libSystem not found using gfortran

Chris Jones jonesc at hep.phy.cam.ac.uk
Fri Oct 11 13:34:50 UTC 2019 

Hi,

Are you *really* sure you rebuilt *all* your ports natively for Darwin19 
(macOS10.15) ? Your output suggests not, i.e. from the first part

 > Driving: gfortran test.f90 -v -mmacosx-version-min=10.15.0
 > -asm_macosx_version_min=10.15 -l gfortran -shared-libgcc
 > Using built-in specs.
 > COLLECT_GCC=gfortran
 > 
COLLECT_LTO_WRAPPER=/opt/local/libexec/gcc/x86_64-apple-darwin18/9.2.0/lto-wrapper
 > Target: x86_64-apple-darwin18

See Darwin 18 there. That is wrong, it should be 19, as in my output

Oberon ~/cernbox/MacPorts > gfortran-mp-9 -v test.f90
Driving: gfortran-mp-9 -v test.f90 -mmacosx-version-min=10.15.0 
-asm_macosx_version_min=10.15 -l gfortran -shared-libgcc
Using built-in specs.
COLLECT_GCC=gfortran-mp-9
COLLECT_LTO_WRAPPER=/opt/local/libexec/gcc/x86_64-apple-darwin19/9.2.0/lto-wrapper
Target: x86_64-apple-darwin19


I suspect you are using a gcc build (and probably others as well) that 
where built for macOS10.14, not macOS10.15.

Following the migration guide exactly is not optional I am afraid....

cheers Chris

On 11/10/2019 1:41 pm, Guillaume Houzeaux @ BSC wrote:
> Chris, thanks a lot for your very quick answer!
> 
> 1. I followed the path for migration and reinstalled all packages. I 
> will try to do it once more to be sure.
> 2. Xcode version: 11.0
> 3. My test program is minimum:
> 
> program test
>    print*,'a'
> end program test
> 
> 4. The output with -v option is:
> 
> Driving: gfortran test.f90 -v -mmacosx-version-min=10.15.0 
> -asm_macosx_version_min=10.15 -l gfortran -shared-libgcc
> Using built-in specs.
> COLLECT_GCC=gfortran
> COLLECT_LTO_WRAPPER=/opt/local/libexec/gcc/x86_64-apple-darwin18/9.2.0/lto-wrapper
> Target: x86_64-apple-darwin18
> Configured with: 
> /opt/local/var/macports/build/_opt_bblocal_var_buildworker_ports_build_ports_lang_gcc9/gcc9/work/gcc-9.2.0/configure 
> --prefix=/opt/local --build=x86_64-apple-darwin18 
> --enable-languages=c,c++,objc,obj-c++,lto,fortran 
> --libdir=/opt/local/lib/gcc9 --includedir=/opt/local/include/gcc9 
> --infodir=/opt/local/share/info --mandir=/opt/local/share/man 
> --datarootdir=/opt/local/share/gcc-9 --with-local-prefix=/opt/local 
> --with-system-zlib --disable-nls --program-suffix=-mp-9 
> --with-gxx-include-dir=/opt/local/include/gcc9/c++/ 
> --with-gmp=/opt/local --with-mpfr=/opt/local --with-mpc=/opt/local 
> --with-isl=/opt/local --enable-stage1-checking --disable-multilib 
> --enable-lto --enable-libstdcxx-time --with-build-config=bootstrap-debug 
> --with-as=/opt/local/bin/as --with-ld=/opt/local/bin/ld 
> --with-ar=/opt/local/bin/ar 
> --with-bugurl=https://trac.macports.org/newticket --disable-tls 
> --with-pkgversion='MacPorts gcc9 9.2.0_0' 
> --with-sysroot=/Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.14.sdk
> Thread model: posix
> gcc version 9.2.0 (MacPorts gcc9 9.2.0_0)
> COLLECT_GCC_OPTIONS='-v' '-mmacosx-version-min=10.15.0' 
> '-asm_macosx_version_min=10.15' '-shared-libgcc' '-mtune=core2'
>   /opt/local/libexec/gcc/x86_64-apple-darwin18/9.2.0/f951 test.f90 -fPIC 
> -quiet -dumpbase test.f90 -mmacosx-version-min=10.15.0 -mtune=core2 
> -auxbase test -version -fintrinsic-modules-path 
> /opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0/finclude -o 
> /var/folders/1z/j0r1q88d2_95cj4fd50r39mr0000gr/T//ccZubFPj.s
> GNU Fortran (MacPorts gcc9 9.2.0_0) version 9.2.0 (x86_64-apple-darwin18)
>      compiled by GNU C version 9.2.0, GMP version 6.1.2, MPFR version 
> 4.0.2, MPC version 1.1.0, isl version isl-0.21-GMP
> 
> GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072
> GNU Fortran2008 (MacPorts gcc9 9.2.0_0) version 9.2.0 
> (x86_64-apple-darwin18)
>      compiled by GNU C version 9.2.0, GMP version 6.1.2, MPFR version 
> 4.0.2, MPC version 1.1.0, isl version isl-0.21-GMP
> 
> GGC heuristics: --param ggc-min-expand=100 --param ggc-min-heapsize=131072
> COLLECT_GCC_OPTIONS='-v' '-mmacosx-version-min=10.15.0' '-shared-libgcc' 
> '-mtune=core2'
>   /opt/local/bin/as -arch x86_64 -v -force_cpusubtype_ALL 
> -mmacosx-version-min=10.15 -o 
> /var/folders/1z/j0r1q88d2_95cj4fd50r39mr0000gr/T//cce0rRJI.o 
> /var/folders/1z/j0r1q88d2_95cj4fd50r39mr0000gr/T//ccZubFPj.s
> Apple clang version 11.0.0 (clang-1100.0.33.8)
> Target: x86_64-apple-darwin19.0.0
> Thread model: posix
> InstalledDir: 
> /Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin
>   "/Applications/Xcode.app/Contents/Developer/Toolchains/XcodeDefault.xctoolchain/usr/bin/clang" -cc1as -triple x86_64-apple-macosx10.15.0 -filetype obj -main-file-name ccZubFPj.s -target-cpu penryn -fdebug-compilation-dir /Users/houzeaux/Desktop -dwarf-debug-producer Apple clang version 11.0.0 (clang-1100.0.33.8) -dwarf-version=4 -mrelocation-model pic -o /var/folders/1z/j0r1q88d2_95cj4fd50r39mr0000gr/T//cce0rRJI.o /var/folders/1z/j0r1q88d2_95cj4fd50r39mr0000gr/T//ccZubFPj.s
> Reading specs from 
> /opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0/../../../libgfortran.spec
> rename spec lib to liborig
> COLLECT_GCC_OPTIONS='-v' '-mmacosx-version-min=10.15.0' '-shared-libgcc' 
> '-mtune=core2'
> COMPILER_PATH=/opt/local/libexec/gcc/x86_64-apple-darwin18/9.2.0/:/opt/local/libexec/gcc/x86_64-apple-darwin18/9.2.0/:/opt/local/libexec/gcc/x86_64-apple-darwin18/:/opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0/:/opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/
> LIBRARY_PATH=/usr/lib/:/opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0/:/opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0/../../../
> COLLECT_GCC_OPTIONS='-v' '-mmacosx-version-min=10.15.0' '-shared-libgcc' 
> '-mtune=core2'
>   /opt/local/libexec/gcc/x86_64-apple-darwin18/9.2.0/collect2 
> -syslibroot 
> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.14.sdk/ 
> -dynamic -arch x86_64 -macosx_version_min 10.15.0 
> -weak_reference_mismatches non-weak -o a.out 
> -L/opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0 
> -L/opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0/../../.. 
> /var/folders/1z/j0r1q88d2_95cj4fd50r39mr0000gr/T//cce0rRJI.o -lgfortran 
> -no_compact_unwind -lSystem -lgcc_ext.10.5 -lgcc -lquadmath -lm 
> -lgcc_ext.10.5 -lgcc -lSystem -v
> collect2 version 9.2.0
> /opt/local/bin/ld -syslibroot 
> /Applications/Xcode.app/Contents/Developer/Platforms/MacOSX.platform/Developer/SDKs/MacOSX10.14.sdk/ 
> -dynamic -arch x86_64 -macosx_version_min 10.15.0 
> -weak_reference_mismatches non-weak -o a.out 
> -L/opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0 
> -L/opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0/../../.. 
> /var/folders/1z/j0r1q88d2_95cj4fd50r39mr0000gr/T//cce0rRJI.o -lgfortran 
> -no_compact_unwind -lSystem -lgcc_ext.10.5 -lgcc -lquadmath -lm 
> -lgcc_ext.10.5 -lgcc -lSystem -v
> @(#)PROGRAM:ld  PROJECT:ld64-512.4
> BUILD 05:06:53 Aug 16 2019
> configured to support archs: armv6 armv7 armv7s arm64 arm64e arm64_32 
> i386 x86_64 x86_64h armv6m armv7k armv7m armv7em
> Library search paths:
>      /opt/local/lib/gcc9/gcc/x86_64-apple-darwin18/9.2.0
>      /opt/local/lib/gcc9
> Framework search paths:
> ld: library not found for -lSystem
> collect2: error: ld returned 1 exit status
> 
> 
>>
>> one more request.
>>
>> please post the full output from compiling your test code with the -v 
>> option.
>>
>> cheers Chris
>>
>> On 11/10/2019 12:59 pm, Chris Jones wrote:
>>>
>>> can you please direct us to the exact test application code you are 
>>> using ?
>>>
>>> Also, can you confirm the exact Xcode version you are using ?
>>>
>>> Have you correctly followed the macports migration guide after 
>>> updating your OS ?
>>>
>>> https://trac.macports.org/wiki/Migration
>>>
>>> cheers Chris
>>>
>>> On 11/10/2019 12:55 pm, Guillaume Houzeaux @ BSC wrote:
>>>> Hello,
>>>>
>>>> I'm compiling with gfortran9 on catalina and get this error:
>>>>
>>>> gfortran test.f90
>>>> ld: library not found for -lSystem
>>>> collect2: error: ld returned 1 exit status
>>>>
>>>> Seems that it does not find the library libSystem. I changed all the 
>>>> library paths in my bash_profile
>>>>
>>>> to include /usr/lib but does not work. The only solution for the 
>>>> moment is to compile with
>>>>
>>>> gfortran test.f90-L/usr/lib
>>>>
>>>> but this is not a practical option... Any idea on how to fix this?
>>>>
>>>> Thanks in advance
>>>>
>>>> -- 
>>>> Guillaume Houzeaux
>>>> Team Leader
>>>> Dpt. Computer Applications in Science and Engineering
>>>> Barcelona Supercomputing Center (BSC-CNS)
>>>> Edificio NEXUS II - Office 3A, c) Jordi Girona 29
>>>> 08034 Barcelona, Spain
>>>>
>>>> Location: 
>>>> <https://www.google.es/maps/place/Carrer+de+Jordi+Girona,+08034+Barcelona/@41.3881175,2.1132195,17z/data=!3m1!4b1!4m8!1m2!10m1!1e2!3m4!1s0x12a4985099390467:0xd9abcf1987739b3e!8m2!3d41.3881175!4d2.1154135?hl=en> 
>>>>
>>>> Tel: +34 93 413 7781
>>>> Skype user: guillaume_houzeaux_bsc
>>>> WWW: BSC profile <https://www.bsc.es/houzeaux-guillaume>
>>>> ResearcherID: D-4950-2012
>>>> Scientific Profile: 
>>>> <https://www.researchgate.net/profile/Guillaume_Houzeaux> 
>>>> <http://scholar.google.es/citations?user=cL9khdYAAAAJ&hl=en> 
>>>> <http://orcid.org/0000-0002-2592-1426> 
>>>> <http://www.researcherid.com/rid/D-4950-2012>
>>>>
> 
> -- 
> Guillaume Houzeaux
> Team Leader
> Dpt. Computer Applications in Science and Engineering
> Barcelona Supercomputing Center (BSC-CNS)
> Edificio NEXUS II - Office 3A, c) Jordi Girona 29
> 08034 Barcelona, Spain
> 
> Location: 
> <https://www.google.es/maps/place/Carrer+de+Jordi+Girona,+08034+Barcelona/@41.3881175,2.1132195,17z/data=!3m1!4b1!4m8!1m2!10m1!1e2!3m4!1s0x12a4985099390467:0xd9abcf1987739b3e!8m2!3d41.3881175!4d2.1154135?hl=en> 
> 
> Tel: +34 93 413 7781
> Skype user: guillaume_houzeaux_bsc
> WWW: BSC profile <https://www.bsc.es/houzeaux-guillaume>
> ResearcherID: D-4950-2012
> Scientific Profile: 
> <https://www.researchgate.net/profile/Guillaume_Houzeaux> 
> <http://scholar.google.es/citations?user=cL9khdYAAAAJ&hl=en> 
> <http://orcid.org/0000-0002-2592-1426> 
> <http://www.researcherid.com/rid/D-4950-2012>
>

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