Trac January 2019

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17 discussions

[Einstein Toolkit] #2215: Hydro_RNSID cleanup
by Einstein Toolkit 28 Jan '19

28 Jan '19

#2215: Hydro_RNSID cleanup ---------------------------------+----------------------------------- Reporter: Roland Haas | Type: defect Status: new | Priority: optional Milestone: | Component: EinsteinToolkit thorn Version: development version | Keywords: Hydro_RNSID ---------------------------------+----------------------------------- * Hydro_RNSID: respect CPPFLAGS when building utilities * Hydro_RNSID: remove unused variables Adding CPPFLAGS to CFLAGS when compiling is what the Cactus build system does (see lib/make/make.config.rules.in and search for $(CPPFLAGS)). Pull request is here: https://bitbucket.org/einsteintoolkit/einsteininitialdata/pull-requests/5 -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2215> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2223: reduce compiler warnings from Hydro_RNSID
by Einstein Toolkit 28 Jan '19

28 Jan '19

#2223: reduce compiler warnings from Hydro_RNSID ---------------------------------+-------------------- Reporter: Roland Haas | Type: defect Status: new | Priority: unset Milestone: | Component: Other Version: development version | Keywords: ---------------------------------+-------------------- This is mostly just removing some variable declarations. However I also turned a while loop into a do..while loop (the code already assumed that the while loop would loop at least once). -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2223> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1974: Add WVUThorns_Diagnostics to the ET
by Einstein Toolkit 25 Jan '19

25 Jan '19

#1974: Add WVUThorns_Diagnostics to the ET --------------------------------+------------------------------------------- Reporter: zachetie@… | Owner: Type: enhancement | Status: new Priority: unset | Milestone: Component: Other | Version: development version Keywords: | --------------------------------+------------------------------------------- I have open-sourced a very useful set of diagnostic routines for GRMHD, GRHD, and even vacuum simulations. The thorns are available here: https://bitbucket.org/zach_etienne/wvuthorns_diagnostics Here's a brief description of each thorn: Brief description of included thorns '''Seed_Magnetic_Fields-modified''' Extended Seed_Magnetic_Fields thorn for binary neutron stars. Supercedes Seed_Magnetic_Fields thorn. '''Meudon_Bin_NS-modified''' Modifications to Meudon BNS initial data thorn to disable the overwriting of initial lapse/shift, which acts to significantly reduce coordinate eccentricity. Supercedes Meudon_Bin_NS thorn. '''VolumeIntegrals_GRMHD''' Nice GRMHD volume integration thorn, currently depends on IllinoisGRMHD and Carpet. Performs volume integrals on arbitrary "Swiss-cheese"-like topologies, and even interoperates with Carpet to track NS centers of mass. '''VolumeIntegrals_vacuum''' Nice GRMHD volume integration thorn, currently depends on ML_BSSN. There is a bit of code duplication and duplicated functionality between VI_GRMHD and VI_vacuum, to ensure that VI_vacuum can be used without enabling a GRMHD code. There is probably a better way of doing this, but I haven't had the time to think deeply about this. '''particle_tracerET''' Solves the ODE \partial_t x^i = v^i for typically thousands of tracer particles, using an RK4 integration atop the current timestepping. E.g., one RK4 substep in the particle integration might occur every 16 RK4 substeps in the GRMHD evolution. These tracer particle positions are quite useful for visualizing magnetic field lines in a consistent way from frame-to-frame in a movie (recall that in the GRMHD approximation, the magnetic field lines stay attached the fluid elements they thread ["Flux Freezing"]). Note that the velocity must be consistent with the velocity appearing in the GRMHD induction equation. This thorn reads in the HydroBase vel[] vector gridfunction, which assumes the Valencia formalism, and converts it into the induction equation velocity. '''smallbPoynET''' Computes b^i^, b^2^, and three spatial components of Poynting flux. It also computes (-1-u,,0,,), which is useful for tracking unbound matter. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1974> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2161: make ET mailing lists searchable
by Einstein Toolkit 25 Jan '19

25 Jan '19

#2161: make ET mailing lists searchable ---------------------------------+---------------------------- Reporter: Roland Haas | Type: enhancement Status: new | Priority: minor Milestone: | Component: Cactus website Version: development version | Keywords: ---------------------------------+---------------------------- Right now there is no explicit search field for the Einstein Toolkit mailing lists. Google apparently indexes them. At the ET meeting at GeorgiaTech in 2018 it was suggested that a FAQ as well as the ability to search the mailing list would be useful. Such a functionality should be added to the ET wiki and ET website respectively. Something like this: {{{ <form action="https://www.google.com/search" class="searchform" method="get" name="searchform" target="_blank"> <input name="sitesearch" type="hidden" value="example.com"> <input autocomplete="on" class="form-control search" name="q" placeholder="Search in example.com" required="required" type="text"> <button class="button" type="submit">Search</button> </form> }}} seems to work and one can limit to particular lists by setting site to something like {{{site:lists.einsteintoolkit.org/pipermail/users}}} -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2161> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2101: Add Lean_public and Proca thorns to the ET
by Einstein Toolkit 25 Jan '19

25 Jan '19

#2101: Add Lean_public and Proca thorns to the ET -------------------------------------------------------+-------------------- Reporter: miguel.zilhao.nogueira@… | Owner: Type: enhancement | Status: new Priority: unset | Milestone: ET_2018_08 Component: EinsteinToolkit thorn | Version: development version Keywords: Lean_public | -------------------------------------------------------+-------------------- As discussed during the European ET meeting in Mallorca and during the 2018-01-22 ET telecon, we have a couple of Cactus thorns that we'd like to make available to the general ET community. These include: an updated evolution code that we used to evolve Proca fields (https://arxiv.org/abs/1505.00797), the corresponding analysis and initial data thorns, as well as a general metric evolution thorn (based on Uli Sperhake's Lean). We have been cleaning up the codes, and they are now available in following (public) bitbucket repositories: https://bitbucket.org/canuda/lean_public https://bitbucket.org/canuda/proca Included are some testsuites as well as some basic README files. We are currently working on a paper that would also serve as documentation. We would be very grateful if these could be considered for inclusion in the 2018_08 release. Sincerely, Helvi Witek Miguel Zilhão -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2101> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2217: EinsteinAnalysis/Hydro_Analysis Thorn new feature
by Einstein Toolkit 25 Jan '19

25 Jan '19

#2217: EinsteinAnalysis/Hydro_Analysis Thorn new feature ---------------------------------+----------------------------------- Reporter: fcipolletta | Type: enhancement Status: new | Priority: unset Milestone: ET_2019_02 | Component: EinsteinToolkit thorn Version: development version | Keywords: Hydro_Analysis ---------------------------------+----------------------------------- Added EinsteinAnalysis/Hydro_Analysis/Hydro_Analysis_Masses.F90 in order to compute the total baryonic mass and baryonic mass within user defined radii. Added parameters to params.ccl in order to control the aforementioned computation. Added a testuite for this new feature. I have already submitted a pull request for this new feature. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2217> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2222: Testsuite code should remove output directories before tests
by Einstein Toolkit 24 Jan '19

24 Jan '19

#2222: Testsuite code should remove output directories before tests ---------------------------------+-------------------- Reporter: Roland Haas | Type: defect Status: new | Priority: major Milestone: | Component: Cactus Version: development version | Keywords: ---------------------------------+-------------------- The current testsuite driver code does not remove output directories ins TEST/sim/THORN which can hide issues if a new revision of the code simply no longer produces an output file if an older test is still present. There is also one test (Hydro_RNSID/rnsA2.par) that internally writes and reads data to a file while it runs. If the file is already present, then not all code is tested. To test this, place a new file into an output directory, run the tests and the file will still be present. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2222> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2221: update hwloc to 1.11.12
by Einstein Toolkit 24 Jan '19

24 Jan '19

#2221: update hwloc to 1.11.12 ---------------------------------+----------------------------------- Reporter: Roland Haas | Type: defect Status: new | Priority: major Milestone: | Component: EinsteinToolkit thorn Version: development version | Keywords: hwloc ---------------------------------+----------------------------------- version 1.11 add support of KNL processor (see https://raw.githubusercontent.com/open-mpi/hwloc/v1.11/NEWS): > Version 1.11.0 > * Detection improvements > + Add support for Intel Knights Landing Xeon Phi. > Thanks to Grzegorz Andrejczuk and Lukasz Anaczkowski. since we claim to support KNL CPUs (eg on stampede2) this should be included. The tarball of the source code (not in the patch) is here: https://download.open-mpi.org/release/hwloc/v1.11/hwloc-1.11.12.tar.gz -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2221> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1718: MemSpeed: Re-use allocated memory
by Einstein Toolkit 23 Jan '19

23 Jan '19

#1718: MemSpeed: Re-use allocated memory -----------------------------------+---------------------------------------- Reporter: eschnett | Owner: Type: enhancement | Status: new Priority: minor | Milestone: Component: EinsteinToolkit thorn | Version: development version Keywords: | -----------------------------------+---------------------------------------- Allocating memory is slow. In thorn MemSpeed, we should re-use memory that has been allocated instead of allocating new memory for each benchmark. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1718> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2220: add option --nioprocs to CarpetIOHDF5
by Einstein Toolkit 18 Jan '19

18 Jan '19

#2220: add option --nioprocs to CarpetIOHDF5 ---------------------------------+----------------------------------- Reporter: Roland Haas | Type: enhancement Status: new | Priority: minor Milestone: | Component: EinsteinToolkit thorn Version: development version | Keywords: CarpetIOHDF5 ---------------------------------+----------------------------------- This lets one use hdf5_slicer to extract datasets from foo.file_0.h5 and foo.file_1.h5 into bar.file_0.h5 and bar.file_1.h5 and still be able to use them afterwards (useful eg to separate out files written with one_file_per_group, to extract only certain timesteps). Currently, one has to resort to the lower level hdf5_extract and write some shell code like this {{{ for i in grid-coordinates.file*.h5 ; do for d in x y z ; do h5ls $i | gawk -vd=$d '{sub(" (Dataset|Group).*",""); gsub("\\\\",""); if(match($0,"GRID::"d) || /Parameters/) { print }}' >dsets.txt hdf5_extract dsets.txt $i $d.${i#*.} done done }}} to achieve this. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2220> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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Trac January 2019