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Unable to compile ET with OpenMPI 2.1.0 in cluster
by Shamim Haque 11 Jan '22

11 Jan '22

Hello all, I am trying to install ET with OpenMPI 2.1.0 but it seems to be causing issues. I have done it successfully once with OpenMPI-x86_64 in our cluster, but it turns out this MPI is only available in the login node and not available on computing nodes, hence, I am not able to use it once a job is submitted in the queue. I could find OpenMPI 2.1.0 being available on computing nodes, so I was trying to compile with this version. I created a module file to load this module before installation. I could see the following in the terminal, which I guess, ET could recognise OpenMPI 2.1.0: Running configuration script for thorn MPI: MPI selected, but MPI_DIR is not set. Computing settings... Found MPI compiler wrapper at /opt/mpi/openmpi/2.1.0/bin/mpic++! Successfully configured MPI. Finished running configuration script for thorn MPI. Later, the progress stops with the following error: /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o): In function `MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool)': /usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/op_inln.h:121: undefined reference to `ompi_mpi_cxx_op_intercept' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o): In function `Intracomm': /usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/intracomm_inln.h:23: undefined reference to `MPI::Comm::Comm()' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o): In function `Intracomm': /usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/intracomm.h:25: undefined reference to `MPI::Comm::Comm()' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o): In function `Cartcomm': /usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/intracomm.h:25: undefined reference to `MPI::Comm::Comm()' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o): In function `Graphcomm': /usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/intracomm.h:25: undefined reference to `MPI::Comm::Comm()' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o): In function `Intracomm': /usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/intracomm.h:25: undefined reference to `MPI::Comm::Comm()' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o):/usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/intracomm.h:25: more undefined references to `MPI::Comm::Comm()' follow /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o):(.rodata._ZTVN3MPI8DatatypeE[_ZTVN3MPI8DatatypeE]+0x78): undefined reference to `MPI::Datatype::Free()' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CT_MultiLevel.a(CT_MultiLevel.cc.o):(.rodata._ZTVN3MPI3WinE[_ZTVN3MPI3WinE]+0x48): undefined reference to `MPI::Win::Free()' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CarpetLib.a(backtrace.cc.o): In function `MPI::Intracomm::Intracomm()': /usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/intracomm.h:25: undefined reference to `MPI::Comm::Comm()' /home2/mallick/ET3/Cactus/configs/sim/lib/libthorn_CarpetLib.a(backtrace.cc.o): In function `MPI::Intracomm::Intracomm(ompi_communicator_t*)': /usr/include/openmpi-x86_64/openmpi/ompi/mpi/cxx/intracomm_inln.h:23: undefined reference to `MPI::Comm::Comm()' collect2: error: ld returned 1 exit status make[1]: *** [/home2/mallick/ET3/Cactus/exe/cactus_sim] Error 1 make: *** [sim] Error 2 I could not figure out the issue here. It seems */usr/include/openmpi-x86_64/openmpi/ompi/mpi *is being taken by ET from somewhere and it is not taking OpenMPI 2.1.0. Some suggestions would be very helpful. Thank you. Regards Shamim Haque Senior Research Fellow (SRF) Department of Physics IISER Bhopal

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Agenda for Thursday's Meeting
by users＠einsteintoolkit.org 10 Jan '22

10 Jan '22

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 2022-01-06
by Haas, Roland 06 Jan '22

06 Jan '22

Present: Roland H, Yosef Z, Miguel G, Steve B, Federico A, Leo W * SPEC benchmark contribution [SB, RH] Steve contact SPEC group Cactus is still in the running, they were able to run the test Seem on track or inclusion * LORENE2 as default LORENE thorn in ET [RH] Roland will change to LORENE2 now that Johnson release is out * Issues regeneration kranc thorns Steve was unable to regenerate Kranc thorns using multiple version of MMA. Similarly for NRPy+ based thorn. Roland could generate code one release past using MMA 12 and a bugfix in Kranc's repo: https://github.com/ianhinder/Kranc/issues/151 Zach redid how codes are expected to be build in NRPy and added a nicer build system. Checked that core kernel code is identical, with some lines changing to different files. At this point this is an update to nrpytutorial. Should be reviewed as a patch to Baikal. Steve will take a look. * thorn to include in next release (May 2022, 4 months from now) ** FLRWSolver find extra volunteer to help review find extra volunteer to help address issues add again next week * ET bug squashing call [BG, RH] add again next week had planned to do so a bit in the past Steve will look at possible easy tickets for people to handle * ET EU workshop were contacted by organizers, might be late August - early September, trying to avoid overlap with workshops in the US US school will likely be June 6th 2022 NR community workshop August 1st 2022 Unanswered questions: Roland to respond to http://lists.einsteintoolkit.org/pipermail/users/2022-January/008342.html Open tickets * https://bitbucket.org/einsteintoolkit/tickets/issues/2554/init_3_timelevels… Yosef will take a look and see if the proposed fix works for him * https://bitbucket.org/einsteintoolkit/tickets/issues/2584/carpet-defines-gl… Yosef approves, Roland will apply chair next week (Jan 13th): Steve minute taker: Yosef Z Yours, Roland

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Einstein Toolkit Meeting Reminder
by users＠einsteintoolkit.org 05 Jan '22

05 Jan '22

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. https://docs.einsteintoolkit.org/et-docs/Main_Page#Weekly_Users_Call --The Maintainers

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Agenda for Thursday's Meeting
by users＠einsteintoolkit.org 03 Jan '22

03 Jan '22

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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PreSync and recovery from checkpoint
by Gabriele Bozzola 30 Dec '21

30 Dec '21

Hello, I have a fork of ProcaEvolve ( https://bitbucket.org/Sbozzolo/proca/src/master/) where I added the READS/WRITES statements for PreSync and other features. One of such features is computing the constraint, but I found out that there is some problem when PreSync is running with `mixed-error`. The relevant scheduler instruction is: schedule GROUP Proca_constraint AT ANALYSIS { LANG: Fortran } "Compute Proca constraint" schedule Proca_constraint IN Proca_constraint { LANG: Fortran READS: ProcaBase::Ei(Everywhere), ProcaBase::Aphi(Everywhere) READS: ProcaEvolve::conf_fac_chi(Everywhere) WRITES: ProcaEvolve::pc(Interior) } "Compute Proca constraint" And the error is WARNING level 0 from host exp-7-40.expanse.sdsc.edu process 0 in thorn Carpet, file /home/sbozzolo/Cactus/arrangements/Carpet/Carpet/src/PreSync.cc:260: -> Required read for PROCAEVOLVE::chi (rl=13) not satisfied. Have Nowhere and require Everywhere missing Everywhere at the start of routine ProcaEvolve::Proca_constraint. Current valid state: Valid entries: PROCAEVOLVE::chi (rl=0) Nowhere PROCAEVOLVE::chi (rl=1) Nowhere PROCAEVOLVE::chi (rl=2) Nowhere PROCAEVOLVE::chi (rl=3) Nowhere PROCAEVOLVE::chi (rl=4) Nowhere PROCAEVOLVE::chi (rl=5) Nowhere PROCAEVOLVE::chi (rl=6) Nowhere PROCAEVOLVE::chi (rl=7) Nowhere PROCAEVOLVE::chi (rl=8) Nowhere PROCAEVOLVE::chi (rl=9) Nowhere PROCAEVOLVE::chi (rl=10) Nowhere PROCAEVOLVE::chi (rl=11) Nowhere PROCAEVOLVE::chi (rl=12) Nowhere PROCAEVOLVE::chi (rl=13) Nowhere. I have a write statement for chi in CCTK_INITIAL, which is not called when restarting a simulation. Nonetheless, chi should be available everywhere because it is read from a checkpoint. What is the correct thing to do in this scenario? Thanks, Gabriele

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Compiling Cactus on M1 Mac
by Garrison, David 22 Dec '21

22 Dec '21

Hello, Has anyone had success getting the Einstein Toolkit to compile on a M1 powered Mac? I get "Bad CPU type in executable” when I try. -DG -- David Garrison, Ph.D. Interim Associate Dean for the College of Science and Engineering, Professor and Former Chair of Physics University of Houston-Clear Lake Bayou 3611 Houston, TX 77058 Tel: 281-283-3796 Fax: 281-283-3709 http://sce.uhcl.edu/garrison http://www.uhcl.edu/physics "If we knew what it was we were doing, it would not be called research, would it?" ‹ Albert Einstein.

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Need help building Einstein Toolkit: make: *** [sim] Error 2
by Maryam Asadnezhad 19 Dec '21

19 Dec '21

Hi All, Thanks so much for making the Einstein Toolkit software available! I'm using the CactusTutorial.ipynb that I got from your site. I'm trying to build ET on my 2017 Macbook Pro running OS 12.0.1 I'm stuck at this cell : %%bash ./simfactory/bin/sim build -j2 --thornlist ../einsteintoolkit.th Running that cell eventually stops with the errors make: *** [sim] Error 2 Can you help? I'm confused by the error message I really appreciate any help you are able to provide! Thank you. maryam

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Postdoc position in numerical relativity joined at Nottingham / UIUC
by Helvi Witek 19 Dec '21

19 Dec '21

Dear all, a brief reminder for our opening of a postdoc position jointly between the University of Nottingham and UIUC, to work with Prof. Thomas Sotiriou (in cc) and myself. The deadline is 21st December 2021. You can find more details on the position and a link to the application website here: https://hyperspace.uni-frankfurt.de/2021/11/25/postdoc-position-in-gravity-… Best wishes Helvi -- --------------------------------------------- Dr. Helvi Witek Assistant Professor Department of Physics University of Illinois at Urbana-Champaign 247 Loomis Lab 1110 W Green St Urbana, IL 61801 ---------------------------------------------

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Need help building Einstein Toolkit: make: *** [sim] Error 2
by Maryam Asadnezhad 16 Dec '21

16 Dec '21

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