Charm++ parallel programming system

[Ramprasad Venkataraman <ramv AT illinois.edu>]

His command lines seem to indicate he built charm --with-production
--enable-tracing which should have resulted in a projections-enabled
build. Someone still needs to look at his issue and reply to him. Its
not yet been resolved.

Ram

On Fri, Nov 25, 2011 at 03:44, Kale, Laxmikant V 
<kale AT illinois.edu>
 wrote:
> Reinstall Charm++ without the  "with-production" flag. . It turns off
> instrumentation completely, according to the Projections manual.
> (See http://charm.cs.illinois.edu/manuals/html/projections/manual-1p.html 
> section
> 2)
> (You can have both versions of charm++ around, and just link with the
> with-production version when you are not doing projections analysis)
> Sanjay
> --
> Laxmikant (Sanjay) Kale         http://charm.cs.uiuc.edu
> Professor, Computer Science     
> kale AT illinois.edu
> 201 N. Goodwin Avenue           Ph:  (217) 244-0094
> Urbana, IL  61801-2302          FAX: (217) 265-6582
> On 11/25/11 2:56 AM, "takuro" 
> <udagawa.t.aa AT m.titech.ac.jp>
>  wrote:
>
> Hi,
>
> I'd like to use projections and analyze the performance of NAMD2.8.
> After runnning NAMD and tried to use projection, I got following error and
> projections was closed.
>
>>../projections/bin/projections namd2.prj.sts
> Found 11 log files
> Found 11 sum files
> [1] Token read = [0+2147483647] is impossible as the count is larger than
> the total count of 35106
>
> I downloaded projections from the git repository and ran on my desktop PC
> running ubuntu 10.10.
> Could anyone give advice about this problem?
>
> Building and compiling procedure of Charm++ and NAMD was below.
>
>> cd NAMD_2.8/charm-6.3.2
>> ./build charm++ net-linux-x86_64 gcc ibverbs smp -j16 --with-production
>> --enable-tracing
>> cd ..
>>./config Linux-x86_64-g++ --charm-arch net-linux-x86_64-ibverbs-smp-gcc
>> cd Linux-x86_64-g++
>> make
>> make projections
>> make summary
>
> The scripts and NAMD configuration file were bellow
>
> throw_job.sh:
>
> #!/bin/sh
>
> ~/NAMD_2.8/charm-6.3.2/net-linux-x86_64-ibverbs-smp-gcc/bin/charmrun +p11
> ++ppn 11 ++mpiexec ++remote-shell ~/mympiexec/mympiexec.sh ++verbose
> ~/NAMD_2.8/Linux-x86_64-g++/namd2.prj +logsize 10000000 +traceroot prj
> ~/NAMD_projection/apoa1.namd > output.log
>
> mympiexec.sh:
>
> exec mpiexec -hostfile hostfile.dat $*
>
> apoa1.namd:
>
> cellBasisVector1     108.8612 0.0 0.0
> cellBasisVector2     0.0 108.8612 0.0
> cellBasisVector3     0.0 0.0 77.758
> cellOrigin           0.0 0.0 0.0
>
> coordinates          apoa1.pdb
> temperature          300
> seed                 74269
>
> switching            on
> switchdist           10
> cutoff               12
> pairlistdist         13.5
> margin               0
> stepspercycle        20
>
> PME                  on
> PMEGridSizeX         108
> PMEGridSizeY         108
> PMEGridSizeZ         80
>
> structure            apoa1.psf
> parameters           par_all22_prot_lipid.xplor
> parameters           par_all22_popc.xplor
> exclude              scaled1-4
> 1-4scaling           1.0
>
> timestep             1.0
> fullElectFrequency   4
>
> numsteps             500
> outputtiming         100
>
> outputname           /usr/tmp/apoa1-out
>
> Thanks,
>
> Takuro Udagawa
>
>
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>



-- 
Ramprasad Venkataraman
Parallel Programming Lab
Univ. of Illinois