Users November 2022

users@lists.einsteintoolkit.org

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Einstein Toolkit Meeting Reminder
by reminders＠einsteintoolkit.org 30 Nov '22

30 Nov '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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Graduate Assistantship Opportunity
by Steven R. Brandt 30 Nov '22

30 Nov '22

Numerical relativity or computational science graduate assistant position at LSU ================================================================================ The Center for Computation and Technology is currently seeking to fill a graduate student research positions to develop the CarpetX (https://bitbucket.org/eschnett/cactusamrex/src/master/) and/or NRPy+ (https://github.com/stevenrbrandt/nrpytutorial.git) frameworks under the umbrella of the Einstein Toolkit (https://einsteintoolkit.org). We are looking for a dedicated student from physics, computer science, or related fields who is proficient in C++ as well as Python, who is comfortable with the Linux programming environment, and who has strong mathematical skills. We are looking for highly qualified individuals interested in pursuing research in the fields of numerical relativity, theoretical and computational astrophysics, with an emphasis on general relativistic magneto-hydrodynamics simulations of compact object mergers, such as accreting binary, massive, black holes and binary neutron stars. Application reviews will be begin immediately and continue until the position is filled. Starting dates, duration and a competitive salary are negotiable. Please send resumes to sbrandt(a)cct.lsu.edu

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New Einstein Toolkit Release (Kowalevski)
by Roland Haas 29 Nov '22

29 Nov '22

Release Announcement Click here to read the announcement in HTML (with hyperlinks): https://einsteintoolkit.org/about/releases/ET_2022_11_announcement.html We are pleased to announce the twenty-fifth release (code name "Sophie Kowalevski") of the Einstein Toolkit, an open-source, community developed software infrastructure for relativistic astrophysics. The major changes in this release include: * many READS / WRITES statements were corrected * there is now more robust testsuite error reporting * kuibit has improved support for modern matplotlib versions * a workaround for Intel 19+ compilers was added to GRHydro Three new arrangements and thorns have been added: * FLRW initial data solver for cosmological initial data * NRPyEllipticET hyperbolic relaxation initial data solver for vacuum spacetimes * The Canuda library of codes now supports complex and real scalar fields New capabilities for existing codes: * The SelFforce-1D code now supports gravitational perturbations using the Regge-Wheeler-Zerilli formalism In addition, bug fixes accumulated since the previous release in May 2022 have been included. The Einstein Toolkit is a collection of software components and tools for simulating and analyzing general relativistic astrophysical systems that builds on numerous software efforts in the numerical relativity community including code to compute initial data parameters, the spacetime evolution codes Baikal, lean_public, and McLachlan, analysis codes to compute horizon characteristics and gravitational waves, the Carpet AMR infrastructure, and the relativistic magneto-hydrodynamics codes GRHydro and IllinoisGRMHD. Data analysis and postprocessing is handled by the kuibit library. The Einstein Toolkit also contains a 1D self-force code. For parts of the toolkit, the Cactus Framework is used as the underlying computational infrastructure providing large-scale parallelization, general computational components, and a model for collaborative, portable code development. The Einstein Toolkit uses a distributed software model and its different modules are developed, distributed, and supported either by the core team of Einstein Toolkit Maintainers, or by individual groups. Where modules are provided by external groups, the Einstein Toolkit Maintainers provide quality control for modules for inclusion in the toolkit and help coordinate support. The Einstein Toolkit Maintainers currently involve staff and faculty from five different institutions, and host weekly meetings that are open for anyone to join. Guiding principles for the design and implementation of the toolkit include: open, community-driven software development; well thought-out and stable interfaces; separation of physics software from computational science infrastructure; provision of complete working production code; training and education for a new generation of researchers. For more information about using or contributing to the Einstein Toolkit, or to join the Einstein Toolkit Consortium, please visit our web pages at http://einsteintoolkit.org, or contact the users mailing list users(a)einsteintoolkit.org. The Einstein Toolkit is primarily supported by NSF 2004157/2004044/2004311/2004879/2003893 (Enabling fundamental research in the era of multi-messenger astrophysics). The Einstein Toolkit contains about 336 regression test cases. On a large portion of the tested machines, almost all of these tests pass, using both MPI and OpenMP parallelization. Deprecated functionality The following features are being marked as deprecated in this release and will be removed in the next release * the "REQUIRES THORNS" statement in configuration.ccl has been deprecated and will be removed in the next release. Please use "REQUIRES" and "PROVIDES" instead. * TmunuBase will no longer inherit from ADMBase and SaticConformal after this release, meaning thorns that inherit from TmunuBase will no longer automatically have access to the spacetime metric. Please explicitly inherit from ADMBase to access those variables. Contributors Among the many contributors to the Einstein Toolkit and to this release in particular, important contributions to new components were made by the following authors: * Alexandru Dima * Anuj Kankani * Cheng-Hsin Cheng * Chloe Beth Richards * Giuseppe Ficarra * Hayley Macpherson * Leonardo Werneck * Liwei Ji * Miguel Zilhao * Samuel Cupp * Taishi Ikeda How to upgrade from Riemann Release (ET_2022_05) To upgrade from the previous release, use GetComponents with the new thornlist to check out the new version. See the Download page (http://einsteintoolkit.org/download.html) on the Einstein Toolkit website for download instructions. The SelfForce-1D code uses a single git repository, thus using git pull; git checkout ET_2022_11 will update the code. To install Kuibit, do the following: pip install --user -U kuibit==1.3.6 Machine notes Supported (tested) machines include: * Default Debian, Ubuntu, Fedora, Mint, and OpenSUSE installations * Expanse * Queen Bee 2 * Queen Bee 3 * Stampede 2 * Summit * SuperMUC Note for individual machines: * TACC machines: defs.local.ini needs to have `sourcebasedir = $WORK` and `basedir = $SCRATCH/simulations` configured for this machine. You need to determine $WORK and $SCRATCH by logging in to the machine. * SuperMUC-NG: defs.local.ini needs to have `sourcebasedir = $HOME` and `basedir = $SCRATCH/simulations` configured for this machine. You need to determine $HOME and $SCRATCH by logging in to the machine. All repositories participating in this release carry a branch ET_2022_11 marking this release. These release branches will be updated if severe errors are found. The "Sophie Kowalevski" Release Team on behalf of the Einstein Toolkit Consortium (2022-11-29) * Roland Haas * Allen Wen * Anuj Kankani * Bing-Jyun Tsao * Cheng-Hsin Cheng * Chi Tian * Giuseppe Ficarra * Hrishikesh Kalyanaraman * Lisa Leung * Nadine Kuo * Peter Diener * Steven R. Brandt * Taishi Ikeda * Zachariah Etienne November 29, 2022

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[nr-community-call] Next NR community call: Monday, Dec 5
by Nils Vu 29 Nov '22

29 Nov '22

Dear Numerical Relativists, The next NR community call will be on Monday, Dec 5th. Our speakers will be Alex Pandya (Princeton) and Nikolas Wittek (AEI Potsdam / SXS). You can find the schedule in the wiki: https://urldefense.com/v3/__https://github.com/sxs-collaboration/nr-communi… - Feel free to circulate this information within the NR community. - Please subscribe to our mailing list <https://urldefense.com/v3/__https://groups.google.com/u/1/a/black-holes.org… > to receive info on the community calls in the future (or send a short message to nr-community-call+subscribe(a)black-holes.org <mailto:nr-community-call+subscribe@black-holes.org> to subscribe) and join our Slack <https://urldefense.com/v3/__https://join.slack.com/t/generalrelativity/shar… > for discussions (channel: #nr-community-call <https://urldefense.com/v3/__https://generalrelativity.slack.com/archives/C0… >). - Please sign up for a slot <https://urldefense.com/v3/__https://docs.google.com/forms/d/e/1FAIpQLSfoCnn… > in the schedule to speak at one of the community calls: https://urldefense.com/v3/__https://github.com/sxs-collaboration/nr-communi… Best, Nils -- You received this message because you are subscribed to the Google Groups "NR community call" group. To unsubscribe from this group and stop receiving emails from it, send an email to nr-community-call+unsubscribe(a)black-holes.org.

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Agenda for Thursday's Meeting
by reminders＠einsteintoolkit.org 28 Nov '22

28 Nov '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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compiling issues with libifport.so.5, libfabric.so.1
by Tomas Andrade 21 Nov '22

21 Nov '22

Hi, I’m installing the toolkit in this machine https://www.nlhpc.cl/infraestructura/ . The documentation is in spanish but the relevant specs are: 128 nodes HPE ProLiant SL230s Gen8 each node with two CPUs Intel Xeon E5-2660 v2 OS: CentOS 7 I am able to compile using the generic.cfg file, loading the following modules GCCcore/8.2.0 GCC/8.2.0-2.31.1 icc/2019.2.187-GCC-8.2.0-2.31.1-nlhpc impi/2019.2.185 imkl/2019.2.187 Szip/2.1.1 HDF5/1.10.6 binutils/2.32 zlib/1.2.11 OpenMPI/3.1.3 hwloc/2.4.1 However, if I try to run a simulation I get errors: - error while loading shared libraries: libifport.so.5: cannot open shared object file: No such file or directory - and similarly error while loading shared libraries: libfabric.so.1 After some googling, I managed to fix these errors by exporting the paths of the files libifport.so.5, libfabric.so.1 but this seems a bit strange and I am wondering if I can instead get the code to work by loading the correct modules only. Any thoughts? Thank you! Tomas -- Aquest missatge, i els fitxers adjunts que hi pugui haver, pot contenir informació confidencial o protegida legalment i s’adreça exclusivament a la persona o entitat destinatària. Si no consteu com a destinatari final o no teniu l’encàrrec de rebre’l, no esteu autoritzat a llegir-lo, retenir-lo, modificar-lo, distribuir-lo, copiar-lo ni a revelar-ne el contingut. Si l’heu rebut per error, informeu-ne el remitent i elimineu del sistema tant el missatge com els fitxers adjunts que hi pugui haver. Este mensaje, y los ficheros adjuntos que pueda incluir, puede contener información confidencial o legalmente protegida y está exclusivamente dirigido a la persona o entidad destinataria. Si usted no consta como destinatario final ni es la persona encargada de recibirlo, no está autorizado a leerlo, retenerlo, modificarlo, distribuirlo o copiarlo, ni a revelar su contenido. Si lo ha recibido por error, informe de ello al remitente y elimine del sistema tanto el mensaje como los ficheros adjuntos que pueda contener. This email message and any attachments it carries may contain confidential or legally protected material and are intended solely for the individual or organization to whom they are addressed. If you are not the intended recipient of this message or the person responsible for processing it, then you are not authorized to read, save, modify, send, copy or disclose any part of it. If you have received the message by mistake, please inform the sender of this and eliminate the message and any attachments it carries from your account.

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Meeting minutes for 2022-11-17
by Beyhan Karakaş 17 Nov '22

17 Nov '22

Dear All, Here are the minutes from today's meeting. Present: Keith, Peter, Allen, Bruno, Zach, Yosef, Leo. Chair: Roland Minutes: Beyhan ET release: - BBH gallery example: Allen has some issues with his cluster, still needs 24 hours to figure it out. - Canuda Scalar thorns: documentation and tests are missing. Roland added some documentations for the arrangement. It is too late for test cases, Roland will ask Miguel Zilhao to have some test cases. - Failures in GRHydro persists in many clusters (Sunrise, SuperMuc, Supermic, QueenBee, db1 and Cori): Might be related to the intel compiler but stampede that also uses intel compiler seems to be fine (Roland). Might depend on the version of the compiler (Peter). Probably needs to be older than intel 19. Roland will try and see whether it will be overcomed by using an older intel version on QueenBee. It might also be a compiler bug. Yosef thinks he has reported this. They were getting nans in the matter fields after the first iteration with GRHydro (in the gallery example). - Release will probably not be made today due to these failures (Roland). Roland will try to do it before December. Unanswered questions - Issue with compiling ET on cluster [Shamim Haque]: http://lists.einsteintoolkit.org/pipermail/users/2022-November/008761.html Shamim was in contact with Erik and Roland who provided some suggestions. It would be great to have a volunteer to answer Shahim's further questions due to the release management of Roland. Open tickets: - #2664 <https://bitbucket.org/einsteintoolkit/tickets/issues/2664/publication-webpa…> : Publication webpage is outdated, sphinxcontrib-citations may help keeping it updated automatically: Suggestion and comments by Roland, Zach, Bruno, Yosef and Leo on a better way to find which papers are using ET. Roland could give this a try. We are not going to get all of them because Zenodo doi's are not very often cited, people sometimes still cite original ET papers and sometimes do not cite anything just say we used ET. Zach: script that looks at all thorns in the ET, finding any paper that corresponds to them would really help with this. Bruno: It would be a good idea to use the script and manually evaluate what the script produced. Roland: It requires familiarity with the people in the field. Zach suggested that it would be effective to add this to a regular item in each call. It is similar to the unanswered question in the mailing list. Roland: We can put it on the agenda. We could also in principle have a web form with just a text box that arxiv links could be dropped in. Bruno: We can just search for the paper that cites the ET paper. Zach has some concerns because people who use the ET do not always cite the ET paper, they cite the thorn they use. Yosef: Most people that use ET just mean it. - #2663 <https://bitbucket.org/einsteintoolkit/tickets/issues/2663/add-an-notice-abo…>: add a notice about minimum Intel / GCC version required to configure output: Most of the questions about not compiling ET with intel compiler ends up being wrong standard C++ template library. For C++11, the error message given is not really helpful. Error message should tell the user "you need to use at least intel 2017 and gcc 6". (Roland) - #2662 <https://bitbucket.org/einsteintoolkit/tickets/issues/2662/try-to-get-email-…>: Try to get email from ~/.gitconfig: Something to make simfactory look for a couple places to guess a good email address when setting up a new machine (Roland). - #963: <https://bitbucket.org/einsteintoolkit/tickets/issues/963/improve-mclachlan-…> Improve McLachlan accuracy: Peter gets things running on dbu. Running the standard version and trying to rerun it with a modified version to see whether it makes a difference. Zach would like to be informed about the difference if it exists. Suggestion: Zach:Would it be better for us to have a wiki page that just has tasks anyone in the community could help (voluntarily) with (updating wiki pages including list of publications and many other tasks which do not require a lot of physics knowledge)? Roland: Updated Summer student project wiki page (* <https://docs.einsteintoolkit.org/et-docs/Summer_student_projects>) and will add this suggestion to the next agenda. No call for next week due to thanksgiving. Next call (12.01): Chair: Leo Minutes: Bruno Best regards, Beyhan.

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Einstein Toolkit Meeting Reminder
by reminders＠einsteintoolkit.org 16 Nov '22

16 Nov '22

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Issue with compiling ET on cluster
by Shamim Haque 1910511 15 Nov '22

15 Nov '22

Hi, I am trying to build ET on the institute cluster KANAD at IISER Bhopal. The compiling stops at the following point, which I am unable to process what could be the issue: *COMPILING EinsteinInitialData/Exact/src/metrics/bowl.FCOMPILING EinsteinInitialData/Exact/src/metrics/constant_density_star.FCreating /home2/mallick/ET4/Cactus/configs/sim/lib/libthorn_Extract.aCreating /home2/mallick/ET4/Cactus/configs/sim/lib/libthorn_Exact.amake: *** [sim] Error 2* I am attaching the full terminal output and all the scripts (edited as per the cluster). Any help in this regard will be helpful. Thanks in advance. Regards Shamim Haque Senior Research Fellow (SRF) Department of Physics IISER Bhopal

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Agenda for Thursday's Meeting
by reminders＠einsteintoolkit.org 14 Nov '22

14 Nov '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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