[OMPI users] Segfault when using valgrind

by 0x834F418: Uintah::AMRSimulationController::run() (AMRSimulationController.cc:117) ==22736==by 0x4089AE: main (sus.cc:629) Are these problems with openmpi and is there any known work arounds? Thanks, Justin

[OMPI users] Deadlock on large numbers of processors

in ompi_request_default_wait_some () from /opt/apps/intel10_1/openmpi/1.3//lib/libmpi.so.0 #4 0x2b2ded109e34 in PMPI_Waitsome () from /opt/apps/intel10_1/openmpi/1.3//lib/libmpi.so.0 Thanks, Justin

Re: [OMPI users] Deadlock on large numbers of processors

that will turn off buffering? Thanks, Justin Brock Palen wrote: When ever this happens we found the code to have a deadlock. users never saw it until they cross the eager->roundevous threshold. Yes you can disable shared memory with: mpirun --mca btl ^sm Or you can try increasing the eager li

Re: [OMPI users] Deadlock on large numbers of processors

reproduceable.In addition we might be able to lower the number of processors down. Right now determining which processor is deadlocks when we are using 8K cores and each processor has hundreds of messages sent out would be quite difficult. Thanks for your suggestions, Justin Brock Palen wrote

Re: [OMPI users] Deadlock on large numbers of processors

that might alleviate these deadlocks I would be grateful. Thanks, Justin Rolf Vandevaart wrote: The current version of Open MPI installed on ranger is 1.3a1r19685 which is from early October. This version has a fix for ticket #1378. Ticket #1449 is not an issue is this case because each node

Re: [OMPI users] Deadlock on large numbers of processors

? Thanks, Justin Jeff Squyres wrote: George -- Is this the same issue that you're working on? (we have a "blocker" bug for v1.3 about deadlock at heavy messaging volume -- on Tuesday, it looked like a bug in our freelist...) On Dec 9, 2008, at 10:28 AM, Justin wrote: I have tried

Re: [OMPI users] Deadlock on large numbers of processors

Hi, has this deadlock been fixed in the 1.3 source yet? Thanks, Justin Jeff Squyres wrote: On Dec 11, 2008, at 5:30 PM, Justin wrote: The more I look at this bug the more I'm convinced it is with openMPI and not our code. Here is why: Our code generates a communication/execution

Re: [OMPI users] Deadlock on large numbers of processors

to update it but it would be a lot easier to request an actual release. What is the current schedule for the 1.3 release? Justin Jeff Squyres wrote: Justin -- Could you actually give your code a whirl with 1.3rc3 to ensure that it fixes the problem for you? http://www.open-mpi.org

Re: [OMPI users] MPI_Send over 2 GB

My guess would be that your count argument is overflowing. Is the count a signed 32 bit integer? If so it will overflow around 2GB. Try outputting the size that you are sending and see if you get large negative number. Justin Vittorio wrote: Hi! I'm doing a test to measure the transfer

Re: [OMPI users] valgrind problems

double&) (SimulationController.cc:352) ==3629==by 0x89A8568: Uintah::AMRSimulationController::run() (AMRSimulationController.cc:126) ==3629==by 0x408B9F: main (sus.cc:622) This is then followed by a segfault. Justin Jeff Squyres wrote: On Feb 26, 2009, at 7:03 PM, Justin wrote: I'm trying to

Re: [OMPI users] valgrind problems

Also the stable version of openmpi on Debian is 1.2.7rc2. Are there any known issues with this version and valgrid? Thanks, Justin Justin wrote: Is there any tricks to getting it to work? When we run with valgrind we get segfaults, valgrind reports errors in different MPI functions

Re: [OMPI users] MPI_Test without deallocation

Have you tried MPI_Probe? Justin Shaun Jackman wrote: Is there a function similar to MPI_Test that doesn't deallocate the MPI_Request object? I would like to test if a message has been received (MPI_Irecv), check its tag, and dispatch the MPI_Request to another function based on that tag

Re: [OMPI users] MPI_Test without deallocation

that there is no message waiting to be received? The message has already been received by the MPI_Irecv. It's the MPI_Request object of the MPI_Irecv call that needs to be probed, but MPI_Test has the side effect of also deallocating the MPI_Request object. Cheers, Shaun Justin wrote: Have you

[OMPI users] [PATCH] hooks: disable malloc override inside of Gentoo sandbox

if (getenv("FAKEROOTKEY") != NULL || -getenv("FAKED_MODE") != NULL) { +getenv("FAKED_MODE") != NULL || +getenv("SANDBOX_PID") != NULL ) { return; } -- 1.8.1.5 -- Justin Bronder signature.asc Description: Digital signature

Re: [OMPI users] Seg fault with PBS Pro 10.4

don't get any segfaults. -Justin. On 07/26/2011 05:49 PM, Ralph Castain wrote: I don't believe we ever got anywhere with this due to lack of response. If you get some info on what happened to tm_init, please pass it along. Best guess: something changed in a recent PBS Pro release. Since none of us

[OMPI users] Cluster hangs/shows error while executing simple MPI program in C

Cluster hangs/shows error while executing simple MPI program in C I am trying to run a simple MPI program(multiple array addition), it runs perfectly in my PC but simply hangs or shows the following error in the cluster. I am using open mpi and the following command to execute . mpirun

[OMPI users] Segfault when using valgrind

ionController.cc:243) ==22736==by 0x834F418: Uintah::AMRSimulationController::run() (AMRSimulationController.cc:117) ==22736==by 0x4089AE: main (sus.cc:629) Are these problems with openmpi and is there any known work arounds? Thanks, Justin

Re: [OMPI users] MPI-Send for entire entire matrix when allocating memory dynamically

Why not do something like this: double **A=new double*[N]; double *A_data new double [N*N]; for(int i=0;i

Re: [OMPI users] MPI-Send for entire entire matrix when allocating memory dynamically

use >> MPI_Create_type_struct to create an MPI datatype ( >> http://web.mit.edu/course/13/13.715/OldFiles/build/mpich2-1.0.6p1/www/www3/MPI_Type_create_struct.html >> ) >> using MPI_BOTTOM as the original displacement. >> >> On Oct 29, 2009, at 15:31 , Justin Luitje

Re: [OMPI users] Wrappers should put include path *after* user args

OpenMPI: jbronder@mejis ~ $ which mpicc /usr/lib64/mpi/mpi-openmpi/usr/bin/mpicc jbronder@mejis ~ $ mpicc -showme:compile -I/bleh -I/usr/lib64/mpi/mpi-openmpi/usr/include/openmpi -pthread -I/bleh Thanks, -- Justin Bronder pgpUpu5h4BdhJ.pgp Description: PGP signature

[OMPI users] building OpenMPI on Windows XP 64 using Visual Studio 6 and Compaq Visual Fortran

/win32/CMakeModules/setup_f77.cmake:26 (OMPI_F77_FIND_EXT_SYMBOL_CONVENTION) contrib/platform/win32/CMakeModules/ompi_configure.cmake:1113 (INCLUDE) CMakeLists.txt:87 (INCLUDE) Configuring incomplete, errors occurred! Has anyone had success in building with a similar configuration? Justin K. Watson

[OMPI users] Problem with private variables in modules

within the context of a module as well? I have been getting different result using different compilers. I have tried Lahey and Intel and they both show signs of not handling this properly. I have attach a small test problem that mimics what I am doing in the large code. Justin K

Re: [OMPI users] Run-time problem

/bin/mpicc MPI_INCLUDE=/programs/openmpi/include/ MPI_LIB=mpi MPI_LIBDIR=/programs/openmpi/lib/ MPI_LINKERFORPROGRAMS=/programs/openmpi/bin/mpicxx Any clue? The directory /programs is NSF mounted on the nodes. Many thanks again, JO --- On Thu, 3/5/09, justin oppenheim <j

Re: [OMPI users] Run-time problem

gt; List-Post: users@lists.open-mpi.org Date: Saturday, March 14, 2009, 9:15 AM Sorry for the delay in replying; this week unexpectedly turned exceptionally hectic for several us... On Mar 9, 2009, at 2:53 PM, justin oppenheim wrote: > Yes. As I indicated earlier, I did use these options

[OMPI users] CUDA IPC/RDMA Not Working

MCA topo: basic (MCA v2.0.0, API v2.1.0, Component v1.10.2) MCA vprotocol: pessimist (MCA v2.0.0, API v2.0.0, Component v1.10.2) Thanks, Justin --- This email message is for

Re: [OMPI users] CUDA IPC/RDMA Not Working

We have figured this out. It turns out that the first call to each MPI_Isend/Irecv is staged through the host but subsequent calls are not. Thanks, Justin From: Justin Luitjens Sent: Wednesday, March 30, 2016 9:37 AM To: us...@open-mpi.org Subject: CUDA IPC/RDMA Not Working Hello, I have

Re: [OMPI users] Ssh launch code

Fork call location: https://github.com/open-mpi/ompi-release/blob/v2.x/orte/mca/plm/rsh/plm_rsh_module.c#L911-921 BR Justin On 07/14/2016 03:12 PM, larkym wrote: Where in the code does the tree based launch via ssh occur in open-mpi? I have read a few articles, but would like to understand

[OMPI users] [PMX:VIRUS] Re: OpenMPI 1.0.3a1r10002 Fails to build with IBM XL Compilers.

Brian Barrett wrote: > On May 27, 2006, at 10:01 AM, Justin Bronder wrote: > > >> I've attached the required logs. Essentially the problem seems to >> be that the XL Compilers fail to recognize "__asm__ __volatile__" in >> opal/include/sys/powerpc/atom

Re: [OMPI users] [PMX:VIRUS] Re: OpenMPI 1.0.3a1r10002 Fails to build with IBM XL Compilers.

On 5/30/06, Brian Barrett <brbar...@open-mpi.org> wrote: On May 28, 2006, at 8:48 AM, Justin Bronder wrote: > Brian Barrett wrote: >> On May 27, 2006, at 10:01 AM, Justin Bronder wrote: >> >> >>> I've attached the required logs. Essentially the problem s

Re: [OMPI users] [PMX:VIRUS] Re: OpenMPI 1.0.3a1r10002 Fails to build with IBM XL Compilers.

l/.libs/libopal.so ../../../opal/.libs/libopal.so -ldl -lm -lutil -lnsl --rpath /usr/local/ompi-xl/lib -lpthread ld: warning: cannot find entry symbol _start; defaulting to 10013ed8 Of course, I've been told that directly linking with ld isn't such a great idea in the first place. Ideas? Thanks, Justin.

[OMPI users] OpenMpi 1.1 and Torque 2.1.1

sr/src/openmpi-1.1 jbronder$ My thanks for any help in advance, Justin Bronder. ompi_info.log.gz Description: GNU Zip compressed data

Re: [OMPI users] Problem with Openmpi 1.1

As far as the nightly builds go, I'm still seeing what I believe to be this problem in both r10670 and r10652. This is happening with both Linux and OS X. Below are the systems and ompi_info for the newest revision 10670. As an example of the error, when running HPL with Myrinet I get the

Re: [OMPI users] Problem with Openmpi 1.1

Disregard the failure on Linux, a rebuild from scratch of HPL and OpenMPI seems to have resolved the issue. At least I'm not getting the errors during the residual checks. However, this is persisting under OS X. Thanks, Justin. On 7/6/06, Justin Bronder <jsbron...@gmail.com> wrote: Fo

Re: [OMPI users] Problem with Openmpi 1.1

yrinet (GM)? If so, I'd love to hear the configure arguments and various versions you are using. Bonus points if you are using the IBM XL compilers. Thanks, Justin. On 7/6/06, Justin Bronder <jsbron...@gmail.com> wrote: Yes, that output was actually cut and pasted from an OS X run. I

Re: [OMPI users] Problem with Openmpi 1.1

the build with the standard gcc compilers that are included with OS X. This is powerpc-apple-darwin8-gcc-4.0.1. Thanks, Justin. Jeff Squyres (jsquyres) wrote: > Justin -- > > Can we eliminate some variables so that we can figure out where the > error is originating? > > - Can

Re: [OMPI users] problem abut openmpi running

On a number of my Linux machines, /usr/local/lib is not searched by ldconfig, and hence, is not going to be found by gcc. You can fix this by adding /usr/local/lib to /etc/ld.so.conf and running ldconfig ( add the -v flag if you want to see the output ). -Justin. On 10/19/06, Durga Choudhury

[OMPI users] Open-MPI 1.2 and GM

owing fails: /usr/local/ompi-gnu/bin/mpirun -np 4 -mca btl gm --host node84,node83 ./xhpl I've attached gziped files as suggested on the "Getting Help" section of the website and the output from the failed mpirun. Both nodes are known good Myrinet nodes, using FMA to map. Thanks

[OMPI users] Strange errors when running mpirun

arwin15.6.0 Thread model: posix InstalledDir: /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin I tested Hello World with both mpicc and mpif90, and they still work despite showing those two error/warning messages. Thanks, Justin ___

Re: [OMPI users] Strange errors when running mpirun

prior to that error indicates that you have some cruft > sitting in your tmpdir. You just need to clean it out - look for something > that starts with “openmpi” > > >> On Sep 22, 2016, at 1:45 AM, Justin Chang <jychan...@gmail.com> wrote: >> >> Dear all, >>

Re: [OMPI users] Strange errors when running mpirun

Oh, so setting this in my ~/.profile export TMPDIR=/tmp in fact solves my problem completely! Not sure why this is the case, but thanks! Justin On Thu, Sep 22, 2016 at 7:33 AM, Gilles Gouaillardet <gilles.gouaillar...@gmail.com> wrote: > Justin, > > i do not see this err

Re: [OMPI users] Strange errors when running mpirun

Thank you, using the default $TMPDIR works now. On Fri, Sep 30, 2016 at 7:32 AM, Gilles Gouaillardet < gilles.gouaillar...@gmail.com> wrote: > Justin and all, > > the root cause is indeed a bug i fixed in > https://github.com/open-mpi/ompi/pull/2135 > i also had this patch

[OMPI users] Problem building OpenMPI with CUDA 8.0

to change to get around this error? Thanks, Justin --- This email message is for the sole use of the intended recipient(s) and may contain confidential information. Any unauthorized review, use, disclosure or distributi

Re: [OMPI users] Problem building OpenMPI with CUDA 8.0

I'd suggest updating the configure/make scripts to look for nvml there and link in the stubs. This way the build is not dependent on the driver being installed and only the toolkit. Thanks, Justin From: users [mailto:users-boun...@lists.open-mpi.org] On Behalf Of Justin Luitjens Sent: Tuesday

[OMPI users] Crash in libopen-pal.so

of what I could try to work around this issue? Thanks, Justin --- This email message is for the sole use of the intended recipient(s) and may contain confidential information. Any unauthorized review, use

[OMPI users] OpenMPI 3.0.0 Failing To Compile

I'm trying to build OpenMPI on Ubuntu 16.04.3 and I'm getting an error. Here is how I configure and build: ./configure --with-cuda=$CUDA_HOME --prefix=$MPI_HOME && make clean && make -j && make install Here is the error I see: make[2]: Entering directory

[OMPI users] Seg fault with PBS Pro 10.4

them look at why it was failing to do the tm_init. Does anyone have an update to this, and has anyone been able to run successfully using recent versions of PBSPro? I've also contacted our rep at Altair, but he hasn't responded yet. Thanks, Justin. Justin Wood Systems Engineer FNMOC | SAIC 7

Re: [OMPI users] CUDA mpi question

That is not guaranteed to work. There is no streaming concept in the MPI standard. The fundamental issue here is MPI is only asynchronous on the completion and not the initiation of the send/recv. It would be nice if the next version of mpi would look to add something like a triggered send