Users November 2021

users@lists.einsteintoolkit.org

9 participants
11 discussions

GRHydro_c2p_failure_problem
by 白济民 16 Dec '21

16 Dec '21

Hi, I've successfully run the gallery BNS simulation and as a second step, I try to replace the single polytropic EoS with the 7-segment SLyPP one mentioned in the 2021_ETK_Workshop. Mainly I made two substitutions in the original par file, I changed the Thorn EOS_Omni parameters into the hybrid form and I changed the type of the GRHydro_eos_table into "Hybrid". However, the simulation aborted due to the GRHydro_c2p_failure, as can be seen in the output .err file: ---------------------------------------------------------------------- while executing schedule bin CCTK_POSTSTEP, routine GRHydro::check_GRHydro_C2P_failed in thorn GRHydro, file GRHydro_Con2Prim.F90:1787: -> xyz location: 14.06250 -5.625000 1.125000 ---------------------------------------------------------------------- I noticed that the failure point is near the outer layer of the neutron star. For clearance, I uploaded my par file and the err file. I wonder how to address this issue and I'm looking forward to your help. Yours, Jimmy

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Kranc and MPI
by Nick Olsen 09 Dec '21

09 Dec '21

Hello all After trying to install kranc unsuccessfully, I tried a few things and eventually got an installation success message, but now when I go to build the Einstein Toolkit with the new thorns I get hit with an error about being "undefined reference MPI::Comm:Comm" in a few places in whichever thorn the ET is currently on while compiling, with removing a problematic thorn from the thornlist just postponing the error. From what I can find from some digging and looking, it seems to be a linking issue but I am lost after that. Thanks, Nicholas Olsen

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Agenda for Thursday's Meeting
by users＠einsteintoolkit.org 29 Nov '21

29 Nov '21

Please update the Wiki with agenda items for Thursday's meeting. Thanks! https://docs.einsteintoolkit.org/et-docs/meeting_agenda --The Maintainers

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Meeting minutes for 2021-11-18
by Atul Kedia 18 Nov '21

18 Nov '21

Present: Yosef Z, Peter D, Roland H, Bill G, Indrani Banerjee, Gabriele B, Leo W, Ratan Deshpande, Maria BH, Zach E, Atul K Chair: Roland, Minutes: Atul Roland: Anything pre-agenda.. None * presentation topics: Einstein Toolkit Seminar Proposals [https://docs.einsteintoolkit.org/et-docs/Einstein_Toolkit_Seminar_Proposals ] [RH] Additionally Fuka ID by Samuel Tootle. * midwest relativity meeting 2021 recap [RH, ZE] Leo.. Simpy code. Similar to numpy, Cpy package. Roland: Codes up Einstein notations. Leo: Uses Einstein notations, but uses simpy’s tensors, which is known to be buggy. It is a C code so isn’t going to be as fast. Gabriele: Meeting worked better for in-person as most attendees were in person. Benefits of online was to attend to only ones interested. * ET website accessibility automated report https://fae.disability.illinois.edu/summary/17d2ffcd5b2a064e/rc/ [RH] A tool that tests the accessibility of a website for people with disabilities. Number of violations (10) are not that bad. Understanding the violations may take some more evaluations. * create "community contributed" section of website or wiki (must be easier to edit than right now) [BG] Adding to wikipage? Is tricky. Some other way to maintain these with less barrier would be better. Wolfgang: Not currently doing for RePriMand Leo: NRPy, the new contributor’s name goes into the NRPy page. Kuibit: Github pull request.. Gabriele reviews it and then approves. Roland: News item, where it people add their new work’s description (text and image, parfile etc. and reviewed) Bill will keep it in his todo list and bring it up again in the future. * next [https://docs.einsteintoolkit.org/et-docs/Release_Process ET release] [SB, YZ, RH] Name: Johnson Steve attending Supercomputing conference. * delay by 1 week to avoid thanksgiving holiday. Will be released in first week of December. ** status update on include candidates: *** [ https://bitbucket.org/einsteintoolkit/tickets/issues/2551/include-reprimand… Reprimand] Commits for the final review.. Added to the ticket. Some mostly non-issues, some minor changes.. Everything went into the development repo (not public). G and some other constants left for the user to specify. Not addressed comments about numbers being wrong without giving the offset value. Risk of breaking other things. Roland: Finished the review. Code is in Excellent state! RePriMand has been added to the thornlist. *** [ https://bitbucket.org/einsteintoolkit/tickets/issues/2549/inlcude-flrwsolve… FLRWSolver] Postponed to next release. *** [ https://bitbucket.org/einsteintoolkit/tickets/issues/2538/inclusion-of-kuib… Kuibit] Yosef: Well documented.. Maybe adding more examples by different users. Gabriele: Fixed a minor issue about h5py. GB added examples, about 20, himself. Kuibit scripts could be used for gallery examples, GB could help the testers. Documentation is going to be version wise and ET is going to be linking each version wise. All: Great shape and will be added to ET. ** testsuite status: http://einsteintoolkit.org/testsuite_results/index.php Roland started running them a couple of weeks ago. Systems are being tested by Steve, Roland, Gabriele.. Some systems are not being run asther are being replaced by newer machines. Wolfgang: Adding a standard unit test to the test-suite? Roland: Test-suite runs a parfile and looks at the output. Wolfgang: Asking due to the dependency on Boost. Roland: Adding a new parfile and then checking the output ascii. Would be doable. Could be added as a summer project. Gabriele: Always have to switch between openmp, or mpi. Is there an easier way to set that up, and benchmark? Roland: could maybe run BBH in some test suite systems and regression test in the compute time. Wolfgang: Parameter space is probably too big. All: But standardization could be useful. Will revisit this proposal again. ** gallery runs *** [ https://bitbucket.org/einsteintoolkit/tickets/issues/2172/test-binary-black… BBH] [CHC] Ran it halfway, and ongoing. *** [ https://bitbucket.org/einsteintoolkit/tickets/issues/2176/test-binary-neutr… BNS] [AD] Tested completely. *** [ https://bitbucket.org/einsteintoolkit/tickets/issues/2175/test-single-stabl… TOV] [PD] Close to running it. Trying on a new AMD-Epyc cluster in stockholm. Compilation succeeded today. Could also add it to the test suite by running the tests par. May be able to use kuibit. *** [ https://bitbucket.org/einsteintoolkit/tickets/issues/2173/test-poisson-equa… Poisson] [MG] Ran the simulation, will update the website and ticket soon. *** [ https://bitbucket.org/einsteintoolkit/tickets/issues/2174/test-multi-patch-… scalar wave] [BG] Ran it today, plots looking good. Need to update website/ticket. Maybe use kuibit, if time permits. [https://www.einsteintoolkit.org/tools/unanswered.php unanswered question on mailing list] Not updated: Hee Il Kim’s question. [ https://bitbucket.org/einsteintoolkit/tickets/issues?status=open&status=new… open tickets sorted by update time] Issue #2497. https://bitbucket.org/einsteintoolkit/tickets/issues/2497/illinoisgrmhd-is-… IllinoisGRMHD schedules the conservative-to-primitive methods in the group AddToTmunu, which is not added if stress_energy_at_RHS is set to ‘no’. Leo and Zach will discuss. https://bitbucket.org/einsteintoolkit/tickets/issues/2576/after-statements-… Will be good to add a read-write statement. [ https://bitbucket.org/einsteintoolkit/tickets/issues?status=new&status=open… tickets ready for review] Not much new. Reviewers needed. Future chairs and minute takers: 2 Dec: Chair : Yosef, Minutes: Bill

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Crash due to CarpetLib (apparently)
by Lorenzo Ennoggi 17 Nov '21

17 Nov '21

Hi, one of my BNS simulations with the Spritz code started from a checkpoint and, after running for about one day, crashed with exit code 8. The error seems to be related to the Einstein Toolkit infrastructure, so I am posting this message on this mailing list. I am attaching the stdout and stderr (even though they don't look very informative) and the backtrace. Running addr2line -e <Cactus executable> <address> with the <address> listed at point 3 in the backtrace, I see that the error originates from Cactus/arrangements/Carpet/CarpetLib/src/defs.hh:144 . In order to see how we get to that point, I am listing here the files and line numbers corresponding to points 4 to 11 in the backtrace (points 12 and 13 are not relevant I think): 4. Cactus/arrangements/Carpet/CarpetIOHDF5/src/OutputSlice.cc:1087 5. Cactus/arrangements/Carpet/CarpetIOHDF5/src/OutputSlice.cc:562 6. Cactus/arrangements/Carpet/CarpetIOHDF5/src/OutputSlice.cc:469 7. Cactus/arrangements/Carpet/CarpetIOHDF5/src/OutputSlice.cc:356 8. Cactus/arrangements/Carpet/Carpet/src/OutputGH.cc:51 9. Cactus/arrangements/Carpet/Carpet/src/Evolve.cc:730 10. Cactus/arrangements/Carpet/Carpet/src/Evolve.cc:703 11. Cactus/src/main/flesh.cc:88 Visually, the 1D and 2D output does not show any obviously wrong features, so I have no clue about what is going on. Do you have any ideas? I am also attaching the parameter file I am running with and the optionlist I used to compile. Kindly let me know if I can provide further info and/or attach any other file you may find useful. Thank you very much in advance for your help, Lorenzo Ennoggi

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Einstein Toolkit Meeting Reminder
by users＠einsteintoolkit.org 17 Nov '21

17 Nov '21

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Agenda for Thursday's Meeting
by users＠einsteintoolkit.org 15 Nov '21

15 Nov '21

Please update the Wiki with agenda items for Thursday's meeting. Thanks! https://docs.einsteintoolkit.org/et-docs/meeting_agenda --The Maintainers

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Fwd: Regarding Installation of Einstein's toolkit
by Ratan Deshpande 08 Nov '21

08 Nov '21

I have installed Ubuntu LTS on Windows Installed X11 server and Putty but I dont know how to resolve host name issue according to https://docs.einsteintoolkit.org/et-docs/Setup_Tutorial I am not getting how to proceed with installation. Please do assist in this regard. Regards, Ratan

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Meeting minutes for 2021-11-04
by Leonardo Rosa Werneck 04 Nov '21

04 Nov '21

ETK weekly phone call - November 4, 2021 chair: Peter Diener minutes: Leo Werneck Present: Atul Kedia, BilalHameed awan, David Bradley, Helvi Witek, Leo Werneck, Maria Hamilton, Ratan Deshpande, Roland Haas, Steven Brandt, Peter Diener, Yosef Zlochower Agenda items * Next ETK release * November is here, need to know who will run all gallery examples. -> Roland will be in touch with Helvi and her students to learn who will run the BNS gallery example. * Feature freeze in a week. * Steve mentioned that it Would be nice to have a clear deadline for people interested in adding new thorns to add them to master. Roland pointed out that there might be one, but it is not enforced. * FLRW solver: -> Not tested yet. -> Not reviewed yet. -> Not in master (so not being regularly built). -> Depends on Python C library both at compilation and runtime. -> Should be included in next release. * RePrimAnd: -> Will be included, but not built by default. -> Roland made some suggestions to Wolfgang regarding documentation. -> Wolfgang would prefer HTML or links to the current online documentation. -> Roland will finish reviewing the code by next week. * kuibit: -> Yosef wants to discuss some of the documentation with Gabrielle. -> Yosef will finish reviewing the code by next week. -> Overall opinion is that the code should be included. -> The idea would be that the code repository would be checked out with the toolkit so that the user have access to the examples, but it should still be installed using pip. * Yosef suggested having a "minimal" build and a "full" build (which assumes all external libraries are installed). Steve pointed out that this was suggested before, but no one followed through. * Gallery examples can start running, but keep in mind that they will need to be run again after the feature freeze. * Unanswered questions on the mailing list * Steve says he's in touch with Hee Il Kim, but we haven't figured it out yet. * Open tickets * Roland says we need to find a solution for ticket #2571. The top ticket (#2572) will go away because the build failure is caused by an HDF5 problem. * If there are any objections against having kuibit or RePrimAnd added to the release, please voice your concerns through the mailing list. * Maria asked if anyone tried to use the toolkit in the Pittsburgh Supercomputer Center Bridges II. -> Roland says: A while back, but no instructions on how to do it are currently available. We plan on having instructions on how to add new clusters. Maybe I can have one ready in 1-2 weeks. * Next week's meeting is canceled due to the Midwest Relativity Meeting. * Next meeting: Nov. 18. Chair: Roland Haas. Minutes: Atul Kedia. Cheers, Leo

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Einstein Toolkit Meeting Reminder
by users＠einsteintoolkit.org 03 Nov '21

03 Nov '21

Hello, Please consider joining the weekly Einstein Toolkit phone call at 9:00 am US central time on Thursdays. For details on how to connect and what agenda items are to be discussed, use the link below. ** DAYLIGHT SAVING TIME WARNING ** Please note that the US has already transitioned to / from daylight savings time. The phone call will be at 15:00 Central EU time. https://docs.einsteintoolkit.org/et-docs/Main_Page#Weekly_Users_Call --The Maintainers

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Users November 2021