[R-SIG-Mac] Fortran on MacOS Sierra

[Ken Beath]

Thanks, yes I sorted it out. I’d read the bit on Makevars but it just didn’t seem what I wanted.

There are some problems with the 10.12.1 beta which affect built libraries but at the moment I will just hope they go away.

Ken

> On 30 Sep. 2016, at 9:26 pm, Bob Rudis <bob at rud.is> wrote:
> 
> Coudert's packages are unsigned which seems like a significant oversight and a CRAN manual entry recommending installing unsigned binaries does not sit well with me and may not work in the next macOS release.
> 
> Ken: to avoid you having to dig you need to download <http://coudert.name/software/gfortran-6.1-ElCapitan.dmg> and install it, overriding the security warning (ugh).
> 
> You then need to add this to your ~/.R/Makevars (or to the site one)
> 
> F77 = /usr/local/gfortran/bin/gfortran
> FC = /usr/local/gfortran/bin/gfortran
> FLIBS = -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm
> 
> You'll still get the massive amount of warnings (they aren't harmful) but the pkg will compile/install from source.
> 
> 
> On Fri, Sep 30, 2016 at 5:04 AM, Prof Brian Ripley <ripley at stats.ox.ac.uk> wrote:
> This seems to be Sierra, which has 'tidied up' system libraries.
> 
> The recommendation for El Capitan at http://coudert.name/software.html also works correctly on Sierra. (See the manual, preferably before posting.)
> 
> There are good reasons why the posting guide asks for 'at a minimum' the output of sessionInfo() ....
> 
> On 30/09/2016 09:31, Ken Beath wrote:
> I tried to build frailtypack from source using R 3.3.1 and it failed with the following message (after a ridiculous amount of warnings)
> 
> gfortran-4.8 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o frailtypack.so Adonnees.o AparamMultive.o Aparameters.o aGhermite.o aaOptim.o aaOptimres.o aaUseFunction.o aaUseFunctionG.o aamarq98o.o additive.o afuncpasres.o ahrmsym.o aresidusMartingale.o atestWald.o distance.o epoce.o epoce_log.o epoce_long.o frailtypack.o funcpaG_tps.o funcpaGcpm.o funcpaGcpm_intcens.o funcpaGcpm_log.o funcpaGsplines.o funcpaGsplines_intcens.o funcpaGsplines_log.o funcpaGweib.o funcpaGweib_intcens.o funcpaGweib_log.o funcpaMultivCpm.o funcpaMultivSplines.o funcpaMultivWeib.o funcpaacpm.o funcpaasplines.o funcpaaweib.o funcpaj_tps.o funcpajcpm.o funcpajcpm_log.o funcpajgeneral.o funcpajlongisplines.o funcpajlongiweib.o funcpajsplines.o funcpajsplines_fam.o funcpajsplines_intcens.o funcpajsplines_log.o funcpajweib.o funcpajweib_fam.o funcpajweib_intcens.o funcpajweib_log.o f... <truncated>
> gfortran-4.8: warning: couldn’t understand kern.osversion ‘16.0.0
> ld: library not found for -ldylib1.o
> collect2: error: ld returned 1 exit status
> make: *** [frailtypack.so] Error 1
> ERROR: compilation failed for package ‘frailtypack’
> 
> I was going to attempt the build with gfortran 4.2 but haven’t been able to revert back from 4.8
> 
> So does it happen with 4.2 and if not, how can I revert back?
> 
> If not is this an R problem or the package?
> 
> -- 
> Brian D. Ripley,                  ripley at stats.ox.ac.uk
> Emeritus Professor of Applied Statistics, University of Oxford
> 
> _______________________________________________
> R-SIG-Mac mailing list
> R-SIG-Mac at r-project.org
> https://stat.ethz.ch/mailman/listinfo/r-sig-mac
>