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3984 discussions

Stampede
by Ian Hinder 07 Aug '14

07 Aug '14

Hi all, Has anyone run into problems recently with Cactus jobs on Stampede? I've had jobs die when checkpointing, and also mysteriously hanging for no apparent reason. These might be separate problems. The checkpointing issue occurred when I submitted several jobs and they all started checkpointing at the same time after 3 hours. The hang happened after a few hours of evolution, with GDB reporting > MPIDI_CH3I_MRAILI_Get_next_vbuf (vc_ptr=0x7fff00d9a8d8, vbuf_ptr=0x13) > at src/mpid/ch3/channels/mrail/src/gen2/ibv_channel_manager.c:296 > 296 for (; i < mv2_MPIDI_CH3I_RDMA_Process.polling_group_size; > ++i) Unfortunately I didn't ask for a backtrace. I'm using mvapich2. I've been in touch with support and they said the dying while checkpointing coincided with the filesystems being hit hard by my jobs, which makes sense, but they didn't see any problems in their logs, and they have no idea about the mysterious hang. I repeated the hanging job and it ran fine. -- Ian Hinder http://numrel.aei.mpg.de/people/hinder

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Problem with Jenkins test system
by Ian Hinder 29 Jul '14

29 Jul '14

Hi all, I noticed today that the Jenkins automated build and test system which runs the tests for the Einstein Toolkit was not actually checking out the latest version of the code. This means that the reports of success do not correspond to the latest versions. I have added a workaround to the problem, and I think it is now fixed. It is possible that we will now see failures due to changes introduced since the last tested version. I do not know which is the last version which was actually tested. It is definitely before 11-Jun-2014, so no commits since then will have been tested. I suspect that the problem started some time in May. -- Ian Hinder http://numrel.aei.mpg.de/people/hinder

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Einstein Toolkit Meeting Reminder
by Frank Loeffler 28 Jul '14

28 Jul '14

Hi Please consider joining the weekly Einstein Toolkit phone call at 10 am US central time on Mondays. As usual, you can find instructions how to join on the following web site: http://einsteintoolkit.org/community/support/ In short: the number is (+1) 225-578-4942 or (+1) 866-573-0359 and the conference id is 118682#. Some tickets within the last week that are still open: - 1640: RK2-MR2-1 test fails - 1641: Switching Slab from alltoall to irecv/isend Other projects include - Make Illinois code work with standard ET - git transition As always, please add to this list if you like. Frank Loeffler

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Einstein Toolkit Meeting Reminder
by Frank Loeffler 28 Jul '14

28 Jul '14

Hi Please consider joining the weekly Einstein Toolkit phone call at 10 am US central time on Mondays. As usual, you can find instructions how to join on the following web site: http://einsteintoolkit.org/community/support/ In short: the number is (+1) 225-578-4942 or (+1) 866-573-0359 and the conference id is 118682#. Projects we will talk about include - Make Illinois code work with standard ET - git transition As always, please add to this list if you like. Frank Loeffler

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simfactory job restart
by Vassilios Mewes 28 Jul '14

28 Jul '14

Hello all, a simulation has crashed without checkpointing (there was a filesystem error on the cluster) how can i restart it? do I need to delete the uncompleted output-xxxx and output-xxx-active folder? or is that not necessary and simfactory will automatically find the latest valid checkpoint in simulation time and restart from there? best wishes, Vassili

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[trac-noreply@einsteintoolkit.org: Re: [Einstein Toolkit] #1338: Rename Carpet output files]
by Frank Loeffler 25 Jul '14

25 Jul '14

----- Forwarded message from Einstein Toolkit <trac-noreply(a)einsteintoolkit.org> ----- Date: Sat, 26 Jul 2014 04:01:29 -0000 From: Einstein Toolkit <trac-noreply(a)einsteintoolkit.org> Cc: trac(a)einsteintoolkit.org Subject: Re: [Einstein Toolkit] #1338: Rename Carpet output files Content-Type: text/plain; charset="utf-8" Reply-To: users(a)einsteintoolkit.org #1338: Rename Carpet output files -----------------------+---------------------------------------------------- Reporter: eschnett | Owner: eschnett Type: defect | Status: new Priority: major | Milestone: Component: Carpet | Version: Resolution: | Keywords: -----------------------+---------------------------------------------------- Comment (by knarf): We should do something about this, so I now (again) suggest "." as separator, replacing the "::". The default should change too, but the old behaviour should be allowed using a parameter. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1338#comment:21> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit ----- End forwarded message -----

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Einstein Toolkit Meeting Reminder
by Roland Haas 25 Jul '14

25 Jul '14

-----BEGIN PGP SIGNED MESSAGE----- Hash: SHA1 Hi Please consider joining the weekly Einstein Toolkit phone call at 10 am US central time on Mondays. As usual, you can find instructions how to join on the following web site: http://einsteintoolkit.org/community/support/ In short: the number is (+1) 225-578-4942 or (+1) 866-573-0359 and the conference id is 118682#. Projects we will talk about include - - Make Illinois code work with standard ET - - git transition As always, please add to this list if you like. Roland Haas -----BEGIN PGP SIGNATURE----- Version: GnuPG v1 iEYEARECAAYFAlPSnc0ACgkQTiFSTN7SboUXxwCfUWPmF8LDfg3IwPTDjwaQmRNU 1Z8AnRztK0c6prUMV4rtbY6qShxYDYY1 =aykG -----END PGP SIGNATURE-----

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Re: [Users] Editing .cfg file for a machine to use locally installed external libraries (Simfactory, optionlist)
by Dumsani Ndzinisa 23 Jul '14

23 Jul '14

Hi Frank and everyone, Yes, I eventually got past the error by leaving blanks on the spaces for the values of most of the libraries' details, in particular for the BLAS library. The system is indeed a Linux system (Linux Mint 17). Thanks for the correction on mixing package names and library names. You really have a point there, it makes a lot of sense to me. However, it has been quite a long while since I did this build. So with regard to the exact error message, I may need to re-do the build and try to replicate the error. Like you said, it was something about the linker not being able to find some library(-ies). I will get back and report on the results once I have re-done this, unless you believe it is not too necessary now. Kind regards, Dumsani On 23/07/2014 13:23, Frank Loeffler wrote: > Hi, > > I am sorry for the long delay, if nobody else responded so far. > > On Thu, Jun 26, 2014 at 11:03:13PM +0200, Dumsani Ndzinisa wrote: >> BLAS_DIR = NO_BUILD >> BLAS_LIB_DIRS = /usr/lib/libblas >> BLAS_INC_DIRS = /usr/include >> BLAS_LIBS = libblas3 libblas-dev >> >> It turned out that the linker could not proceed well with this. > It would be good to know what the error message was. Assuming it could > not find some symbols: > >> BLAS_LIB_DIRS = /usr/lib/libblas >> BLAS_INC_DIRS = /usr/include > Try without these. The latter should be searched by default anyway, and > the first might also just work. > >> BLAS_LIBS = libblas3 libblas-dev > This looks wrong. These look like package names, not library names. I > would suspect you get the errors from the linker not finding libraries > with that name. > > First, try leaving it blank. Then, your blas library might need some > additional libraries like pthread, try adding these if you get > unresolved symbols relating to threads. > > It would be interesting to know what kind of system you try to install > this on. The package names suggest some kind of Linux, and the BLAS > thorn itself should be smart enough to find the installed library there > without you specifying anything. If this is not the case we could look > into that. > > Frank >

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Useful script?
by Steven R. Brandt 19 Jul '14

19 Jul '14

I created this small script to generate the mpi variables for a cactus cfg file, based on the presence of an mpicc in the user's path. I tested it on several machines. Do you think something like it might be useful in simfactory? Cheers, Steve

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ygraph for Mac OS 10.9
by Garrison, David 12 Jul '14

12 Jul '14

Hello, Has anyone successfully built or found a working build of ygraph for Intel based Macs, particularly 10.9? -DG -- David Garrison, Ph.D. Associate Professor and Chair of Physics University of Houston-Clear Lake Bayou 3531 Houston, TX 77058 Tel: 281-283-3796 Fax: 281-283-3709 http://sce.uhcl.edu/garrison For more information about the UHCL Physics Program go to http://www.uhcl.edu/physics or sign up for UHCL newsletters at https://ecommunications.houston.edu/uhcl/join.html "If we knew what it was we were doing, it would not be called research, would it?" — Albert Einstein.

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