[Bioc-devel] tokay1 C++14 compiler

[Kasper Daniel Hansen]

My understanding - and I could be wrong - is that Stan compiles a model, so
the compiler needs to be available at run time and not just at build time.

On Thu, Jul 25, 2019 at 4:02 PM Simo Kitanovski <simo.kitanovski using uni-due.de>
wrote:

> Thanks!
>
> I will try to revise the code to avoid CXX14 if this is that case.
>
> Best
>
>
> On 25.07.19 11:52 nachm., Martin Morgan wrote:
> > Windows (and macOS) CRAN packages are installed as binaries (as
> experienced by the typical user), so don't need compilation-- Rstan is
> built by CRAN through whatever magic / agreement.
> >
> > The paragraph at the very end of
> >
> >
> https://cran.r-project.org/doc/manuals/r-release/R-exts.html#Using-C_002b_002b14-code
> >
> > suggests
> >
> > Note that g++ 4.9.x (as used for R on Windows at the time of writing)
> has only partial C++14 support, and the flag to obtain that support is not
> included in the default Windows build of R
> >
> > so my understanding of this is that CXX14 is not supported on Windows.
> The options are either to revise your code to avoid CXX14 or to anticipate
> that your package will be 'Unsupported on Windows' (thereby losing 1/2 your
> user base).
> >
> > The expert on this (Hervé) will not be back for several days.
> >
> > Martin
> >
> > On 7/25/19, 6:33 PM, "Bioc-devel on behalf of Kasper Daniel Hansen" <
> bioc-devel-bounces using r-project.org on behalf of kasperdanielhansen using gmail.com>
> wrote:
> >
> >      What's weird here is that you supposedly depend on rstan which also
> >      requires a C++14. How can the build system have that package
> installed
> >      without having a compliant compiler?
> >
> >
> >      On Thu, Jul 25, 2019 at 12:05 PM Simo Kitanovski <
> simo.kitanovski using uni-due.de>
> >      wrote:
> >
> >      > Hello Bioconductor community,
> >      >
> >      > I maintain the Bioconductor package genphen which depends on
> rstan for
> >      > MCMC sampling. To build the package one needs a C++14 compiler.
> >      >
> >      > I have no problem building the package on malbec1 and merida1,
> but not
> >      > on tokay1. Any idea of what might have gone wrong on this server
> and how
> >      > to use C++14? I have submitted a new package (IgGeneUsage) which
> also
> >      > uses rstan and have the same problem (see build report below).
> >      >
> >      > BTW: why do we see this under the C++14 compiler box for tokay1:
> >      > Compiler version (' --version' output):
> >      > '--version' is not recognized as an internal or external command,
> >      > operable program or batch file.
> >      >
> >      > Any ideas?
> >      >
> >      > Best
> >      >
> >      > ===============================
> >      >
> >      >   R CMD BUILD
> >      >
> >      > ===============================
> >      > * checking for file 'IgGeneUsage/DESCRIPTION' ... OK
> >      > * preparing 'IgGeneUsage':
> >      > * checking DESCRIPTION meta-information ... OK
> >      > * cleaning src
> >      > * installing the package to build vignettes
> >      >        -----------------------------------
> >      > * installing *source* package 'IgGeneUsage' ...
> >      > ** using staged installation
> >      > ** libs
> >      > Error in .shlib_internal(args) :
> >      >    C++14 standard requested but CXX14 is not defined
> >      > * removing
> >      >
> >      >
> 'C:/Users/pkgbuild/AppData/Local/Temp/RtmpUDyHnY/Rinst315c22dc5ac/IgGeneUsage'
> >      >        -----------------------------------
> >      > ERROR: package installation failed
> >      >
> >      > _______________________________________________
> >      > Bioc-devel using r-project.org mailing list
> >      > https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >      >
> >
> >
> >      --
> >      Best,
> >      Kasper
> >
> >       [[alternative HTML version deleted]]
> >
> >      _______________________________________________
> >      Bioc-devel using r-project.org mailing list
> >      https://stat.ethz.ch/mailman/listinfo/bioc-devel
> >
>


-- 
Best,
Kasper

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