Hey all,
I am currently running into an odd issue with RStan on MacOS Catalina. I followed the RStan installation guide found here and was able to run and produce the expected output for the 8schools example provided on the same page. Afterwards, I moved away from that example and started working on a separate model/rscript. While writing and testing the code for that model/rscript, the appropriate errors/warnings associated with what I was writing would appear when attempting to run the code.
Unfortunately, at some point while working my model/rscript, the errors/warnings stopped showing up in the console for RStudio. I attempted to run the code and, if the code is incorrect, no form of output will be produced by RStudio. When I go back to the 8schools example I got running earlier, the expected output is produced. However, if I change the Stan model code to be incorrect, the expected output is not produced and no error message will be produced. I will post screenshots to best illustrate what I mean. I have followed the advice given at this post and uninstalled R, RStudio and RStan numerous times to no avail. Does anyone have any advice on to move forward from here?
If I click the option “Check on save” and then save the correct Stan model code for the 8schools example, I receive an output telling me that the code is correct. If I delete the “J” on from “y[J]” on line 4 and make the code incorrect, I receive no response.
Using the same incorrect Stan model code, I receive no response from RStudio when attempting to run the rscript. However, when I change it back to the correct code, the correct response is output.
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Operating System: MacOS Catalina 10.15.2
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RStan Version:
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Output of
writeLines(readLines(file.path(Sys.getenv("HOME"), ".R/Makevars"))):
# clang: start
CFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk
CCFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk
CXXFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk
CPPFLAGS=-isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include
SHLIB_CXXLDFLAGS+=-Wl,-rpath,${R_HOME}/lib ${R_HOME}/lib/libc++abi.1.dylib
SHLIB_CXX11LDFLAGS+=-Wl,-rpath,${R_HOME}/lib ${R_HOME}/lib/libc++abi.1.dylib
SHLIB_CXX14LDFLAGS+=-Wl,-rpath,${R_HOME}/lib ${R_HOME}/lib/libc++abi.1.dylib
# clang: end
- Output of
devtools::session_info("rstan")
─ Session info ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
setting value
version R version 3.6.2 (2019-12-12)
os macOS Catalina 10.15.2
system x86_64, darwin15.6.0
ui RStudio
language (EN)
collate en_US.UTF-8
ctype en_US.UTF-8
tz America/Phoenix
date 2020-01-20
─ Packages ──────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
package * version date lib source
assertthat 0.2.1 2019-03-21 [1] CRAN (R 3.6.0)
backports 1.1.5 2019-10-02 [1] CRAN (R 3.6.0)
BH 1.72.0-3 2020-01-08 [1] CRAN (R 3.6.0)
callr 3.4.0 2019-12-09 [1] CRAN (R 3.6.0)
checkmate 1.9.4 2019-07-04 [1] CRAN (R 3.6.0)
cli 2.0.1 2020-01-08 [1] CRAN (R 3.6.0)
colorspace 1.4-1 2019-03-18 [1] CRAN (R 3.6.0)
crayon 1.3.4 2017-09-16 [1] CRAN (R 3.6.0)
desc 1.2.0 2018-05-01 [1] CRAN (R 3.6.0)
digest 0.6.23 2019-11-23 [1] CRAN (R 3.6.0)
ellipsis 0.3.0 2019-09-20 [1] CRAN (R 3.6.0)
fansi 0.4.1 2020-01-08 [1] CRAN (R 3.6.0)
farver 2.0.3 2020-01-16 [1] CRAN (R 3.6.0)
ggplot2 3.2.1 2019-08-10 [1] CRAN (R 3.6.0)
glue 1.3.1 2019-03-12 [1] CRAN (R 3.6.0)
gridExtra 2.3 2017-09-09 [1] CRAN (R 3.6.0)
gtable 0.3.0 2019-03-25 [1] CRAN (R 3.6.0)
inline 0.3.15 2018-05-18 [1] CRAN (R 3.6.0)
labeling 0.3 2014-08-23 [1] CRAN (R 3.6.0)
lattice 0.20-38 2018-11-04 [1] CRAN (R 3.6.2)
lazyeval 0.2.2 2019-03-15 [1] CRAN (R 3.6.0)
lifecycle 0.1.0 2019-08-01 [1] CRAN (R 3.6.0)
loo 2.2.0 2019-12-19 [1] CRAN (R 3.6.0)
magrittr 1.5 2014-11-22 [1] CRAN (R 3.6.0)
MASS 7.3-51.5 2019-12-20 [1] CRAN (R 3.6.0)
Matrix 1.2-18 2019-11-27 [1] CRAN (R 3.6.2)
matrixStats 0.55.0 2019-09-07 [1] CRAN (R 3.6.0)
mgcv 1.8-31 2019-11-09 [1] CRAN (R 3.6.2)
munsell 0.5.0 2018-06-12 [1] CRAN (R 3.6.0)
nlme 3.1-143 2019-12-10 [1] CRAN (R 3.6.0)
pillar 1.4.3 2019-12-20 [1] CRAN (R 3.6.0)
pkgbuild 1.0.6 2019-10-09 [1] CRAN (R 3.6.0)
pkgconfig 2.0.3 2019-09-22 [1] CRAN (R 3.6.0)
plyr 1.8.5 2019-12-10 [1] CRAN (R 3.6.0)
prettyunits 1.1.0 2020-01-09 [1] CRAN (R 3.6.0)
processx 3.4.1 2019-07-18 [1] CRAN (R 3.6.0)
ps 1.3.0 2018-12-21 [1] CRAN (R 3.6.0)
R6 2.4.1 2019-11-12 [1] CRAN (R 3.6.0)
RColorBrewer 1.1-2 2014-12-07 [1] CRAN (R 3.6.0)
Rcpp 1.0.3 2019-11-08 [1] CRAN (R 3.6.0)
RcppEigen 0.3.3.7.0 2019-11-16 [1] CRAN (R 3.6.0)
reshape2 1.4.3 2017-12-11 [1] CRAN (R 3.6.0)
rlang 0.4.2 2019-11-23 [1] CRAN (R 3.6.0)
rprojroot 1.3-2 2018-01-03 [1] CRAN (R 3.6.0)
rstan 2.19.2 2019-07-09 [1] CRAN (R 3.6.0)
scales 1.1.0 2019-11-18 [1] CRAN (R 3.6.0)
StanHeaders 2.21.0-1 2020-01-19 [1] CRAN (R 3.6.2)
stringi 1.4.5 2020-01-11 [1] CRAN (R 3.6.0)
stringr 1.4.0 2019-02-10 [1] CRAN (R 3.6.0)
tibble 2.1.3 2019-06-06 [1] CRAN (R 3.6.0)
utf8 1.1.4 2018-05-24 [1] CRAN (R 3.6.0)
vctrs 0.2.1 2019-12-17 [1] CRAN (R 3.6.0)
viridisLite 0.3.0 2018-02-01 [1] CRAN (R 3.6.0)
withr 2.1.2 2018-03-15 [1] CRAN (R 3.6.0)
zeallot 0.1.0 2018-01-28 [1] CRAN (R 3.6.0)
[1] /Library/Frameworks/R.framework/Versions/3.6/Resources/library
