On 20 May 2020, at 1:47 pm, Simon Urbanek <simon.urbanek at r-project.org> wrote:
Ken,
R can be built with just Xcode and GFortran (see also http://mac.r-project.org/tools/ ). If you have issues, those are very often due to conflicting package managers (Homebrew, macoports, fink ...) so a good exercise is to simply re-name /usr/local/ and setup a clean environment as above which is known to work. If you use CRAN R builds (either release or from http://mac.r-project.org/ ) then most packages will compile with just Xcode alone.
Cheers,
Simon
On 20/05/2020, at 12:58 PM, Ken Beath <ken at kjbeath.com.au> wrote:
Plus one of the duties of package managers is to make sure that they build and pass CRAN checks. Doing that with a non standard environment seems a bit risky.
At the moment I can?t get anything to build on R-Devel which is making life difficult and I may raise a question if it still isn?t working when I?ve finished with the new experience that is online teaching.
On 20 May 2020, at 10:49 am, David Winsemius <dwinsemius at comcast.net> wrote:
On 5/19/20 1:46 PM, Yoshihiko Baba via R-SIG-Mac wrote:
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 at stat.unipd.it>????:
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 at 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 at 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