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<div>Hi Rolland, </div>
<br>
<div>Sorry for the late response but I've been working on something else. </div>
<div>I haven't modified the thorn multipole, so that should not be an issue. </div>
<div>I've also tried using 'nm' and the output is :</div>
<br>
<blockquote>0000000000000000 r .L_2il0floatpacket.28</blockquote>
<blockquote>0000000000000000 N .debug_info_seg</blockquote>
<blockquote>U CCTK_CreateDirectory</blockquote>
<blockquote>U CCTK_Equals</blockquote>
<blockquote>U CCTK_VWarn</blockquote>
<blockquote>U CCTK_VarIndex</blockquote>
<blockquote>U CCTK_Warn</blockquote>
<blockquote>U CCTKi_VarDataPtrI</blockquote>
<blockquote>U _Unwind_Resume</blockquote>
<blockquote>U Simpson2DIntegral(double const*, int, int, double, double)</blockquote>
<blockquote>U Midpoint2DIntegral(double const*, int, int, double, double)</blockquote>
<blockquote>0000000000001240 T Multipole_Output1D(_cGH*, std::string const&, int, double const*, double const*, mp_coord, double const*)</blockquote>
<blockquote>0000000000002430 T Multipole_Integrate(int, int, double const*, double const*, double const*, double const*, double const*, double const*, double*, double*)</blockquote>
<blockquote>00000000000020a0 T Multipole_CoordSetup(int, int, double*, double*, double*, double*, double*)</blockquote>
<blockquote>0000000000000d30 T Multipole_OutputArray(_cGH*, _IO_FILE*, int, double const*, double const*, double const*, double const*, double const*, double const*)</blockquote>
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<blockquote>U DriscollHealy2DIntegral(double const*, int, int, double, double)</blockquote>
<blockquote>0000000000001c20 T Multipole_OutputComplex(_cGH*, _IO_FILE*, double, double)</blockquote>
<blockquote>00000000000004b0 T Multipole_OpenOutputFile(_cGH*, std::string const&)</blockquote>
<blockquote>0000000000000000 r _Z24Multipole_OpenOutputFileP4_cGHRKSs$$LSDA</blockquote>
<blockquote>0000000000002290 T Multipole_ScaleCartesian(int, int, double, double const*, double const*, double const*, double*, double*, double*)</blockquote>
<blockquote>0000000000000000 T Multipole_OutputArrayToFile(_cGH*, std::string const&, int, double const*, double const*, double const*, double const*, double const*, double const*)</blockquote>
<blockquote>00000000000017b0 T Multipole_OutputComplexToFile(_cGH*, std::string const&, double, double)</blockquote>
<blockquote>0000000000002080 T Multipole_OutputComplexToH5File(_cGH*, std::string const&, std::string const&, double, double)</blockquote>
<blockquote>0000000000000d10 t _INTERNAL_81__gpfs_pace2_project_pc1_jfuertes7_Cactus_configs_bbh_i15_build_Multipole_utils_cc_da37273b::__gnu_cxx::__exchange_and_add_dispatch(int*, int)</blockquote>
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<br>
<div>The function 'Multipole_OutputComplexToH5File' seems to be there. I've also tried recompiling the thorn and nothing seems to change.
</div>
<br>
<div>Thanks, </div>
<div>Jordi</div>
<br>
<br>
<br>
<div class="gmail_quote_attribution">On Nov 26 2018, at 11:42 am, Roland Haas <rhaas@illinois.edu> wrote:</div>
<blockquote><br>
<div>
<div>Hello Jodi,</div>
<br>
<div>I have never seen such an error (unless one has buggy code and eg</div>
<div>declares and calls a function with a different function signature than</div>
<div>is actually available as a function definition).</div>
<br>
<div>So assuming that you did not modify the Multipole thorn, my guess would</div>
<div>be that there could have been some (previous) failure in the build</div>
<div>process that may have left a corrupted .o file behind. This can happen</div>
<div>for a variety of reasons eg running of quota, the compiler being</div>
<div>terminated (killed) at the wrong time (maybe out of memory, maybe a</div>
<div>crash of the login node, maybe the admins killed some processes for</div>
<div>whatever reason, maybe the file system had issues).</div>
<br>
<div>If you want to, you could check the file sizes of the file:</div>
<br>
<div>/gpfs/pace2/project/pc1/jfuertes7/Cactus/configs/bbh_i15/build/Multipole/utils.cc.o</div>
<br>
<div>which should contain the function in question (you can run</div>
<div>nm</div>
<div>-C /gpfs/pace2/project/pc1/jfuertes7/Cactus/configs/bbh_i15/build/Multipole/utils.cc.o</div>
<div>to see what functions are defined inside). If this file has size of 0</div>
<div>bytes then this is your culprit.</div>
<br>
<div>As a first try (if you have not yet done so) I would also try and see</div>
<div>if the error goes away once you force Multipole to be recompiled eg by</div>
<div>running:</div>
<br>
<div>touch /gpfs/pace2/project/pc1/jfuertes7/Cactus/arrangements/EinsteinAnalysis/Multipole/src/*</div>
<br>
<div>then build once more.</div>
<br>
<div>Yours,</div>
<div>Roland</div>
<br>
<blockquote>
<div>Hi,</div>
<br>
<div>My name is Jordi Manyer from the astrophysics department in Georgia Tech. I'm trying to build the ET on the cluster Cygnus and I've encountered a problem that I think might be related to one of your thorns:</div>
<div>After compiling the thorns, Formaline starts creating tarballs and eventually outputs an error:</div>
<br>
<div>Formaline: Creating configuration git repository...</div>
<div>Formaline: Updating files in git repository...</div>
<div>Creating Formaline tarball for thorn Carpet</div>
<div>Creating Formaline tarball for thorn CarpetIOASCII</div>
<div>Creating Formaline tarball for thorn CarpetIOBasic</div>
<div>Creating Formaline tarball for thorn CarpetIOScalar</div>
<div>Creating Formaline tarball for thorn CarpetInterp</div>
<div>Creating Formaline tarball for thorn CarpetReduce</div>
<div>Creating Formaline tarball for thorn CarpetRegrid</div>
<div>Creating Formaline tarball for thorn CarpetRegrid2</div>
<div>Creating Formaline tarball for thorn CarpetSlab</div>
<div>Creating Formaline tarball for thorn WeightedReduce</div>
<div>________________________________________________________________________</div>
<div>Creating cactus_bbh_i15 in /gpfs/pace2/project/pc1/jfuertes7/Cactus/exe from EinsteinBase/ADMBase EinsteinBase/ADMCoupling EinsteinBase/ADMMacros GTThorns/ADM_EJP Numerical/AEILocalInterp EinsteinAnalysis/AHFinderDirect ExternalLibraries/BLAS GTThorns/Baum
CactusBase/Boundary Carpet/Carpet Carpet/CarpetIOASCII Carpet/CarpetIOBasic Carpet/CarpetIOScalar Carpet/CarpetInterp Carpet/CarpetLib Carpet/CarpetReduce Carpet/CarpetRegrid Carpet/CarpetRegrid2 Carpet/CarpetSlab Carpet/CarpetTracker CactusBase/CartGrid3D
EinsteinBase/Constants CactusBase/CoordBase EinsteinBase/CoordGauge Carpet/CycleClock CactusNumerical/Dissipation EinsteinBase/EOS_Base EinsteinEOS/EOS_IdealFluid CactusElliptic/EllBase CactusElliptic/EllSOR GTThorns/ExternalEtaBeta CactusUtils/Formaline CactusBase/Fortran
ExternalLibraries/GSL KrancNumericalTools/GenericFD CactusConnect/HTTPD CactusConnect/HTTPDExtra GTThorns/IHSpin CactusBase/IOASCII CactusBase/IOBasic CactusBase/IOUtil CactusBase/InitBase Kranc/Kranc2BSSNChi ExternalLibraries/LAPACK CactusNumerical/LocalInterp
CactusNumerical/LocalReduce Carpet/LoopControl ExternalLibraries/MPI GTThorns/MinTracker CactusNumerical/MoL EinsteinAnalysis/Multipole CactusUtils/NaNChecker CactusUtils/Nice CactusPUGH/PUGH CactusPUGH/PUGHInterp CactusPUGH/PUGHReduce CactusPUGH/PUGHSlab
CactusNumerical/Periodic GTThorns/ProperDistance GTThorns/Psi4Analysis EinsteinAnalysis/QuasiLocalMeasures CactusNumerical/ReflectionSymmetry CactusNumerical/RotatingSymmetry180 CactusNumerical/RotatingSymmetry90 GTThorns/RunStats GTThorns/ShiftTracker CactusNumerical/Slab
CactusConnect/Socket CactusNumerical/SpaceMask GTThorns/SphereIntegrate GTThorns/SphereRad CactusNumerical/SphericalSurface EinsteinBase/StaticConformal CactusNumerical/SummationByParts CactusBase/SymBase CactusUtils/SystemTopology EinsteinUtils/TGRtensor
GTThorns/TeukolskyADMBase CactusBase/Time CactusUtils/TimerReport Carpet/Timers EinsteinBase/TmunuBase CactusUtils/Trigger GTThorns/TwoPunctures CactusUtils/Vectors GTThorns/WaveExtract GTThorns/WeightedReduce EinsteinAnalysis/WeylScal4 GTThorns/Ylm_Decomp
ExternalLibraries/hwloc ExternalLibraries/libjpeg ExternalLibraries/zlib</div>
<div>fatal: bad revision 'HEAD'</div>
<div>Formaline: Committing source tree to git repository...</div>
<div>Formaline: Created git tag build-bbh_i15-login-s1.pace.gatech.edu-jfuertes7-2018.11.21-15.14.51-28991</div>
<div>Formaline: Updated git branch config-bbh_i15-login-s1.pace.gatech.edu-gpfs-pace2-project-pc1-jfuertes7-Cactus</div>
<div>Formaline: Optimising git repository (slow only the first time)...</div>
<div>/gpfs/pace2/project/pc1/jfuertes7/Cactus/configs/bbh_i15/lib/libthorn_Multipole.a(multipole.cc.o): In function `_INTERNAL_85__gpfs_pace2_project_pc1_jfuertes7_Cactus_configs_bbh_i15_build_Multipole_multipole_cc_d1a966a7::output_modes(_cGH*, Multipole::variable_desc
const*, double const*, Multipole::mode_array const&)':</div>
<div>/gpfs/pace2/project/pc1/jfuertes7/Cactus/configs/bbh_i15/build/Multipole/multipole.cc:128: undefined reference to `Multipole_OutputComplexToH5File(_cGH*, Multipole::variable_desc const*, double const*, Multipole::mode_array const&)'</div>
<div>make[1]: *** [/gpfs/pace2/project/pc1/jfuertes7/Cactus/exe/cactus_bbh_i15] Error 1</div>
<div>make[1]: *** Waiting for unfinished jobs....</div>
<div>Formaline: Pushing to master git repository...</div>
<div>Formaline: Optimising git repository (slow only the first time)...</div>
<div>Formaline: Pushing to local git repository /gpfs/pace2/project/pc1/jfuertes7/Cactus/../CactusSourceJar.git...</div>
<div>Formaline: Optimising git repository (slow only the first time)...</div>
<div>Formaline: Done.</div>
<div>Formaline: (Formaline has finished updating the git repositories.</div>
<div>Formaline: If the build process seems to hang, some other command</div>
<div>Formaline: is still running, e.g. the final link stage.)</div>
<div>make: *** [bbh_i15] Error 2</div>
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<div>Have you ever encountered something similar? The compiler in intel 15.0 with mvapich2 2.1 and mkl 11.2</div>
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<div>Thanks,</div>
<div>Jordi</div>
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<div>--</div>
<div>My email is as private as my paper mail. I therefore support encrypting</div>
<div>and signing email messages. Get my PGP key from http://pgp.mit.edu .</div>
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