[petsc-users] [3.7.5] strange config error on macOS with XCode 8.3 and Clang 8.1.0
Matthew Knepley
knepley at gmail.com
Tue Mar 28 15:18:05 CDT 2017
On Tue, Mar 28, 2017 at 3:12 PM, Denis Davydov <davydden at gmail.com> wrote:
> Dear all,
>
> Yesterday I updated to the latest XCode and now have problems configuring
> PETSc (see below).
> I must say that a number of other packages which need MPI fortran wrappers
> compiled fine.
>
This looks like bad parsing of the junk spit out by the C compiler:
-Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Tool
chains/XcodeDefault.xctoolchain/usr/lib -L/Applications/Xcode.app/Cont
ents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib -lLTO
you can just turn that off
--with-clib-autodetect=0 --with-fortranlib-autodetect=0 --with-cxxlib-
autodetect=0
but then you are responsible for putting any compiler libraries in LIBS
that we needed to make Fortran and C work together.
Thanks,
Matt
> Regards,
> Denis.
>
> ==========================
>
>
> Executing: /Users/davydden/spack/opt/spack/darwin-sierra-x86_64/clang-
> 8.1.0-apple/openmpi-2.1.0-rh7brts6lzesj46zopjj5rzmkcyiktx7/bin/mpif90 -c
> -o /var/folders/5k/sqpp24tx3ylds4fgm13pfht00000gn/T/petsc-
> eLXjKy/config.setCompilers/conftest.o -I/var/folders/5k/sqpp24tx3yld
> s4fgm13pfht00000gn/T/petsc-eLXjKy/config.setCompilers -Wall
> -ffree-line-length-0 -Wno-unused-dummy-argument -g -O
> /var/folders/5k/sqpp24tx3ylds4fgm13pfht00000gn/T/petsc-
> eLXjKy/config.setCompilers/conftest.F
> Successful compile:
> Source:
> program main
>
> end
> Executing: /Users/davydden/spack/opt/spack/darwin-sierra-x86_64/clang-
> 8.1.0-apple/openmpi-2.1.0-rh7brts6lzesj46zopjj5rzmkcyiktx7/bin/mpif90 -c
> -o /var/folders/5k/sqpp24tx3ylds4fgm13pfht00000gn/T/petsc-
> eLXjKy/config.setCompilers/conftest.o -I/var/folders/5k/sqpp24tx3yld
> s4fgm13pfht00000gn/T/petsc-eLXjKy/config.setCompilers -Wall
> -ffree-line-length-0 -Wno-unused-dummy-argument -g -O
> /var/folders/5k/sqpp24tx3ylds4fgm13pfht00000gn/T/petsc-
> eLXjKy/config.setCompilers/conftest.F
> Successful compile:
> Source:
> program main
>
> end
> Executing: /Users/davydden/spack/opt/spack/darwin-sierra-x86_64/clang-
> 8.1.0-apple/openmpi-2.1.0-rh7brts6lzesj46zopjj5rzmkcyiktx7/bin/mpif90 -o
> /var/folders/5k/sqpp24tx3ylds4fgm13pfht00000gn/T/petsc-
> eLXjKy/config.setCompilers/conftest -Wl,-multiply_defined,suppress
> -Wl,-multiply_defined -Wl,suppress -Wl,-commons,use_dylibs
> -Wl,-search_paths_first -Wl,-no_compact_unwind -Wall -ffree-line-length-0
> -Wno-unused-dummy-argument -g -O /var/folders/5k/sqpp24tx3ylds4
> fgm13pfht00000gn/T/petsc-eLXjKy/config.setCompilers/conftest.o
> -lto_library -Wl,-rpath,/Applications/Xcode.app/Contents/Developer/Toolch
> ains/XcodeDefault.xctoolchain/usr/lib -L/Applications/Xcode.app/Cont
> ents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib -lLTO
> -Wl,-rpath,/Users/davydden/spack/opt/spack/darwin-sierra-x86
> _64/clang-8.1.0-apple/hwloc-1.11.6-pkbyijayr66g3wq3hojj3l44qc7kjno3/lib
> -L/Users/davydden/spack/opt/spack/darwin-sierra-x86_64/clang
> -8.1.0-apple/hwloc-1.11.6-pkbyijayr66g3wq3hojj3l44qc7kjno3/lib
> -Wl,-rpath,/Users/davydden/spack/opt/spack/darwin-sierra-x86
> _64/clang-8.1.0-apple/openmpi-2.1.0-rh7brts6lzesj46zopjj5rzmkcyiktx7/lib
> -L/Users/davydden/spack/opt/spack/darwin-sierra-x86_64/clang
> -8.1.0-apple/openmpi-2.1.0-rh7brts6lzesj46zopjj5rzmkcyiktx7/lib -ldl
> -lmpi -lSystem -Wl,-rpath,/Applications/Xcode
> .app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/
> usr/bin/../lib/clang/8.1.0/lib/darwin -L/Applications/Xcode.app/Cont
> ents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/../lib/clang/8.1.0/lib/darwin
> -lclang_rt.osx -ldl
> Possible ERROR while running linker: exit code 256
> stderr:
> ld: can't map file, errno=22 file '/Applications/Xcode.app/Conte
> nts/Developer/Toolchains/XcodeDefault.xctoolchain/usr/lib' for
> architecture x86_64
> collect2: error: ld returned 1 exit status
> Popping language FC
> compilers: Error message from compiling {Cannot compile/link
> FC with /Users/davydden/spack/opt/spack/darwin-sierra-x86_64/clang-
> 8.1.0-apple/openmpi-2.1.0-rh7brts6lzesj46zopjj5rzmkcyiktx7/bin/mpif90.}
> **** Configure header /var/folders/5k/sqpp24tx3ylds4
> fgm13pfht00000gn/T/petsc-eLXjKy/confdefs.h ****
> #if !defined(INCLUDED_UNKNOWN)
> #define INCLUDED_UNKNOWN
>
> #ifndef PETSC_HAVE_DLFCN_H
> #define PETSC_HAVE_DLFCN_H 1
> #endif
>
> #ifndef PETSC_HAVE_RTLD_NOW
> #define PETSC_HAVE_RTLD_NOW 1
> #endif
>
> #ifndef PETSC_HAVE_RTLD_LOCAL
> #define PETSC_HAVE_RTLD_LOCAL 1
> #endif
>
> #ifndef PETSC_HAVE_RTLD_LAZY
> #define PETSC_HAVE_RTLD_LAZY 1
> #endif
>
> #ifndef PETSC_C_STATIC_INLINE
> #define PETSC_C_STATIC_INLINE static inline
> #endif
>
> #ifndef PETSC_HAVE_RTLD_GLOBAL
> #define PETSC_HAVE_RTLD_GLOBAL 1
> #endif
>
> #ifndef PETSC_C_RESTRICT
> #define PETSC_C_RESTRICT restrict
> #endif
>
> #ifndef PETSC_HAVE_LIBDL
> #define PETSC_HAVE_LIBDL 1
> #endif
>
> #ifndef PETSC_ARCH
> #define PETSC_ARCH "arch-darwin-c-opt"
> #endif
>
> #ifndef PETSC_CLANGUAGE_C
> #define PETSC_CLANGUAGE_C 1
> #endif
>
> #ifndef PETSC_HAVE_DYNAMIC_LIBRARIES
> #define PETSC_HAVE_DYNAMIC_LIBRARIES 1
> #endif
>
> #ifndef PETSC_HAVE_SHARED_LIBRARIES
> #define PETSC_HAVE_SHARED_LIBRARIES 1
> #endif
>
> #ifndef PETSC_USE_SHARED_LIBRARIES
> #define PETSC_USE_SHARED_LIBRARIES 1
> #endif
>
> #ifndef PETSC_USE_ERRORCHECKING
> #define PETSC_USE_ERRORCHECKING 1
> #endif
>
> #endif
> **** C specific Configure header /var/folders/5k/sqpp24tx3ylds4
> fgm13pfht00000gn/T/petsc-eLXjKy/conffix.h ****
> #if !defined(INCLUDED_UNKNOWN)
> #define INCLUDED_UNKNOWN
>
> #if defined(__cplusplus)
> extern "C" {
> }
> #else
> #endif
> #endif
> ************************************************************
> *******************
> UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for
> details):
> ------------------------------------------------------------
> -------------------
> C libraries cannot directly be used from Fortran
> ************************************************************
> *******************
> File "./config/configure.py", line 405, in petsc_configure
> framework.configure(out = sys.stdout)
> File "/Users/davydden/spack/var/spack/stage/petsc-3.7.5-tpsz2lfsp
> kqa7tq2keqowsk4xrebsfwi/petsc-3.7.5/config/BuildSystem/config/framework.py",
> line 1090, in configure
> self.processChildren()
> File "/Users/davydden/spack/var/spack/stage/petsc-3.7.5-tpsz2lfsp
> kqa7tq2keqowsk4xrebsfwi/petsc-3.7.5/config/BuildSystem/config/framework.py",
> line 1079, in processChildren
> self.serialEvaluation(self.childGraph)
> File "/Users/davydden/spack/var/spack/stage/petsc-3.7.5-tpsz2lfsp
> kqa7tq2keqowsk4xrebsfwi/petsc-3.7.5/config/BuildSystem/config/framework.py",
> line 1060, in serialEvaluation
> child.configure()
> File "/Users/davydden/spack/var/spack/stage/petsc-3.7.5-tpsz2lfsp
> kqa7tq2keqowsk4xrebsfwi/petsc-3.7.5/config/BuildSystem/config/compilers.py",
> line 1438, in configure
> self.executeTest(self.checkCLibraries)
> File "/Users/davydden/spack/var/spack/stage/petsc-3.7.5-tpsz2lfsp
> kqa7tq2keqowsk4xrebsfwi/petsc-3.7.5/config/BuildSystem/config/base.py",
> line 126, in executeTest
> ret = test(*args,**kargs)
> File "/Users/davydden/spack/var/spack/stage/petsc-3.7.5-tpsz2lfsp
> kqa7tq2keqowsk4xrebsfwi/petsc-3.7.5/config/BuildSystem/config/compilers.py",
> line 313, in checkCLibraries
> raise RuntimeError('C libraries cannot directly be used from Fortran')
> ============================================================
> ====================
> Finishing Configure Run at Tue Mar 28 21:56:48 2017
> ============================================================
> ====================
--
What most experimenters take for granted before they begin their
experiments is infinitely more interesting than any results to which their
experiments lead.
-- Norbert Wiener
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://lists.mcs.anl.gov/pipermail/petsc-users/attachments/20170328/7752b449/attachment.html>
More information about the petsc-users
mailing list