My first avx with error:
http://www.gpugrid.net/result.php?resultid=13227076

Name 86-MJHARVEY_TEST1001-0-1-RND5489_1
Workunit 10157681
Created 17 Oct 2014 | 11:36:40 UTC
Sent 21 Oct 2014 | 15:34:02 UTC
Received 21 Oct 2014 | 15:35:57 UTC
Server state Over
Outcome Computation error
Client state Compute error
Exit status 255 (0xff) Unknown error number
Computer ID 169357
Report deadline 26 Oct 2014 | 15:34:02 UTC
Run time 0.41
CPU time 0.00
Validate state Invalid
Credit 0.00
Application version Test application for CPU MD v9.01 (mtavx)
Stderr output

<core_client_version>7.4.22</core_client_version>
<![CDATA[
<message>
The extended attributes are inconsistent.
(0xff) - exit code 255 (0xff)
</message>
]]>

---

Multiple Test application for CPU MD v9.01 (mtavx) failures- all with the same error message: The extended attributes are inconsistent. (0xff) - exit code 255 (0xff)

All tasks have 0.00 CPU/run time.

My machine got work now, a 9.01 mtsse4 task. I will start it soon, and reply with the result.

Multiple Test application for CPU MD v9.01 (mtavx) failures- all with the same error message: The extended attributes are inconsistent. (0xff) - exit code 255 (0xff)

All tasks have 0.00 CPU/run time.

Yes, my fault. The app build is bad.

Matt

902

9.02 is working--BOINC progress is 0.023 at fifteen minutes. Task has 10000hr estimated runtime throwing the 20mgx GPU task to the side. Estimated runtime is going up as task computes- currently @ 12000hr.

If BOINC is correctly reporting task progress-- CPU time till complete-- 10hr for every 1% computed > 1000hr/44days total runtime?

14/10/21 17:06:26 | GPUGRID | [cpu_sched_debug] unfoldx476-NOELIA_UNFOLD-3-72-RND3785_0 sched state 2 next 2 task state 1
14/10/21 17:06:26 | GPUGRID | [cpu_sched_debug] 20mgx396-NOELIA_20MG2-2-50-RND9100_1 sched state 1 next 1 task state 0
14/10/21 17:06:26 | GPUGRID | [cpu_sched_debug] 4083-MJHARVEY_CPUDHFR-0-1-RND9529_1 sched state 2 next 2 task state 1
14/10/21 17:10:45 | GPUGRID | [rr_sim_detail] 0.00: starting 4083-MJHARVEY_CPUDHFR-0-1-RND9529_1 (4.00 CPU) (514480914.05G/12.54G)
14/10/21 17:10:45 | | [rrsim_detail] rpbest: 4083-MJHARVEY_CPUDHFR-0-1-RND9529_1 (finish delay 40205433.52)
14/10/21 17:11:45 | GPUGRID | [rr_sim] 4083-MJHARVEY_CPUDHFR-0-1-RND9529_1 misses deadline by 40416714.74

Ok, so the length reporting is still wrong.

does it work for pricese puppy 5.7? I do not get any WUs. Thanks.

Just tried one of these WUs. My BOINC preference is set to used 50% of the processors, which is four of my eight. The WU grabbed four; Task Manager showed this task using 50%.

Thermal Radar normally shows my CPU temp at 41C. Within five minutes the temp had shot up to 65C and the red warning came on. I killed the WU.

Anyone else having CPU overheating problems with these WUs?

65C is hardly an unreasonable operating temperature for a CPU.

Matt

does it work for pricese puppy 5.7? I do not get any WUs. Thanks.

Who is Princess Puppy?

Seriously, tell me the machine ID and I can take a look.

I did. i changed "Use at moust 40.00% of CPU time ( 0 means no restriction ).

---

Just tried one of these WUs. My BOINC preference is set to used 50% of the processors, which is four of my eight. The WU grabbed four; Task Manager showed this task using 50%.

Thermal Radar normally shows my CPU temp at 41C. Within five minutes the temp had shot up to 65C and the red warning came on. I killed the WU.

Anyone else having CPU overheating problems with these WUs?

Note 1: On my 8-logical-CPU, Intel i7 965 XE, all 4 cores routinely run at 86*C and near-100% CPU usage, 24/7, for 5 years straight, unless I'm gaming. Core Temp shows that TjMax (thermal limiting temperature) is 100*C, and I've never hit that mark.

Note 2: MT tasks are allowed to overcommit the CPU, especially in cases where they are running alongside coprocessor (GPU/ASIC) tasks or other high-priority CPU tasks.

65C is hardly an unreasonable operating temperature for a CPU.

Thanks for your responses, Matt & Jacob.

OK. I downloaded another WU and have been running for 2+ hours, with Core Temp running for most of that. Before the WU started, CPU temp was 40C and CPU fan was 2700rpm. The fan is now at 3500rpm and you can see the CPU temps here:



A bit worried about that 75C max...

Am I OK to continue, with the Thermal Radar temp well into the red??

Who says red is bad? Maybe red is just "hi", and then ultraviolet neon green is "nuclear"?

:)

Basically, your TjMax is 90. You should feel comfortable going up to 80*C or maybe even 85*C, I'd think, before worrying about heat and stability.

Is the time estimate for these work units incorrect? I have no slouch of a processor, a 4790K @ stock speeds, and it estimates 66 hours to completion with just shy of four hours of work done. If this is accurate, I will barely be able to complete the two I have downloaded before their turn in time on the 28th assuming I use my computer for a standard 8 hours a day.

I am getting "Download failed" when downloading the CPU app (avx version) on a Windows 7 x64.

EDIT: MD5 check fail.
EDIT2: Checking the "skip image file verification" under BOINC preferences fixed the error... but I'm pretty sure this is not how things should be done.
EDIT3: I re-enabled the image file verification and it managed to download it correctly, yet it only uses 1 core (although BOINC says 8), and the progress report seems to have gotten stuck with:

Log file opened on Fri Oct 24 01:12:46 2014
Host: unknown pid: 6588 rank ID: 0 number of ranks: 1
GROMACS: mdrun-502-902-avx-64, VERSION 5.0.2

GROMACS is written by:
Emile Apol Rossen Apostolov Herman J.C. Berendsen Par Bjelkmar
Aldert van Buuren Rudi van Drunen Anton Feenstra Sebastian Fritsch
Gerrit Groenhof Christoph Junghans Peter Kasson Carsten Kutzner
Per Larsson Justin A. Lemkul Magnus Lundborg Pieter Meulenhoff
Erik Marklund Teemu Murtola Szilard Pall Sander Pronk
Roland Schulz Alexey Shvetsov Michael Shirts Alfons Sijbers
Peter Tieleman Christian Wennberg Maarten Wolf
and the project leaders:
Mark Abraham, Berk Hess, Erik Lindahl, and David van der Spoel

Copyright (c) 1991-2000, University of Groningen, The Netherlands.
Copyright (c) 2001-2014, The GROMACS development team at
Uppsala University, Stockholm University and
the Royal Institute of Technology, Sweden.
check out http://www.gromacs.org for more information.

GROMACS is free software; you can redistribute it and/or modify it
under the terms of the GNU Lesser General Public License
as published by the Free Software Foundation; either version 2.1
of the License, or (at your option) any later version.

GROMACS: mdrun-502-902-avx-64, VERSION 5.0.2
Executable: D:\ProgramData\BOINC\slots\8\projects\www.gpugrid.net\mdrun-502-902-avx-64.exe
Library dir: C:\Program Files\Gromacs\share\gromacs\top
Command line:
mdrun-502-902-avx-64 -ntomp 8 -nt 8 -x traj.xtc -s topol.tpr -g progress.log -cpi state.cpt

Gromacs version: VERSION 5.0.2
Precision: single
Memory model: 64 bit
MPI library: thread_mpi
OpenMP support: enabled
GPU support: disabled
invsqrt routine: gmx_software_invsqrt(x)
SIMD instructions: AVX_256
FFT library: fftw3
RDTSCP usage: enabled
C++11 compilation: disabled
TNG support: enabled
Tracing support: disabled
Built on: Unknown date
Built by: Anonymous@unknown [CMAKE]
Build OS/arch: Windows-6.1 AMD64
Build CPU vendor: GenuineIntel
Build CPU brand: Intel(R) Core(TM) i3-2365M CPU @ 1.40GHz
Build CPU family: 6 Model: 42 Stepping: 7
Build CPU features: apic clfsh cmov cx8 lahf_lm mmx msr pse rdtscp sse2 sse3 ssse3
C compiler: C:/Program Files (x86)/Microsoft Visual Studio 10.0/VC/bin/x86_amd64/cl.exe MSVC 16.0.30319.1
C compiler flags: /arch:AVX /DWIN32 /D_WINDOWS /W3 /MD /O2 /Ob2 /D NDEBUG
C++ compiler: C:/Program Files (x86)/Microsoft Visual Studio 10.0/VC/bin/x86_amd64/cl.exe MSVC 16.0.30319.1
C++ compiler flags: /arch:AVX /DWIN32 /D_WINDOWS /W3 /GR /EHsc /wd4800 /wd4355 /wd4996 /wd4305 /wd4244 /wd4101 /wd4267 /wd4090 /MD /O2 /Ob2 /D NDEBUG
Boost version: 1.55.0 (internal)



++++ PLEASE READ AND CITE THE FOLLOWING REFERENCE ++++
B. Hess and C. Kutzner and D. van der Spoel and E. Lindahl
GROMACS 4: Algorithms for highly efficient, load-balanced, and scalable
molecular simulation
J. Chem. Theory Comput. 4 (2008) pp. 435-447
-------- -------- --- Thank You --- -------- --------


++++ PLEASE READ AND CITE THE FOLLOWING REFERENCE ++++
D. van der Spoel, E. Lindahl, B. Hess, G. Groenhof, A. E. Mark and H. J. C.
Berendsen
GROMACS: Fast, Flexible and Free
J. Comp. Chem. 26 (2005) pp. 1701-1719
-------- -------- --- Thank You --- -------- --------


++++ PLEASE READ AND CITE THE FOLLOWING REFERENCE ++++
E. Lindahl and B. Hess and D. van der Spoel
GROMACS 3.0: A package for molecular simulation and trajectory analysis
J. Mol. Mod. 7 (2001) pp. 306-317
-------- -------- --- Thank You --- -------- --------


++++ PLEASE READ AND CITE THE FOLLOWING REFERENCE ++++
H. J. C. Berendsen, D. van der Spoel and R. van Drunen
GROMACS: A message-passing parallel molecular dynamics implementation
Comp. Phys. Comm. 91 (1995) pp. 43-56
-------- -------- --- Thank You --- -------- --------

Changing nstlist from 10 to 20, rlist from 0.9 to 0.928

Input Parameters:
integrator = md-vv
tinit = 0
dt = 0.002
nsteps = 5000000
init-step = 0
simulation-part = 1
comm-mode = Linear
nstcomm = 100
bd-fric = 0
ld-seed = 1993
emtol = 10
emstep = 0.01
niter = 20
fcstep = 0
nstcgsteep = 1000
nbfgscorr = 10
rtpi = 0.05
nstxout = 0
nstvout = 0
nstfout = 0
nstlog = 1000
nstcalcenergy = 100
nstenergy = 1000
nstxout-compressed = 25000
compressed-x-precision = 1000
cutoff-scheme = Verlet
nstlist = 20
ns-type = Grid
pbc = xyz
periodic-molecules = FALSE
verlet-buffer-tolerance = 0.005
rlist = 0.928
rlistlong = 0.928
nstcalclr = 10
coulombtype = PME
coulomb-modifier = Potential-shift
rcoulomb-switch = 0
rcoulomb = 0.9
epsilon-r = 1
epsilon-rf = inf
vdw-type = Cut-off
vdw-modifier = Potential-switch
rvdw-switch = 0.75
rvdw = 0.9
DispCorr = No
table-extension = 1
fourierspacing = 0.1
fourier-nx = 64
fourier-ny = 64
fourier-nz = 64
pme-order = 4
ewald-rtol = 1e-005
ewald-rtol-lj = 1e-005
lj-pme-comb-rule = Geometric
ewald-geometry = 0
epsilon-surface = 0
implicit-solvent = No
gb-algorithm = Still
nstgbradii = 1
rgbradii = 1
gb-epsilon-solvent = 80
gb-saltconc = 0
gb-obc-alpha = 1
gb-obc-beta = 0.8
gb-obc-gamma = 4.85
gb-dielectric-offset = 0.009
sa-algorithm = Ace-approximation
sa-surface-tension = 2.05016
tcoupl = Nose-Hoover
nsttcouple = 10
nh-chain-length = 10
print-nose-hoover-chain-variables = FALSE
pcoupl = No
pcoupltype = Isotropic
nstpcouple = -1
tau-p = 1
compressibility (3x3):
compressibility[ 0]={0.00000e+000, 0.00000e+000, 0.00000e+000}
compressibility[ 1]={0.00000e+000, 0.00000e+000, 0.00000e+000}
compressibility[ 2]={0.00000e+000, 0.00000e+000, 0.00000e+000}
ref-p (3x3):
ref-p[ 0]={0.00000e+000, 0.00000e+000, 0.00000e+000}
ref-p[ 1]={0.00000e+000, 0.00000e+000, 0.00000e+000}
ref-p[ 2]={0.00000e+000, 0.00000e+000, 0.00000e+000}
refcoord-scaling = No
posres-com (3):
posres-com[0]=0.00000e+000
posres-com[1]=0.00000e+000
posres-com[2]=0.00000e+000
posres-comB (3):
posres-comB[0]=0.00000e+000
posres-comB[1]=0.00000e+000
posres-comB[2]=0.00000e+000
QMMM = FALSE
QMconstraints = 0
QMMMscheme = 0
MMChargeScaleFactor = 1
qm-opts:
ngQM = 0
constraint-algorithm = Shake
continuation = FALSE
Shake-SOR = FALSE
shake-tol = 0.0001
lincs-order = 4
lincs-iter = 1
lincs-warnangle = 30
nwall = 0
wall-type = 9-3
wall-r-linpot = -1
wall-atomtype[0] = -1
wall-atomtype[1] = -1
wall-density[0] = 0
wall-density[1] = 0
wall-ewald-zfac = 3
pull = no
rotation = FALSE
interactiveMD = FALSE
disre = No
disre-weighting = Conservative
disre-mixed = FALSE
dr-fc = 1000
dr-tau = 0
nstdisreout = 100
orire-fc = 0
orire-tau = 0
nstorireout = 100
free-energy = no
cos-acceleration = 0
deform (3x3):
deform[ 0]={0.00000e+000, 0.00000e+000, 0.00000e+000}
deform[ 1]={0.00000e+000, 0.00000e+000, 0.00000e+000}
deform[ 2]={0.00000e+000, 0.00000e+000, 0.00000e+000}
simulated-tempering = FALSE
E-x:
n = 0
E-xt:
n = 0
E-y:
n = 0
E-yt:
n = 0
E-z:
n = 0
E-zt:
n = 0
swapcoords = no
adress = FALSE
userint1 = 0
userint2 = 0
userint3 = 0
userint4 = 0
userreal1 = 0
userreal2 = 0
userreal3 = 0
userreal4 = 0
grpopts:
nrdf: 48414
ref-t: 300
tau-t: 0.8
annealing: No
annealing-npoints: 0
acc: 0 0 0
nfreeze: N N N
energygrp-flags[ 0]: 0

and there's all there is... I'll reset the project once the GPU WU is completed and see what happens then.

Also, my other AVX-capable machine only downloads SSE2 WUs, not AVX.

---

I'm currently running the mdrun-502-902-avx-64.exe program for Windows 64 bit. The program has been running for about 7 hours and is about to go to 6% complete. However, if I start the task manager it reports the program is only using 27-28% cpu, even though it should be running all 4 cores.

Does it take a while for the program to start using all 4 of the cores?

Here is the stderr.txt output:

BOINC wrapper for GROMACS.
Arg 0 [projects/www.gpugrid.net/mdrun-502-902-avx-64.exe]
Arg 1 [--nthreads]
Arg 2 [4]
BOINC running with [4] threads
BOINC resolving [traj.xtc] to [traj.xtc]
BOINC resolving [topol.tpr] to [topol.tpr]
BOINC resolving [progress.log] to [progress.log]
BOINC resolving [state.cpt] to [state.cpt]
GROMACS: mdrun-502-902-avx-64, VERSION 5.0.2

GROMACS is written by:
Emile Apol Rossen Apostolov Herman J.C. Berendsen Par Bjelkmar
Aldert van Buuren Rudi van Drunen Anton Feenstra Sebastian Fritsch
Gerrit Groenhof Christoph Junghans Peter Kasson Carsten Kutzner
Per Larsson Justin A. Lemkul Magnus Lundborg Pieter Meulenhoff
Erik Marklund Teemu Murtola Szilard Pall Sander Pronk
Roland Schulz Alexey Shvetsov Michael Shirts Alfons Sijbers
Peter Tieleman Christian Wennberg Maarten Wolf
and the project leaders:
Mark Abraham, Berk Hess, Erik Lindahl, and David van der Spoel

Copyright (c) 1991-2000, University of Groningen, The Netherlands.
Copyright (c) 2001-2014, The GROMACS development team at
Uppsala University, Stockholm University and
the Royal Institute of Technology, Sweden.
check out http://www.gromacs.org for more information.

GROMACS is free software; you can redistribute it and/or modify it
under the terms of the GNU Lesser General Public License
as published by the Free Software Foundation; either version 2.1
of the License, or (at your option) any later version.

GROMACS: mdrun-502-902-avx-64, VERSION 5.0.2
Executable: C:\ProgramData\BOINC\slots\1\projects\www.gpugrid.net\mdrun-502-902-avx-64.exe
Library dir: C:\Program Files\Gromacs\share\gromacs\top
Command line:
mdrun-502-902-avx-64 -ntomp 4 -nt 4 -x traj.xtc -s topol.tpr -g progress.log -cpi state.cpt

Reading file topol.tpr, VERSION 4.6.1 (single precision)
Note: file tpx version 83, software tpx version 100
Changing nstlist from 10 to 20, rlist from 0.9 to 0.928

Astiesan wrote:

Is the time estimate for these work units incorrect?

Yes estimates are incorrect.
With AVX 8 threads- the task will take a total ~16hr.

Chilean wrote:

Also, my other AVX-capable machine only downloads SSE2 WUs, not AVX.

Upgrade to BOINC dev 7.4.22 as you did with 3610QM machine. Non-Dev kit are incorrectly reading CPU feature kit for CPUMD tasks.

Boinc127 wrote:

Does it take a while for the program to start using all 4 of the cores?

No- task should use amount threads you've set with BOINC. If you have heavy background processes running concurrent with task this could eat away at cycles.

I'm using the mdrun-502-902-avx-64.exe program and it should be running on 4 cores but its only running on one core. Task manager says its only using 27% cpu, so about 1 core. I also tested multithreading with the only other MT app I can think of, Milkyway N-Body Simulation, and it runs about 80-85% of the total cpu's (all 4 cpus). I've reset and removed and reattached the project, and it still uses only 1 core. There are no other programs taking heavy compute cycles in the background.