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HDF5 Error, Hilbert
by Geraint Pratten 05 Oct '15

05 Oct '15

Hi all, I recently built the latest release (Hilbert) on the local cluster and I've been getting a HDF5 error. I've tried building Cactus with both the local HDF5 package on the cluster as well as letting Cactus build HDF5 from scratch. Does anyone have any insight into the error I've attached below (extract of a long chain of errors of the same form)? I can dump the output to file or give configuration files if needed. Thanks in advance! Geraint ---------- HDF5-DIAG: Error detected in HDF5 (1.8.14) thread 0: #000: H5Ddeprec.c line 193 in H5Dcreate1(): unable to create dataset major: Dataset minor: Unable to initialize object #001: H5Dint.c line 453 in H5D__create_named(): unable to create and link to dataset major: Dataset minor: Unable to initialize object #002: H5L.c line 1638 in H5L_link_object(): unable to create new link to object major: Links minor: Unable to initialize object #003: H5L.c line 1882 in H5L_create_real(): can't insert link major: Symbol table minor: Unable to insert object #004: H5Gtraverse.c line 861 in H5G_traverse(): internal path traversal failed major: Symbol table minor: Object not found #005: H5Gtraverse.c line 641 in H5G_traverse_real(): traversal operator failed major: Symbol table minor: Callback failed #006: H5L.c line 1674 in H5L_link_cb(): name already exists major: Symbol table minor: Object already exists WARNING level 1 from host node207.cm.cluster process 0 while executing schedule bin (none), routine (no thorn)::(no routine) in thorn CarpetIOHDF5, file /mnt/pact/gp234/NR/Cactus/arrangements/Carpet/CarpetIOHDF5/src/Output.cc:677: -> HDF5 call 'dataset = H5Dcreate (outfile, datasetname.str().c_str(), filedatatype, dataspace, plist)' returned error code -1 WARNING level 1 from host node207.cm.cluster process 0 while executing schedule bin (none), routine (no thorn)::(no routine) in thorn CarpetIOHDF5, file /mnt/pact/gp234/NR/Cactus/arrangements/Carpet/CarpetIOHDF5/src/Output.cc:689: -> HDF5 call 'H5Dwrite (dataset, memdatatype, H5S_ALL, H5S_ALL, H5P_DEFAULT, data)' returned error code -1 WARNING level 1 from host node207.cm.cluster process 0 while executing schedule bin (none), routine (no thorn)::(no routine) in thorn CarpetIOHDF5, file /mnt/pact/gp234/NR/Cactus/arrangements/Carpet/CarpetIOHDF5/src/Output.cc:725: -> HDF5 call 'attr = H5Acreate (dataset, "level", H5T_NATIVE_INT, dataspace, H5P_DEFAULT)' returned error code -1 WARNING level 1 from host node207.cm.cluster process 0 while executing schedule bin (none), routine (no thorn)::(no routine) in thorn CarpetIOHDF5, file /mnt/pact/gp234/NR/Cactus/arrangements/Carpet/CarpetIOHDF5/src/Output.cc:726: -> HDF5 call 'H5Awrite (attr, H5T_NATIVE_INT, &refinementlevel)' returned error code -1 WARNING level 1 from host node207.cm.cluster process 0 -- Geraint Pratten Postdoctoral Research Associate Mobile: +44(0) 7581709282 E-mail: G.Pratten(a)sussex.ac.uk Skype: geraint.pratten School of Mathematical and Physical Sciences Pevensey 3 Building University of Sussex Falmer Campus Brighton BN1 9QH United Kingdom

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disabling subcycling
by Steven R. Brandt 03 Oct '15

03 Oct '15

I want to disable subcycling in time. To do this, I followed Erik's advice and set Carpet::time_refinement_factors = "[1,1,1]" However, I still get this error message: ERROR from host sbrandt-think.cct.lsu.edu process 0 while executing schedule bin (none), routine (no thorn)::(no routine) in thorn CarpetLib, file /home/sbrandt/cactus/CactusFW2/arrangements/Carpet/CarpetLib/src/ggf.cc:379: -> The variable "FUNWAVE::mask" has only 1 active time levels, which is not enough for boundary prolongation of order 1 cactus_sim: /home/sbrandt/cactus/CactusFW2/arrangements/Carpet/Carpet/src/helpers.cc:324: int Carpet::Abort(const cGH*, int): Assertion `0' failed. If my time refinement is 1, then 1 time level should be adequate. Right? Cheers, Steve

2 1

Cactus Course
by Garrison, David 22 Sep '15

22 Sep '15

Hello, I am in the early stages of developing a 1 credit hour course on using Cactus for Computational Physics. Does anyone have any recommendations of material? Has anyone here taught such a class? -DG -- David Garrison, Ph.D. Director of Graduate Programs for the School of Science and Computer Engineering, Associate Professor and Former 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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Einstein Toolkit Meeting Reminder
by Frank Loeffler 22 Sep '15

22 Sep '15

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/ I short: the number is (+1) 225-578-4942 and the conference id is 118682#. Frank Loeffler

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Advice needed
by Comer Duncan 21 Sep '15

21 Sep '15

Hi Eloisa, I have been experimenting with changes to the par file for the CT_BrillAnalytic code but have yet to get a successful run. I get complaints about Two_Punctures even though there is never a use of that in the par file or in the code. I am at a loss to see what is going on and ask you to please take a look. I am attaching the err file, the out file, and the par file. Somehow because of the par file (maybe) some data seems to be incorrectly referenced. Right? It's not clear to me what is wrong with the par file. Also, what about the Robin boundary condition? The only place that it is mentioned is in the par file (per your suggestion some time ago). Have I set the bc in the par file correctly? It would be cool if you can make the CT_Brillwave thorn and make a version of cactus with that thorn attached and see if you get the same problem I am seeing. Can you please let me know what you think? Comer

1 0

scheduling and SCALAR variable
by Vassilios Mewes 19 Sep '15

19 Sep '15

Hello all, a quick question about scheduling: I have a scalar variable, which contains the elements of a rotation matrix that rotates the z-axis into a given vector... I want to calculate some quantities (that are grid functions) in coordinates that have been rotated by this matrix... I run into the following problem: when scheduling the calculation of the quantities in local mode, the function doesn't seem to have access to the rotation matrix elements... when scheduling the calculation in global, loop-local mode, I can't output the data at the grid points (the output gives 1.96808407167164e+243 at each point for every refinement level apart from the innermost, where the values are output correctly) I guess I could make the rotation matrix elements a grid function, but that seems to be a bit of an overkill with regard to the memory needed for the 9 CCTK_REALs i need to store the matrix as a SCALAR.. Any ideas on how to do this? best wishes, Vassili

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Prologation=NaN
by Steven R. Brandt 18 Sep '15

18 Sep '15

I'm interested in a version of Prolongation=None which results in poisoning of the boundary region during the prolongation step. Does such a thing exist? Cheers, Steve

4 4

Test case notes
by Ian Hinder 14 Sep '15

14 Sep '15

Hi, I have just read the notes at https://docs.einsteintoolkit.org/et-docs/adding_a_test_case and wanted to make a comment. It says there that the test cases should run in < 2 minutes. We currently have 400 tests, so if all tests took 2 minutes, the tests would take 13 hours to run. They currently run in 30 minutes, and many tests take less than a second. I would modify the guidelines to say "Tests should run as quickly as possible; ideally in less than one second. Longer tests are OK if this is absolutely necessary to test for regressions." You can see an overview of the test run times at https://build.barrywardell.net/job/EinsteinToolkit/lastCompletedBuild/testR… You can click on "Duration" to sort by duration. Note that this is listed by thorn; you can click on an individual thorn to break the times down into individual tests. I don't know how to find the longest running tests across all thorns. PS: I don't know who wrote that wiki page as they didn't log in to the wiki, so only an IP address is recorded. Please use your wiki accounts if you have one! -- Ian Hinder http://members.aei.mpg.de/ianhin

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Download -> http: vs https: curl problem
by David Bradley 12 Sep '15

12 Sep '15

I tried to download both release and dev trees and had the following Unable to process LSUThorns/Vectors Unable to process LSUThorns/PeriodicCarpet Unable to process LSUThorns/SummationByParts Unable to process LSUThorns/QuasiLocalMeasures Summary of Warnings: Could not checkout module LSUThorns/Vectors svn: E175011: Unable to connect to a repository at URL 'http://svn.cct.lsu.edu/repos/numrel/LSUThorns/Vectors/branches/ET_2015_05' svn: E175011: Repository moved temporarily to 'https://svn.cct.lsu.edu/repos/numrel/LSUThorns/Vectors/branches/ET_2015_05'; please relocate Could not checkout module LSUThorns/PeriodicCarpet svn: E175011: Unable to connect to a repository at URL 'http://svn.cct.lsu.edu/repos/numrel/LSUThorns/PeriodicCarpet/branches/ET_20…' svn: E175011: Repository moved temporarily to 'https://svn.cct.lsu.edu/repos/numrel/LSUThorns/PeriodicCarpet/branches/ET_2…'; please relocate Could not checkout module LSUThorns/SummationByParts svn: E175011: Unable to connect to a repository at URL 'http://svn.cct.lsu.edu/repos/numrel/LSUThorns/SummationByParts/branches/ET_…' svn: E175011: Repository moved temporarily to 'https://svn.cct.lsu.edu/repos/numrel/LSUThorns/SummationByParts/branches/ET…'; please relocate Could not checkout module LSUThorns/QuasiLocalMeasures svn: E175011: Unable to connect to a repository at URL 'http://svn.cct.lsu.edu/repos/numrel/LSUThorns/QuasiLocalMeasures/branches/E…' svn: E175011: Repository moved temporarily to 'https://svn.cct.lsu.edu/repos/numrel/LSUThorns/QuasiLocalMeasures/branches/…'; please relocate

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Einstein Toolkit Meeting Reminder
by Frank Loeffler 11 Sep '15

11 Sep '15

1 0

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