Well, that's pretty clear. The compiler apparently doesn't support C++14 (perhaps ask about this on the Stan support - it suggests that Stan doesn't run on Windows with default Rtools). When you delay compiling the models to runtime, of course the package builds - it just won't work for any user.
Best, Kasper On Mon, Jul 29, 2019 at 1:54 PM Simo Kitanovski <simo.kitanov...@uni-due.de> wrote: > Surprisingly, if I design the package such that the stan models are > compiled only at run-time I get no issues -> all servers build the package > correctly. (https://github.com/Bioconductor/Contributions/issues/1187) > > On the other hand, if I follow the rstan instructions on how to design an > R package that depends on rstan, based on which the stan models are > compiled only once during the build, then I get the previously mentioned > failure only on the windows-based server. > > BTW: Recent updates from stan community suggest that the new rstan version > 2.20 will reduce the model compilation time from ~35sec to ~7sec, which > makes the decision of sticking with the run-time compilation setup not so > bad. > On 29.07.19 8:37 nachm., Kasper Daniel Hansen wrote: > > 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.kitanov...@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-boun...@r-project.org on behalf of >> kasperdanielhan...@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.kitanov...@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@r-project.org mailing list >> > > https://stat.ethz.ch/mailman/listinfo/bioc-devel >> > > >> > >> > >> > -- >> > Best, >> > Kasper >> > >> > [[alternative HTML version deleted]] >> > >> > _______________________________________________ >> > Bioc-devel@r-project.org mailing list >> > https://stat.ethz.ch/mailman/listinfo/bioc-devel >> > >> > > > -- > Best, > Kasper > > -- Best, Kasper [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel