Error on rstudio cloud executing rstan example code

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1

Hi folks,
I'm pretty novice with R/Rstudio and lately trying to get my feet wet with it. So I've copied some elses project and playing around with the code to familiarize myself with R/Rstudio and I've been getting the following error when executing part of the code

Error in compileCode(f, code, language = language, verbose = verbose) : 
  Compilation ERROR, function(s)/method(s) not created! In file included from /home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.6/BH/include/boost/smart_ptr/shared_ptr.hpp:28:0,
                 from /home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.6/BH/include/boost/shared_ptr.hpp:17,
                 from /home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.6/StanHeaders/include/stan/math/prim/mat/fun/LDLT_factor.hpp:7,
                 from /home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.6/StanHeaders/include/stan/math/prim/mat/err/check_ldlt_factor.hpp:6,
                 from /home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.6/StanHeaders/include/stan/math/prim/mat.hpp:34,
                 from /home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.6/StanHeaders/include/stan/math/rev/mat.hpp:12,
                 from /home/rstudio-user/R/x86_64-pc-linux-gnu-library/3.6/StanHeaders/include/stan/math.hpp:4,
                 from /home/rstudio-user/R/x86_64-pc-linux-gnu-libr
In addition: Warning message:
In system(cmd, intern = !verbose) :
  running command '/opt/R/3.6.0/lib/R/bin/R CMD SHLIB filef725fa81cc.cpp 2> filef725fa81cc.cpp.err.txt' had status 1
Error in sink(type = "output") : invalid connection

Any ideas what going wrong here? The code examples are using stan if that helps.

Thanks!

2

It would be more helpful to actually see the code that produces that error message, ideally, could you ask this with a minimal REPRoducible EXample (reprex)? A reprex makes it much easier for others to understand your issue and figure out how to help.

Or if the project is public, share the link to it

3

Thanks, yeah sure the project is public here is the link!

From that project I am running the file /bayes_sparse_regression/linear_regression.R

The error appears when executing line 24 form the above file.

4

That is a link to a GitHub repo, not to a RStudio Cloud project, since you have posted on this category, I suppose you have cloned that github repo into a RStudio Cloud project. Could you please share a link to that project? Is less likely that some one is going to clone the repository on his own machine just to try to reproduce your issue.

5

Sorry my bad I understood differently.
Here's the link to the project.

Thanks!

6

I suppose there's no solution to the problem?

7

Thanks for the project link. That (and ideally a reprex) really makes it easier on people who'd like to help.

So, there's a lot going on in this that doesn't appear documented. Is there a companion article or curriculum to follow?

Also, this repo is focused on rstan. Was that Your goal? stan has a great community site for stan specific questions here: https://discourse.mc-stan.org/

Were you maybe looking for more of a intro to R?

8

Thanks for the reply.

My goal was to play around with R and stan at the same time while exploring the R interface to stan.

Although, I would say that I'm a novice R user (i.e. I don't know the in and outs of R or the whole R ecosystem) but I believe that I'm to a degree very familiar with the basics, thank you though!

9

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