Compile issue for RStan

[chwzhang09]

Operating System: Windows 10 Enterprise
Interface Version: RStan Version: 2.18.1
Compiler/Toolkit: Sorry, I don't know what it means
Other potential helpful information list below:
R Version: 3.4.4
RStudio Version: 1.2.1335
RTools Version: 3.5  

Hi,

I am a freshman for RStan, after install RStan as the specification from the website:
https://github.com/stan-dev/rstan/wiki/RStan-Getting-Started , then I tried to run the Example 1 (8 schools) that mentioned in the link above.

However, the compile error message is showing as below:

fit <- stan(file = '8schools.stan', data = schools_dat)

Error in compileCode(f, code, language = language, verbose = verbose) : 
  Compilation ERROR, function(s)/method(s) not created! file2638530d6dd0.cpp:8:39: fatal error: stan/model/model_header.hpp: No such file or directory
#include <stan/model/model_header.hpp>
                                       ^
compilation terminated.
make: *** [C:/PROGRA~1/R/R-34~1.4/etc/x64/Makeconf:215: file2638530d6dd0.o] Error 1
Warning message:
running command 'make -f "C:/PROGRA~1/R/R-34~1.4/etc/x64/Makeconf" -f "C:/PROGRA~1/R/R-34~1.4/share/make/winshlib.mk" -f "//domain.internal/dfs/home/chzhang/My Documents/.R/Makevars.win" CXX='$(CXX11) $(CXX11STD)' CXXFLAGS='$(CXX11FLAGS)' CXXPICFLAGS='$(CXX11PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX11LDFLAGS)' SHLIB_LD='$(SHLIB_CXX11LD)' SHLIB="file2638530d6dd0.dll" WIN=64 TCLBIN=64 OBJECTS="file2638530d6dd0.o"' had status 2 
In addition: Warning message:
running command 'C:/PROGRA~1/R/R-34~1.4/bin/x64/R CMD SHLIB file2638530d6dd0.cpp 2> file2638530d6dd0.cpp.err.txt' had status 1 
Error in sink(type = "output") : invalid connection

Additionally, two pieces of information might help for the solutions:

1. I install the RStan in my company laptop;
2. I strictly follow the installation specification from the link above to install the RStan and related things, there is no error message for installation.

Thanks for your input in advance!

Chuanwu

[edit: escaped code]

[chwzhang09]

Just for your convenience, I screenshot the code (first line) and related error message with the original format. Hopefully it might help. Thanks.

[Bob_Carpenter]

Can you provide your sessionInfo()? It doesn’t look like it’s finding StanHeaders, which also needs to be installed. It’s usually installed as a dependency of rstan, I believe.

[chwzhang09]

@Bob_Carpenter

sessionInfo()

Hi Bob,

Again, much appreciated for your quick input!

The screenshot below is what I get after run the statement - sessionInfo()

[bgoodri]

First try

remove.packages("StanHeaders")
install.packages("StanHeaders")

[chwzhang09]

Hi Ben,

Many thanks for your quick input, especially on Friday night!

It still does not work after remove and install.

However, two pieces of information may help:

1. Since RStan is installed in my company laptop, the path is a little bit different from the traditional ones (start with “/*****”), as the screenshot below indicates, the path starts with “\****”:
   

   

2. When I tried to re-install StanHeaders, RStan provide two options (Y/N) for “install from sources the package which needs compilation” as the screenshot below:
   

   

If I choose Yes, re-run the statement library(rstan), R provide the result as below:

Else if I choose No(Again, firstly remove/install StanHeaders), running library(rstan) is okay, and re-run the statement - fit <- stan(file = ‘8schools.stan’, data = schools_dat), different errors show as below:

[bgoodri]

It looks like you need to do

install.packages("RcppEigen")

[chwzhang09]

Hi Ben,

Thanks for your follow up.

I am off for couple days.

I installed the package of RcppEigen.
It has the same issue as the screenshot below indicates:

[bgoodri]

Something is messed up, but just try

install.packages("https://win-builder.r-project.org/1vUk5Gxm9QqM/rstan_2.19.1.zip", repos = NULL)

[chwzhang09]

Hi Ben,

Try the new link to install the RStan,but another error occurs:

The thing is I have install packages BH already.

[bgoodri]

It can’t find BH. Are you sure you have it for R 3.6?

[chwzhang09]

Yeah, I the R and RStudio version information list below:

[chwzhang09]

Hi Ben,

One thing might helpful:
After I installed BH, it does not show on the package list on the right bottom part of RStudio,as the screenshot below indicates.

[bgoodri]

What is

installed.packages()["BH", ]

?

[chwzhang09]

What is your point? You mean you want me to install the BH package via the statemtent: installed.packages()[“BH”, ] ?

[jjramsey]

No. If you enter installed.packages()["BH", ], it will indicate if the BH package is already installed. Note that it reads “installed.packages”, not “install.packages”.

[chwzhang09]

Hi Ben,

Recently, I tried to another way to solve the issue:
RStan works well on my own laptop, and all related files: R, RStudio, RTools and related files are installed in C Drive.
Thus, I repeat the whole installation process in my company laptop. However, there is new error as the screenshot below:

Also, I run the sessionInfo(), screenshot for the information list below:

Could you please provide some solutions for the error message?

[bgoodri]

Just do

install.packages("https://win-builder.r-project.org/jpMlFHwQs41q/rstan_2.19.1.zip", repos = NULL)

[chwzhang09]

Hi Ben,

I tried to re-install RStan based on the link you provided. I don’t know why it always ask me to install ‘RcppEigen’, although I have installed. Please see the screenshot regarding the error and the new package installed based on the new link:

[bgoodri]

What is

print(rstan::rstan_options("eigen_lib"))

?