stan-dev / stan-dev/rstanarm

Install issue - splitting "Application Support" path to RcppParallel

Open
#579 3 comments 0 reactions 0 assignees View on GitHub

Nobody has claimed this yet.

bug
Dominant language
R
Stars
401
Forks
136
PR merge metrics
No merged PRs in 30d

Description

Summary:

clang error when installing rstanarm. Path to RcppParallel is not being shell escaped and is being split at space in "Application Support".

Description:

I'm trying to install rstanarm on an arm64 Mac and am getting the error,

clang: error: no such file or directory: 'Support/renv/cache/v5/R-4.2/aarch64-apple-darwin21.6.0/RcppParallel/5.1.5/f3e94e34ff656a7c8336ce01207bc2b8/RcppParallel/include''
make: *** [stan_files/bernoulli.o] Error 1
rm stan_files/bernoulli.cc
ERROR: compilation failed for package ‘rstanarm’

The path should be ~/Library/Application Support/renv/cache/v5/R-4.2/aarch64-apple-darwin21.6.0/RcppParallel/5.1.5/f3e94e34ff656a7c8336ce01207bc2b8/RcppParallel/include/RcppParallel.h

So something is not escaping the space, which is causing the path to get split. I'm not sure where to start troubleshooting so any pointers would be greatly appreciated. My ~/.R/Makevars was initially

FC      = /opt/homebrew/Cellar/gcc/12.2.0/bin/gfortran
F77     = /opt/homebrew/Cellar/gcc/12.2.0/bin/gfortran
FLIBS   = -L/opt/homebrew/Cellar/gcc/12.2.0/lib

and I've tried adding various things, e.g.

CXX=clang++
CXX_STD = CXX11
PKG_LIBS += $(shell ${R_HOME}/bin/Rscript -e "RcppParallel::RcppParallelLibs()")

but nothing seems to change the error. I use homebrew for gcc and clang.

Thanks a ton.

Reproducible Steps:

install.packages("rstanarm")

RStanARM Version:

latest, both from CRAN and from install.packages("rstanarm", type = "source")

R Version:

4.2.2

Operating System:

OS X 12.6.1

Contributor guide

No contributing guide indexed for this repository

First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start by reproducing the failure with install.packages("rstanarm") on the reported macOS and inspect the compiler arguments involving RcppParallel::RcppParallelLibs(). Done means the Application Support path remains intact during compilation and the rstanarm source installation succeeds.

Written by the indexing model from the issue text.

Assessment

Tech stack
r, shell
Domain
build-system
Issue type
Bug
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
30/100

Get new issues in your inbox

A short digest of beginner-friendly GitHub issues.