Error installing in win10 and R version 3.6.2 (2019-12-12)

[fortunatobianconi]

I get this error.

Downloading GitHub repo epiforecasts/EpiNow@master
Skipping 1 packages ahead of CRAN: StanHeaders
√  checking for file '..AppData\Local\Temp\Rtmp0kKpm4\remotes37b87f593f6d\epiforecasts-EpiNow-9254e5a/DESCRIPTION' ...
-  preparing 'EpiNow': (6.2s)
√  checking DESCRIPTION meta-information ...
-  cleaning src
-  checking for LF line-endings in source and make files and shell scripts (1.3s)
-  checking for empty or unneeded directories
-  looking to see if a 'data/datalist' file should be added
-  building 'EpiNow_0.1.0.tar.gz'
   Warning: file 'EpiNow/configure' did not have execute permissions: corrected
   
Installing package into ‘..Documents/R/win-library/3.6’
(as ‘lib’ is unspecified)
* installing *source* package 'EpiNow' ...
** using staged installation
** libs

*** arch - i386
Error in .shlib_internal(args) : 
  C++14 standard requested but CXX14 is not defined
* removing 'Documents/R/win-library/3.6/EpiNow'
Error: Failed to install 'EpiNow' from GitHub:
  (converted from warning) installation of package ‘/AppData/Local/Temp/Rtmp0kKpm4/file37b8593e3cde/EpiNow_0.1.0.tar.gz’ had non-zero exit status

[seabbs]

Hi @fortunatobianconi

Sorry for taking a while to reply! This might be an issue due to the lack of a compiler? We are using Stan models that need to be compiled when the package is built, unfortunately.

This link should help: https://github.com/stan-dev/rstan/wiki/RStan-Getting-Started

[seabbs]

Going to close this for now. Feel free to reopen.

[andreamrau]

Hi @fortunatobianconi,

Just wanted to add that I ran into this same error when installing EpiNow (also Windows 10 and R 3.6.2) and it was due to a problem in how the C++ toolchain provided by Rtools was configured for the installation of rstan on my machine. I followed the directions here to edit my Makevars file to specify the full path of the g++ compiler and re-installed rstan, and that solved the issue for me.

Specifically, I did the following:

dotR <- file.path(Sys.getenv("HOME"), ".R")
if (!file.exists(dotR)) dir.create(dotR)
M <- file.path(dotR, "Makevars.win")
if (!file.exists(M)) file.create(M)
cat("\nCXX14FLAGS=-O3 -march=corei7 -mtune=corei7",
    "CXX14 = $(BINPREF)g++ -m$(WIN) -std=c++1y",
    "CXX11FLAGS=-O3 -march=corei7 -mtune=corei7",
    file = M, sep = "\n", append = TRUE)

remove.packages("rstan")
if (file.exists(".RData")) file.remove(".RData")
install.packages("rstan", repos = "https://cloud.r-project.org/", dependencies = TRUE)

and then installed EpiNow as usual. Hope that helps!

[seabbs]

Thanks for helping on this @andreamrau - if there is anything on our end we can do to make the package easier to install it would be great to hear.