[R-SIG-Mac] Cannot compile Fortran on macOS

[David Winsemius]

On 5/19/20 1:46 PM, Yoshihiko Baba via R-SIG-Mac wrote:
> Adelchi,
>
> Why don’t you try Fink version of R?
>
> Fink build mnormt on R 4.0 as well (although it is experimental).
> https://github.com/fink/fink-distributions/issues/623


This should be considered contrary to recommended practice: From the 
page for macOS tools that was cited by the OP we see:


"Although it is possible to compile R using tools from other package 
managers such as Homebrew, MacPorts or Fink, such binaries are by 
definition incompatible with macOS native libraries and applications. If 
you choose one of those package managers, make sure you 
compile/everything/using those tools including R and all packages and 
libraries you intend to use."


I think it should have been offered as advice to only be followed by 
persons with great experience in compiling and building packages on Macs.

Best;

David

>
> Fink allows you to install different versions of R (3.6, 3.5, 3.4, 3.3, 3.2 and 3.1).
>
> For different versions, CRAN packages are separately installed (/sw/lib/R/3.6/site-library  and so on).
>
>
>> 2020/05/19 22:45、Adelchi Azzalini <azzalini using stat.unipd.it>のメール:
>>
>> 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 using 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 using 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
>>
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