I apologie -- but I still am having issues. But I am very much a newbie. Is
someone able to expand this explanation a bit?
*Steps to solve the installation error:*
1. go the library folder and change the id of libXXX.dylib
install_name_tool -id "@rpath/libXXX.dylib" libXXX.dylib
2. go the executable folder (), change the link path and add path to the
executable file (libYYY.dylib)
install_name_tool -change libXXX.dylib @rpath/libXXX.dylib libYYY.dylib
install_name_tool -add_rpath "@rpath/libXXX.dylib" libYYY.dylib
You may need to use otool -L command to find out which path need to change
and need to change a lot of dynamic libraries.
Is it possible for someone to point to the folder paths (when I go to the
/lib folder I don't have a lib***.dylib file anywhere. Also, do I need to
add the path for each folder that has an executable? Can't I put this in my
.bashrc file or some other method? Thanks for any help.
On Wednesday, August 22, 2018 at 3:30:39 PM UTC-4, Zhibo Luo wrote:
>
>
> Hi all,
>
> I recently update my MacOs system to latest macOS High Sierra (10.13.6)
> and crash my dealii. so I decide to reinstall dealii through candi script.
> The installation works fine except some warnings. The problem is that when
> I cd to step-1, cmake and make command get passed, however, when I make
> run, error comes:
>
> [ 66%] Built target step-1
>
> [100%] *Run step-1 with Debug configuration*
>
> dyld: Library not loaded: libsuperlu_dist.5.dylib
>
> Referenced from:
> /Users/zhiboluo/deal.ii-candi/deal.II-v9.0.0/examples/step-1/./step-1
>
> Reason: image not found
>
> make[3]: *** [CMakeFiles/run] Abort trap: 6
>
> make[2]: *** [CMakeFiles/run.dir/all] Error 2
>
> make[1]: *** [CMakeFiles/run.dir/rule] Error 2
>
> I found similar issue here:
> https://groups.google.com/forum/#!searchin/dealii/dyld$3A$20Library$20not$20loaded$20%7Csort:date/dealii/fIXfMnaFdEc/zgHjkY3_CAAJ
>
> And I tried the suggested method by export
> DYLD_LIBRARY_PATH=$DYLD_LIBRARY_PATH:~/deal.ii-candi/superlu_dist_5.1.2/lib,
> but it doesn't work for me.
>
> I used otool command to output the link libraries:
>
> zhiboluo$ otool -L step-1
>
> step-1:
>
> /Users/zhiboluo/deal.ii-candi/deal.II-v9.0.0/lib/libdeal_II.g.9.0.0.dylib
> (compatibility version 9.0.0, current version 9.0.0)
>
> /Users/zhiboluo/deal.ii-candi/p4est-2.0/DEBUG/lib/libp4est-2.0.dylib
> (compatibility version 0.0.0, current version 0.0.0)
>
> /Users/zhiboluo/deal.ii-candi/p4est-2.0/DEBUG/lib/libsc-2.0.dylib
> (compatibility version 0.0.0, current version 0.0.0)
>
> /usr/lib/libz.1.dylib (compatibility version 1.0.0, current version 1.2.11)
>
> @rpath/libmuelu-adapters.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libmuelu-interface.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libmuelu.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libteko.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libstratimikos.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libstratimikosbelos.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libstratimikosaztecoo.12.dylib (compatibility version 12.0.0,
> current version 12.10.1)
>
> @rpath/libstratimikosamesos.12.dylib (compatibility version 12.0.0,
> current version 12.10.1)
>
> @rpath/libstratimikosml.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libstratimikosifpack.12.dylib (compatibility version 12.0.0,
> current version 12.10.1)
>
> @rpath/libifpack2-adapters.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libifpack2.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libanasazitpetra.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libModeLaplace.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libanasaziepetra.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libanasazi.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libamesos2.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libbelostpetra.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libbelosepetra.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libbelos.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libml.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libifpack.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libzoltan2.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libpamgen_extras.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libpamgen.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libamesos.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libgaleri-xpetra.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libgaleri-epetra.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libaztecoo.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libisorropia.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libxpetra-sup.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libxpetra.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libthyratpetra.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libthyraepetraext.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libthyraepetra.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libthyracore.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libepetraext.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libtpetraext.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libtpetrainout.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libtpetra.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libkokkostsqr.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libtpetrakernels.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libtpetraclassiclinalg.12.dylib (compatibility version 12.0.0,
> current version 12.10.1)
>
> @rpath/libtpetraclassicnodeapi.12.dylib (compatibility version 12.0.0,
> current version 12.10.1)
>
> @rpath/libtpetraclassic.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libtriutils.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libzoltan.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libepetra.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libsacado.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/librtop.12.dylib (compatibility version 12.0.0, current version
> 12.10.1)
>
> @rpath/libteuchoskokkoscomm.12.dylib (compatibility version 12.0.0,
> current version 12.10.1)
>
> @rpath/libteuchoskokkoscompat.12.dylib (compatibility version 12.0.0,
> current version 12.10.1)
>
> @rpath/libteuchosremainder.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libteuchosnumerics.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libteuchoscomm.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libteuchosparameterlist.12.dylib (compatibility version 12.0.0,
> current version 12.10.1)
>
> @rpath/libteuchoscore.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libkokkosalgorithms.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libkokkoscontainers.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> @rpath/libkokkoscore.12.dylib (compatibility version 12.0.0, current
> version 12.10.1)
>
> libsuperlu_dist.5.dylib (compatibility version 5.0.0, current version
> 5.1.0)
>
> /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version
> 1252.50.4)
>
> /Users/zhiboluo/deal.ii-candi/hdf5-1.10.1/lib/libhdf5_hl.100.dylib
> (compatibility version 101.0.0, current version 101.1.0)
>
> /Users/zhiboluo/deal.ii-candi/hdf5-1.10.1/lib/libhdf5.101.dylib
> (compatibility version 102.0.0, current version 102.0.0)
>
> libTKBO.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKBool.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKBRep.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKernel.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKFeat.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKFillet.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKG2d.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKG3d.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKGeomAlgo.11.dylib (compatibility version 11.0.0, current version
> 11.0.0)
>
> libTKGeomBase.11.dylib (compatibility version 11.0.0, current version
> 11.0.0)
>
> libTKHLR.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKIGES.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKMath.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKMesh.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKOffset.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKPrim.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKShHealing.11.dylib (compatibility version 11.0.0, current version
> 11.0.0)
>
> libTKSTEP.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKSTEPAttr.11.dylib (compatibility version 11.0.0, current version
> 11.0.0)
>
> libTKSTEPBase.11.dylib (compatibility version 11.0.0, current version
> 11.0.0)
>
> libTKSTEP209.11.dylib (compatibility version 11.0.0, current version
> 11.0.0)
>
> libTKSTL.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> libTKTopAlgo.11.dylib (compatibility version 11.0.0, current version
> 11.0.0)
>
> libTKXSBase.11.dylib (compatibility version 11.0.0, current version 11.0.0)
>
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Accelerate
> (compatibility version 1.0.0, current version 4.0.0)
>
> /usr/local/opt/open-mpi/lib/libmpi_usempif08.40.dylib (compatibility
> version 51.0.0, current version 51.1.0)
>
> /usr/local/opt/open-mpi/lib/libmpi_usempi_ignore_tkr.40.dylib
> (compatibility version 51.0.0, current version 51.1.0)
>
> /usr/local/opt/open-mpi/lib/libmpi_mpifh.40.dylib (compatibility version
> 51.0.0, current version 51.1.0)
>
> /usr/local/opt/open-mpi/lib/libmpi.40.dylib (compatibility version 51.0.0,
> current version 51.1.0)
>
> /Users/zhiboluo/deal.ii-candi/slepc-3.7.3/lib/libslepc.3.7.dylib
> (compatibility version 3.7.0, current version 3.7.3)
>
> /Users/zhiboluo/deal.ii-candi/petsc-3.7.6/lib/libpetsc.3.7.dylib
> (compatibility version 3.7.0, current version 3.7.6)
>
> libparmetis.dylib (compatibility version 0.0.0, current version 0.0.0)
>
> libmetis.dylib (compatibility version 0.0.0, current version 0.0.0)
>
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libLAPACK.dylib
>
> (compatibility version 1.0.0, current version 1.0.0)
>
> /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
>
> (compatibility version 1.0.0, current version 1.0.0)
>
> /usr/local/opt/openssl/lib/libssl.1.0.0.dylib (compatibility version
> 1.0.0, current version 1.0.0)
>
> /usr/local/opt/openssl/lib/libcrypto.1.0.0.dylib (compatibility version
> 1.0.0, current version 1.0.0)
>
> /usr/local/lib/gcc/8/libgcc_s.1.dylib (compatibility version 1.0.0,
> current version 1.0.0)
>
> /usr/lib/libc++.1.dylib (compatibility version 1.0.0, current version
> 400.9.0)
>
> @rpath/libLTO.dylib (compatibility version 1.0.0, current version
> 3902.0.39)
>
> I found that some other libraries path (like p4est, slepc, and petsc) are
> set correctly. However, the library path of superlu_dist, parmetis, and oce
> are not set correctly. The generated object try to find
> "libsuperlu_dist.5.dylib" in the current path, but actually this library is
> installed in /Users/zhiboluo/deal.ii-candi/superlu_dist_5.1.2/lib. Then I
> copy these libraries to current folder, "make run" works! But I don't want
> to copy these libraries everytime I go to compile another project.
>
> *Any suggestions to solve this dynamic library link problems?*
>
> *Thanks~*
>
>
>
>
--
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