Open MPI logo

Open MPI Development Mailing List Archives

  |   Home   |   Support   |   FAQ   |   all Development mailing list

Subject: Re: [OMPI devel] OMPI-MIGRATE error
From: Hugo Meyer (meyer.hugo_at_[hidden])
Date: 2011-01-27 11:28:18


Hi Josh.

Thanks for your reply. I'll tell you what i'm getting now from the
executions in the next lines.
When i run without doing a checkpoint i get this output, and the process
don' finish:

*[hmeyer_at_clus9 whoami]$
/home/hmeyer/desarrollo/ompi-code/binarios/bin/mpirun -np 2 -am
ft-enable-cr-recovery ./whoami 10 10*
*Antes de MPI_Init*
*Antes de MPI_Init*
*[clus9:04985] [[41167,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287*
*[clus9:04985] [[41167,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287*
*Soy el número 1 (100000000)*
*Terminando, una instrucción antes del finalize*
*Soy el número 0 (100000000)*
*Terminando, una instrucción antes del finalize*
*--------------------------------------------------------------------------*
*Error: The process below has failed. There is no checkpoint available for*
* this job, so we are terminating the application since automatic*
* recovery cannot occur.*
*Internal Name: [[41167,1],0]*
*MCW Rank: 0*
*
*
*--------------------------------------------------------------------------*
*[clus9:04985] 1 more process has sent help message help-orte-errmgr-hnp.txt
/ autor_failed_to_recover_proc*
*[clus9:04985] Set MCA parameter "orte_base_help_aggregate" to 0 to see all
help / error messages*
*
*

If i make a checkpoint in another terminal of the mpirun process, during the
execution, i get this output:

*[clus9:06105] [[42095,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287*
*[clus9:06105] [[42095,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287*
*[clus9:06107] [[42095,1],1] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../orte/mca/grpcomm/base/grpcomm_base_modex.c at
line 350*
*[clus9:06107] [[42095,1],1] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../../orte/mca/grpcomm/bad/grpcomm_bad_module.c
at line 323*
*[clus9:06107] pml:ob1: ft_event(Restart): Failed orte_grpcomm.modex() = -26
*
*[clus9:06106] [[42095,1],0] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../orte/mca/grpcomm/base/grpcomm_base_modex.c at
line 350*
*[clus9:06106] [[42095,1],0] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../../orte/mca/grpcomm/bad/grpcomm_bad_module.c
at line 323*
*[clus9:06106] pml:ob1: ft_event(Restart): Failed orte_grpcomm.modex() = -26
*
*--------------------------------------------------------------------------*
*Notice: The job has been successfully recovered from the *
* last checkpoint.*
*--------------------------------------------------------------------------*
*Soy el número 1 (100000000)*
*Terminando, una instrucción antes del finalize*
*Soy el número 0 (100000000)*
*Terminando, una instrucción antes del finalize*
*[clus9:06105] 1 more process has sent help message help-orte-errmgr-hnp.txt
/ autor_recovering_job*
*[clus9:06105] Set MCA parameter "orte_base_help_aggregate" to 0 to see all
help / error messages*
*[clus9:06105] [[42095,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287*
*[clus9:06105] [[42095,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287*
*[clus9:06107] [[42095,1],1] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../orte/mca/grpcomm/base/grpcomm_base_modex.c at
line 350*
*[clus9:06107] [[42095,1],1] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../../orte/mca/grpcomm/bad/grpcomm_bad_module.c
at line 323*
*[clus9:06107] pml:ob1: ft_event(Restart): Failed orte_grpcomm.modex() = -26
*
*[clus9:06106] [[42095,1],0] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../orte/mca/grpcomm/base/grpcomm_base_modex.c at
line 350*
*[clus9:06106] [[42095,1],0] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../../orte/mca/grpcomm/bad/grpcomm_bad_module.c
at line 323*
*[clus9:06106] pml:ob1: ft_event(Restart): Failed orte_grpcomm.modex() = -26
*
*[clus9:06105] 1 more process has sent help message help-orte-errmgr-hnp.txt
/ autor_recovery_complete*
*Soy el número 0 (100000000)*
*Terminando, una instrucción antes del finalize*
*Soy el número 1 (100000000)*
*Terminando, una instrucción antes del finalize*
*[clus9:06105] 1 more process has sent help message help-orte-errmgr-hnp.txt
/ autor_recovering_job*
*[clus9:06105] [[42095,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287*
*[clus9:06105] [[42095,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287*
*[clus9:06107] [[42095,1],1] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../orte/mca/grpcomm/base/grpcomm_base_modex.c at
line 350*
*[clus9:06107] [[42095,1],1] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../../orte/mca/grpcomm/bad/grpcomm_bad_module.c
at line 323*
*[clus9:06106] [[42095,1],0] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../orte/mca/grpcomm/base/grpcomm_base_modex.c at
line 350*
*[clus9:06106] [[42095,1],0] ORTE_ERROR_LOG: Data unpack would read past end
of buffer in file ../../../../../orte/mca/grpcomm/bad/grpcomm_bad_module.c
at line 323*
*[clus9:06106] pml:ob1: ft_event(Restart): Failed orte_grpcomm.modex() = -26
*
*[clus9:06107] pml:ob1: ft_event(Restart): Failed orte_grpcomm.modex() = -26
*

As you can see, it keeps looping on the recover. Then when i try to migrate
this processes using ompi-migrate, i get this:

*[hmeyer_at_clus9 ~]$
/home/hmeyer/desarrollo/ompi-code/binarios/bin/ompi-migrate -x node9 -t
node3 18082*
*--------------------------------------------------------------------------*
*Error: The Job identified by PID (18082) was not able to migrate processes
in this*
* job. This could be caused by any of the following:*
* - Invalid node or rank specified*
* - No processes on the indicated node can by migrated*
* - Process migration was not enabled for this job. Make sure to
indicate*
* the proper AMCA file: "-am ft-enable-cr-recovery".*
*--------------------------------------------------------------------------*

But, in the terminal where is running the application i get this:

[hmeyer_at_clus9 whoami]$ /home/hmeyer/desarrollo/ompi-code/binarios/bin/mpirun
-np 2 -am ft-enable-cr-recovery ./whoami 10 10
Antes de MPI_Init
Antes de MPI_Init
[clus9:18082] [[62740,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287
[clus9:18082] [[62740,0],0] ORTE_ERROR_LOG: Error in file
../../../../../orte/mca/errmgr/hnp/errmgr_hnp_crmig.c at line 287
--------------------------------------------------------------------------
Warning: Could not find any processes to migrate on the nodes specified.
         You provided the following:
Nodes: node9
Procs: (null)
--------------------------------------------------------------------------
--------------------------------------------------------------------------
Notice: The processes have been successfully migrated to/from the specified
        machines.
--------------------------------------------------------------------------
Soy el número 1 (100000000)
Terminando, una instrucción antes del finalize
Soy el número 0 (100000000)
Terminando, una instrucción antes del finalize
--------------------------------------------------------------------------
Error: The process below has failed. There is no checkpoint available for
       this job, so we are terminating the application since automatic
       recovery cannot occur.
Internal Name: [[62740,1],0]
MCW Rank: 0

--------------------------------------------------------------------------
[clus9:18082] 1 more process has sent help message help-orte-errmgr-hnp.txt
/ autor_failed_to_recover_proc
[clus9:18082] Set MCA parameter "orte_base_help_aggregate" to 0 to see all
help / error messages

I asume that the orte_get_job_data_object is the problem, because it is not
obtaining the proper value.

If you need more data, just let me know.

Best Regards.

Hugo Meyer

2011/1/26 Joshua Hursey <jjhursey_at_[hidden]>

> I found a few more bugs after testing the C/R functionality this morning. I
> just committed some more C/R fixes in r24306 (things are now working
> correctly on my test cluster).
> https://svn.open-mpi.org/trac/ompi/changeset/24306
>
> One thing I just noticed in your original email was that you are specifying
> the wrong parameter for migration (it is different than the standard C/R
> functionality for backwards compatibility reasons). You need to use the
> 'ft-enable-cr-recovery' AMCA parameter:
> mpirun -np 2 -am ft-enable-cr-recovery ./whoami 10 10
>
> If you still get the segmentation fault after upgrading to the current
> trunk, can you send me a backtrace from the core file? That will help me
> narrow down on the problem.
>
> Thanks,
> Josh
>
>
> On Jan 26, 2011, at 8:40 AM, Hugo Meyer wrote:
>
> > Josh.
> >
> > The ompi-checkpoint with his restart now are working great, but the same
> error persist with ompi-migrate. I've also tried using "-r", but i get the
> same error.
> >
> > Best regards.
> >
> > Hugo Meyer
> >
> > 2011/1/26 Hugo Meyer <meyer.hugo_at_[hidden]>
> > Thanks Josh.
> >
> > I've already check te prelink and is set to "no".
> >
> > I'm going to try with the trunk head, and then i'll let you know how it
> goes.
> >
> > Best regards.
> >
> > Hugo Meyer
> >
> > 2011/1/25 Joshua Hursey <jjhursey_at_[hidden]>
> >
> > Can you try with the current trunk head (r24296)?
> > I just committed a fix for the C/R functionality in which restarts were
> getting stuck. This will likely affect the migration functionality, but I
> have not had an opportunity to test just yet.
> >
> > Another thing to check is that prelink is turned off on all of your
> machines.
> > https://upc-bugs.lbl.gov//blcr/doc/html/FAQ.html#prelink
> >
> > Let me know if the problem persists, and I'll dig into a bit more.
> >
> > Thanks,
> > Josh
> >
> > On Jan 24, 2011, at 11:37 AM, Hugo Meyer wrote:
> >
> > > Hello @ll
> > >
> > > I've got a problem when i try to use the ompi-migrate command.
> > >
> > > What i'm doing is execute for example the next application in one node
> of a cluster (both process wil run on the same node):
> > >
> > > mpirun -np 2 -am ft-enable-cr ./whoami 10 10
> > >
> > > Then in the same node i try to migrate the processes to another node:
> > >
> > > ompi-migrate -x node9 -t node3 14914
> > >
> > > And then i get this message:
> > >
> > > [clus9:15620] *** Process received signal ***
> > > [clus9:15620] Signal: Segmentation fault (11)
> > > [clus9:15620] Signal code: Address not mapped (1)
> > > [clus9:15620] Failing at address: (nil)
> > > [clus9:15620] [ 0] /lib64/libpthread.so.0 [0x2aaaac0b8d40]
> > > [clus9:15620] *** End of error message ***
> > > Segmentation fault
> > >
> > > I assume that maybe there is something wrong with the thread level, but
> i have configured the open-mpi like this:
> > >
> > > ../configure --prefix=/home/hmeyer/desarrollo/ompi-code/binarios/
> --enable-debug --enable-debug-symbols --enable-trace --with-ft=cr
> --disable-ipv6 --enable-opal-multi-threads --enable-ft-thread
> --without-hwloc --disable-vt --with-blcr=/soft/blcr-0.8.2/
> --with-blcr-libdir=/soft/blcr-0.8.2/lib/
> > >
> > > The checkpoint and restart works fine, but when i restore an
> application that has more than one process, this one is restored and
> executed until the last line before MPI_FINALIZE(), but the processes never
> finalize, i assume that they never call the MPI_FINALIZE(), but with one
> process ompi-checkpoint and ompi-restart work great.
> > >
> > > Best regards.
> > >
> > > Hugo Meyer
> > > _______________________________________________
> > > devel mailing list
> > > devel_at_[hidden]
> > > http://www.open-mpi.org/mailman/listinfo.cgi/devel
> >
> > ------------------------------------
> > Joshua Hursey
> > Postdoctoral Research Associate
> > Oak Ridge National Laboratory
> > http://users.nccs.gov/~jjhursey
> >
> >
> > _______________________________________________
> > devel mailing list
> > devel_at_[hidden]
> > http://www.open-mpi.org/mailman/listinfo.cgi/devel
> >
> >
> > _______________________________________________
> > devel mailing list
> > devel_at_[hidden]
> > http://www.open-mpi.org/mailman/listinfo.cgi/devel
>
> ------------------------------------
> Joshua Hursey
> Postdoctoral Research Associate
> Oak Ridge National Laboratory
> http://users.nccs.gov/~jjhursey
>
>
> _______________________________________________
> devel mailing list
> devel_at_[hidden]
> http://www.open-mpi.org/mailman/listinfo.cgi/devel
>