My first post here because it’s 1am and I’m pulling my hair out… Earlier today I was quite happily fitting my brms models no problems whatsoever. I had a couple of specific ordered beta regression models to run and remembered that @saudiwin the package creator for ordbetareg had added an argument to specify the true bounds for the data if they aren’t in the dataset themselves necessarily. So I went to install the development version and after that things started going weird.
I’ve tried completely (like completely completely) uninstalling R, RStudio, and Rtools along with any folders or files kicking about, and at various stages have had different errors. But currently I am finding I get the following anytime I try to run a model with brms:
Compiling Stan program...
make cmd is
make -f "C:/PROGRA~1/R/R-42~1.1/etc/x64/Makeconf" -f "C:/PROGRA~1/R/R-42~1.1/share/make/winshlib.mk" CXX='$(CXX14) $(CXX14STD)' CXXFLAGS='$(CXX14FLAGS)' CXXPICFLAGS='$(CXX14PICFLAGS)' SHLIB_LDFLAGS='$(SHLIB_CXX14LDFLAGS)' SHLIB_LD='$(SHLIB_CXX14LD)' SHLIB="file4a28769e268b.dll" WIN=64 TCLBIN= OBJECTS="file4a28769e268b.o"
make would use
Warning message:
In system(paste(cmd, "-n")) : 'make' not found
Error in compileCode(f, code, language = language, verbose = verbose) :
Warning message:In system(cmd) : 'make' not found
Error in sink(type = "output") : invalid connection
My Rstan session info is
> devtools::session_info("rstan")
─ Session info ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
setting value
version R version 4.2.1 (2022-06-23 ucrt)
os Windows 10 x64 (build 19044)
system x86_64, mingw32
ui RStudio
language (EN)
collate English_United Kingdom.utf8
ctype English_United Kingdom.utf8
tz Europe/London
date 2022-08-17
rstudio 2022.07.1+554 Spotted Wakerobin (desktop)
pandoc NA
─ Packages ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
! package * version date (UTC) lib source
backports 1.4.1 2021-12-13 [1] CRAN (R 4.2.0)
BH 1.78.0-0 2021-12-15 [1] CRAN (R 4.2.0)
callr 3.7.1 2022-07-13 [1] CRAN (R 4.2.1)
checkmate 2.1.0 2022-04-21 [1] CRAN (R 4.2.1)
cli 3.3.0 2022-04-25 [1] CRAN (R 4.2.1)
colorspace 2.0-3 2022-02-21 [1] CRAN (R 4.2.1)
crayon 1.5.1 2022-03-26 [1] CRAN (R 4.2.1)
desc 1.4.1 2022-03-06 [1] CRAN (R 4.2.1)
digest 0.6.29 2021-12-01 [1] CRAN (R 4.2.1)
fansi 1.0.3 2022-03-24 [1] CRAN (R 4.2.1)
farver 2.1.1 2022-07-06 [1] CRAN (R 4.2.1)
ggplot2 * 3.3.6 2022-05-03 [1] CRAN (R 4.2.1)
glue 1.6.2 2022-02-24 [1] CRAN (R 4.2.1)
gridExtra 2.3 2017-09-09 [1] CRAN (R 4.2.1)
gtable 0.3.0 2019-03-25 [1] CRAN (R 4.2.1)
inline 0.3.19 2021-05-31 [1] CRAN (R 4.2.1)
isoband 0.2.5 2021-07-13 [1] CRAN (R 4.2.1)
labeling 0.4.2 2020-10-20 [1] CRAN (R 4.2.0)
lattice 0.20-45 2021-09-22 [2] CRAN (R 4.2.1)
lifecycle 1.0.1 2021-09-24 [1] CRAN (R 4.2.1)
loo 2.5.1 2022-03-24 [1] CRAN (R 4.2.1)
magrittr 2.0.3 2022-03-30 [1] CRAN (R 4.2.1)
MASS 7.3-57 2022-04-22 [2] CRAN (R 4.2.1)
Matrix 1.4-1 2022-03-23 [2] CRAN (R 4.2.1)
matrixStats 0.62.0 2022-04-19 [1] CRAN (R 4.2.1)
mgcv 1.8-40 2022-03-29 [2] CRAN (R 4.2.1)
munsell 0.5.0 2018-06-12 [1] CRAN (R 4.2.1)
nlme 3.1-157 2022-03-25 [2] CRAN (R 4.2.1)
pillar 1.8.0 2022-07-18 [1] CRAN (R 4.2.1)
pkgbuild 1.3.1 2021-12-20 [1] CRAN (R 4.2.1)
pkgconfig 2.0.3 2019-09-22 [1] CRAN (R 4.2.1)
prettyunits 1.1.1 2020-01-24 [1] CRAN (R 4.2.1)
processx 3.7.0 2022-07-07 [1] CRAN (R 4.2.1)
ps 1.7.1 2022-06-18 [1] CRAN (R 4.2.1)
R6 2.5.1 2021-08-19 [1] CRAN (R 4.2.1)
RColorBrewer 1.1-3 2022-04-03 [1] CRAN (R 4.2.0)
Rcpp * 1.0.9 2022-07-08 [1] CRAN (R 4.2.1)
RcppEigen 0.3.3.9.2 2022-04-08 [1] CRAN (R 4.2.1)
D RcppParallel 5.1.5 2022-01-05 [1] CRAN (R 4.2.1)
rlang 1.0.4 2022-07-12 [1] CRAN (R 4.2.1)
rprojroot 2.0.3 2022-04-02 [1] CRAN (R 4.2.1)
rstan * 2.21.5 2022-04-11 [1] CRAN (R 4.2.1)
scales 1.2.0 2022-04-13 [1] CRAN (R 4.2.1)
StanHeaders * 2.21.0-7 2020-12-17 [1] CRAN (R 4.2.1)
tibble 3.1.8 2022-07-22 [1] CRAN (R 4.2.1)
utf8 1.2.2 2021-07-24 [1] CRAN (R 4.2.1)
vctrs 0.4.1 2022-04-13 [1] CRAN (R 4.2.1)
viridisLite 0.4.0 2021-04-13 [1] CRAN (R 4.2.1)
withr 2.5.0 2022-03-03 [1] CRAN (R 4.2.1)
[1] C:/Users/James/AppData/Local/R/win-library/4.2
[2] C:/Program Files/R/R-4.2.1/library
D ── DLL MD5 mismatch, broken installation.
My guess is some dependency updates have caused issues, but I thought the complete reinstall of everything would sort things out.
I’ve tried searching through some threads here but must confess I don’t really know what I am looking for with this issue.
Any help would be really appreciated!
Thanks,
James