Not able to install rstanarm on Ubuntu 18.04 LTS

Question

I'm not able to install rstanarm on R 3.5.3 running on Ubuntu 18.04 LTS. I used the following commands:

install.packages("rstanarm")

and

devtools::install_github("stan-dev/rstanarm", build_vignettes = FALSE)

and both throws the following error:

Execution halted
Makevars:17: recipe for target 'stan_files/lm.cc' failed
make: *** [stan_files/lm.cc] Error 1
ERROR: compilation failed for package ‘rstanarm’

sessionInfo

sessionInfo()
R version 3.5.3 (2019-03-11)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 18.04.2 LTS

Matrix products: default
BLAS: /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.7.1
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.7.1

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=en_US.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] usethis_1.5.0  devtools_2.0.1

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.1        ps_1.3.0          prettyunits_1.0.2 rprojroot_1.3-2  
 [5] digest_0.6.18     crayon_1.3.4      withr_2.1.2       assertthat_0.2.1 
 [9] R6_2.4.0          backports_1.1.3   magrittr_1.5      rlang_0.3.4      
[13] cli_1.1.0         curl_3.3          fs_1.2.7          remotes_2.0.2    
[17] testthat_2.0.1    callr_3.2.0       desc_1.2.0        tools_3.5.3      
[21] glue_1.3.1        pkgload_1.0.2     compiler_3.5.3    processx_3.3.0   
[25] pkgbuild_1.0.3    sessioninfo_1.1.1 tcltk_3.5.3       memoise_1.1.0    
>

Do you have everything from github.com/stan-dev/rstan/wiki/… ? — Ben Goodrich
Since you are using a newer Ubuntu, it's unlikely, but worth checking g++ version. — amatsuo_net
Thanks @BenGoodrich for your comment. I've already attempted all this but still it is not working. Any thoughts. Thanks — MYaseen208
@duckmayr: "/usr/lib/R/bin/Rscript" -e "source(file.path('..', 'tools', 'make_cc.R')); make_cc(commandArgs(TRUE))" stan_files/lm.stan Error: (converted from warning) S3 methods 'print.stanfit', 'as.array.stanfit', 'as.matrix.stanfit', 'as.data.frame.stanfit', 'is.array.stanfit', 'dim.stanfit', 'dimnames.stanfit', 'names.stanfit', 'names<-.stanfit', 'pairs.stanfit', 'loo.stanfit' were declared in NAMESPACE but not found — MYaseen208

duckmayr duckmayr · Accepted Answer · 2019-04-13T12:24:26

On Ubuntu 18.04 + R 3.5.3, you can install rstanarm via the following:

sudo add-apt-repository -y "ppa:marutter/rrutter"
sudo add-apt-repository -y "ppa:marutter/c2d4u3.5"
sudo apt update
sudo apt install r-cran-rstanarm

Some background info on why you may have had trouble previously:

The RStan installation guide for Ubuntu is out of date for those using R 3.5.x.

Ben Goodrich linked in the comments to the RStan GitHub Guide to Installing RStan on Linux. There they advise the following for Ubuntu:

# Add marutter's c2d4u repository, (and rrutter for CRAN builds too)
sudo add-apt-repository -y "ppa:marutter/rrutter"
sudo add-apt-repository -y "ppa:marutter/c2d4u"
sudo apt-get update
sudo apt-get install r-cran-rstan

However, for newer versions of R, you need to instead do the following

# Add marutter's c2d4u repository, (and rrutter for CRAN builds too)
sudo add-apt-repository -y "ppa:marutter/rrutter"
sudo add-apt-repository -y "ppa:marutter/c2d4u3.5"
sudo apt-get update
sudo apt-get install r-cran-rstan

This should install RStan for you just fine on Ubuntu 18.04 + R 3.5.3.

Not able to install rstanarm on Ubuntu 18.04 LTS

2 Answers