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[Einstein Toolkit] #1097: Describe Tmunu in GRHydro
by Einstein Toolkit 09 Aug '18

09 Aug '18

#1097: Describe Tmunu in GRHydro -----------------------------------+---------------------------------------- Reporter: eschnett | Owner: Type: defect | Status: new Priority: major | Milestone: Component: EinsteinToolkit thorn | Version: Keywords: | -----------------------------------+---------------------------------------- Describe in GRHydro's documentation how Tmunu is defined -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1097> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2158: Without MPI installed, Cactus doesn't build
by Einstein Toolkit 09 Aug '18

09 Aug '18

#2158: Without MPI installed, Cactus doesn't build ---------------------------------+-------------------- Reporter: Steven R. Brandt | Type: defect Status: new | Priority: unset Milestone: | Component: Other Version: development version | Keywords: ---------------------------------+-------------------- I attempted to test our automatic building of Cactus on a system without MPI installed. In principle, thorn MPI should build and the system should work. Instead, I get this: {{{ MPI: Building... Making all in config Making all in contrib Making all in opal Making all in include Making all in asm CC asm.lo ln -s "../../opal/asm/generated/atomic-amd64-linux.s" atomic-asm.S CPPAS atomic-asm.lo CCLD libasm.la ../../libtool: line 6000: cd: NO_BUILD/lib: No such file or directory libtool: link: cannot determine absolute directory name of `NO_BUILD/lib' Makefile:1584: recipe for target 'libasm.la' failed make[6]: *** [libasm.la] Error 1 Makefile:2153: recipe for target 'all-recursive' failed make[5]: *** [all-recursive] Error 1 Makefile:1702: recipe for target 'all-recursive' failed make[4]: *** [all-recursive] Error 1 Died at /home/etuser/Cactus/arrangements/ExternalLibraries/MPI/src/build.pl line 74. /home/etuser/Cactus/arrangements/ExternalLibraries/MPI/src/make.code.deps:9: recipe for target '/home/etuser/Cactus/configs/sim/scratch/done/MPI' failed make[3]: *** [/home/etuser/Cactus/configs/sim/scratch/done/MPI] Error 17 /home/etuser/Cactus/lib/make/make.thornlib:112: recipe for target 'make.checked' failed make[2]: *** [make.checked] Error 2 /home/etuser/Cactus/lib/make/make.configuration:181: recipe for target '/home/etuser/Cactus/configs/sim/lib/libthorn_MPI.a' failed make[1]: *** [/home/etuser/Cactus/configs/sim/lib/libthorn_MPI.a] Error 2 Makefile:256: recipe for target 'sim' failed make: *** [sim] Error 2 The command '/bin/sh -c ./simfactory/bin/sim build -j8 --thornlist ../einsteintoolkit.th' returned a non-zero code: 1 }}} The test system is made from docker {{{ FROM ubuntu RUN apt-get update RUN apt-get install -y python3 RUN apt-get install -y libfftw3-dev libssl-dev libhdf5-dev subversion gcc curl libjpeg-turbo?-dev git make pkg-config g++ libpapi-dev patch libgsl- dev libhwloc-dev python liblapack-dev numactl gfortran RUN adduser etuser USER etuser WORKDIR /home/etuser ENV USER etuser RUN curl -kLO https://raw.githubusercontent.com/gridaphobe/CRL/master/GetComponents RUN chmod a+x GetComponents RUN ./GetComponents --parallel https://bitbucket.org/einsteintoolkit/manifest/raw/master/einsteintoolkit.th RUN echo testme > .hostname WORKDIR /home/etuser/Cactus RUN ./simfactory/bin/sim setup-silent RUN ./simfactory/bin/sim build -j8 --thornlist ../einsteintoolkit.th }}} -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2158> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #660: Make MHD multipatch-aware
by Einstein Toolkit 09 Aug '18

09 Aug '18

#660: Make MHD multipatch-aware -----------------------------------+---------------------------------------- Reporter: tbode | Owner: tbode Type: defect | Status: new Priority: major | Milestone: Component: EinsteinToolkit thorn | Version: development version Keywords: | -----------------------------------+---------------------------------------- At least the Con2PrimM routines need to be multipatch-aware. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/660> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1690: The test system should treat a nonzero exit code from Cactus as a failure
by Einstein Toolkit 08 Aug '18

08 Aug '18

#1690: The test system should treat a nonzero exit code from Cactus as a failure --------------------+------------------------------------------------------- Reporter: hinder | Owner: Type: defect | Status: new Priority: minor | Milestone: Component: Cactus | Version: development version Keywords: | --------------------+------------------------------------------------------- The test system seems to ignore the fact that Cactus exits with a nonzero exit code. It displays Cactus exited with error code 1 Please check the logfile... No files created in test directory Success: 0 files identical And in the summary at the end, it treats this as a passing test. In this case, there were no test reference files and no files output, because the test (by design) does not produce any data, it just aborts if the test fails. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1690> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2145: ET web certificates to expire Jul 1st
by Einstein Toolkit 08 Aug '18

08 Aug '18

#2145: ET web certificates to expire Jul 1st ---------------------------------+---------------------------- Reporter: Frank Löffler | Type: defect Status: new | Priority: minor Milestone: | Component: Cactus website Version: development version | Keywords: ---------------------------------+---------------------------- Several ET web certificates are about to expire July 1st and should be replaced before then: einsteintoolkit.org trac.einsteintoolkit.org svn.einsteintoolkit.org (also get a new one here even though we don't use it anymore) Setting priority to 'minor' as there is still quite some time. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2145> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2135: CAPTCHA on docs.einsteintoolkit.org may stop working soon
by Einstein Toolkit 08 Aug '18

08 Aug '18

#2135: CAPTCHA on docs.einsteintoolkit.org may stop working soon ---------------------------------+-------------------------------------- Reporter: Roland Haas | Type: defect Status: new | Priority: major Milestone: | Component: EinsteinToolkit website Version: development version | Keywords: docs.einsteintoolkit.org ---------------------------------+-------------------------------------- Every once in a while, when I forgot to properly log into the wiki an want to save a page, I am confronted by a CAPTCHA to prove that I am human. A subset of those CAPTCHAs actually look like that attached screenshot, ie they seem to indicate that the CAPTCHAs may stop working on 2018-03-31 which is rather soon. [[Image(2018-03-21-092921.png)]] I am not sure if this can be fixed by a relatively painless update of a plugin or if it will require complete update of the wiki server. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2135> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2183: PAPI fails to compile with gcc 8
by Einstein Toolkit 05 Aug '18

05 Aug '18

#2183: PAPI fails to compile with gcc 8 ---------------------------------+----------------------------------- Reporter: Roland Haas | Type: defect Status: new | Priority: major Milestone: | Component: EinsteinToolkit thorn Version: development version | Keywords: PAPI ---------------------------------+----------------------------------- gcc8 includes a warning when a string format may not fit into its buffer in sprintf calls: {{{ gcc -Wno-override-init -g -Wall -Werror -Wextra -Wno-unused-parameter -I. -I/data/rhaas/postdoc/gr/cactus/ET_trunk/arrangements/ExternalLibraries/PAPI/dist/papi-5.3.0/src/libpfm4/lib/../include -DCONFIG_PFMLIB_DEBUG -DCONFIG_PFMLIB_OS_LINUX -D_REENTRANT -I. -DCONFIG_PFMLIB_ARCH_X86 -DCONFIG_PFMLIB_ARCH_X86_64 -I. -c pfmlib_perf_event_pmu.c pfmlib_perf_event_pmu.c: In function ‘gen_tracepoint_table’: pfmlib_perf_event_pmu.c:349:36: error: ‘%s’ directive output may be truncated writing up to 255 bytes into a region of size between 0 and 4095 [-Werror=format-truncation=] snprintf(d2path, MAXPATHLEN, "%s/%s", debugfs_mnt, d1->d_name); }}} and since PAPI hard-codes an option {{{-Werror}}} it fails to compile. The same issue persists with PAPI 5.6.0 which seems to be the newest version for which a tarball is available. A workaround would be to patch out the {{{-Werror}}} option, which is annoying on a production system anyway, or to try and only selectively disable the buffer warning. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2183> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2130: use directory containing mpi.h for --with-mpi-include when building PETSc
by Einstein Toolkit 05 Aug '18

05 Aug '18

#2130: use directory containing mpi.h for --with-mpi-include when building PETSc -----------------------------------+---------------------------------------- Reporter: rhaas | Owner: Type: defect | Status: new Priority: minor | Milestone: Component: EinsteinToolkit thorn | Version: development version Keywords: PETSc | -----------------------------------+---------------------------------------- Apparently --with-mpi-include takes only a single directory as an argument so when building the included PETSc tarball one has to pick one directory out of the list of directories in PETSC_EXTRA_MPI_INC_DIRS and MPI_INC_DIRS . Currently we just pick the first one. The attached patch picks the first one that contains mpi.h which works better in case the first include dir is contains only MPI internal header files (in my OpenMPI case this was /usr/lib/x86_64-linux-gnu/openmpi/include/openmpi which contains files like orte_config.h and the like). -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2130> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2179: NaNChecker: fix output of NaNMask
by Einstein Toolkit 03 Aug '18

03 Aug '18

#2179: NaNChecker: fix output of NaNMask ---------------------------------+----------------------------------- Reporter: Roland Haas | Type: defect Status: new | Priority: minor Milestone: | Component: EinsteinToolkit thorn Version: development version | Keywords: NaNChecker ---------------------------------+----------------------------------- In af45e31 - NaNChecker: reduce nan mask in level mode a bug was introduced that caused the NaNMask to be cleared in level mode where the NaNMask pointer is not valid. This fixes this and also restructures the functions so that all levels of the NaNMask starting with the one containing NaNs are output. Pull request is here: https://bitbucket.org/cactuscode/cactusutils/pull-requests/15/nanchecker- fix-output-of-nanmask/diff -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2179> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #2180: OpenMPI tarball in ExternalLibaries/MPI is outdated using 1.X series
by Einstein Toolkit 02 Aug '18

02 Aug '18

#2180: OpenMPI tarball in ExternalLibaries/MPI is outdated using 1.X series ---------------------------------+----------------------------------- Reporter: Roland Haas | Type: enhancement Status: new | Priority: optional Milestone: | Component: EinsteinToolkit thorn Version: development version | Keywords: MPI ---------------------------------+----------------------------------- The 1.X series is no longer supported by Open-MPI. Instead we should use either 2.1 or a version in the 3.X series. See https://www.open-mpi.org/software/ -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/2180> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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