[Darshan-users] Darshan trace file creation

[Shane Snyder]

Hi Wadud,

Could you try regenerating the summary report, but pass the '--verbose' 
flag to darshan-job-summary script?

That should create a directory in /tmp that stores all the temporary 
files used by that script. Included will be a 'summary.log' file that 
contains the output from each step of generating the summary. Do you 
happen to see any errors or indication of what went wrong in there? It 
could be that you are missing some LaTeX or gnuplot prerequisite 
packages or something like that.

Thanks,
--Shane

On 11/30/2016 05:33 AM, Wadud Miah wrote:
>
> Hi again Shane,
>
> When I try to create the job summary report, the command gets stuck:
>
> [wadud at WM-porlock ~]$ darshan-job-summary.pl 
> pr1ebt05_bt.A.9.mpi_io_full_id2483888_11-29-65132-8929929721473377761_1.darshan
>
> Slowest unique file time: 0.001923
>
> Slowest shared file time: 0.130845
>
> Total bytes read and written by app (may be incorrect): 104858212
>
> Total absolute I/O time: 0.132768
>
> **NOTE: above shared and unique file times calculated using MPI-IO 
> timers if MPI-IO interface used on a given file, POSIX timers otherwise.
>
> This has happened also on my laptop. When I run “top -H” I don’t see 
> the process doing anything. Any help will be appreciated.
>
> Regards,
>
> Wadud.
>
> *From:*Shane Snyder [mailto:ssnyder at mcs.anl.gov]
> *Sent:* 29 November 2016 20:50
> *To:* Wadud Miah <wadud.miah at nag.co.uk>; darshan-users at lists.mcs.anl.gov
> *Subject:* Re: [Darshan-users] Darshan trace file creation
>
> Hi Wadud,
>
> I'm assuming this is a Fortran app, right?
>
> If so, I believe this is tied back to a known issue with Intel MPI's 
> Fortran bindings. Long story short, these bindings are calling the 
> PMPI variants of the MPI function calls directly which bypasses any 
> profiling tool that wraps the MPI interface at the C layer (e.g., 
> Darshan). See this post for more details: 
> https://software.intel.com/en-us/forums/intel-clusters-and-hpc-technology/topic/279445
>
> I haven't personally confirmed this on Intel MPI 5.x versions (the 
> post I reference above is regarding a 4.x version of Intel MPI), but I 
> believe other users have reported the problem still exists.
>
> It should be possible to work around the issue by modifying Darshan to 
> provide an additional interface for intercepting Fortran MPI calls 
> natively at the Fortran layer, but we have not undertaken this 
> development effort as of yet. Lacking that, I'm not sure what, if any, 
> other solutions there are, unfortunately.
>
> Thanks,
> --Shane
>
> On 11/28/2016 02:58 PM, Wadud Miah wrote:
>
>     Hello,
>
>     I built Darshan with Intel MPI 5.1.3 and gcc 4.3.4 with the
>     following configure flags:
>
>     |./configure --prefix=$HOME/darshan-3.1.2-impi --with-mem-align=8
>     --with-jobid-env=NONE --with-log-path-by-env=DARSHAN_LOGPATH|
>
>     which built fine. I set |DARSHAN_LOGPATH|to |darshan-trace-dir|and
>     I created the directory |darshan-trace-dir|. I then executed my
>     MPI code which does I/O using:
>
>     |mpirun -n 9 -env LD_PRELOAD
>     /home/pr1ebt00/pr1ebt05/darshan-3.1.2-impi/lib/libdarshan.so
>     ./bt.A.9.mpi_io_full|
>
>     in the same directory that has the |darshan-trace-dir|directory.
>     However, I do not see any tracefile in the directory
>     |darshan-trace-dir|and no error messages. Any help will be greatly
>     appreciated.
>
>     Thanks in advance,
>
>     Wadud.
>
>     ---------------------------------------
>
>     Dr. Wadud Miah
>
>     Computational Scientist
>
>     Numerical Algorithms Group
>
>     01865 518035
>
>     ------------------------------------------------------------------------
>
>     The Numerical Algorithms Group Ltd is a company registered in
>     England and Wales with company number 1249803. The registered
>     office is:
>
>     Wilkinson House, Jordan Hill Road, Oxford OX2 8DR, United Kingdom.
>
>     This e-mail has been scanned for all viruses by Microsoft Office 365.
>
>     ------------------------------------------------------------------------
>
>
>
>
>     _______________________________________________
>
>     Darshan-users mailing list
>
>     Darshan-users at lists.mcs.anl.gov
>     <mailto:Darshan-users at lists.mcs.anl.gov>
>
>     https://lists.mcs.anl.gov/mailman/listinfo/darshan-users
>
>
>
> ________________________________________________________________________
> This e-mail has been scanned for all viruses by Star.
> ________________________________________________________________________
>
> ------------------------------------------------------------------------
>
> The Numerical Algorithms Group Ltd is a company registered in England 
> and Wales with company number 1249803. The registered office is:
>
> Wilkinson House, Jordan Hill Road, Oxford OX2 8DR, United Kingdom.
>
> This e-mail has been scanned for all viruses by Microsoft Office 365.
>
> ------------------------------------------------------------------------

-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/darshan-users/attachments/20161130/3aa8a47d/attachment.html>