-discuss at lists.osu.edu>
>> *Sent:* Tuesday, January 11, 2022 14:58
>> *To:* Panda, Dhabaleswar <panda at cse.ohio-state.edu>
>> *Cc:* Maitham Alhubail <maitham at flexcompute.com>;
>> mvapich-discuss at lists.osu.edu <mvapich-discuss at lists.osu.edu>
>> *Subject:* Re: [Mvapich-discuss] MVAPICH2 GDR from source code?
>>
>> Hi DK,
>>
>> Do the CUDA and GCC versions on our system need to match the RPM exactly?
>> We are running on Ubuntu, and there is no GCC 8.4.1 on Ubuntu.
>>
>> Thank you,
>> John
>>
>> On Tue, Jan 11, 2022 at 2:55 PM Panda, Dhabaleswar <
>> panda at cse.ohio-state.edu> wrote:
>>
>> Hi,
>>
>> Thanks for your note. For GPU support with MVAPICH2, it is strongly
>> recommended to use the MVAPICH2-GDR package. This package supports many
>> features related to GPUs and delivers the best performance and scalability
>> on GPU clusters. Please use a suitable RPM package from the MVAPICH2-GDR
>> download page for your system. Please refer to the corresponding user guide
>> also. The MVAPICH2-GDR package can also be installed through Spack. Let us
>> know if you experience any issues in using the MVAPICH2-GDR package on your
>> GPU cluster.
>>
>> Thanks,
>>
>> DK
>>
>>
>> ________________________________________
>> From: Mvapich-discuss <mvapich-discuss-bounces+panda.2=
>> osu.edu at lists.osu.edu> on behalf of John Moore via Mvapich-discuss <
>> mvapich-discuss at lists.osu.edu>
>> Sent: Tuesday, January 11, 2022 2:48 PM
>> To: mvapich-discuss at lists.osu.edu
>> Cc: Maitham Alhubail
>> Subject: [Mvapich-discuss] MVAPICH2 GDR from source code?
>>
>> Hello,
>>
>> We have been struggling to get MVAPICH2 to work with cuda-aware support
>> and RDMA. We have compiled MVAPICH2 from source, with the --enable-cuda
>> option, but when we run the osu_bibw bandwidth test using Device to Device
>> communication, we get a segmentation fault.
>>
>> Below is the output from osu_bibw using MVAPICH2:
>> MVAPICH2-2.3.6 Parameters
>> ---------------------------------------------------------------------
>> PROCESSOR ARCH NAME : MV2_ARCH_AMD_EPYC_7401_48
>> PROCESSOR FAMILY NAME : MV2_CPU_FAMILY_AMD
>> PROCESSOR MODEL NUMBER : 1
>> HCA NAME : MV2_HCA_MLX_CX_HDR
>> HETEROGENEOUS HCA : NO
>> MV2_EAGERSIZE_1SC : 0
>> MV2_SMP_EAGERSIZE : 16385
>> MV2_SMP_QUEUE_LENGTH : 65536
>> MV2_SMP_NUM_SEND_BUFFER : 16
>> MV2_SMP_BATCH_SIZE : 8
>> Tuning Table: : MV2_ARCH_AMD_EPYC_7401_48
>> MV2_HCA_MLX_CX_HDR
>> ---------------------------------------------------------------------
>> # OSU MPI-CUDA Bi-Directional Bandwidth Test v5.7.1
>> # Send Buffer on DEVICE (D) and Receive Buffer on DEVICE (D)
>> # Size Bandwidth (MB/s)
>> 1 0.07
>> 2 0.15
>> 4 0.29
>> 8 0.57
>> 16 1.12
>> 32 2.30
>> 64 4.75
>> 128 9.41
>> 256 18.44
>> 512 37.22
>> 1024 74.82
>> 2048 144.70
>> 4096 289.96
>> 8192 577.33
>> [cell3:mpi_rank_0][error_sighandler] Caught error: Segmentation fault
>> (signal 11)
>> [cell3:mpi_rank_1][error_sighandler] Caught error: Segmentation fault
>> (signal 11)
>>
>>
>> ===================================================================================
>> = BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES
>> = PID 471850 RUNNING AT cell3
>> = EXIT CODE: 139
>> = CLEANING UP REMAINING PROCESSES
>> = YOU CAN IGNORE THE BELOW CLEANUP MESSAGES
>>
>> ===================================================================================
>> And this is with OpenMPI:
>> # OSU MPI-CUDA Bi-Directional Bandwidth Test v5.8
>> # Send Buffer on DEVICE (D) and Receive Buffer on DEVICE (D)
>> # Size Bandwidth (MB/s)
>> 1 0.43
>> 2 0.83
>> 4 1.68
>> 8 3.37
>> 16 6.72
>> 32 13.42
>> 64 27.02
>> 128 53.78
>> 256 107.88
>> 512 219.45
>> 1024 437.81
>> 2048 875.12
>> 4096 1747.23
>> 8192 3528.97
>> 16384 7015.15
>> 32768 13973.59
>> 65536 27702.68
>> 131072 51877.67
>> 262144 94556.99
>> 524288 157755.18
>> 1048576 236772.67
>> 2097152 333635.13
>> 4194304 408865.93
>>
>>
>> Can GDR support be obtained by compiling from source like we are trying
>> to do or do we have to use an RPM? We export MV2_USE_CUDA=1. Any
>> recommendations would be greatly appreciated.
>>
>> Thanks,
>> John
>>
>>
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