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PRCG 14576 (Run 0, Clone 73, Gen 0)

https://foldingforum.org/viewtopic.php?t=33215

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PRCG 14576 (Run 0, Clone 73, Gen 0)

Posted: Tue Mar 24, 2020 2:38 am
by lazyacevw
Had to dump a WU. :(

Code: Select all

*********************** Log Started 2020-03-24T01:58:20Z ***********************
************************** Gromacs Folding@home Core ***************************
       Type: 0xa7
       Core: Gromacs
       Args: -dir 01 -suffix 01 -version 705 -lifeline 12348 -checkpoint 15 -np
             30
************************************ CBang *************************************
       Date: Nov 5 2019
       Time: 06:06:57
   Revision: 46c96f1aa8419571d83f3e63f9c99a0d602f6da9
     Branch: master
   Compiler: GNU 8.3.0
    Options: -std=c++11 -O3 -funroll-loops -fno-pie -fPIC
   Platform: linux2 4.19.0-5-amd64
       Bits: 64
       Mode: Release
************************************ System ************************************
        CPU: AMD Ryzen 9 3950X 16-Core Processor
     CPU ID: AuthenticAMD Family 23 Model 113 Stepping 0
       CPUs: 32
     Memory: 31.37GiB
Free Memory: 396.34MiB
    Threads: POSIX_THREADS
 OS Version: 5.4
Has Battery: false
 On Battery: false
 UTC Offset: 9
        PID: 12352
        CWD: /var/lib/fahclient/work
******************************** Build - libFAH ********************************
    Version: 0.0.18
     Author: Joseph Coffland <joseph@cauldrondevelopment.com>
  Copyright: 2019 foldingathome.org
   Homepage: https://foldingathome.org/
       Date: Nov 5 2019
       Time: 06:13:26
   Revision: 490c9aa2957b725af319379424d5c5cb36efb656
     Branch: master
   Compiler: GNU 8.3.0
    Options: -std=c++11 -O3 -funroll-loops -fno-pie
   Platform: linux2 4.19.0-5-amd64
       Bits: 64
       Mode: Release
************************************ Build *************************************
       SIMD: avx_256
********************************************************************************
Project: 14576 (Run 0, Clone 73, Gen 0)
Unit: 0x00000001287234c95e792433e86fa7d3
Reading tar file core.xml
Reading tar file frame0.tpr
Digital signatures verified
Calling: mdrun -s frame0.tpr -o frame0.trr -x frame0.xtc -cpt 15 -nt 30
Steps: first=0 total=500000
ERROR:
ERROR:-------------------------------------------------------
ERROR:Program GROMACS, VERSION 5.0.4-20191026-456f0d636-unknown
ERROR:Source code file: /host/debian-stable-64bit-core-a7-avx-release/gromacs-core/build/gromacs/src/gromacs/mdlib/domdec.c, line: 6902
ERROR:
ERROR:Fatal error:
ERROR:There is no domain decomposition for 25 ranks that is compatible with the given box and a minimum cell size of 1.37225 nm
ERROR:Change the number of ranks or mdrun option -rcon or -dds or your LINCS settings
ERROR:Look in the log file for details on the domain decomposition
ERROR:For more information and tips for troubleshooting, please check the GROMACS
ERROR:website at http://www.gromacs.org/Documentation/Errors
ERROR:-------------------------------------------------------
WARNING:Unexpected exit() call
WARNING:Unexpected exit from science code
Saving result file ../logfile_01.txt
Saving result file md.log
Saving result file science.log
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Re: PRCG 14576 (Run 0, Clone 73, Gen 0)

Posted: Tue Mar 24, 2020 7:34 am
by foldy
There is no domain decomposition for 25 ranks that is compatible with the given box
I got this error too sometimes for some work units. As workaround instead of one FAH CPU slot with 30 threads I configured 2 FAH CPU slots with 15 threads each.

Re: PRCG 14576 (Run 0, Clone 73, Gen 0)

Posted: Tue Mar 24, 2020 1:22 pm
by Joe_H
And sometimes you will want to use settings that avoid multiples of 5. So perhaps the decomposition would have worked for 24, depends if the WU was large enough. The client and the WU setup do have some ability to change automatically from some known bad setting for thread count, but not all are known ahead of time

Re: PRCG 14576 (Run 0, Clone 73, Gen 0)

Posted: Tue Mar 24, 2020 11:53 pm
by vithanin
Excluded thread counts in multiples of 5 for all three - 14572,-74 & -76.

Re: PRCG 14576 (Run 0, Clone 73, Gen 0)

Posted: Wed Mar 25, 2020 9:11 am
by lazyacevw
Sounds like no matter what you chose, there can be issues with running a large thread processor. End the end, we have to balance providing comprehensive resources so WU get done quickly and having a large number of cores that puts you at higher risk of getting hung up.

It is unfortunate that they don't have a reporting mechanism so clients can report incompatibility and AS can reassign the WU to a smaller core client. It becomes a very manual process for the WU developers and the clients alike. Granted, there are more pressing issues currently!

Re: PRCG 14576 (Run 0, Clone 73, Gen 0)

Posted: Tue Apr 07, 2020 2:16 am
by TinyTRexArmz
Thanks for this thread. Helped me to figure out my high CPU thread issue with the same project #. Do you know what the average core count is for clients? I can probably just create more CPU slots with that many threads per slot right?

Re: PRCG 14576 (Run 0, Clone 73, Gen 0)

Posted: Tue Apr 07, 2020 3:27 am
by PantherX
lazyacevw wrote:...It is unfortunate that they don't have a reporting mechanism so clients can report incompatibility and AS can reassign the WU to a smaller core client. It becomes a very manual process for the WU developers and the clients alike. Granted, there are more pressing issues currently!
There is logic on the AS where it can allocate a WU by "reducing" the number of CPUs being presented when asking for a WU. If we have te other direction where the client reports that X CPUs isn't valid for Project Y, the AS could automatically update it's mapping. However, it's my understanding that currently, the Beta testing is where these limitations of CPUs are found so the researcher can have all the values in place when the Project goes to full public. Moreover, it's only with the launch of Threadripper where high core counts was made "affordable" and it isn't a typical house-hold system... yet. Let's see what the future holds.
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