When I tried to use launch_shinystan to reproduce a plot (Figure 4) from shinystan in the paper User-friendly Bayesian regression modeling: A tutorial with rstanarm and shinystan, an error message appeared:
“project “ggplot_fns.rda” has no activate script and so cannot be activated”
The code I used was:
SingleLevelModel <- stan_glm(valence ~ arousal, data = dat)
launch_shinystan(SingleLevelModel)
Dataset: OSF
I have searched Google and the Stan Forum, and I haven’t seen this error been reported. So, I am reporting it here. I apologise if this is not the right place to discuss this issue, since this is about shinystan, not directly stan or rstanarm. Hope to get some help. Many thanks in advance!
I’m getting the same error for one of my models
Hope someone could help out here.
I am really excited to use shinystan in my PhD project, but it does not work so far, quite frustrating :( I found it works for linear regression model, but not conditional logistic regression model.
The ggplot_fns.rda file is part of the shinystan package, so I wonder if the installation might have been corrupted or similar.
Can I get you to restart R and try re-installing shinystan from source and launching the demo?
remove.packages("shinystan")
install.packages("shinystan", type = "source")
shinystan::launch_shinystan_demo()
If that still errors for you, can you post the output from:
devtools::session_info("shinystan")
I tried reinstalling and got the same error when I tried to launch the demo. FWIW I have an M1 processor which seems to cause all sorts of problems.
─ Session info ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
setting value
version R version 4.1.2 (2021-11-01)
os macOS Monterey 12.4
system aarch64, darwin20
ui RStudio
language (EN)
collate en_US.UTF-8
ctype en_US.UTF-8
tz America/New_York
date 2022-07-20
rstudio 2021.09.0+351 Ghost Orchid (desktop)
pandoc 2.14.0.3 @ /Applications/RStudio.app/Contents/MacOS/pandoc/ (via rmarkdown)
─ Packages ───────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────────
package * version date (UTC) lib source
abind 1.4-5 2016-07-21 [1] CRAN (R 4.1.0)
backports 1.4.1 2021-12-13 [1] CRAN (R 4.1.1)
base64enc 0.1-3 2015-07-28 [1] CRAN (R 4.1.0)
bayesplot * 1.9.0 2022-03-10 [1] CRAN (R 4.1.1)
BH 1.78.0-0 2021-12-15 [1] CRAN (R 4.1.1)
bslib 0.4.0 2022-07-16 [1] CRAN (R 4.1.2)
cachem 1.0.6 2021-08-19 [1] CRAN (R 4.1.1)
callr 3.7.1 2022-07-13 [1] CRAN (R 4.1.2)
checkmate 2.1.0 2022-04-21 [1] CRAN (R 4.1.2)
cli 3.3.0 2022-04-25 [1] CRAN (R 4.1.2)
colorspace 2.0-3 2022-02-21 [1] CRAN (R 4.1.1)
colourpicker 1.1.1 2021-10-04 [1] CRAN (R 4.1.1)
commonmark 1.8.0 2022-03-09 [1] CRAN (R 4.1.1)
crayon 1.5.1 2022-03-26 [1] CRAN (R 4.1.1)
crosstalk 1.2.0 2021-11-04 [1] CRAN (R 4.1.1)
desc 1.4.1 2022-03-06 [1] CRAN (R 4.1.1)
digest 0.6.29 2021-12-01 [1] CRAN (R 4.1.1)
distributional 0.3.0 2022-01-05 [1] CRAN (R 4.1.1)
dplyr * 1.0.9 2022-04-28 [1] CRAN (R 4.1.1)
DT 0.23 2022-05-10 [1] CRAN (R 4.1.1)
dygraphs 1.1.1.6 2018-07-11 [1] CRAN (R 4.1.0)
ellipsis 0.3.2 2021-04-29 [1] CRAN (R 4.1.0)
fansi 1.0.3 2022-03-24 [1] CRAN (R 4.1.1)
farver 2.1.1 2022-07-06 [1] CRAN (R 4.1.2)
fastmap 1.1.0 2021-01-25 [1] CRAN (R 4.1.0)
fontawesome 0.2.2 2021-07-02 [1] CRAN (R 4.1.0)
fs 1.5.2 2021-12-08 [1] CRAN (R 4.1.1)
generics 0.1.3 2022-07-05 [1] CRAN (R 4.1.1)
ggplot2 * 3.3.6 2022-05-03 [1] CRAN (R 4.1.1)
ggridges 0.5.3 2021-01-08 [1] CRAN (R 4.1.1)
glue 1.6.2 2022-02-24 [1] CRAN (R 4.1.1)
gridExtra 2.3 2017-09-09 [1] CRAN (R 4.1.1)
gtable 0.3.0 2019-03-25 [1] CRAN (R 4.1.1)
gtools 3.9.3 2022-07-11 [1] CRAN (R 4.1.2)
htmltools 0.5.3 2022-07-18 [1] CRAN (R 4.1.2)
htmlwidgets 1.5.4 2021-09-08 [1] CRAN (R 4.1.1)
httpuv 1.6.5 2022-01-05 [1] CRAN (R 4.1.1)
igraph 1.3.2 2022-06-13 [1] CRAN (R 4.1.1)
inline 0.3.19 2021-05-31 [1] CRAN (R 4.1.0)
isoband 0.2.5 2021-07-13 [1] CRAN (R 4.1.0)
jquerylib 0.1.4 2021-04-26 [1] CRAN (R 4.1.0)
jsonlite 1.8.0 2022-02-22 [1] CRAN (R 4.1.1)
labeling 0.4.2 2020-10-20 [1] CRAN (R 4.1.0)
later 1.3.0 2021-08-18 [1] CRAN (R 4.1.1)
lattice * 0.20-45 2021-09-22 [1] CRAN (R 4.1.2)
lazyeval 0.2.2 2019-03-15 [1] CRAN (R 4.1.0)
lifecycle 1.0.1 2021-09-24 [1] CRAN (R 4.1.1)
loo 2.5.1 2022-03-24 [1] CRAN (R 4.1.1)
magrittr * 2.0.3 2022-03-30 [1] CRAN (R 4.1.1)
markdown 1.1 2019-08-07 [1] CRAN (R 4.1.0)
MASS * 7.3-58 2022-07-14 [1] CRAN (R 4.1.2)
Matrix * 1.4-1 2022-03-23 [1] CRAN (R 4.1.1)
matrixStats 0.62.0 2022-04-19 [1] CRAN (R 4.1.1)
memoise 2.0.1 2021-11-26 [1] CRAN (R 4.1.1)
mgcv 1.8-40 2022-03-29 [1] CRAN (R 4.1.1)
mime 0.12 2021-09-28 [1] CRAN (R 4.1.1)
miniUI 0.1.1.1 2018-05-18 [1] CRAN (R 4.1.0)
munsell 0.5.0 2018-06-12 [1] CRAN (R 4.1.0)
nlme 3.1-158 2022-06-15 [1] CRAN (R 4.1.1)
numDeriv 2016.8-1.1 2019-06-06 [1] CRAN (R 4.1.0)
pillar 1.8.0 2022-07-18 [1] CRAN (R 4.1.2)
pkgbuild 1.3.1 2021-12-20 [1] CRAN (R 4.1.1)
pkgconfig 2.0.3 2019-09-22 [1] CRAN (R 4.1.0)
plyr 1.8.7 2022-03-24 [1] CRAN (R 4.1.1)
posterior 1.2.2 2022-06-09 [1] CRAN (R 4.1.1)
prettyunits 1.1.1 2020-01-24 [1] CRAN (R 4.1.0)
processx 3.7.0 2022-07-07 [1] CRAN (R 4.1.2)
promises 1.2.0.1 2021-02-11 [1] CRAN (R 4.1.0)
ps 1.7.1 2022-06-18 [1] CRAN (R 4.1.1)
purrr * 0.3.4 2020-04-17 [1] CRAN (R 4.1.0)
R6 2.5.1 2021-08-19 [1] CRAN (R 4.1.1)
rappdirs 0.3.3 2021-01-31 [1] CRAN (R 4.1.0)
RColorBrewer * 1.1-3 2022-04-03 [1] CRAN (R 4.1.1)
Rcpp * 1.0.9 2022-07-08 [1] CRAN (R 4.1.2)
RcppEigen 0.3.3.9.2 2022-04-08 [1] CRAN (R 4.1.1)
RcppParallel 5.1.5 2022-01-05 [1] CRAN (R 4.1.1)
reshape2 * 1.4.4 2020-04-09 [1] CRAN (R 4.1.0)
rlang 1.0.4 2022-07-12 [1] CRAN (R 4.1.2)
rprojroot 2.0.3 2022-04-02 [1] CRAN (R 4.1.1)
rstan 2.21.5 2022-04-11 [1] CRAN (R 4.1.1)
sass 0.4.2 2022-07-16 [1] CRAN (R 4.1.2)
scales 1.2.0 2022-04-13 [1] CRAN (R 4.1.1)
shiny * 1.7.2 2022-07-19 [1] CRAN (R 4.1.2)
shinyjs 2.1.0 2021-12-23 [1] CRAN (R 4.1.1)
shinystan * 2.6.0 2022-03-03 [1] CRAN (R 4.1.2)
shinythemes 1.2.0 2021-01-25 [1] CRAN (R 4.1.0)
sourcetools 0.1.7 2018-04-25 [1] CRAN (R 4.1.0)
StanHeaders 2.21.0-7 2020-12-17 [1] CRAN (R 4.1.0)
stringi 1.7.8 2022-07-11 [1] CRAN (R 4.1.2)
stringr * 1.4.0 2019-02-10 [1] CRAN (R 4.1.1)
tensorA 0.36.2 2020-11-19 [1] CRAN (R 4.1.0)
threejs 0.3.3 2020-01-21 [1] CRAN (R 4.1.0)
tibble * 3.1.7 2022-05-03 [1] CRAN (R 4.1.1)
tidyselect 1.1.2 2022-02-21 [1] CRAN (R 4.1.1)
utf8 1.2.2 2021-07-24 [1] CRAN (R 4.1.0)
vctrs 0.4.1 2022-04-13 [1] CRAN (R 4.1.1)
viridisLite 0.4.0 2021-04-13 [1] CRAN (R 4.1.0)
withr 2.5.0 2022-03-03 [1] CRAN (R 4.1.1)
xfun 0.31 2022-05-10 [1] CRAN (R 4.1.1)
xtable * 1.8-4 2019-04-21 [1] CRAN (R 4.1.0)
xts 0.12.1 2020-09-09 [1] CRAN (R 4.1.0)
yaml 2.3.5 2022-02-21 [1] CRAN (R 4.1.1)
zoo 1.8-10 2022-04-15 [1] CRAN (R 4.1.1)
[1] /Library/Frameworks/R.framework/Versions/4.1-arm64/Resources/library
Thanks a lot! Now it works!