Trac June 2011

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[Einstein Toolkit] #412: Split Appendices
by Einstein Toolkit 22 Oct '12

22 Oct '12

#412: Split Appendices -------------------------+-------------------------------------------------- Reporter: eschnett | Owner: Type: enhancement | Status: new Priority: minor | Milestone: Component: Cactus | Version: Keywords: | -------------------------+-------------------------------------------------- Currently, the appendices of the users' guide are repeated into the reference manual. This is somewhat confusing, and causes problems because the appendices cannot easily reference other sections (e.g. "see page 15" doesn't make sense since one doesn't know in which document this will be read). I suggest to split the appendices and have some of them in the users' guide while moving others into the reference manual, so that each appendix is included in only one document -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/412> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #420: newest revision of simfactory 2.0 submit three instead of one job
by Einstein Toolkit 11 Aug '12

11 Aug '12

#420: newest revision of simfactory 2.0 submit three instead of one job ----------------------------------------------+----------------------------- Reporter: alexander.beck-ratzka@… | Owner: mthomas Type: defect | Status: new Priority: minor | Milestone: Component: SimFactory | Version: ET_2010_11 Keywords: | ----------------------------------------------+----------------------------- I am submitting a simulation using simfactory with the command: [snip] simfactory/bin/sim submit test-whisky-openmp --configuration test-whisky- openmp --parfile=whisky-openmp-test-ali.par --verbose --walltime=48:00:00 --procs=16 --ppn=4 --num-threads=4 --machine=damiana --queue=intel.q [snip] sim then comes with the messages: [snip] Info: Simfactory command: simfactory/bin/../lib/sim.py "submit" "test- whisky-openmp" "--configuration" "test-whisky-openmp" "--parfile=whisky- openmp-test-ali.par" "--verbose" "--walltime=48:00:00" "--procs=16" "-- ppn=4" "--num-threads=4" "--machine=damiana" "--queue=intel.q" Info: Version 1331M The Simulation Factory: Manage Cactus simulations Info: defs: /home/alibeck/programme/Cactus- Luca/Cactus/simfactory/etc/defs.ini Info: defs.local: /home/alibeck/programme/Cactus- Luca/Cactus/simfactory/etc/defs.local.ini Info: Cactus Directory: /home/alibeck/programme/Cactus-Luca/Cactus Info: simenv.COMMAND: submit Info: Executing command: submit Info: Assigned restart_id of: 0002 Info: Found the following restart_ids: [0, 1] Info: Maximum restart id determined to be: 0001 Assigned restart id: 2 Info: Simulation is inactive: submitting Info: Job allocation information: Info: System: nodes=170 cores/node=4 threads/process=4 Info: Requested: nodes=4 cores=16 cores/node=4 Info: Run: processes=4 threads=16 threads/process=4 Info: Distribution: processes/node=1 threads/node=4 Info: Ratio: threads/core=1.000 cores/thread=1.000 Info: writing to internalDir: /lustre/AEI/alibeck/simulations/test-whisky- openmp/output-0002/SIMFACTORY Info: saving substituted submitscript contents to: /lustre/AEI/alibeck/simulations/test-whisky- openmp/output-0002/SIMFACTORY/SubmitScript Executing submit command: qsub /lustre/AEI/alibeck/simulations/test- whisky-openmp/output-0002/SIMFACTORY/SubmitScript Submit finished, job id is 259460 Info: Restart 2 is active Info: Assigned restart_id of: 0003 Info: Found the following restart_ids: [0, 1, 2, 2] Info: Maximum restart id determined to be: 0002 Assigned restart id: 3 Info: Simulation is active: presubmitting Info: Job allocation information: Info: System: nodes=170 cores/node=4 threads/process=4 Info: Requested: nodes=4 cores=16 cores/node=4 Info: Run: processes=4 threads=16 threads/process=4 Info: Distribution: processes/node=1 threads/node=4 Info: Ratio: threads/core=1.000 cores/thread=1.000 Info: writing to internalDir: /lustre/AEI/alibeck/simulations/test-whisky- openmp/output-0003/SIMFACTORY Info: saving substituted submitscript contents to: /lustre/AEI/alibeck/simulations/test-whisky- openmp/output-0003/SIMFACTORY/SubmitScript Executing submit command: qsub /lustre/AEI/alibeck/simulations/test- whisky-openmp/output-0003/SIMFACTORY/SubmitScript Submit finished, job id is 259461 Info: Restart 2 is active Info: Assigned restart_id of: 0004 Info: Found the following restart_ids: [0, 1, 2, 2, 3] Info: Maximum restart id determined to be: 0003 Assigned restart id: 4 Info: Simulation is active: presubmitting Info: Job allocation information: Info: System: nodes=170 cores/node=4 threads/process=4 Info: Requested: nodes=4 cores=16 cores/node=4 Info: Run: processes=4 threads=16 threads/process=4 Info: Distribution: processes/node=1 threads/node=4 Info: Ratio: threads/core=1.000 cores/thread=1.000 Info: writing to internalDir: /lustre/AEI/alibeck/simulations/test-whisky- openmp/output-0004/SIMFACTORY Info: saving substituted submitscript contents to: /lustre/AEI/alibeck/simulations/test-whisky- openmp/output-0004/SIMFACTORY/SubmitScript Executing submit command: qsub /lustre/AEI/alibeck/simulations/test- whisky-openmp/output-0004/SIMFACTORY/SubmitScript Submit finished, job id is 259462 [snip] As a result three jobs are queued. [snip] qstat job-ID prior name user state submit/start at queue slots ja-task-ID ----------------------------------------------------------------------------------------------------------------- 259460 0.00000 test-whisk alibeck qw 04/29/2011 10:26:55 16 259461 0.00000 test-whisk alibeck hqw 04/29/2011 10:26:56 16 259462 0.00000 test-whisk alibeck hqw 04/29/2011 10:26:56 16 [snip] What is going wrong here? -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/420> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #380: AHFinderDirect failure with qc0-mclachlan.par
by Einstein Toolkit 10 Aug '12

10 Aug '12

#380: AHFinderDirect failure with qc0-mclachlan.par --------------------+------------------------------------------------------- Reporter: hinder | Owner: Type: defect | Status: new Priority: major | Milestone: ET_2011_05 Component: Other | Version: Keywords: | --------------------+------------------------------------------------------- Trying to run the par/qc0-mclachlan.par in the ET trunk gives the following error: INFO (AHFinderDirect): proc 0: searching for horizons 1,5/6 WARNING level 0 in thorn CarpetInterp processor 0 host kop193.datura.admin (line 1683 of /home/ianhin/Cactus/etrelease/arrangements/Carpet/CarpetInterp/src/interp.cc): -> Grid function "AHFINDERDIRECT::ahmask" has only 1 active time levels on refinement level 1; this is not en ough for time interpolation See also #373, which might be related. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/380> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #177: EXC_BAD_ACCESS in CarpetIOASCII
by Einstein Toolkit 06 Aug '12

06 Aug '12

#177: EXC_BAD_ACCESS in CarpetIOASCII --------------------+------------------------------------------------------- Reporter: hinder | Owner: eschnett Type: defect | Status: new Priority: major | Milestone: Component: Carpet | Version: Keywords: | --------------------+------------------------------------------------------- I am trying to run a minimal parameter file for testing purposes (attached). Cactus gets as far as printing the iteration 0 info line and then appears to hang. When I run in a debugger, it reports: Program received signal EXC_BAD_ACCESS, Could not access memory. Reason: 13 at address: 0x0000000000000000 0x0000000100b858b7 in CarpetIOASCII::WriteASCII<0> (os=@0x7fff5fbfc5e0, gfdatas={<std::_Vector_base<const gdata *, std::allocator<const gdata *> >> = {_M_impl = {<allocator<const gdata *>> = {<__gnu_cxx::new_allocator<const gdata *>> = {<No data fields>}, <No data fields>}, _M_start = 0x109f0ea10, _M_finish = 0x109f0eab8, _M_end_of_storage = 0x109f0eab8}}, <No data fields>}, gfext=@0x7fff5fbfc960, vi=0, time=0, org=@0x7fff5fbfcafc, dirs=@0x7fff5fbfd150, rl=0, ml=0, m=0, c=0, tl=0, coord_time=0, coord_lower=@0x7fff5fbfc9d8, coord_upper=@0x7fff5fbfc9f0) at ioascii.cc:1378 1378 switch (vartype) { (gdb) bt #0 0x0000000100b858b7 in CarpetIOASCII::WriteASCII<0> (os=@0x7fff5fbfc5e0, gfdatas={<std::_Vector_base<const gdata *, std::allocator<const gdata *> >> = {_M_impl = {<allocator<const gdata *>> = {<__gnu_cxx::new_allocator<const gdata *>> = {<No data fields>}, <No data fields>}, _M_start = 0x109f0ea10, _M_finish = 0x109f0eab8, _M_end_of_storage = 0x109f0eab8}}, <No data fields>}, gfext=@0x7fff5fbfc960, vi=0, time=0, org=@0x7fff5fbfcafc, dirs=@0x7fff5fbfd150, rl=0, ml=0, m=0, c=0, tl=0, coord_time=0, coord_lower=@0x7fff5fbfc9d8, coord_upper=@0x7fff5fbfc9f0) at ioascii.cc:1378 #1 0x0000000100b5b7ee in CarpetIOASCII::IOASCII<0>::OutputDirection (cctkGH=0x109f073f0, vindex=0, alias={_M_dataplus = {<allocator<char>> = {<__gnu_cxx::new_allocator<char>> = {<No data fields>}, <No data fields>}, _M_p = 0x10a06c1c8 "carpet::timing"}}, basefilename={_M_dataplus = {<allocator<char>> = {<__gnu_cxx::new_allocator<char>> = {<No data fields>}, <No data fields>}, _M_p = 0x10a06ba68 "minimal/carpet::timing"}}, dirs=@0x7fff5fbfd150, is_new_file=true, truncate_file=true) at ioascii.cc:610 #2 0x0000000100b554c4 in CarpetIOASCII::IOASCII<0>::OutputVarAs (cctkGH=0x109f073f0, varname=0x10a06c170 "CARPET::physical_time_per_hour", alias=0x10a06be00 "carpet::timing") at ioascii.cc:480 #3 0x0000000100b57370 in CarpetIOASCII::IOASCII<0>::TriggerOutput (cctkGH=0x109f073f0, vindex=0) at ioascii.cc:359 #4 0x0000000100b542b7 in CarpetIOASCII::IOASCII<0>::OutputGH (cctkGH=0x109f073f0) at ioascii.cc:239 #5 0x000000010329a006 in Carpet::OutputGH (cctkGH=0x109f073f0) at OutputGH.cc:55 #6 0x0000000103293b25 in Carpet::OutputGH (where=0x104c70f3c "Initialise::CallAnalysis", cctkGH=0x109f073f0) at Initialise.cc:1382 #7 0x000000010328d432 in Carpet::CallAnalysis (cctkGH=0x109f073f0) at Initialise.cc:530 #8 0x00000001032892d4 in Carpet::Initialise (fc=0x7fff5fbfe2b0) at Initialise.cc:118 #9 0x000000010005806a in main (argc=4, argv=0x7fff5fbfe318) at flesh.cc:80 I do not see how this line "switch(vartype)" where vartype is declared on the stack, could lead to this error. This configuration has been rebuilt with -O0 (Intel compiler) and debugging enabled. This is with the current production (Git) version of Carpet running on Mac OS 10.6.5. The code is compiled as 64 bit. This parameter file has worked in the past, though with 32 bit on Mac OS 10.5. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/177> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #350: Autogenerating cctk_Loop.h
by Einstein Toolkit 17 Jun '12

17 Jun '12

#350: Autogenerating cctk_Loop.h -------------------------+-------------------------------------------------- Reporter: eschnett | Owner: Type: enhancement | Status: new Priority: minor | Milestone: Component: Cactus | Version: Keywords: | -------------------------+-------------------------------------------------- I wrote a perl script to auto-generate the Cactus header file Cactus/src/include/cctk_Loop.h.The script writes the code to stdout. I attach it to this ticket, as well as the output it generates. I suggest to keep this perl script next to its output in the include directory, and to run it manually whenever required. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/350> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #215: Driscoll&Healy integration for Multipole
by Einstein Toolkit 16 Jun '12

16 Jun '12

#215: Driscoll&Healy integration for Multipole -------------------------+-------------------------------------------------- Reporter: eschnett | Owner: Type: enhancement | Status: new Priority: major | Milestone: Component: Cactus | Version: Keywords: | -------------------------+-------------------------------------------------- The attached patch implements a more accurate integration over the sphere, using an algorithm by Driscoll & Healy. This algorithm uses Gaussian integration weights, leading (almost) to exponential convergence. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/215> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #429: Parallelising AEILocalInterp
by Einstein Toolkit 17 May '12

17 May '12

#429: Parallelising AEILocalInterp -----------------------------------+---------------------------------------- Reporter: eschnett | Owner: Type: enhancement | Status: new Priority: major | Milestone: Component: EinsteinToolkit thorn | Version: Keywords: | -----------------------------------+---------------------------------------- The enclosed patch parallelises AEILocalInterp via OpenMP. This leads to a slight change in behaviour. Currently, AEILocalInterp traverses the list of points sequentially, and aborts when the first error is encountered. After parallelisation, there is no fixed order in which the points are traversed, and if several errors are encountered, any one of the errors may be returned, not necessarily the first. I am not aware of any thorn that would or should rely on such an ordering. This patch also adds "restrict" and "const" statements that may improve performance as it gives the compiler more information about dependencies between pointers. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/429> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #281: compile error is not linked
by Einstein Toolkit 16 May '12

16 May '12

#281: compile error is not linked --------------------+------------------------------------------------------- Reporter: knarf | Owner: sbrandt Type: defect | Status: new Priority: minor | Milestone: Component: Moyave | Version: Keywords: | --------------------+------------------------------------------------------- Info: Simfactory command: /home/knarf/utils/simfactory/lib/sim.py "build" "sim" "--thornlist" "NewSchedule/NewSchedule.th" "--optimise" Info: Version 1195M The Simulation Factory: Manage Cactus simulations Info: defs: /home/knarf/utils/simfactory/etc/defs.ini Info: defs.local: /home/knarf/utils/simfactory/etc/defs.local.ini Info: Executing command: build Using configuration: sim Info: Cactus Directory: /home/knarf/Cactus_NewSchedule Info: HasStoredOptions: True Info: Use stored options list: /home/knarf/Cactus_NewSchedule/configs/sim/OptionList Info: optionlist is: /home/knarf/Cactus_NewSchedule/configs/sim/OptionList Info: hasOutdatedConfig: False Info: build_reconfig: False Info: build_clean: False Info: removeConfig: False SubmitScript is: None Info: RunScript is: /home/knarf/utils/simfactory/mdb/runscripts/debian- lenny-gcc.sh Info: ThornList is: /home/knarf/Cactus_NewSchedule/NewSchedule/NewSchedule.th Building sim ________________________________________________________________________ Cactus - version: 4.0.b17 Building configuration sim ________________________________________________________________________ Checking status of thorn BLAS ________________________________________________________________________ Checking status of thorn Boundary ________________________________________________________________________ ________________________________________________________________________ Checking status of thorn Vectors ________________________________________________________________________ /home/knarf/Cactus_NewSchedule/arrangements/CactusBase/Boundary/src/Check.c:18:2: error: #error "die" Preprocessing /home/knarf/Cactus_NewSchedule/arrangements/CactusBase/Boundary/src/Check.c Compiling /home/knarf/Cactus_NewSchedule/arrangements/CactusBase/Boundary/src/Check.c Checking status of thorn IOUtil ________________________________________________________________________ ________________________________________________________________________ /home/knarf/Cactus_NewSchedule/arrangements/CactusBase/Boundary/src/Check.c:18:2: error: #error "die" make[3]: *** [Check.c.o] Error 1 make[2]: *** [make.checked] Error 2 make[1]: *** [/home/knarf/Cactus_NewSchedule/configs/sim/lib/libthorn_Boundary.a] Error 2 make[1]: *** Waiting for unfinished jobs.... ________________________________________________________________________ make[1]: *** wait: No child processes. Stop. make: *** [sim] Error 2 Info: executing command: /bin/bash -c '{ :; } && { cd /home/knarf/Cactus_NewSchedule && nice make -j3 sim 2>&1; }' Error while executing command "/bin/bash -c '{ :; } && { cd /home/knarf/Cactus_NewSchedule && nice make -j3 sim 2>&1; }'": Command returned exit status 2 -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/281> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #262: make error messages in ReflectionSymmetry more informative
by Einstein Toolkit 11 May '12

11 May '12

#262: make error messages in ReflectionSymmetry more informative --------------------------------------------+------------------------------- Reporter: roland.haas@… | Type: enhancement Status: new | Priority: minor Milestone: | Component: Cactus Version: | Keywords: --------------------------------------------+------------------------------- this small patch includes the value of ierr in ReflectionSymmetries error messages -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/262> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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[Einstein Toolkit] #339: ExternalLibraries/OpenSSL does not compile in 64-bit mode on Mac OS
by Einstein Toolkit 23 Apr '12

23 Apr '12

#339: ExternalLibraries/OpenSSL does not compile in 64-bit mode on Mac OS ---------------------------------------+------------------------------------ Reporter: hinder | Owner: Type: defect | Status: new Priority: major | Milestone: Component: Cactus | Version: Keywords: ExternalLibraries/OpenSSL | ---------------------------------------+------------------------------------ Compiling OpenSSL using ExternalLibraries leads to the following warning, followed by a build failure: + cd openssl-1.0.0d + ./config --prefix=/Users/ian/Cactus/et/configs/fink/scratch/external/OpenSSL Operating system: i686-apple-darwinDarwin Kernel Version 10.6.0: Wed Nov 10 18:13:17 PST 2010; root:xnu-1504.9.26~3/RELEASE_I386 WARNING! If you wish to build 64-bit library, then you have to invoke './Configure darwin64-x86_64-cc' *manually*. You have about 5 seconds to press Ctrl-C to abort. Configuring for darwin-i386-cc I don't know how to detect that the compiler is building in 64-bit mode in order to add the corresponding flag to the Configure line. -- Ticket URL: <https://trac.einsteintoolkit.org/ticket/339> Einstein Toolkit <http://einsteintoolkit.org> The Einstein Toolkit

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