Trac February 2013

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[Einstein Toolkit] #1173: ExternalLibraries build environment problems
by Einstein Toolkit 08 May '13

08 May '13

#1173: ExternalLibraries build environment problems -----------------------------------+---------------------------------------- Reporter: hinder | Owner: Type: defect | Status: new Priority: major | Milestone: Component: EinsteinToolkit thorn | Version: Keywords: zlib hwloc | -----------------------------------+---------------------------------------- After updating to the latest hwloc in ExternalLibraries, I am running into trouble building it. The error is {{{ ../libtool: line 6000: cd: NO_BUILD/lib: No such file or directory libtool: link: cannot determine absolute directory name of `NO_BUILD/lib' }}} and I believe that this is caused by my having {{{ ZLIB_DIR = NO_BUILD }}} in my optionlist. This causes the following variables to be set: {{{ ZLIB_INC_DIRS=NO_BUILD/include ZLIB_LIB_DIRS=NO_BUILD/lib ZLIB_DIR=NO_BUILD }}} and hwloc now has the following references to these variables in its configure.sh script: {{{ export HWLOC_PCI_CFLAGS="$(echo $(for dir in ${PCIUTILS_INC_DIRS} ${ZLIB_INC_DIRS}; do echo $dir; done | sed -e 's/^/-I/'))" export HWLOC_PCI_LIBS="$(echo $(for dir in ${PCIUTILS_LIB_DIRS} ${ZLIB_LIB_DIRS}; do echo $dir; done | sed -e 's/^/-L/') $(for dir in ${PCIUTILS_LIBS} ${ZLIB_LIBS}; do echo $dir; done | sed -e 's/^/-l/'))" }}} The zlib configure.sh script has: {{{ # Set options if [ "${ZLIB_DIR}" = '/usr' -o "${ZLIB_DIR}" = '/usr/local' ]; then ZLIB_INC_DIRS='' ZLIB_LIB_DIRS='' else ZLIB_INC_DIRS="${ZLIB_DIR}/include" ZLIB_LIB_DIRS="${ZLIB_DIR}/lib" fi }}} I am setting ZLIB_DIR to NO_BUILD and I am not setting ZLIB_INC_DIRS or ZLIB_LIB_DIRS because the linker can find the zlib library without any additional options, but it is not installed in /usr or /usr/local. It is in fact in: {{{ /usr/lib/x86_64-linux-gnu/libz.a /usr/lib/x86_64-linux-gnu/libz.so }}} I think eventually the correct solution, as Erik has suggested in the past, is to attempt to build a small program which uses the library to find out whether any extra options are needed. In this case, this would succeed, and no variables would need to be set. As a simpler short-term solution, would it be correct to change the conditional to {{{ if [ "${ZLIB_DIR}" = '/usr' -o "${ZLIB_DIR}" = '/usr/local' -o "${ZLIB_DIR}" = 'NO_BUILD' ]; then }}} ? -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1173> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1271: hwloc is segfaulting
by Einstein Toolkit 29 Apr '13

29 Apr '13

#1271: hwloc is segfaulting ---------------------+------------------------------------------------------ Reporter: sbrandt | Owner: Type: defect | Status: new Priority: major | Milestone: ET_2013_05 Component: Other | Version: development version Keywords: | ---------------------+------------------------------------------------------ My efforts to run the ET testsuite fail when system_topology.cc attempts to bind threads to CPUs because hwloc_get_obj_by_depth(topology, pu_depth, pu_num) returns NULL. In the attached patch I check for a null return value and print a warning, then skip setting the affinity. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1271> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1174: decrease warning messages from compilation of ET
by Einstein Toolkit 25 Apr '13

25 Apr '13

#1174: decrease warning messages from compilation of ET -----------------------------------+---------------------------------------- Reporter: knarf | Owner: Type: enhancement | Status: new Priority: minor | Milestone: ET_2013_05 Component: EinsteinToolkit thorn | Version: development version Keywords: | -----------------------------------+---------------------------------------- -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1174> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1156: Outdated thornlists under McLachlan/doc
by Einstein Toolkit 25 Apr '13

25 Apr '13

#1156: Outdated thornlists under McLachlan/doc -----------------------------------+---------------------------------------- Reporter: bentivegna | Owner: Type: defect | Status: new Priority: minor | Milestone: Component: EinsteinToolkit thorn | Version: development version Keywords: | -----------------------------------+---------------------------------------- The two thornlists under McLachlan/doc still reflect pre-ET thorn locations. Update or remove? -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1156> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #322: SimFactory metadata deleted by periodic filesystem purges
by Einstein Toolkit 19 Apr '13

19 Apr '13

#322: SimFactory metadata deleted by periodic filesystem purges -------------------------+-------------------------------------------------- Reporter: hinder | Owner: mthomas Type: enhancement | Status: new Priority: minor | Milestone: Component: SimFactory | Version: Keywords: | -------------------------+-------------------------------------------------- Production filesystems are subject to periodic purges (typically on the order of weeks or months) where data which has not been accessed recently is deleted. This means that it is possible for some restarts of very long-running simulations to be deleted by the system. This can be addressed by an automated archiving system, but such a system does not address the problem that the simulation metadata directory (currently called SIMFACTORY) and any restarts which have not been run yet, will also be purged. This would make it impossible to submit future restarts and limits the number of chained restarts you can submit to the purge time of the system. One possibility to solve this problem would be to store a backup, or "shadow" copy of all the simulation metadata in a non-volatile location. This could be the user's home directory, or a "work" directory which is not purged. The details would need to be worked out. This is not a serious issue yet. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/322> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #591: Add harmonic shift to McLachlan
by Einstein Toolkit 15 Apr '13

15 Apr '13

#591: Add harmonic shift to McLachlan -----------------------------------+---------------------------------------- Reporter: hinder | Owner: Type: enhancement | Status: new Priority: minor | Milestone: Component: EinsteinToolkit thorn | Version: Keywords: McLachlan | -----------------------------------+---------------------------------------- The attached patch adds a harmonic shift condition to McLachlan. It does this by introducing a new real-valued parameter harmonicShift. This should be set to 0 for gamma-driver shift (the default, and the existing behaviour), and to 1 for harmonic shift. This is useful for code- correctness tests with the shifted gauge wave which is an exact solution of the Einstein equations in harmonic gauge. The harmonic shift equation has been tested with the shifted gauge wave exact solution and yields convergence to the exact solution. The current way that gauge conditions is handled in McLachlan is not very elegant, and I don't think this patch should be applied as-is. I am putting it here for anyone who might find it useful. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/591> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1197: ubunbu.cfg should default to use OpenMP
by Einstein Toolkit 08 Apr '13

08 Apr '13

#1197: ubunbu.cfg should default to use OpenMP -------------------------+-------------------------------------------------- Reporter: rhaas | Owner: eschnett Type: enhancement | Status: new Priority: minor | Milestone: Component: SimFactory | Version: Keywords: | -------------------------+-------------------------------------------------- The current ubuntu.cfg option list in simfactory sets {{{ OPENMP = no }}} I would like to change this to "yes" instead. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1197> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1272: Disable shared libraries for all ExternalLibraries
by Einstein Toolkit 19 Mar '13

19 Mar '13

#1272: Disable shared libraries for all ExternalLibraries -----------------------------------+---------------------------------------- Reporter: eschnett | Owner: Type: defect | Status: new Priority: major | Milestone: Component: EinsteinToolkit thorn | Version: Keywords: | -----------------------------------+---------------------------------------- Having a shared library build by an ExternalLibraries thorn means that the executable will not be self-contained, potentially leading to segfaults during long-running simulations. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1272> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #624: Replace Cactus complex number implementation with C/C++ standard implementation
by Einstein Toolkit 08 Mar '13

08 Mar '13

#624: Replace Cactus complex number implementation with C/C++ standard implementation -------------------------+-------------------------------------------------- Reporter: eschnett | Owner: Type: enhancement | Status: new Priority: major | Milestone: Component: Cactus | Version: Keywords: | -------------------------+-------------------------------------------------- Cactus offers CCTK_COMPLEX. This maps to the standard datatype in Fortran, but not in C or C++. It should map to the standard datatypes in C and C++ as well, so that the growing body of code written in C and C++ can reasonably make use of complex numbers. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/624> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #1148: New thorn CactusTest/TestCrayPointers
by Einstein Toolkit 08 Mar '13

08 Mar '13

#1148: New thorn CactusTest/TestCrayPointers -----------------------------------+---------------------------------------- Reporter: eschnett | Owner: Type: enhancement | Status: new Priority: major | Milestone: Component: EinsteinToolkit thorn | Version: Keywords: | -----------------------------------+---------------------------------------- I want to add a thorn CactusTest/TestCrayPointers that tests whether the Cray pointer syntax is accepted by the Fortran compiler. If so, please create the respective repository. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/1148> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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Trac February 2013