rstan C++14 error while installing (centos) - r

Question

while installing rstan getting following error:
Error in .shlib_internal(args) :
C++14 standard requested but CXX14 is not defined
from research got to know that C++14 compiler should be available.
How to install the same while configuring R.
Using the below command to configure R
./configure --with-readline=no --with-x=no
and installing
yum install -y devtoolset-6
but still not able to update C++14 and rstan gives the error
Default C++ compiler: g++ -g -O2
C++98 compiler: g++ -g -O2
C++11 compiler: g++ -std=gnu++11 -g -O2
C++14 compiler: g++ -g -O2
C++17 compiler:
Fortran 90/95 compiler: gfortran -g -O2
Obj-C compiler:
setup.sh
yum -y update
yum install -y centos-release-scl
yum install -y devtoolset-6
yum install -y devtoolset-6-gcc-gfortran
scl enable devtoolset-6 bash
scl enable devtoolset-6-gcc-gfortran bash
mkdir packages
cd packages
wget -qO-
https://downloads.sourceforge.net/project/libpng/zlib/1.2.8/zlib-
1.2.8.tar.gz | tar zvx
cd zlib-1.2.8
./configure
make
make install
cd ..
wget -qO- http://downloads.sourceforge.net/pcre/pcre-8.35.tar.gz |
tar xzv
cd pcre-8.35
./configure
make
make install
cd ..
wget -qO- http://tukaani.org/xz/xz-5.2.2.tar.gz | tar xzv
cd xz-5.2.2
./configure
make
make install
cd ..
wget -qO- https://curl.haxx.se/download/curl-7.47.1.tar.gz | tar xzv
cd curl-7.47.1
./configure
make
make install
cd ..
wget -qO- https://cran.r-project.org/src/base/R-3/R-3.4.4.tar.gz |
tar xzv
cd R-3.4.4
./configure --with-readline=no --with-x=no --prefix=/packages/R-3.4.4
F77=gfortran
make
make install

Answer 1

I also got this problem, here I record how to solve it.
The key point is installing proper g++ and configure it.
Firstly, install g++ Version >= 5 as https://github.com/stan-dev/rstan/wiki/Installing-RStan-on-Linux said:
Using RStan requires either g++ version 4.9 and up
Here I am installing g++8 (You can change the version as your wish):
Run
$ sudo yum install centos-release-scl
$ sudo yum install devtoolset-8-gcc*
Now you have an alternative g++ along with default g++ in your OS.
You can enable this and check the version:
$ scl enable devtoolset-8 bash
$ gcc --version
$ g++ --version
Find its location:
$ which g++
/opt/rh/devtoolset-8/root/usr/bin/g++
Next, you need to configure ~/.R/Makevars, put the following content to it either using vim (or other editors):
CXX14FLAGS=-O3 -march=native -mtune=native -fPIC
CXX14=/opt/rh/devtoolset-8/root/usr/bin/g++
Or using R commands:
dotR <- file.path(Sys.getenv("HOME"), ".R")
if (!file.exists(dotR)) dir.create(dotR)
M <- file.path(dotR, "Makevars")
if (!file.exists(M)) file.create(M)
cat("\nCXX14FLAGS=-O3 -march=native -mtune=native -fPIC",
"CXX14=/opt/rh/devtoolset-8/root/usr/bin/g++", # or clang++ but you may need a version postfix
file = M, sep = "\n", append = TRUE)
NOTE: these R commands are copied from https://github.com/stan-dev/rstan/wiki/Configuring-C-Toolchain-for-Linux but CXX14 flag is modified according to the location above.
Now, you can install rstan package now:
install.packages("rstan")
Hope this helps.
PS: R users can use this approach to modify the compiler flags in a similar way.

Answer 2

This is what worked for me:
CXX_STD = CXX14
CXX14 = g++ -std=c++11
CXX14FLAGS = -O3 -fPIC -Wno-unused-variable -Wno-unused-function -DBOOST_PHOENIX_NO_VARIADIC_EXPRESSION

Answer 3

You don't need to recompile R but you do need at least g++-4.9 (or clang++-3.4) and to define CXX14 = g++ in your ~/.R/Makevars configuration file. In addition, you usually need CXX14FLAGS = -fPIC and would be well advised to have CXX14FLAGS = -O3 -mtune = native -march = native -fPIC. There is a wiki page for all this.

Answer 4

did the following changes and now it's working fine. Need to define gcc PATH and used yum install -y devtoolset-6 for R-3.4.4. Thank you for help
yum install -y centos-release-scl
yum install -y devtoolset-6
yum install -y bzip2-devel
source scl_source enable devtoolset-6
also added the Path to gcc in build.sh
export PATH=/opt/rh/devtoolset-6/root/bin:$PATH

Answer 5

I had the same problem.
Here is my solution in case it helps others.
On CentOS 7, I:
installed V8 headers and shared library from here: https://pkgs.org/download/v8-devel 41 (EPEL_x86_64)
bumped gcc from version 4 to 9.3.1
In R, I:
removed rstan and StanHeaders
installed rstan and StanHeaders in a fresh R session
Posted discussion on Stan Forum here: https://discourse.mc-stan.org/t/problem-installing-rstan-2-21-using-r-4-0-1-on-centos-7/17784/9