Success. I also removed everything from /usr/local then reinstalled MacTex, R and gfortran, and now I can build on both 4.0 and 4.1. Presumably something has changed in the builds between 4.0 and 4.1 and that has interacted with the accumulated nearly 6 years of mess in /usr/local.
> On 20 May 2020, at 5:34 pm, Adelchi Azzalini <azzal...@stat.unipd.it> wrote: > > > >> On 20 May 2020, at 08:44, Adelchi Azzalini <azzal...@stat.unipd.it> wrote: >> >> Thanks to everyone that provided suggestions. >> >> I was about to follow the recommended step of renaming /usr/local and >> reinstall a bunch of programs. >> However, that renaming is blocked, presumably by Apple System Integrity >> Protection. >> Is there any alternative to disabling this Apple "feature"? >> Do you recommend to re-instate it after the re-construction of /usr/local/ ? >> As you see, I am not familiar with Apple tricks. >> >> Thanks again, >> >> Adelchi > > > Please ignore the message above. > Right after sending it, I realized that the simple workaround was to move > everything in > /usr/local/ > to > /usr/local/local-2020520/ > > After reinstalling R, TeX, etc... compilation now works fine! > > Thanks for your effective help. > > Adelchi > > >> >> >> >>> On 20 May 2020, at 05:50, Simon Urbanek <simon.urba...@r-project.org> wrote: >>> >>> >>> Adelchi, >>> >>> as pointed out you have conflicting libraries in /usr/local - likely from >>> some conflicting package manager. I would recommend re-naming /usr/local to >>> remove the issue and installing a clean GNU Fortran (see >>> http://mac.r-project.org/tools/ or from the official GNU Fortran pages >>> which use the same binary), that's all you really need. >>> >>> Cheers, >>> Simon >>> >>> >>> >>>> On 20/05/2020, at 1:45 AM, Adelchi Azzalini <azzal...@stat.unipd.it> wrote: >>>> >>>> Hi. >>>> In essence, my problem is that I cannot install a package which requires >>>> Fortran-77 compilation on my Mac. >>>> >>>> More in detail, this is my own package 'mnormt' which exists on CRAN since >>>> 2006; it is currently at version 1.5-7. It has been developed in >>>> successive versions on a Linux machine, where it compiles with no >>>> problems. The macOS and MS-windows versions are created on CRAN, where it >>>> passes all pertaining checks. >>>> >>>> Now, in the new pandemic world, I need create a new version of the >>>> package, but working from home, hence using my Mac laptop instead of the >>>> Linux desktop as in the past. Unfortunately, compilation or loading does >>>> not work. If I run >>>> >>>> R CMD check mnormt_1.5-7.tar.gz >>>> >>>> first I get a bunch of warning messages such as >>>> >>>> Warning: Possible change of value in conversion from REAL(8) to INTEGER(4) >>>> .... [-Wconversion] >>>> Warning: ‘lxchng’ may be used uninitialized in this function >>>> [-Wmaybe-uninitialized] >>>> Warning: Label 10 at (1) defined but not used [-Wunused-label] >>>> >>>> and finally it crashes with >>>> >>>> Error: package or namespace load failed for ‘mnormt’: >>>> .onLoad failed in loadNamespace() for 'mnormt', details: >>>> call: dyn.load(file, DLLpath = DLLpath, ...) >>>> error: unable to load shared object >>>> '/Users/aa/SW-aa/Pkg-mnormt/mnormt.Rcheck/00LOCK-mnormt/00new/mnormt/libs/mnormt.so': >>>> dlopen(/Users/aa/SW-aa/Pkg-mnormt/mnormt.Rcheck/00LOCK-mnormt/00new/mnormt/libs/mnormt.so, >>>> 6): Symbol not found: ___addtf3 >>>> Referenced from: /usr/local/lib/libquadmath.0.dylib >>>> Expected in: /usr/local/lib/libgcc_s_x86_64.1.dylib >>>> in /usr/local/lib/libquadmath.0.dylib >>>> Error: loading failed >>>> >>>> Needless to say, I have no idea what this "addtf3" is or it should be. >>>> There is no such a symbol in the Fortran code. >>>> >>>> I believe to have installed all ingredients indicated at >>>> https://mac.r-project.org/tools/ >>>> See the list below with details about my system and other installed tools. >>>> >>>> Any suggestions for sorting this out? >>>> >>>> Adelchi Azzalini >>>> >>>> >>>> --------------------------------------------------- >>>> Installation info: >>>> >>>> R> R.version >>>> _ >>>> platform x86_64-apple-darwin17.0 >>>> arch x86_64 >>>> os darwin17.0 >>>> system x86_64, darwin17.0 >>>> status >>>> major 4 >>>> minor 0.0 >>>> year 2020 >>>> month 04 >>>> day 24 >>>> svn rev 78286 >>>> language R >>>> version.string R version 4.0.0 (2020-04-24) >>>> nickname Arbor Day >>>> >>>> --- macOS Mojave 10.14.6 >>>> >>>> --- Xcode version 11.3.1 >>>> >>>> --- Fortran >>>> >>>> [aa@mac-2013:~] gfortran -v >>>> Using built-in specs. >>>> COLLECT_GCC=gfortran >>>> COLLECT_LTO_WRAPPER=/usr/local/gfortran/libexec/gcc/x86_64-apple-darwin18/8.2.0/lto-wrapper >>>> Target: x86_64-apple-darwin18 >>>> Configured with: ../gcc-8.2.0/configure --prefix=/usr/local/gfortran >>>> --with-gmp=/Users/fx/devel/gcc/build_package/deps >>>> --enable-languages=c,c++,fortran,objc,obj-c++ >>>> --build=x86_64-apple-darwin18 --disable-multilib >>>> --with-native-system-header-dir=/usr/include >>>> --with-sysroot=/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk >>>> Thread model: posix >>>> gcc version 8.2.0 (GCC) >>>> >>>> [aa@mac-2013:~] echo $PATH >>>> .:/Users/aa/bin:/usr/local/bin:/usr/bin:/bin:/usr/sbin/:/usr/X11R6/bin:/opt/local/bin:/Library/TeX/texbin:/usr/local/gfortran/bin >>>> >>>> -- other tools indicated at https://mac.r-project.org/tools/ >>>> xz-5.2.5/ is installed >>>> PCRE2 10.34 built with --disable-jit >>>> bzip2 Version 1.0.6 is installed >>>> >>>> _______________________________________________ >>>> R-SIG-Mac mailing list >>>> R-SIG-Mac@r-project.org >>>> https://stat.ethz.ch/mailman/listinfo/r-sig-mac >>> >> >> _______________________________________________ >> R-SIG-Mac mailing list >> R-SIG-Mac@r-project.org >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac > > _______________________________________________ > R-SIG-Mac mailing list > R-SIG-Mac@r-project.org > https://stat.ethz.ch/mailman/listinfo/r-sig-mac > _______________________________________________ R-SIG-Mac mailing list R-SIG-Mac@r-project.org https://stat.ethz.ch/mailman/listinfo/r-sig-mac
